WO2003057830A2 - Compositions and methods for hydroxylating epothilones - Google Patents

Compositions and methods for hydroxylating epothilones Download PDF

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Publication number
WO2003057830A2
WO2003057830A2 PCT/US2002/040359 US0240359W WO03057830A2 WO 2003057830 A2 WO2003057830 A2 WO 2003057830A2 US 0240359 W US0240359 W US 0240359W WO 03057830 A2 WO03057830 A2 WO 03057830A2
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epothilone
seq
nucleic acid
acid sequence
hydroxylase
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PCT/US2002/040359
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French (fr)
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WO2003057830A3 (en
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Jonathan David Basch
Shu-Jen Chiang
Suo-Win Liu
Akbar Nayeem
Yuhua Sun
You Li
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Bristol-Myers Squibb Company
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Priority to CA002471874A priority Critical patent/CA2471874A1/en
Priority to AU2002357872A priority patent/AU2002357872A1/en
Priority to JP2003558132A priority patent/JP2005514031A/en
Priority to EP02792416A priority patent/EP1465908A4/en
Publication of WO2003057830A2 publication Critical patent/WO2003057830A2/en
Publication of WO2003057830A3 publication Critical patent/WO2003057830A3/en

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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N9/00—Enzymes; Proenzymes; Compositions thereof; Processes for preparing, activating, inhibiting, separating or purifying enzymes
    • C12N9/0004—Oxidoreductases (1.)
    • C12N9/0071—Oxidoreductases (1.) acting on paired donors with incorporation of molecular oxygen (1.14)
    • C12N9/0077—Oxidoreductases (1.) acting on paired donors with incorporation of molecular oxygen (1.14) with a reduced iron-sulfur protein as one donor (1.14.15)
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P31/00—Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
    • A61P31/04—Antibacterial agents
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
    • C07K14/79—Transferrins, e.g. lactoferrins, ovotransferrins
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12P—FERMENTATION OR ENZYME-USING PROCESSES TO SYNTHESISE A DESIRED CHEMICAL COMPOUND OR COMPOSITION OR TO SEPARATE OPTICAL ISOMERS FROM A RACEMIC MIXTURE
    • C12P17/00—Preparation of heterocyclic carbon compounds with only O, N, S, Se or Te as ring hetero atoms
    • C12P17/18—Preparation of heterocyclic carbon compounds with only O, N, S, Se or Te as ring hetero atoms containing at least two hetero rings condensed among themselves or condensed with a common carbocyclic ring system, e.g. rifamycin
    • C12P17/181—Heterocyclic compounds containing oxygen atoms as the only ring heteroatoms in the condensed system, e.g. Salinomycin, Septamycin
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2299/00—Coordinates from 3D structures of peptides, e.g. proteins or enzymes

Definitions

  • the present invention relates to isolated nucleic acids sequences and polypeptides encoded thereby for epothilone B hydroxylase and mutants and variants thereof, and a ferredoxin located downstream from the epothilone B hydroxylase gene.
  • the present invention also relates to recombinant microorganisms expressing epothilone B hydroxylase or a mutant or variant thereof and/or ferredoxin which are capable of hydroxylating small organic molecule compounds, such as epothilones, having a terminal alkyl group to produce compounds having a terminal hydroxyalkyl group.
  • compositions and methods of the present invention are useful in preparation of epothilones having a variety of utilities in the pharmaceutical field.
  • a novel epothilone analog produced using a mutant of epothilone B hydroxylase of the present invention is also described.
  • Epothilones are macrolide compounds that find utility in the pharmaceutical field.
  • epothilones A and B having the structures:
  • TAXOL ® paclitaxel
  • Epothilones A and B are natural anticancer agents produced by Sorangium cellulosum that were first isolated and characterized by Hofle et al., DE 4138042; WO 93/10121; Angew. Chem. Int. Ed. Engl. Vol. 35, Nol3/14, 1567-1569 (1996); and Antibiot.. Vol. 49, No. 6, 560-563 (1996). Subsequently, the total syntheses of epothilones A and B have been published by Balog et al., Angew. Chem. Int. Ed. Engl.. Vol. 35, No. 23/24, 2801-2803, 1996; Meng et al, J. Am. Chem. Soc. Vol.
  • WO 98/25929 disclosed the methods for chemical synthesis of epothilone A, epothilone B, analogs of epothilone and libraries of epothilone analogs.
  • Figure 1 provides a diagram of the biotransformation as described in WO 00/39276 of epothilone B to epothilone F in Actinomycetes species strain SC15847 (ATCC PT-1043), subsequently identified as Amycolatopsis orientalis.
  • Cytochrome P450 enzymes are found in prokaryotes and eukaryotic cells and have in common a heme binding domain which can be distinguished by an absorbance peak at 450 nm when complexed with carbon monoxide. Cytochrome P450 enzymes perform a broad spectrum of oxidative reactions on primarily hydrophobic substrates including aromatic and benzylic rings, and alkanes. In prokaryotes they are found as detoxifying systems and as a first enzymatic step in metabolizing substrates such as toluene, benzene and camphor. Cytochrome P450 genes have also been found in biosynthetic pathways of secondary metabolites such as nikkomycin in Streptomyces tendae (Bruntner, C.
  • the cytochrome P450 systems in prokaryotes are composed of three proteins; a ferredoxin NADH or NADPH dependent reductase, an iron-sulfur ferredoxin and the cytochrome P450 enzyme (Lewis, D.F., Hlavica, P., 2000, Biochim. Biophys. Acta., 1460: 353-374). Electrons are transferred from ferredoxin reductase to the ferredoxin and finally to the cytochrome P450 enzyme for the splitting of molecular oxygen.
  • An object of the present invention is to provide isolated nucleic acid sequences encoding epothilone B hydroxylase and variants or mutants thereof and isolated nucleic acid sequences encoding ferredoxin or variants or mutants thereof.
  • Another object of the present invention is to provide isolated polypeptides comprising amino acid sequences of epothilone B hydroxylase and variants or mutants thereof and isolated polypeptides comprising amino acid sequences of ferredoxin and variants or mutants thereof.
  • Another object of the present invention is to provide structure coordinates of the homology model of the epothilone B hydroxylase.
  • the structure coordinates are listed in Appendix 1.
  • This model of the present invention provides a means for designing modulators of a biological function of epothilone B hydroxylase as well as additional mutants of epothilone B hydroxylase with altered specificities.
  • Another object of the present invention is to provide vectors comprising nucleic acid sequences encoding epothilone B hydroxylase or a variant or mutant thereof and/or ferredoxin or a variant or mutant thereof.
  • these vectors further comprise a nucleic acid sequence encoding ferredoxin.
  • Another object of the present invention is to provide host cells comprising a vector containing a nucleic acid sequence encoding epothilone B hydroxylase or a variant or mutant thereof and/or ferredoxin or a variant or mutant thereof.
  • Another object of the present invention is to provide a method for producing recombinant microorganisms that are capable of hydroxylating compounds, and in particular epothilones, having a terminal alkyl group to produce compounds having a terminal hydroxyalkyl group.
  • Another object of the present invention is to provide microorganisms produced recombinantly which are capable of hydroxylating compounds, and in particular epothilones, having a terminal alkyl group to produce compounds having a terminal hydroxyalkyl group.
  • Another object of the present invention is to provide methods for hydroxylating compounds in these recombinant microorganisms.
  • the present invention provides a method for the preparation of hydroxyalkyl-bearing epothilones, which compounds find utility as antitumor agents and as starting materials in the preparation of other epothilone analogs.
  • Yet another object of the present invention is to provide a compound of Formula A:
  • 24-OH epothilone B or 24-OH EpoB compositions and methods for production of compositions comprising the compound of Formula A.
  • Figure 1 provides a schematic of the biotransformation as set forth in WO 00/39276, U.S. Application Serial No. 09/468,854, filed December 21, 1999, of epothilone B to epothilone F by Amycolatopsis orientalis strain SC15847 (PTA1043).
  • Figure 2 shows the nucleic acid sequence alignments of SEQ ED NO: 5 through SEQ ID NO:22 used to design the PCR primers for cloning of the nucleic acid sequence encoding epothilone B hydroxylase.
  • Figure 3 shows the sequence alignment between epothilone B hydroxylase (SEQ ID NO:2) and EryF (PDB code IJIN chain A; SEQ ID NO:76).
  • SEQ ID NO:2 epothilone B hydroxylase
  • PDB code IJIN chain A SEQ ID NO:76
  • the asterisks indicate sequence identities, the colons (:) similar residues.
  • Figure 4 provides a homology model of epothilone B hydroxylase based upon sequence alignment with EryF as shown in Figure 3.
  • Figure 5 shows an energy plot of the epothilone B hydroxylase model (indicated by dashed line) relative to EryF (PDB code IJIN; indicated by solid line).
  • An averaging window size of 51 residues was used, i.e., the energy at a given residue position is calculated as the average of the energies of the 51 residues in the sequence that lie with the given residue at the central positions.
  • the present invention relates to isolated nucleic acid sequences and polypeptides and methods for obtaining compounds with desired substituents at a terminal carbon position.
  • the present invention provides compositions and methods for the preparation of hydroxyalkyl-bearing epothilones, which compounds find utility as antitumor agents and as starting materials in the preparation of other epothilone analogs.
  • epothilone denotes compounds containing an epothilone core and a side chain group as defined herein.
  • epothilone core denotes a moiety containing the core structure (with the numbering of ring system positions used herein shown):
  • Q is selected from the group consisting of
  • W is O or NR 6 ;
  • X is selected from the group consisting of O, H and OR 7 ;
  • M is O, S, NR 8 , CR 9 R ⁇ 0 ;
  • ⁇ and B 2 are selected from the group consisting of ORn, OCORj 2 ;
  • R 1 -R 5 and R ⁇ 2 -Ri 7 are selected from the group consisting of H, alkyl, substituted alkyl, aryl, and heterocyclo, and wherein Ri and R 2 are alkyl they can be joined to form a cycloalkyl;
  • R 6 is selected from the group consisting of H, alkyl, and substituted alkyl
  • R 7 and Ri 1 are selected from the group consisting of H, alkyl, substituted alkyl, trialkylsilyl, alkyldiarylsilyl and dialkylarylsilyl
  • side chain group refers to substituent G as defined above for
  • Ai and A 2 are independently selected from the group of optionally substituted C]-C 3 alkyl and alkenyl;
  • Q is optionally substituted ring system containing one to three rings and at least one carbon to carbon double bond in at least one ring;
  • n, m, and o are integers independently selected from the group consisting of zero and 1, where at least one of m, n or o is 1.
  • terminal carbon or terminal alkyl group refers to the terminal carbon or terminal methyl group of the moiety either directly bonded to the epothilone core at position 15 or to the terminal carbon or terminal alkyl group of the side chain group bonded at position 15. It is understood that the term “alkyl group” includes alkyl and substituted alkyl as defined herein.
  • alkyl refers to optionally substituted, straight or branched chain saturated hydrocarbon groups of 1 to 20 carbon atoms, preferably 1 to 7 carbon atoms.
  • lower alkyl refers to optionally substituted alkyl groups of 1 to 4 carbon atoms.
  • substituted alkyl refers to an alkyl group substituted by, for example, one to four substituents, such as, halo, trifluoromethyl, trifluoromethoxy, hydroxy, alkoxy, cycloalkyloxy, heterocyclooxy, oxo, alkanoyl, aryloxy, alkanoyloxy, amino, alkylamino, arylamino, aralkylamino, cycloalkylamino, heterocycloamino, disubstituted amines in which the 2 amino substituents are selected from alkyl, aryl or aralkyl, alkanoylamino, aroylamino, aralkanoylamino, substituted alkanoylamino, substituted arylamino, substituted aralkanoylamino, thiol, alkylthio, arylthio, aralkylthio, cycloalkyl
  • isolated polynucleotides that encode epothilone B hydroxylase, an enzyme capable of hydroxylating epothilones having a terminal alkyl group to produce epothilones having a terminal hydroxyalkyl group.
  • isolated polynucleotides that encode a ferredoxin, the gene for which is located downstream from the epothilone B hydroxylase gene.
  • Ferredoxin is a protein of the cytochrome P450 system.
  • polynucleotides as used herein, it is meant to include any form of DNA or RNA such as cDNA or genomic DNA or mRNA, respectively, encoding these enzymes or an active fragment thereof which are obtained by cloning or produced synthetically by well known chemical techniques.
  • DNA may be double- or single- stranded.
  • Single-stranded DNA may comprise the coding or sense strand or the non- coding or antisense strand.
  • polynucleotide also includes polynucleotides exhibiting at least 60% or more, preferably at least 80%, homology to sequences disclosed herein, and which hybridize under stringent conditions to the above-described polynucleotides.
  • stringent conditions means hybridization conditions of 60°C at 2xSSC buffer. More preferred are isolated nucleic acid molecules capable of hybridizing to the nucleic acid sequence set forth in 1, 30, 32, 34, 36, 37, 38, 39, 40, 41, 42, 60, 62, 64, 66, 68, 70, 72, or 74 or SEQ ID NO: 3, or to the complementary sequence of the nucleic acid sequence set forth in SEQ ID NO:l, 30, 32, 34, 36, 37, 38, 39, 40, 41, 42, 60, 62 ,64, 66, 68, 70, 72 ,or 74 or SEQ ID NO:3, under hybridization conditions of 3X SSC at 65°C for 16 hours, and which are capable of remaining hybridized to the nucleic acid sequence set forth in SEQ ID NO:l, 30, 32, 34, 36, 37, 38, 39, 40, 41, 42, 60, 62, 64, 66, 68, 70, 72 or 74 or SEQ ID NO:3, or
  • a polynucleotide of the present invention comprises the genomic DNA depicted in SEQ ID NO: 1 or a homologous sequence or fragment thereof which encodes a polypeptide having similar activity to that of this epothilone B hydroxylase.
  • a polynucleotide of the present invention may comprise the genomic DNA depicted in SEQ ID NO:3 or a homologous sequence or fragment thereof which encodes a polypeptide having similar activity to this ferredoxin. Due to the degeneracy of the genetic code, polynucleotides of the present invention may also comprise other nucleic acid sequences encoding this enzyme and derivatives, variants or active fragments thereof.
  • the present invention also relates to variants of these polynucleotides which may be naturally occurring, i.e., present in microorganisms such as Amycolatopsis orientalis and Amycolata autotrophica, or in soil or other sources from which nucleic acids can be isolated, or mutants prepared by well known mutagenesis techniques.
  • Exemplary variants polynucleotides of the present invention are depicted in SEQ ID NO: 36-42.
  • mutants as used herein it is meant to be inclusive of nucleic acid sequences with one or more point mutations, or deletions or additions of nucleic acids as compared to SEQ ID NO: 1 or 3, but which still encode a polypeptide or fragment with similar activity to the polypeptides encoded by SEQ ID NO: 1 or 3.
  • mutations are made which alter the substrate specificity and/or yield of the enzyme.
  • a preferred region of mutation with respect to the epothilone B hydroxylase gene is that region of the nucleic acid sequence coding for the approximately 113 amino acids residues comprising the active site of the enzyme.
  • mutants encoding a polypeptide with at least one amino acid substitution at amino acid position GLU31, ARG67, ARG88, ILE92, ALA93, VAL106, ILE130, ALA140, MET176, PHE190, GLU 231, SER294, PHE237, or ILE365 of SEQ ID NO: 1.
  • Exemplary polynucleotide mutants of the present invention are depicted in SEQ ID NO: 30, 32, 34, 60, 62, 64, 66, 68, 70, 72 and 74.
  • Cloning of the nucleic acid sequence of SEQ ID NO: 1 encoding epothilone B hydroxylase was performed using PCR primers designed by aligning the nucleic acid sequences of six cytochrome P450 genes from bacteria. The following cytochrome P450 genes were aligned:
  • Sequence 1 Locus: STMSUACB; Accession number: M32238; Reference: Omer, C.A., J. Bacteriol. 172: 3335-3345 (1990)
  • Sequence 2 Locus: STMSUBCB; Accession number: M32239; Reference:
  • Primers P450-l + (SEQ ID NO:23) and P450-la + (SEQ ID NO:24) were designed from the I helix
  • Primer P450-2 + (SEQ ID NO:25) was designed from the B-Bulge and L-helix region
  • Primer P450-3 " was designed as the reverse complement to the heme binding protein. Genomic fragments were then amplified via polymerase chain reaction (PCR).
  • the reaction products were separated by gel electrophoresis and fragments of the expected size were excised.
  • the DNA was extracted from the agarose gel slices using the Qiaquick gel extraction procedure (Qiagen, Santa Clarita, California, USA). The fragments were then cloned into the PCRscript vector (Stratagene, La Jolla, California, USA) using the PCRscript Amp cloning kit
  • the cloned PCR products were sequenced using the Big-Dye sequencing kit from Applied Biosystems, (Foster City, California, USA) and were analyzed using the ABD 10 sequencer (Applied Biosystems, Foster City, California, USA).
  • the sequence of the inserts was used to perform a TblastX search, using the protocol of Altschul, S.F, et al., Mol. Biol. 215:403-410 (1990), of the non-redundant protein database.
  • the nucleic acid sequence of the genomic DNA was determined using the Big-Dye sequencing system (Applied Biosystems) and analyzed using an ABD 10 sequencer. This sequence is depicted in SEQ ID NO: 1. An open reading frame coding for a protein of 404 amino acids and a predicted molecular weight of 44.7 kDa was found within the cloned Bglll fragment. The deduced amino acid sequence of this polypeptide is depicted in SEQ ID NO: 2. The amino acid sequence of this polypeptide was found to share 51% identity with the NikF protein of Streptomyces tendae (Bruntner, C. et al, 1999, Mol. Gen. Genet. 262: 102-114) and 48% identity with the Sca-2 protein of S.
  • ebh gene sequence was also used to isolate variant cytochrome P450 genes from other microorganisms.
  • Exemplary variant polynucleotides ebh43491, ebhl4930, ebh5363 , ebh53550, ebh.39444, eM43333 and ebh.35165 of the present invention and the species from which they were isolated are depicted in Table 1 below.
  • the nucleic acid sequences for these variants are depicted in SEQ ID NO:36- 42, respectively.
  • Table 1 Variant polynucleotides
  • Amycolatopsis orientalis ebh 14930 Amycolatopsis orientalis ebh 14930
  • amino acid sequences encoded by the exemplary variants ebh43491, ebh!4930, ebh53630, ebh53550, ebh39444, eb/ ⁇ 43333 and ebh35165 are depicted in SEQ ID NO:43-49, respectively.
  • Table 2 provides a summary of the amino acid substitutions of these exemplary variants.
  • Mutations were also introduced into the coding region of the ebh gene to identify mutants with improved yield, and or rate of biocon version and/or altered substrate specificity.
  • Exemplary mutant nucleic acid sequences of the present invention are depicted in SEQ ID NO: 30, 32, 34, 60, 62, 64, 66, 68, 70, 72 and 74.
  • the nucleic acid sequence of SEQ ID NO:30 encodes a mutant ebh25-l which exhibits altered substrate specificity.
  • Plasmid pANT849eb/ ⁇ 25-l containing this mutant gene was deposited and accepted by an International Depository Authority under the provisions of the Budapest Treaty. The deposit was made on November , 2002 to the American Type Culture Collection at 10801 University Boulevard in Manassas, Virginia 20110-2209. The ATCC Accession Number is . All restrictions upon public access to this plasmid will be irrevocably removed upon granting of this patent application. The Deposit will be maintained in a public depository for a period of thirty years after the date of deposit or five years after the last request for a sample or for the enforceable life of the patent, whichever is longer. The above-referenced plasmid was viable at the time of the deposit. The deposit will be replaced if viable samples cannot be dispensed by the depository.
  • This S. lividans transformant identified in the screening of mutation 25 was found to produce a product with a different HPLC elution time than epothilone B or epothilone F.
  • a sample of this unknown was analyzed by LC-MS and was found to have a molecular weight of 523 (M.W.), consistent with a single hydroxylation of epothilone B. Plasmid DNA was isolated from the S.
  • SEQ ID NO:32 encodes a mutant eM10-53, which exhibits improved bioconversion yield.
  • This S. lividans transformant identified in the screening of mutation 10 (primers NPB29-mutl0f (SEQ ID NO:54) and
  • NPB29-mutl0r (SEQ ID NO:55)) produced a greater yield of epothilone F.
  • Plasmid DNA was isolated from the S. lividans culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29)(see Example 16). The expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the ebh 10-53 mutant was found to have two mutations resulting in changes in the amino acid sequence of the protein, glutamic acid 231 is changed to arginine and phenylalanine 190 is changed to tyrosine.
  • the position 231 was the target of the mutagenesis, the change at residue 190 is an inadvertent change that is an artifact of the mutagenesis procedure.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:32 is depicted in SEQ ID NO:33.
  • SEQ ID NO:34 encodes a mutant ebh24- ⁇ 6, which also exhibits improved bioconversion yield.
  • This S. lividans transformant, ebh24-16 identified in the screening of mutation 24 (primers NPB29-mut24f (SEQ ID NO:56) and NPB29-mut24r (SEQ ID NO:57) also produced a greater yield of epothilone F.
  • Plasmid DNA was isolated from the S. lividans culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the ebh.24- 6 mutant was found to have two mutations resulting in changes in the amino acid sequence of the protein, phenylalanine 237 is changed to alanine and isoleucine 92 is changed to valine.
  • the position 237 was the target of the mutagenesis, the change at residue 92 is an inadvertent change that is an artifact of the mutagenesis procedure.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:34 is depicted in SEQ ID NO:35.
  • SEQ ID NO:60 The nucleic acid sequence of SEQ ID NO:60 encodes a mutant ebh24-16dS, which also exhibits improved bioconversion yield.
  • Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the ebh24-16dS mutant was found to have one mutation resulting in a change in the amino acid sequence of the protein, arginine 67 is changed to glutamine. This change is an artifact of the mutagenesis procedure.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:60 is SEQ ID NO:61.
  • the nucleic acid sequence of SEQ ID NO:62 encodes a mutant ebh24-16zl 1, which also exhibits improved bioconversion yield.
  • rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29).
  • the expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the ebh24-16c ⁇ l mutant was found to have two additional mutations resulting in changes in the amino acid sequence of the protein, alanine 93 is changed to glycine and isoleucine 365 is changed to threonine.
  • the position 93 is the target of the mutagenesis, the change at 365 is an artifact of the mutagenesis procedure.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:62 is depicted in SEQ ID NO:63.
  • SEQ ID NO: 64 The nucleic acid sequence of SEQ ID NO: 64 encodes a mutant ebh.24-16-16, which also exhibits improved bioconversion yield.
  • Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29- 6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the ebh24- ⁇ 6-16 mutant was found to have one additional mutation resulting in changes in the amino acid sequence of the protein, valine 106 is changed to alanine.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:64 is depicted in SEQ ID NO:65.
  • the nucleic acid sequence of SEQ ID NO:66 encodes a mutant ebh24- 16-74, which also exhibits improved bioconversion yield.
  • This S. rimosus transformant, ebh24- 16-74 identified in the screening of random mutants of ebh24-16 also produced a greater yield of epothilone F.
  • Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29- 6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the ebh24- 16-74 mutant was found to have one additional mutation resulting in changes in the amino acid sequence of the protein, arginine 88 is changed to histidine.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:66 is SEQ ID NO:67.
  • the nucleic acid sequence of SEQ ID NO:68 encodes a mutant eM24-M18, which also exhibits improved bioconversion yield.
  • This S. rimosus transformant, ebhM-lS identified in the screening of random mutants of ebh also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S.
  • rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29).
  • the expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the eb ⁇ M-18 mutant was found to have two mutations resulting in changes in the amino acid sequence of the protein, glutamic acid 31 is changed to lysine and methionine 176 is changed to valine.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ ID NO: 68 is depicted in SEQ ID NO:69.
  • SEQ DD NO:72 The nucleic acid sequence of SEQ DD NO:72 encodes a mutant eW ⁇ 24-16g8, which also exhibits improved bioconversion yield.
  • This S. rimosus transformant, ebh24-16gS identified in the screening of mutation 50 also produced a greater yield of epothilone F.
  • Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ DD NO:28) and NPB29-7r (SEQ DD NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the ebh24-16g% mutant was found to have two additional mutations resulting in changes in the amino acid sequence of the protein, methionine 176 is changed to alanine and isoleucine 130 is changed to threonine.
  • the position 176 is the target of the mutagenesis, the change at 130 is an artifact of the mutagenesis procedure.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ DD NO:72 is depicted in SEQ DD NO:73.
  • the nucleic acid sequence of SEQ DD NO:74 encodes a mutant eb/z24-16b9, which also exhibits improved bioconversion yield. This S.
  • rimosus transformant ebh24-16 >9 identified in the screening of mutation 50 (primer NPB29mut50 (SEQ DD NO:78) also produced a greater yield of epothilone F.
  • Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ DD NO:28) and NPB29-7r (SEQ DD NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system.
  • the eb/*24-16b9 mutant was found to have two additional mutations resulting in changes in the amino acid sequence of the protein, methionine 176 is changed to serine and alanine 140 is changed to threonine.
  • the position 176 is the target of the mutagenesis
  • the change at 140 is an artifact of the mutagenesis procedure.
  • the amino acid sequence of the mutant polypeptide encoded by SEQ DD NO:74 is depicted in SEQ DD NO:75.
  • polypeptide it is meant to include the amino acid sequence of SEQ DD NO: 2, and fragments or variants, which retain essentially the same biological activity and/or function as this epothilone B hydroxylase.
  • polypeptide it is meant to include the amino acid sequence of SEQ DD NO:4, and fragments and/or variants, which retain essentially the same biological activity and/or function as this ferredoxin.
  • variants as used herein it is meant to include polypeptides with amino acid sequences with conservative amino acid substitutions as compared to SEQ DD NO: 2 or 4 which are demonstrated to exhibit similar biological activity and/or function to SEQ DD NO:2 or 4.
  • conservative amino acid substitutions it is meant to include replacement, one for another, of the aliphatic amino acids such as Ala, Val, Leu and De, the hydroxyl residues Ser and Thr, the acidic residues Asp and Glu, and the amide residues Asn and Gin.
  • aliphatic amino acids such as Ala, Val, Leu and De
  • the hydroxyl residues Ser and Thr the acidic residues Asp and Glu
  • the amide residues Asn and Gin Exemplary variant amino acid sequences of the present invention are depicted in SEQ DD NO:43-49 and the amino acid substitutions of these exemplary variants are described in Table 2, supra.
  • mutants as used herein it is meant to include polypeptides encoded by nucleic acid sequences with one or more point mutations, or deletions or additions of nucleic acids as compared to SEQ DD NO: 1 or 3, but which still have similar activity to the polypeptides encoded by SEQ DD NO: 1 or 3.
  • mutations are made to the nucleic acid that alter the substrate specificity and/or yield from the polypeptide encoded thereby.
  • a preferred region of mutation with respect to the epothilone B hydroxylase gene is that region of the nucleic acid sequence coding for the approximately 113 amino acid residues comprising the active site of the enzyme.
  • Exemplary mutants ebh25-l, ebhl0-53, ebh24-16, eWz24-16d8, e 24-16cl 1, ebh24-16-16, ebh24-16-14, ebh24-16g , ebh24-16b9 and the nucleic acid sequences encoding such mutants of the present invention are depicted in SEQ DD NO:31, 33, 35, 61, 63, 65, 67, 69, 71, 73 and 75, and SEQ DD NO:30, 32, 34, 60, 62, 64, 66, 68, 70, 72 and 74, respectively.
  • a 3-dimensional model of epothilone B hydroxylase has also been constructed in accordance with general teachings of Greer et al. (Comparative modeling of homologous proteins. Methods In Enzymology 202239-52, 1991), Lesk et al. (Homology Modeling: Inferences from Tables of Aligned Sequences. Curr. Op. Struc Biol. (2) 242-247, 1992), and Cardozo et al. (Homology modeling by the ICM method. Proteins 23, 403-14, 1995) on the basis of the known structure of a homologous protein EryF (PDB Code 1KTN chain A). Homology between these sequences is 34%.
  • An energy plot of the epothilone B hydroxylase model relative to EryF (PDB code 1 JL ⁇ ) was also prepared and is depicted in Figure 5.
  • An averaging window size of 51 residues was used at a given residue position to calculate the average of the energies of the 51 residues in the sequence that lie with the given residue at the central position. As shown in Figure 5, all energies along the sequence lie below zero thus indicating that the modeled structure as set forth in Figure 4 and Appendix 1 is reasonable.
  • the three-dimensional structure represented in the homology model of epothilone B hydroxylase of Figure 4 is defined by a set of structure coordinates as set forth in Appendix 1.
  • the term "structure coordinates" refers to Cartesian coordinates generated from the building of a homology model.
  • a set of structure coordinates for a protein is a relative set of points that define a shape in three dimensions.
  • an entirely different set of coordinates could define a similar or identical shape.
  • slight variations in the individual coordinates, as emanate from generation of similar homology models using different alignment templates and/or using different methods in generating the homology model, will have minor effects on the overall shape.
  • Variations in coordinates may also be generated because of mathematical manipulations of the structure coordinates.
  • the structure coordinates set forth in Appendix 1 could be manipulated by fractionalization of the structure coordinates; integer additions or subtractions to sets of the structure coordinates, inversion of the structure coordinates or any combination of the above.
  • the superimposition tool in the program SYBYL allows comparisons to be made between different structures and different conformations of the same structure.
  • the procedure used in SYBYL to compare structures is divided into four steps: 1) load the structures to be compared; 2) define the atom equivalencies in these structures; 3) perform a fitting operation; and 4) analyze the results.
  • Each structure is identified by a name.
  • One structure is identified as the target (i.e., the fixed structure); the second structure (i.e., moving structure) is identified as the source structure.
  • equivalent atoms are defined as protein backbone atoms (N, C ⁇ , C and O) for all conserved residues between the two structures being compared.
  • rigid fitting operations are considered .
  • the working structure is translated and rotated to obtain an optimum fit with the target structure.
  • the fitting operation uses an algorithm that computes the optimum translation and rotation to be applied to the moving structure, such that the root mean square difference of the fit over the specified pairs of equivalent atoms is an absolute minimum. This number, given in angstroms, is reported by SYBYL.
  • any homology model of epothilone B hydroxylase that has a root mean square deviation of conserved residue backbone atoms (N, C ⁇ , C, O) of less than about 4.0 A when superimposed on the corresponding backbone atoms described by structure coordinates listed in Appendix 1 are considered identical. More preferably, the root mean square deviation is less than about 3.0 A. More preferably the root mean square deviation is less than about 2.0 A.
  • any homology model of epothilone B hydroxylase that has a root mean square deviation of conserved residue backbone atoms (N, C ⁇ , C, O) of less than about 2.0 A when superimposed on the corresponding backbone atoms described by structure coordinates listed in Appendix 1 are considered identical. More preferably, the root mean square deviation is less than about 1.0 A.
  • structural models wherein backbone atoms have been substituted with other elements which when superimposed on the corresponding backbone atoms have low root mean square deviations are considered to be identical.
  • an homology model where the original backbone carbon, and/or nitrogen and/or oxygen atoms are replaced with other elements having a root mean square deviation of about 4.0 A, more preferably about 3.0 A, even more preferably less than about 2A, when superimposed on the corresponding backbone atoms described by structure coordinates listed in Appendix 1 is considered identical.
  • root mean square deviation means the square root of the arithmetic mean of the squares of the deviations from the mean. It is a way to express the deviation or variation from a trend or object.
  • the "root mean square deviation” defines the variation in the backbone of a protein from the relevant portion of the backbone of the epothilone B hydroxylase portion of the complex as defined by the structure coordinates described herein.
  • the present invention as embodied by the homology model enables the structure-based design of additional mutants of epothilone B hydroxylase.
  • residues lying within lOA of the binding site of epothilone B hydroxylase have now been defined.
  • Mutants with mutations at one or more of these positions are expected to exhibit altered biological function and/or specificity and thus comprise another embodiment of preferred mutants of the present invention.
  • Another embodiment of preferred mutants are molecules that have a root mean square deviation from the backbone atoms of said epothilone B hydroxylase of not more than about 4. ⁇ A.
  • the structure coordinates of an epothilone B hydroxylase homology model or portions thereof are stored in a machine-readable storage medium. Such data may be used for a variety of purposes, such as drug discovery.
  • Another aspect of the present invention relates to machine- readable data storage medium comprising a data storage material encoded with the structure coordinates set forth in Appendix 1.
  • the three-dimensional model structure of epothilone B hydroxylase can also be used to identify modulators of biological function and potential substrates of the enzyme. Various methods or combinations thereof can be used to identify such modulators.
  • a test compound can be modeled that fits spatially into a binding site in epothilone B hydroxylase, according to Appendix 1.
  • Structure coordinates of amino acids within 10 A of the binding region of epothilone B hydroxylase defined by amino acids LEU39, GLN43, ALA45, MET57, LEU58, HIS62, PHE63, SER64, SER65, ASP66, ARG67, GLN68, SER69, LEU74, MET75, VAL76, ALA77, ARG78, GLN79, ILE80, ASP84, LYS85, PRO86, PHE87, ARG88, PRO89, SER90, LEU91, ILE92, ALA93, MET94, ASP95, HIS99, ARG103, PHE110, ILE155, PHE169, GLN170, CYS 172, SER173, SER174, ARG175, MET176, LEU177, SER178, ARG179
  • Identified structural or chemical features can then be employed to design or select compounds as potential epothilone B hydroxylase ligands.
  • structural and chemical features it is meant to include, but is not limited to, covalent bonding, van der Waals interactions, hydrogen bonding interactions, charge interaction, hydrophobic bonding interaction, and dipole interaction.
  • Compounds identified as potential epothilone B hydroxylase ligands can then be synthesized and screened in an assay characterized by binding of a test compound to epothilone B hydroxylase, or in characterizing the ability of epothilone B hydroxylase to modulate a protease target in the presence of a small molecule.
  • Examples of assays useful in screening of potential epothilone B hydroxylase ligands include, but are not limited to, screening in silico, in vitro assays and high throughput assays.
  • other structure-based design methods can be used.
  • Various computational structure-based design methods have been disclosed in the art. For example, a number of computer modeling systems are available in which the sequence of epothilone B hydroxylase and the epothilone B hydroxylase structure (i.e., atomic coordinates of epothilone B hydroxylase as provided in Appendix 1 and/or the atomic coordinates within lOA of the binding region as provided above) can be input.
  • This computer system then generates the structural details of one or more these regions in which a potential epothilone B hydroxylase modulator binds so that complementary structural details of the potential modulators can be determined.
  • Design in these modeling systems is generally based upon the compound being capable of physically and structurally associating with epothilone B hydroxylase. In addition, the compound must be able to assume a conformation that allows it to associate with epothilone B hydroxylase.
  • Some modeling systems estimate the potential inhibitory or binding effect of a potential epothilone B hydroxylase substrate or modulator prior to actual synthesis and testing.
  • Methods for screening chemical entities or fragments for their ability to associate with a given protein target are also well known. Often these methods begin by visual inspection of the binding site on the computer screen. Selected fragments or chemical entities are then positioned in a binding region of epothilone B hydroxylase. Docking is accomplished using software such as INSIGHTII, QUANTA and SYBYL, following by energy minimization and molecular dynamics with standard molecular mechanic force fields such as, MMFF, CHARMM and AMBER. Examples of computer programs which assist in the selection of chemical fragment or chemical entities useful in the present invention include, but are not limited to, GRDD (Goodford, 1985), AUTODOCK (Goodsell, 1990), and DOCK (Kuntz et al. 1982).
  • compounds may be designed de novo using either an empty active site or optionally including some portion of a known inhibitor.
  • Methods of this type of design include, but are not limited to LUDI (Bohm 1992) and LeapFrog (Tripos Inc., St. Louis MO).
  • DOCK Zantz et al. 1982
  • Programs such as DOCK can be used with the atomic coordinates from the homology model to identify potential ligands from databases or virtual databases which potentially bind the in the active site binding region which may therefore be suitable candidates for synthesis and testing.
  • vectors comprising polynucleotides of the present invention and host cells which are genetically engineered with vectors of the present invention to produce epothilone B hydroxylase or active fragments and variants or mutants of this enzyme and/or ferredoxin or active fragments thereof.
  • any vector suitable to maintain, propagate or express polynucleotides to produce these polypeptides in the host cell may be used for expression in this regard.
  • the vector may be, for example, a plasmid vector, a single- or double- stranded phage vector, or a single- or double- stranded RNA or DNA viral vector.
  • Vectors may be extra-chromosomal or designed for integration into the host chromosome.
  • Such vectors include, but are not limited to, chromosomal, episomal and virus-derived vectors e.g., vectors derived from bacterial plasmids, bacteriophages, yeast episomes, yeast chromosomal elements, and viruses such as baculoviruses, papova viruses, SV40, vaccinia viruses, adenoviruses, fowl pox viruses, pseudorabies viruses and retroviruses, and vectors derived from combinations thereof, such as those derived from plasmid and bacteriophage genetic elements, cosmids and phagemids.
  • Useful expression vectors for prokaryotic hosts include, but are not limited to, bacterial plasmids, such as those from E. coli, Bacillus or Streptomyces, including pBluescript, pGEX-2T, pUC vectors, pET vectors, ColEl, pCRl, ⁇ BR322, pMB9, pCW, pBMS200, pBMS2020, PU101, PIJ702, pANT849, pOJ260, pOJ446, pSET152, pKCl 139, pKC1218, pFD666 and their derivatives, wider host range plasmids, such as RP4, phage DNAs, e.g., the numerous derivatives of phage lambda, e.g., NM989, ⁇ GTIO and ⁇ GTl 1, and other phages, e.g., M13 and filamentous single stranded phage DNA.
  • Vectors of the present invention for use in yeast will typically contain an origin of replication suitable for use in yeast and a selectable marker that is functional in yeast.
  • yeast vectors useful in the present invention include, but are not limited to, Yeast Integrating plasmids (e.g., YIp5) and Yeast Replicating plasmids (the YRp and YEp series plasmids), Yeast Centromere plasmids (the YCp series plasmids), Yeast Artificial Chromosomes (YACs) which are based on yeast linear plasmids, denoted YLp, pGPD-2, 2 ⁇ plasmids and derivatives thereof, and improved shuttle vectors such as those described in Gietz et al, Gene, 74: 527-34 (1988) (YIplac, YEplac and YCplac).
  • Mammalian vectors useful for recombinant expression may include a viral origin, such as the SV40 origin (for replication in cell lines expressing the large T-antigen, such as COS1 and COS7 cells), the papillomavirus origin, or the EBV origin for long term episomal replication (for use, e.g., in 293-EBNA cells, which constitutively express the EBV EBNA-1 gene product and adenovirus EIA).
  • a viral origin such as the SV40 origin (for replication in cell lines expressing the large T-antigen, such as COS1 and COS7 cells), the papillomavirus origin, or the EBV origin for long term episomal replication (for use, e.g., in 293-EBNA cells, which constitutively express the EBV EBNA-1 gene product and adenovirus EIA).
  • Expression in mammalian cells can be achieved using a variety of plasmids, including, but not limited to, pSV2, pBC12BI, and p91023, pCDNA vectors as well as lytic virus vectors (e.g., vaccinia virus, adeno virus, and baculovirus), episomal virus vectors (e.g., bovine papillomavirus), and retroviral vectors (e.g., murine retro viruses).
  • lytic virus vectors e.g., vaccinia virus, adeno virus, and baculovirus
  • episomal virus vectors e.g., bovine papillomavirus
  • retroviral vectors e.g., murine retro viruses.
  • Useful vectors for insect cells include baculo viral vectors and pVL941.
  • expression constructs will contain sites for transcription initiation and termination, and, in the transcribed region, a ribosome binding site for translation.
  • the coding portion of the mature transcripts expressed by the constructs will include a translation initiating codon at the beginning and a termination codon appropriately positioned at the end of the polypeptide to be translated.
  • phage promoters such as phage lambda pL promoter, the trc promoter, a hybrid derived from the trp and lac promoters, the bacteriophage T7 promoter, the TAC or TRC system, the major operator and promoter regions of phage lambda, the control regions of fd coat protein, snpA promoter, melC promotor, ermE* promoter or the ⁇ r BAD operon.
  • phage promoters such as phage lambda pL promoter, the trc promoter, a hybrid derived from the trp and lac promoters, the bacteriophage T7 promoter, the TAC or TRC system, the major operator and promoter regions of phage lambda, the control regions of fd coat protein, snpA promoter, melC promotor, ermE* promoter or the ⁇ r BAD operon.
  • Examples of useful promoters for yeast include, but are not limited to, the CYCl promoter, the GALl promoter, the GAL 10 promoter, ADHl promoter, the promoters of the yeast ⁇ -mating system, and the GPD promoter.
  • Examples of promoters routinely used in mammalian expression vectors include, but are not limited to, the CMV immediate early promoter, the HSV thymidine kinase promoter, the early and late SV40 promoters, the promoters of retroviral LTRs, such as those of the Rous Sarcoma Virus(RSV), and metallothionein promoters, such as the mouse metallothionein-I promoter.
  • RSV Rous Sarcoma Virus
  • Vectors comprising the polynucleotides can be introduced into host cells using any number of well known techniques including infection, transduction, transfection, transvection and transformation.
  • the polynucleotides may be introduced into a host alone or with additional polynucleotides encoding, for example, a selectable marker or ferredoxin reductase.
  • the polynucleotide for epothilone B hydroxylase and ferredoxin are introduced into the host cell.
  • Host cells for the various expression constructs are well known, and those of skill can routinely select a host cell for expressing the epothilone B hydroxylase and/or ferredoxin in accordance with this aspect of the present invention.
  • Examples of mammalian expression systems useful in the present invention include, but are not limited to, the C127, 3T3, CHO, HeLa, human kidney 293 and BHK cell lines, and the COS-7 line of monkey kidney fibroblasts.
  • epothilone B hydroxylase and ferredoxin can be expressed recombinantly in microorganisms.
  • another aspect of the present invention relates to recombinantly produced microorganisms which express epothilone B hydroxylase alone or in conjunction with the ferredoxin and which are capable of hydroxylating a compound , and in particular an epothilone, having a terminal alkyl group to produce ones having a terminal hydroxyalkyl group.
  • the recombinantly produced microorganisms are produced by transforming cells such as bacterial cells with a plasmid comprising a nucleic acid sequence encoding epothilone B hydroxylase.
  • the cells are transformed with a plasmid comprising a nucleic acid encoding epothilone B hydroxylase or mutants or variants thereof as well as the nucleic acid sequence encoding ferredoxin located downstream of the epothilone B hydroxylase gene.
  • the recombinantly produced microorganisms of the present invention are useful in microbial processes or methods for production of compounds, and in particular epothilones, containing a terminal hydroxyalkyl group.
  • the hydroxyalkyl-bearing product can be produced by culturing the recombinantly produced microorganism or enzyme derived therefrom, capable of selectively hydroxylating a terminal carbon or alkyl, in the presence of a suitable substrate in an aqueous nutrient medium containing sources of assimilable carbon and nitrogen, under submerged aerobic conditions.
  • Suitable epothilones employed as substrate for the method of the present invention may be any such compound having a terminal carbon or terminal alkyl group capable of undergoing the enzymatic hydroxylation of the present invention.
  • the starting material, or substrate can be isolated from natural sources, such as Sorangium cellulosum, or they can be synthetically formed epothilones.
  • Other substrates having a terminal carbon or terminal alkyl group capable of undergoing an enzymatic hydroxylation can be employed by the methods herein.
  • compactin can be used as a substrate, which upon hydroxylation forms the compound pravastatin. Methods for hydroxylating compactin to pravastatin via an
  • Actinomadura strain are set forth in U.S. Patent 5,942,423 and U.S. Patent 6,274,360.
  • at least one epothilone can be prepared as described in WO 00/39276, U. S. Serial. No. 09/468,854, filed December 21, 1999, the text of which is inco ⁇ orated herein as if set forth at length.
  • A] and A 2 are independently selected from the group of optionally substituted C ⁇ -C 3 alkyl and alkenyl;
  • Q is an optionally substituted ring system containing one to three rings and at least one carbon to carbon double bond in at least one ring;
  • n, m, and o are integers selected from the group consisting of zero and 1 , where at least one of m or n or o is 1 ;
  • E is an epothilone core; can be prepared.
  • This method comprises the steps of contacting at least one epothilone of the following formula II CH 3 -(A,V(Q) m -(A 2 )o-E (II) where Ai, Q, A 2 , E, n, m, and o are defined as above; with a recombinantly produced microorganism, or an enzyme derived therefrom, which is capable of selectively catalyzing the hydroxylation of formula II, and effecting said hydroxylation.
  • the starting material is epothilone B.
  • Epothilone B can be obtained from the fermentation of Sorangium cellulosum So ce90, as described in DE 41 38 042 and WO 93/10121. The strain has been deposited at the Deutsche
  • Epothilone B can also be obtained by chemical means, such as those disclosed by Meng, D., et al., J.
  • a typical medium for growth includes necessary carbon sources, nitrogen sources, and trace elements. Inducers may also be added to the medium.
  • inducer includes any compound enhancing formation of the desired enzymatic activity within the recombinantly produced microbial cell.
  • Typical inducers as used herein may include solvents used to dissolve substrates, such as dimethyl sulfoxide, dimethyl formamide, dioxane, ethanol and acetone. Further, some substrates, such as epothilone B, may also be considered to be inducers.
  • Carbon sources may include sugars such as glucose, fructose, galactose, maltose, sucrose, mannitol, sorbital, glycerol starch and the like; organic acids such as sodium acetate, sodium citrate, and the like; and alcohols such as ethanol, propanol and the like.
  • Preferred carbon sources include, but are not limited to, glucose, fructose, sucrose, glycerol and starch.
  • Nitrogen sources may include an N-Z amine A, corn steeped liquor, soybean meal, beef extract, yeast extract, tryptone, peptone, cottonseed meal, peanut meal, amino acids such as sodium glutamate and the like, sodium nitrate, ammonium sulfate and the like.
  • Trace elements may include magnesium, manganese, calcium, cobalt, nickel, iron, sodium and potassium salts. Phosphates may also be added in trace or preferably, greater than trace amounts.
  • the medium employed for the fermentation may include more than one carbon or nitrogen source or other nutrient.
  • the pH of the medium is preferably from about 5 to about 8 and the temperature is from about 14°C to about 37°C, preferably the temperature is 28°C.
  • the duration of the reaction is 1 to 100 hours, preferably 8 to 72 hours.
  • the medium is incubated for a period of time necessary to complete the biotransformation as monitored by high performance liquid chromatography (HPLC). Typically, the period of time needed to complete the transformation is twelve to one hundred hours and preferably about 72 hours after the addition of the substrate.
  • the medium is placed on a rotary shaker (New Brunswick Scientific Innova 5000) operating at 150 to 300 ⁇ m and preferably about 250 ⁇ m with a throw of 2 inches.
  • the hydroxyalkyl-bearing product can be recovered from the fermentation broth by conventional means that are commonly used for the recovery of other known biologically active substances.
  • recovery means include, but are not limited to, isolation and purification by extraction with a conventional solvent, such as ethyl acetate and the like; by pH adjustment; by treatment with a conventional resin, for example, by treatment with an anion or cation exchange resin or a non-ionic adso ⁇ tion resin; by treatment with a conventional adsorbent, for example, by distillation, by crystallization; or by recrystallization, and the like.
  • a conventional solvent such as ethyl acetate and the like
  • pH adjustment such as ethyl acetate and the like
  • treatment with a conventional resin for example, by treatment with an anion or cation exchange resin or a non-ionic adso ⁇ tion resin
  • a conventional adsorbent for example, by distillation, by crystallization; or by recrystallization, and the like.
  • the extract obtained above from the biotransformation reaction mixture can be further isolated and purified by column chromatography and analytical thin layer chromatography.
  • a recombinantly produced microorganism of the present invention to biotransform an epothilone having a terminal alkyl group to an epothilone having a terminal hydroxyalkyl group was demonstrated.
  • a culture comprising a Streptomyces lividans clone containing a plasmid with the ebh gene as described in more detail in Example 11 was incubated with an epothilone B suspension for 3 days at 30°with agitation. A sample of the incubate was extracted with an equal volume of 25% methanol: 75% n-butanol, vortexed and allowed to settle for 5 minutes.
  • Example 12 Two hundred ⁇ l of the organic phase was transferred to an HPLC vial and analyzed by HPLC/MS (Example 12). A product peak of epothilone F eluted at a retention time of 15.9 minutes and had a protonated molecular weight of 524. The epothilone B substrate eluted at 19.0 minutes and had a protonated molecular weight of 508. The peak retention times and molecular weights were confirmed using known standards.
  • Rates of biotransformation of epothilone B by cells expressing ebh were also compared to rates of biotransformation by ebh mutants.
  • Cells expressing ebh comprised a frozen spore preparation of. S. lividans (pANT849-eM).
  • Cells expressing mutants comprises frozen spore preparations of S. lividans (pANT849- eb O-53) and S. lividans (pANT849-eM24-16).
  • a frozen spore preparation of S. lividans TK24 was used as the control. The cells were pre-incubated for several days at 30°C.
  • epothilone B in 100% EtOH was added to each culture to a final concentration of 0.05% weight/volume.
  • Samples were then taken at 0, 24, 48 and 72 hours with the exception of the S. lividans (pANT849- ebh24-16) culture, in which the epothilone B had been completely converted to epothilone F at 48 hours.
  • the samples were analyzed by HPLC. The results are calculated as a percentage of the epothilone B at time 0 hours.
  • Epothilone B
  • Epothilone F
  • mutant e 25-l exhibits altered substrate specificity and biotransformation of epothilone B by this mutant resulted in a product with a different HPLC elution time than epothilone B or epothilone F.
  • a sample of this unknown was analyzed by LC-MS and was found to have a molecular weight of 523 (M.W.), consistent with a single hydroxylation of epothilone B.
  • the structure of the biotransformation product was determined as 24-hydroxyl-epothilone B, based on MS and NMR data (compared with data of epothilone B):
  • compositions and methods of the present invention are useful in producing known compounds that are microtubule-stabilizing agents as well as new compounds comprising epothilone analogs such as 24-hydroxyl-epothilone B (Formula A) and pharmaceutically acceptable salts thereof expected to be useful as microtubule-stabilizing agents.
  • microtubule stabilizing agents produced using these compositions and methods are useful in the treatment of a variety of cancers and other proliferative diseases including, but not limited to, the following; carcinoma, including that of the bladder, breast, colon, kidney, liver, lung, ovary, pancreas, stomach, cervix, thyroid and skin; including squamous cell carcinoma; - hematopoietic tumors of lymphoid lineage, including leukemia, acute lymphocytic leukemia, acute lymphoblastic leukemia, B-cell lymphoma, T-cell lymphoma, Hodgkins lymphoma, non-Hodgkins lymphoma, hairy cell lymphoma and Burketts lymphoma; hematopoietic tumors of myeloid lineage, including acute and chronic myelogenous leukemias and promyelocytic leukemia; tumors of mesenchymal origin, including fibrosarcoma and rhabdomyoscarcoma;
  • Microtubule stabilizing agents produced using the compositions and methods of the present invention will also inhibit angiogenesis, thereby affecting the growth of tumors and providing treatment of tumors and tumor-related disorders.
  • Such anti- angiogenesis properties of these compounds will also be useful in the treatment of other conditions responsive to anti-angiogenesis agents including, but not limited to, certain forms of blindness related to retinal vascularization, arthritis, especially inflammatory arthritis, multiple sclerosis, restinosis and psoriasis.
  • Microtubule stabilizing agents produced using the compositions and methods of the present invention will induce or inhibit apoptosis, a physiological cell death process critical for normal development and homeostasis. Alterations of apoptotic pathways contribute to the pathogenesis of a variety of human diseases.
  • Compounds of the present invention such as those set forth in formula I and ⁇ and Formula A, as modulators of apoptosis, will be useful in the treatment of a variety of human diseases with aberrations in apoptosis including, but not limited to, cancer and precancerous lesions, immune response related diseases, viral infections, degenerative diseases of the musculoskeletal system and kidney disease.
  • microtubule stabilizing agents produced using the compositions and methods of the present invention may also be used to treat conditions other than cancer or other proliferative diseases.
  • Such conditions include, but are not limited to viral infections such as he ⁇ esvirus, poxvirus, Epstein-Barr virus, Sindbis virus and adenovirus; autoimmune diseases such as systemic lupus erythematosus, immune mediated glomerulonephritis, rheumatoid arthritis, psoriasis, inflammatory bowel diseases and autoimmune diabetes mellitus; neurodegenerative disorders such as Alzheimer's disease, ADDS-related dementia, Parkinson's disease, amyotrophic lateral sclerosis, retinitis pigmentosa, spinal muscular atrophy and cerebellar degeneration; ADDS; myelodysplastic syndromes; aplastic anemia; ischemic injury associated myocardial infarctions; stroke and reperfusion injury; restenosis; arrhythmi
  • R2 Medium was prepared as follows:
  • auxotrophs 50 ⁇ g/ml
  • Cysteine 37 ⁇ g/ml
  • adenine, guanine, thymidine and uracil 7.5 ⁇ g/ml
  • Vitamins 0.5 ⁇ g/ml
  • R2YE medium was prepared in the same fashion as R2 medium. However, 5 ml of Difco yeast extract (10%) was added to each 100 ml flask at time of use.
  • P (protoplast) buffer was prepared as follows:
  • Tris maleic acid buffer prepared from 1 M solution of Tris adjusted to pH 8.0 by adding maleic acid.
  • L (lysis) buffer was prepared by mixing the following sterile solutions: 100 ml Sucrose (10.3%) 10 ml TES buffer (5.73%, adjusted to pH 7.2) 1 ml K 2 SO 4 (2.5%)
  • a solution containing the following components was prepared in 1 liter of dH 2 O: glucose (10 grams), sucrose (103 grams), MgCl 2 »6H 2 O (10.12 grams), BBLTM trypticase soy broth (15 grams) (Becton Dickinson Microbiology Systems, Sparks, Maryland, USA), and BBLTM yeast extract (5 grams) (Becton Dickinson Microbiology Systems).
  • the solution was autoclaved for 30 minutes. Thiostrepton was added to a concentration of 10 ⁇ g/ml for cultures propagated with plasmids.
  • a solution containing 30% (wt/vol) PEG 1000, 10% glycerol, and 6.5 % sucrose was prepared in dH 2 O.
  • the solution was sterilized by vacuum filtration through a 0.22 ⁇ m cellulose acetate filter.
  • Genomic DNA was isolated from an Amycolatopsis orientalis soil isolate strain designation SC15847 (ATCC PT-1043) using a guanidine-detergent lysis method, DNAzol reagent (Invitrogen, Carlsbad, California, USA).
  • the SCI 5847 culture was grown 24 hours at 28°C in F7 medium (glucose 2.2%, yeast extract 1.0%, malt extract 1.0 %, peptone 0.1%, pH 7.0). Twenty ml of culture was harvested by centrifugation and resuspended in 20 ml of DNAzol, mixed by pipetting and centrifuged 10 minutes in the Beckman TJ6 centrifuge. Ten ml of 100% ethanol was added, inverted several times and stored at room temperature 3 minutes.
  • the DNA was spooled on a glass pipette washed in 100% ethanol and allowed to air dry 10 minutes. The pellet was resuspended in 500 ⁇ l of 8mM NaOH and once dissolved it was neutralized with 30 ⁇ l of IM HEPES pH7.2.
  • PCR reactions were prepared in a volume of 50 ⁇ l, containing 200-500 ng of genomic DNA or 1.0 ⁇ l of the cDNA, a forward and reverse primer, and the forward primer being either P450-l + (SEQ DD NO:23) or P450-la + (SEQ DD NO:24) or P450- 2 + (SEQ DD NO:25) and the reverse primer P450-3 " (SEQ DD NO:27)or P450-2 " (SEQ DD NO:26). All primers were added to a final concentration of 1.4- 2.0 ⁇ M.
  • the PCR reaction was prepared with 1 ⁇ l of Taq enzyme (2.5 units) (Stratagene), 5 ⁇ l of Taq buffer and 4 ⁇ l of 2.5 mM of dNTPs with dH 2 O to 50 ⁇ l.
  • the cycling reactions were performed on a Geneamp® PCR system with the following protocol: 95°C for 5 minutes, 5 cycles [95°C 30 seconds, 37°C 15 seconds (30% ramp), 72°C 30 seconds], 35 cycles (94°C 30 seconds, 65°C 15 seconds, 72°C 30 seconds), 72°C 7 minutes.
  • the expected sizes for the reactions are 340 bp for the P450-l + (SEQ DD NO:23) or P450-la + (SEQ DD NO:24) and P450-3 " (SEQ DD NO:27) primer pairs, 240 bp for the P450-l + (SEQ DD NO:23) and P450-2 " (SEQDD NO:26) primer pairs and 130 bp for the P450-2 + (SEQ DD NO:25) and P450-3 " (SEQ DD NO:27) primer pairs.
  • Patent 5,516,679 which had been digested with BamHI and dephosphorylated using the SAP I enzyme (Roche Molecular Biochemicals, Indianapolis, Indiana, catalog#l 758 250). Ligation reactions were performed in a 15 ⁇ l volume with IU of T4 DNA ligase (Invitrogen) for 1 hour at room temperature. One ⁇ l of the ligation was transformed to 100 ⁇ l of chemically competent DH10B cells (Invitrogen) and 100 ⁇ l plated to five LB agar plates with 30 ⁇ g/ml of neomycin, 37°C overnight.
  • T4 DNA ligase Invitrogen
  • the cloned PCR products were sequenced using fluorescent-dye-labeled terminator cycle sequencing, Big-Dye sequencing kit (Applied Biosystems, Foster city, California, USA) and were analyzed using laser-induced fluorescence capillary electrophoresis, ABI Prism 310 sequencer (Applied Biosystems).
  • Example 6 Extraction of Total RNA Total RNA was isolated from the SC15847 culture using a modification of the
  • Fifty-five milligrams of epothilone B was dissolved in 1 ml of 100% ethanol and added to the culture. A second ml of ethanol was used to rinse the residual epothilone B from the tube and added to the culture. The culture was incubated at 16°C, 230 ⁇ m for 30 hours. Thirty ml of the culture was transferred to a 50 ml tube, 150 mg of lysozyme was added to the culture and the culture was incubated 5 minutes at room temperature. Ten ml of the culture was placed in a 50 ml Falcon tube and centrifuged 5 minutes, 4°C in a TJ6 centrifuge. Two ml of chloroform was added and the tube was mixed vigorously for 15 seconds.
  • the tube was incubated 2 minutes at room temperature and centrifuged 10 minutes, top speed in the TJ6 centrifuge. The aqueous layer was transferred to a fresh tube and 2.5 ml of isopropanol was added to precipitate the RNA. The tube was incubated 10 minutes at room temperature and centrifuged 10 minutes, 4°C. The supernatant was removed, the pellet was rinsed with 70% ethanol and dried briefly under vacuum. The pellet was resuspended in 150 ⁇ l of RNase-free dH 2 O. Fifty ⁇ l of 7.5M LiCI was added to the RNA and incubated at -20°C for 30 minutes. The RNA was pelleted by centrifugation 10 minutes, 4°C in a microcentrifuge. The pellet was rinsed with 200 ⁇ l of 70% ethanol, dried briefly under vacuum and resuspended in 150 ⁇ l of RNase free dH 2 O.
  • RNA was treated with DNasel (Ambion, Austin, Texas, USA). Twenty- five ⁇ l of total RNA (5.3 ⁇ g/ ⁇ l), 2.5 ⁇ l of DNasel buffer, 1.0 ⁇ l of DNase I added and incubated at 37°C for 25 minutes. Five ⁇ l of DNase I inactivation buffer added, incubated 2 minutes, centrifuged 1 minute, the supernatant was transferred to a fresh tube.
  • Example 7 cDNA Synthesis cDNA was synthesized from the total RNA using the Superscript II enzyme (Invitrogen). The reaction was prepared with 1 ⁇ l of total RNA (5.3 ⁇ g/ ⁇ l), 9 ⁇ l of dH 0, 1 ⁇ l of dNTP mix (10 mM), and 1 ⁇ l of random hexamers. The reaction was incubated at 65°C for 5 minutes then placed on ice. The following components were then added: 4 ⁇ l of 1 st strand buffer, 1 ⁇ l of RNase Inhibitor, 2.0 ⁇ l of 0.1 M DTT, and 1 ⁇ l of Superscript II enzyme. The reaction was incubated at room temperature 10 minutes, 42°C for 50 minutes and 70°C for 15 minutes. One ⁇ l of RNaseH was added and incubated 20 minutes at 37°C, 15 minutes at 70°C and stored at 4°C.
  • Superscript II enzyme Invitrogen
  • Plasmid pCRscript-29 contains a 340bp PCR fragment amplified from SC15847 genomic DNA using primers P450 1 + (SEQ ID NO:23) and P450 3 " (SEQ DD NO:27). Two ⁇ l of the plasmid prep was used as a template, with a total of 25 cycles.
  • the amplified product was gel purified using the Qiaquick gel extraction system (Qiagen). The extracted DNA was ethanol precipitated and resuspended in 5 ⁇ l of TE, the yield was estimated to be 500 ng.
  • the membrane was prehybridized 1 hour at 42°C in 20 ml of Dig Easy Hyb buffer (Roche Molecular Biochemicals). The probe was denatured 10 minutes at 65°C and then placed on ice. Five ml of probe in Dig-Easy Hyb at an approximate concentration on 20 ng/ml was incubated with the membrane at 42°C overnight. The membrane was washed 2 times in 2X SCC with 0.1% SDS at room temperature, then 2 times in 0.5X SSC with 0.1% SDS at 65°C.
  • the membrane was equilibrated in Genius buffer 1 (10 mM maleic acid, 15 mM NaCl; pH 7.5; 0.3% v/v Tween 20) (Roche Molecular Biochemicals, Indianapolis, Indiana) for 2 minutes, then incubated with 2% blocking solution (2% Blocking reagent in Genius Buffer l)(Roche Molecular Biochemicals Indianapolis, Indiana) for 1 hour at room temperature. The membrane was incubated with a 1:20,000 dilution of anti-dig antibody in 50 ml of blocking solution for 30 minutes. The membrane was washed 2 times, 15 minutes each in 50 ml of Genius buffer 1.
  • the membrane was equilibrated for two minutes in Genius Buffer 3 (lOmM Tris-HCl, lOmM NaCl; pH 9.5).
  • Genius Buffer 3 lOmM Tris-HCl, lOmM NaCl; pH 9.5.
  • One ml of a 1:100 dilution of CSPD (disodium 3-(4-methoxyspiro ⁇ l,2-dioxetane-3,2'-(5'- chloro)tricyclo[3.3.1.1 3 ' 7 ]decan ⁇ -4-yl)phenyl phosphate) (Roche Molecular Biochemicals) in Genius buffer 3 was added to the membrane and incubated 5 minutes at room temperature, then placed at 37°C for 15 minutes.
  • the membrane was exposed to Biomax ML film (Kodak, Rochester, New York, USA) for 1 hour.
  • Example 10 E. coli Transformation Competent cells were purchased from Invitrogen. E. coli strain DH10B was used as a host for genomic cloning. The chemically competent cells were thawed on ice and 100 ⁇ l aliquoted to a 17 x 100-mm polypropylene tube on ice. One ⁇ l of the ligation mixture was added to the cells and incubated on ice for 30 minutes. The cells were incubated at 42°C for 45 seconds, then placed on ice 1-2 minutes. 0.9 ml pf SOC. medium(Invitrogen) was added and the cells were incubated one hour at 30- 37°C at 200-240 ⁇ m. Cells were plated on a selective medium (Luria agar with neomycin or ampicillin at a concentration of 30 ⁇ g /ml or 100 ⁇ g /ml respectively).
  • a selective medium Lia agar with neomycin or ampicillin at a concentration of 30 ⁇ g /m
  • Plasmid pWB 19N849 was constructed by digesting plasmid pWB 19N with
  • Plasmids constructed from the ligation of pWB19N and pANT849 were determined by electrophoretic mobility on 0.7 % agarose.
  • the plasmid pWB19N849 was digested with HindUI and BglH to excise a 5.3 kb fragment equivalent to plasmid pANT849 digested with Bglll and Hindm. This 5.3 kb fragment was purified on an agarose gel and extracted using the Qiaquick gel extraction system.
  • a 1.469 kb DNA fragment containing the epothilone B hydroxylase gene and the downstream ferredoxin gene was amplified using PCR.
  • the 50 ⁇ l PCR reaction was composed of 5 ⁇ l of Taq buffer, 2.5 ⁇ l glycerol, 1 ⁇ l of 20 ng/ ⁇ l NPB29-1 plasmid, 0.4 ⁇ l of 25 mM dNTPs, 1.0 ⁇ l each of primers NPB29-6F (SEQ DD NO:28) and NPB29-7R (SEQ DD NO:29) (5 pmole/ ⁇ l), 38.1 ⁇ l of dH 2 O and 0.5 ⁇ l of Taq enzyme (Stratagene).
  • the reactions were performed on a Perkin Elmer 9700, 95°C for 5 minutes, then 30 cycles (96°C for 30 seconds, 60°C 30 seconds, 72°C for 2 minutes), and 72°C for 7 minutes.
  • the PCR product was purified using a Qiagen minielute column with the PCR cleanup procedure.
  • the purified product was digested with Bglll and HindDI and purified on a 0.7 % agarose gel. A 1.469 kb band was excised from the gel and eluted using a Qiagen minielute column.
  • Five ⁇ l of this PCR product was ligated with 2 ⁇ l of the Bglll, Hindlll digested pANT849 vector in a 10 ⁇ l ligation reaction. The reaction was incubated at room temperature for 24 hours and then transformed to S. lividans TK24 protoplasts.
  • YEME media Twenty ml of YEME media was inoculated with a frozen spore suspension of S. lividans TK24 and grown 48 hours in a 125 ml bi -indent flask. Protoplasts were prepared as described in Practical Streptomyces Genetics. The ligation reaction was mixed with protoplasts, then 500 ⁇ l of transformation buffer was added, followed immediately by 5 ml of P buffer. The transformation reactions were spun down 7 minutes at 2,750 ⁇ m, resuspended in 100 ⁇ l of P buffer and plated to one R2YE plate. The plate was incubated at 28°C for 20 hours then overlaid with 5 ml of LB 0.7% agar with 250 ⁇ g/ml thiostrepton. After 7 days colonies were picked to an R2YE grid plate with 50 ⁇ g/ml of thiostrepton. The colonies were grown an additional 5 days at 28°C, then stored at 4°C.
  • This recombinant microorganism has been deposited with the ATCC and designated PTA-4022.
  • S. rimosus strain R6 593 was cultivated in 20 ml of CRM medium at 30 °C on a rotary shaker (250 ⁇ m). The cells were harvested at 24 hrs by centrifugation for 5 minutes, 5,000 ⁇ m, 4 °C, and resuspended in 20 ml of 10% sucrose, 4 °C, and centrifuged for 5 minutes, 5,000 ⁇ m, 4 °C. The pellet was resuspended in 10 ml of 15% glycerol, 4 °C and centrifuged for 5 minutes, 5,000 ⁇ m, 4 °C.
  • the pellet was resuspended in 2 ml of 15% glycerol, 4 °C with 100 ⁇ g/ml lysozyme and incubated at 37 °C for 30 minutes, centrifuged for 5 minutes, 5,000 ⁇ m, 4 °C and resuspended in 2 ml of 15% glycerol, 4 °C.
  • the 15% glycerol wash was repeated once and the pellet was resuspended in 1 to 2 ml of Electroporation Buffer.
  • the cells were stored at -80°C in 50 - 200 ⁇ l aliquots.
  • the ligations were prepared as described for the S. lividans transformation. After the incubation of the ligation reaction, the volume was brought to 100 ⁇ l with dH 2 O, NaCl was added to 0.3M, and the reaction extracted with an equal volume of 24: 1 : 1 phenolxhoroform isoamyl alcohol. Twenty ⁇ g of glycogen was added and the ligated DNA was precipitated with 2 volumes of 100% ethanol at -20 °C for 30 minutes. The DNA was pelleted 10 minutes in a microcentrifuge, washed once with 70% ethanol, dried 5 minutes in a speed-vac concentrator and resuspended in 5 ⁇ l of dH 2 O.
  • the cells were diluted with 0.75 to 1.0 ml of CRM (0-4 °C), transferred to 15 ml culture tubes and incubated with agitation 3hrs at 30 °C.
  • the cells were plated on trypticase soy broth agar plates with 10-30 ⁇ g/ml of thiostrepton.
  • Example 13 High Performance liquid chromatography The liquid chromatography separation was performed using a Waters 2690
  • the gradient mobile phase programming was used with a flow rate of 1.0 ml/minute.
  • Eluent A was water/acetonitrile (20:1) + 10 mM ammonium acetate.
  • Eluent B was acetonitrile/water (20:1).
  • the mobile phase was a linear gradient from 12% B to 28 % B over 6 minutes and held isocratic at 28% B over 4 minutes. This was followed by a 28% B to 100% B linear gradient over 20 minutes and a linear gradient to 12% B over two minutes with a 3 minute hold at 12% B.
  • the column effluent was introduced directly into the electrospray ion source of a ZMD mass spectrometer (Micromass, Manchester, UK).
  • the instrument was calibrated using Test Juice reference standard (Waters Co ⁇ , Milford, MA, USA) and was delivered at a flow of 10 ⁇ l/minute from a syringe pump (Harvard Apparatus, Holliston, MA, USA).
  • the mass spectrometer was operated at a low mass resolution of 13.2 and a high mass resolution of 11.2. Spectra were acquired from using a scan range of m/z 100 to 600 at an acquisition rate of 10 spectra /second.
  • the ionization technique employed was positive electrospray (ES).
  • the sprayer voltage was kept at 2900 V and the cone voltage of the ion source was kept at a potential of 17 V.
  • Example 15 Use of the ebh gene sequence (SEQ ID NO:l) to isolate cytochrome P450 genes from other microorganisms
  • Genomic DNA was isolated from a set of cultures (ATCC43491, ATCC 14930, ATCC53630, ATCC53550, ATCC39444, ATCC43333, ATCC35165) using the DNAzol reagent.
  • the DNA was used as a template for PCR reactions using primers designed to the sequence of the ebh gene.
  • Three sets of primers were used for amplification; NPB29-6f (SEQ DD NO:28) and NPB29-7r (SEQ DD NO:29), NPB29- 16f (SEQ DD NO:50) and NPB29-17r (SEQ DD NO:51), and NPB29-19f (SEQ DD NO:52) and NPB29-20r (SEQ DD NO:53).
  • PCR reactions were prepared in a volume of 20 ⁇ l, containing 200-500 ng of genomic DNA and a forward and reverse primer. All primers were added to a final concentration of 1.4- 2.0 ⁇ M. The PCR reaction was prepared with 0.2 ⁇ l of
  • AdvantageTM 2 Taq enzyme (BD Biosciences Clontech, Palo Alto, California, USA), 2 ⁇ l of AdvantageTM 2 Taq buffer and 0.2 ⁇ l of 2.5 mM of dNTPs with dH 2 O to 20 ⁇ l.
  • the cycling reactions were performed on a Geneamp ® 9700 PCR system or a Mastercycler ® gradient (Eppendorf, Westbury, New York, USA) with the following protocol: 95°C for 5 minutes, 35 cycles (96°C 20 seconds, 54-69°C 30 seconds, 72°C 2 minutes), 72°C for 7 minutes.
  • the expected size of the PCR products is approximately 1469 bp for the NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29) primer pair, 1034 bp for the NPB29-16f (SEQ DD NO:50) and NPB29-17r (SEQ DD NO:51) primer pair and 1318 bp for the NPB29-19f (SEQ DD NO:52) and NPB29-20r (SEQ ID NO:53) primer pair.
  • the PCR reactions were analyzed on 0.7% agarose gels. PCR products of the expected size were excised from the gel and purified using the Qiagen gel extraction method. The purified products were sequenced using the Big-Dye sequencing kit and analyzed using an ABD 10 sequencer.
  • a 1.469 kb DNA fragment containing the epothilone B hydroxylase gene and the downstream ferredoxin gene was amplified using PCR.
  • the 50 ⁇ l PCR reaction was composed of 5 ⁇ l of Taq buffer, 2.5 ⁇ l glycerol, 1 ⁇ l of 20 ng/ ⁇ l NPB29-1 plasmid, 0.4 ⁇ l of 25 mM dNTPs, 1.0 ⁇ l each of primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ DD NO:29) (5 pmole/ ⁇ l), 38.1 ⁇ l of dH 2 O and 0.5 ⁇ l of Taq enzyme (Stratagene).
  • the reactions were performed on a Geneamp ® 9700 PCR system, with the following conditions; 95°C for 5 minutes, then 30 cycles (96°C for 30 seconds, 60°C 30 seconds, 72°C for 2 minutes), and 72°C for 7 minutes.
  • the PCR product was purified using a Qiagen Qiaquick column with the PCR cleanup procedure.
  • the purified product was digested with Bglll and Hindi ⁇ and purified on a 0.7 % agarose gel.
  • a 1.469 kb band was excised from the gel and eluted using a Qiagen Qiaquick gel extraction procedure.
  • the fragments were then cloned into the pPCRscript Amp vector using the PCRscript Amp cloning kit.
  • Colonies containing inserts were picked to 1-2 ml of LB (Luria Broth) with 100 ⁇ g/ml ampicillin, 30- 37°C, 16-24 hours, 230-300 ⁇ m. Plasmid isolation was performed using the Mo Bio miniplasmid prep kit. The sequence of the insert was confirmed by cycle sequencing with the Big-Dye sequencing kit. This plasmid was named pPCRscript-eb/i.
  • Example 17 Mutagenesis of the ebh gene for improved yield or altered specificity
  • the Quikchange® XL Site-Directed Mutagenesis Kit and the Quikchange® Multi Site-Directed Mutagenesis kit, both from Stratagene were used to introduce mutations in the coding region of the ebh gene. Both of these methods employ DNA primers 35-45 bases in length containing the desired mutation (SEQ DD NO:54-59 and 77), a methylated circular plasmid template and PfuTurbo® DNA Polymerase (U.S. Patent Nos 5,545,552 and 5,866,395 and 5,948,663) to generate copies of the plasmid template inco ⁇ orating the mutation carried on the mutagenic primers.
  • XL 1 -Blue® electrocompetent or XLIO-Gold® ultracompetent cells (Stratagene). Cells were plated to a density of greater than 100 colonies per plate on LA (Luria Agar) 100 ⁇ g/ml ampicillin plates, and incubated 24-48 hrs at 30-37°C. The entire plate was resuspended in 5 ml of LB containing 100 ⁇ g/ml ampicillin. Plasmid was isolated directly from the resuspended cells by centrifuging the cells and then purifying the plasmid using the Mo Bio miniprep procedure.
  • This plasmid was then used as a template for PCR with primers NPB29-6f (SEQ ID NO:28)and NPB29-7r (SEQ DD NO:29) to amplify a mutated expression cassette. Digestion of the 1.469 kb PCR product with the restriction enzymes Bglll and Hindlll was used to prepare this fragment for ligation to vector pANT849 also digested with Bglll and HindM. Alternatively, the resuspended cells were used to inoculate 20- 50 ml of LB containing 100 ⁇ g/ml ampicillin and grown 18-24 hrs at 30-37°C.
  • Qiagen midi-preps were performed on the cultures to isolate plasmid DNA containing the desired mutation. Digestion with the restriction enzymes Bglll and Hindll was used to excise the mutated expression cassette for ligation to BglH and Hindm digested plasmid pANT849. Screening of mutants was performed in S. lividans or S. rimosus as described.
  • the PCR reaction was prepared with 10 ⁇ l of Not I digested pCRscript-eM (O.lng/ ⁇ l), 10 ⁇ l of polymerase buffer, 1.0 ⁇ l of IM ⁇ -mercaptoethanol, 10.0 ⁇ l of DMSO, 1.0 ⁇ l of NPB29-6f (SEQ ID NO:28) primer (100 pmole/ ⁇ l), 1.0 ⁇ l of NPB29-7r (SEQ ID NO:29) primer (100 pmole/ ⁇ l), 10 ⁇ l of 5 mM MnCl 2 , 10.0 ⁇ l 10 mM dGTP, 10.0 ⁇ l 2 mM dATP, 10 mM dTTP, 10.0 ⁇ l 10 mM dCTP, and 2.0 ⁇ l Taq polymerase.
  • dH 2 O was added to 100 ⁇ l. Reactions were also prepared as described above but without MnCl .
  • the cycling reactions were performed a GeneAmp® PCR system with the following protocol: 95°C for 1 minute, 25-30 cycles (94 °C for 1 minute, 55 °C for 30 seconds, 72 °C for 4 minutes), 72 °C for 7 minutes.
  • the PCR reactions were separated on an agarose gel using a Qiagen spin column.
  • the fragments were then digested with Bglll and Hindm and purified using a Qiagen spin column.
  • the purified fragments were then ligated to BglH and Hindm digested pANT849 plasmids. Screening of mutants was performed in S. lividans and S. rimosus.
  • Example 18 Comparison of epothilone B transformation in cells expressing ebh and mutants thereof
  • Epothilone F
  • the bioconversion of epothilone B to epothilone F was performed in S. rimosus host cells transformed with expression plasmids containing the ebh gene and its variants or mutants.
  • One-hundred ⁇ l of a frozen S. rimosus transformant culture was inoculated to 20 ml CRM media with 10 ⁇ g/ml thiostrepton and cultivated 16-24 hr, 30°C, 230- 300 ⁇ m.
  • Epothilone B in 100% ethanol was added to each culture to a final concentration of 0.05% weight/volume. The reaction was typically incubated 20- 40hrs at 30 °C, 230-300 ⁇ m.
  • the concentration of epothilones B and F was determined by HPLC analysis.
  • Epothilone F yield e -M18 55% ebh24-16dS 75% ebh24-16z ⁇ ⁇ 75% ebh24 ⁇ 6 ⁇ 6 75% eM24-16-74 75% eb/ ⁇ 24-16b9 80% eM24-16g8 85%
  • Example 20 High performance liquid chromatography method for compactin and pravastatin detection The liquid chromatography separation was performed using a Hewlett
  • Packard 1090 Series Separation system (Agilent Technologies, Palo Alto, California, USA) and a column, 50x46 mm, filled with Spherisorb ODS2, particle size 5 ⁇ m (Keystone Scientific, Inc, Bellefonte, Pennsylvania, USA).
  • the gradient mobile phase programming was used with a flow rate of 2.0 ml/minute.
  • Eluent A was water, 10 mM ammonium acetate and 0.05% Phosphoric Acid.
  • Eluent B was acetonitrile. The mobile phase was a linear gradient from 20% B to 90 % B over 4 minutes.
  • Example 21 Structure determination of the biotransformation product of mutant eb lS ⁇ Analytical HPLC was performed using a Hewlett Packard 1100 Series Liquid
  • YMC Packed ODS-AQ column (4.6 mm i.d. x 15 cm 1).
  • the column was eluted at 1 ml/minute flow rate with a gradient system of D 2 O (solvent A) and acetonitrile-d 3 (solvent B): 30% B, 1 minute; 30% to 80% B linear gradient, 11 minutes.
  • the eluent passed a UV detection cell (monitored at 254 nm) before flowing through a F19/H1 NMR probe (60 ⁇ l active volume) in Varian AS -600 NMR spectrometer.
  • the biotransformation product was eluted at around 7.5 minutes and the flow was stopped manually to allow the eluent to remain in the NMR probe for NMR data acquisition.

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Abstract

Isolated nucleic acid sequences and polypeptides encoded thereby for epothilone B hydroxylase and mutants and variants thereof and a ferredoxin located downstream from the epothilone B hydroxylase gene are provided. Also provided are vectors and cells containing these vectors. In addition, methods for producing recombinant microorganisms, methods for using these recombinant microorganism to produce hydroxyalkyl-bearing epothilones and an epothilone analog produced by a mutant of epothilone B hydroxylase are provided.

Description

COMPOSITIONS AND METHODS FOR HYDROXYLATING
EPOTHILONES
Field of the Invention
The present invention relates to isolated nucleic acids sequences and polypeptides encoded thereby for epothilone B hydroxylase and mutants and variants thereof, and a ferredoxin located downstream from the epothilone B hydroxylase gene. The present invention also relates to recombinant microorganisms expressing epothilone B hydroxylase or a mutant or variant thereof and/or ferredoxin which are capable of hydroxylating small organic molecule compounds, such as epothilones, having a terminal alkyl group to produce compounds having a terminal hydroxyalkyl group. Also provided are methods for recombinantly producing such microorganisms as well as methods for using these recombinant microorganisms in the synthesis of compounds having a terminal hydroxylalkyl group. The compositions and methods of the present invention are useful in preparation of epothilones having a variety of utilities in the pharmaceutical field. A novel epothilone analog produced using a mutant of epothilone B hydroxylase of the present invention is also described.
Background of the Invention
Epothilones are macrolide compounds that find utility in the pharmaceutical field. For example, epothilones A and B having the structures:
Figure imgf000002_0001
Epothilone A R=H
Epothilone B R=Me
have been found to exert microtubule-stabilizing effects similar to paclitaxel (TAXOL®) and hence cytotoxic activity against rapidly proliferating cells, such as, tumor cells or cells associated with other hyperproliferative cellular diseases, see Bollag et al., Cancer Res., Vol. 55, No. 11, 2325-2333 (1995).
Epothilones A and B are natural anticancer agents produced by Sorangium cellulosum that were first isolated and characterized by Hofle et al., DE 4138042; WO 93/10121; Angew. Chem. Int. Ed. Engl. Vol. 35, Nol3/14, 1567-1569 (1996); and Antibiot.. Vol. 49, No. 6, 560-563 (1996). Subsequently, the total syntheses of epothilones A and B have been published by Balog et al., Angew. Chem. Int. Ed. Engl.. Vol. 35, No. 23/24, 2801-2803, 1996; Meng et al, J. Am. Chem. Soc. Vol. 119, No. 42, 10073-10092 (1997); Nicolaou et al., J. Am. Chem. Soc. Vol. 119, No. 34, 7974-7991 (1997); Schinzer et al, Angew. Chem. Int. Ed. Eng.. Vol. 36, No. 5, 523-524 (1997); and Yang et al, Angew. Chem. Int. Ed. Engl.. Vol. 36, No. 1 / 2, 166-168, 1997. WO 98/25929 disclosed the methods for chemical synthesis of epothilone A, epothilone B, analogs of epothilone and libraries of epothilone analogs. The structure and production from Sorangium cellulosum DSM 6773 of epothilones C, D, E, and F was disclosed in WO 98/22461. Figure 1 provides a diagram of the biotransformation as described in WO 00/39276 of epothilone B to epothilone F in Actinomycetes species strain SC15847 (ATCC PT-1043), subsequently identified as Amycolatopsis orientalis.
Cytochrome P450 enzymes are found in prokaryotes and eukaryotic cells and have in common a heme binding domain which can be distinguished by an absorbance peak at 450 nm when complexed with carbon monoxide. Cytochrome P450 enzymes perform a broad spectrum of oxidative reactions on primarily hydrophobic substrates including aromatic and benzylic rings, and alkanes. In prokaryotes they are found as detoxifying systems and as a first enzymatic step in metabolizing substrates such as toluene, benzene and camphor. Cytochrome P450 genes have also been found in biosynthetic pathways of secondary metabolites such as nikkomycin in Streptomyces tendae (Bruntner, C. et al, 1999, Mol. Gen. Genet. 262: 102-114), doxorubicin (Dickens, M.L, Strohl, W.R., 1996, J. Bacteriol, 178: 3389- 3395) and in the epothilone biosynthetic cluster oi Sorangium cellulosum (Julien, B. et al., 2000, Gene, 249: 153-160). With a few exceptions, the cytochrome P450 systems in prokaryotes are composed of three proteins; a ferredoxin NADH or NADPH dependent reductase, an iron-sulfur ferredoxin and the cytochrome P450 enzyme (Lewis, D.F., Hlavica, P., 2000, Biochim. Biophys. Acta., 1460: 353-374). Electrons are transferred from ferredoxin reductase to the ferredoxin and finally to the cytochrome P450 enzyme for the splitting of molecular oxygen.
Summary of the Invention An object of the present invention is to provide isolated nucleic acid sequences encoding epothilone B hydroxylase and variants or mutants thereof and isolated nucleic acid sequences encoding ferredoxin or variants or mutants thereof.
Another object of the present invention is to provide isolated polypeptides comprising amino acid sequences of epothilone B hydroxylase and variants or mutants thereof and isolated polypeptides comprising amino acid sequences of ferredoxin and variants or mutants thereof.
Another object of the present invention is to provide structure coordinates of the homology model of the epothilone B hydroxylase. The structure coordinates are listed in Appendix 1. This model of the present invention provides a means for designing modulators of a biological function of epothilone B hydroxylase as well as additional mutants of epothilone B hydroxylase with altered specificities.
Another object of the present invention is to provide vectors comprising nucleic acid sequences encoding epothilone B hydroxylase or a variant or mutant thereof and/or ferredoxin or a variant or mutant thereof. In a preferred embodiment, these vectors further comprise a nucleic acid sequence encoding ferredoxin.
Another object of the present invention is to provide host cells comprising a vector containing a nucleic acid sequence encoding epothilone B hydroxylase or a variant or mutant thereof and/or ferredoxin or a variant or mutant thereof.
Another object of the present invention is to provide a method for producing recombinant microorganisms that are capable of hydroxylating compounds, and in particular epothilones, having a terminal alkyl group to produce compounds having a terminal hydroxyalkyl group.
Another object of the present invention is to provide microorganisms produced recombinantly which are capable of hydroxylating compounds, and in particular epothilones, having a terminal alkyl group to produce compounds having a terminal hydroxyalkyl group. Another object of the present invention is to provide methods for hydroxylating compounds in these recombinant microorganisms. In particular, the present invention provides a method for the preparation of hydroxyalkyl-bearing epothilones, which compounds find utility as antitumor agents and as starting materials in the preparation of other epothilone analogs.
Yet another object of the present invention is to provide a compound of Formula A:
Figure imgf000005_0001
referred to herein as 24-OH epothilone B or 24-OH EpoB, as well as compositions and methods for production of compositions comprising the compound of Formula A.
Brief Description of the Figures
Figure 1 provides a schematic of the biotransformation as set forth in WO 00/39276, U.S. Application Serial No. 09/468,854, filed December 21, 1999, of epothilone B to epothilone F by Amycolatopsis orientalis strain SC15847 (PTA1043). Figure 2 shows the nucleic acid sequence alignments of SEQ ED NO: 5 through SEQ ID NO:22 used to design the PCR primers for cloning of the nucleic acid sequence encoding epothilone B hydroxylase.
Figure 3 shows the sequence alignment between epothilone B hydroxylase (SEQ ID NO:2) and EryF (PDB code IJIN chain A; SEQ ID NO:76). The asterisks indicate sequence identities, the colons (:) similar residues.
Figure 4 provides a homology model of epothilone B hydroxylase based upon sequence alignment with EryF as shown in Figure 3.
Figure 5 shows an energy plot of the epothilone B hydroxylase model (indicated by dashed line) relative to EryF (PDB code IJIN; indicated by solid line). An averaging window size of 51 residues was used, i.e., the energy at a given residue position is calculated as the average of the energies of the 51 residues in the sequence that lie with the given residue at the central positions.
Detailed Description of the Invention
The present invention relates to isolated nucleic acid sequences and polypeptides and methods for obtaining compounds with desired substituents at a terminal carbon position. In particular, the present invention provides compositions and methods for the preparation of hydroxyalkyl-bearing epothilones, which compounds find utility as antitumor agents and as starting materials in the preparation of other epothilone analogs.
The term "epothilone," as used herein, denotes compounds containing an epothilone core and a side chain group as defined herein. The term "epothilone core," as used herein, denotes a moiety containing the core structure (with the numbering of ring system positions used herein shown):
Figure imgf000006_0001
wherein the substituents are as follows:
Q is selected from the group consisting of
Figure imgf000006_0002
W is O or NR6;
X is selected from the group consisting of O, H and OR7; M is O, S, NR8, CR9Rι0; \ and B2 are selected from the group consisting of ORn, OCORj2; R1-R5 and Rι2-Ri7 are selected from the group consisting of H, alkyl, substituted alkyl, aryl, and heterocyclo, and wherein Ri and R2 are alkyl they can be joined to form a cycloalkyl;
R6 is selected from the group consisting of H, alkyl, and substituted alkyl; R7 and Ri 1 are selected from the group consisting of H, alkyl, substituted alkyl, trialkylsilyl, alkyldiarylsilyl and dialkylarylsilyl;
R8 is selected from the group consisting of H, alkyl, substituted alkyl, Rι3C=O, R14OC=O and Rι5SO2; and
R9 and R10 are selected from the group consisting of H, halogen, alkyl, substituted alkyl, aryl, heterocyclo, hydroxy, Rι6C=O, and R17OC=O. The term "side chain group" refers to substituent G as defined above for
Epothilone A or B or Gj and G2 as shown below. Gy is the following formula V
HO-CH2-(A,)n-(Q)m-(A2)0 (V), and G2 is the following formula VI
CH3-(A,)n-(Q)m-(A2)0 (VI), where
Ai and A2 are independently selected from the group of optionally substituted C]-C3 alkyl and alkenyl; Q is optionally substituted ring system containing one to three rings and at least one carbon to carbon double bond in at least one ring; and n, m, and o are integers independently selected from the group consisting of zero and 1, where at least one of m, n or o is 1.
The term "terminal carbon" or "terminal alkyl group" refers to the terminal carbon or terminal methyl group of the moiety either directly bonded to the epothilone core at position 15 or to the terminal carbon or terminal alkyl group of the side chain group bonded at position 15. It is understood that the term "alkyl group" includes alkyl and substituted alkyl as defined herein.
The term "alkyl" refers to optionally substituted, straight or branched chain saturated hydrocarbon groups of 1 to 20 carbon atoms, preferably 1 to 7 carbon atoms. The expression "lower alkyl" refers to optionally substituted alkyl groups of 1 to 4 carbon atoms.
The term "substituted alkyl" refers to an alkyl group substituted by, for example, one to four substituents, such as, halo, trifluoromethyl, trifluoromethoxy, hydroxy, alkoxy, cycloalkyloxy, heterocyclooxy, oxo, alkanoyl, aryloxy, alkanoyloxy, amino, alkylamino, arylamino, aralkylamino, cycloalkylamino, heterocycloamino, disubstituted amines in which the 2 amino substituents are selected from alkyl, aryl or aralkyl, alkanoylamino, aroylamino, aralkanoylamino, substituted alkanoylamino, substituted arylamino, substituted aralkanoylamino, thiol, alkylthio, arylthio, aralkylthio, cycloalkylthio, heterocyclothio, alkylthiono, arylthiono, aralkylthiono, alkylsulfonyl, arylsulfonyl, aralkylsulfonyl, sulfonamido (e.g. SO2NH2), substituted sulfonamido, nitro, cyano, carboxy, carbamyl (e.g. CONH2), substituted carbamyl (e.g. CONH alkyl, CONH aryl, CONH aralkyl or cases where there are two substituents on the nitrogen selected from alkyl, aryl or aralkyl), alkoxycarbonyl, aryl, substituted aryl, guanidino and heterocyclos, such as, indolyl, imidazolyl, furyl, thienyl, thiazolyl, pyrrolidyl, pyridyl, pyrimidyl and the like. Where noted above where the substituent is further substituted it will be with halogen, alkyl, alkoxy, aryl or aralkyl.
In accordance with one aspect of the present invention there are provided isolated polynucleotides that encode epothilone B hydroxylase, an enzyme capable of hydroxylating epothilones having a terminal alkyl group to produce epothilones having a terminal hydroxyalkyl group.
In accordance with another aspect of the present invention there are provided isolated polynucleotides that encode a ferredoxin, the gene for which is located downstream from the epothilone B hydroxylase gene. Ferredoxin is a protein of the cytochrome P450 system.
By "polynucleotides", as used herein, it is meant to include any form of DNA or RNA such as cDNA or genomic DNA or mRNA, respectively, encoding these enzymes or an active fragment thereof which are obtained by cloning or produced synthetically by well known chemical techniques. DNA may be double- or single- stranded. Single-stranded DNA may comprise the coding or sense strand or the non- coding or antisense strand. Thus, the term polynucleotide also includes polynucleotides exhibiting at least 60% or more, preferably at least 80%, homology to sequences disclosed herein, and which hybridize under stringent conditions to the above-described polynucleotides. As used herein, the term "stringent conditions" means hybridization conditions of 60°C at 2xSSC buffer. More preferred are isolated nucleic acid molecules capable of hybridizing to the nucleic acid sequence set forth in 1, 30, 32, 34, 36, 37, 38, 39, 40, 41, 42, 60, 62, 64, 66, 68, 70, 72, or 74 or SEQ ID NO: 3, or to the complementary sequence of the nucleic acid sequence set forth in SEQ ID NO:l, 30, 32, 34, 36, 37, 38, 39, 40, 41, 42, 60, 62 ,64, 66, 68, 70, 72 ,or 74 or SEQ ID NO:3, under hybridization conditions of 3X SSC at 65°C for 16 hours, and which are capable of remaining hybridized to the nucleic acid sequence set forth in SEQ ID NO:l, 30, 32, 34, 36, 37, 38, 39, 40, 41, 42, 60, 62, 64, 66, 68, 70, 72 or 74 or SEQ ID NO:3, or to the complementary sequence of the nucleic acid sequence set forth in SEQ ID NO:l, 30, 32, 34, 36, 37, 38, 39, 40, 41 or 42, 60, 62, 64, 66, 68, 70, 72 or 74 or SEQ ID NO:3, under wash conditions of 0.5X SSC, 55°C for 30 minutes. In one embodiment, a polynucleotide of the present invention comprises the genomic DNA depicted in SEQ ID NO: 1 or a homologous sequence or fragment thereof which encodes a polypeptide having similar activity to that of this epothilone B hydroxylase. Alternatively, a polynucleotide of the present invention may comprise the genomic DNA depicted in SEQ ID NO:3 or a homologous sequence or fragment thereof which encodes a polypeptide having similar activity to this ferredoxin. Due to the degeneracy of the genetic code, polynucleotides of the present invention may also comprise other nucleic acid sequences encoding this enzyme and derivatives, variants or active fragments thereof.
The present invention also relates to variants of these polynucleotides which may be naturally occurring, i.e., present in microorganisms such as Amycolatopsis orientalis and Amycolata autotrophica, or in soil or other sources from which nucleic acids can be isolated, or mutants prepared by well known mutagenesis techniques. Exemplary variants polynucleotides of the present invention are depicted in SEQ ID NO: 36-42.
By "mutants" as used herein it is meant to be inclusive of nucleic acid sequences with one or more point mutations, or deletions or additions of nucleic acids as compared to SEQ ID NO: 1 or 3, but which still encode a polypeptide or fragment with similar activity to the polypeptides encoded by SEQ ID NO: 1 or 3. In a preferred embodiment, mutations are made which alter the substrate specificity and/or yield of the enzyme. A preferred region of mutation with respect to the epothilone B hydroxylase gene is that region of the nucleic acid sequence coding for the approximately 113 amino acids residues comprising the active site of the enzyme. Also preferred are mutants encoding a polypeptide with at least one amino acid substitution at amino acid position GLU31, ARG67, ARG88, ILE92, ALA93, VAL106, ILE130, ALA140, MET176, PHE190, GLU 231, SER294, PHE237, or ILE365 of SEQ ID NO: 1. Exemplary polynucleotide mutants of the present invention are depicted in SEQ ID NO: 30, 32, 34, 60, 62, 64, 66, 68, 70, 72 and 74. Cloning of the nucleic acid sequence of SEQ ID NO: 1 encoding epothilone B hydroxylase was performed using PCR primers designed by aligning the nucleic acid sequences of six cytochrome P450 genes from bacteria. The following cytochrome P450 genes were aligned:
Sequence 1: Locus: STMSUACB; Accession number: M32238; Reference: Omer, C.A., J. Bacteriol. 172: 3335-3345 (1990)
Sequence 2: Locus: STMSUBCB; Accession number: M32239; Reference:
Omer, C.A., J. Bacteriol. 172: 3335-3345 (1990) Sequence 3: Locus: AB018074 (formerly STMORFA); Accession number:
AB018074; Reference: Ueda, K., J. Antibiot. 48: 638-646 (1995) Sequence 4: Locus: SSU65940; Accession number: U65940; Reference:
Motamedi, H., J. Bacteriol. 178: 5243-5248 (1996) Sequence 5: Locus: STMOLEP; Accession number: L37200; Reference:
Rodriguez, A.M., FEMS Microbiol. Lett. 127: 117-120 (1995) Sequence 6: Locus: SERCP450A; Accession number: M83110; Reference: Andersen, J.F. and Hutchinson, C.R., J. Bacteriol. 174: 725-735
(1992) Alignments were performed using an implementation of the algorithm of Myers, E.W. and W. Miller. 1988. CABIOS 4:1, 11-17., the Align program from Scientific and Educational Software (Durham, North Carolina, USA). Three highly conserved regions were identified in the I-helix, containing the oxygen binding domain, in the K-helix, and spanning the B-bulge and L-helix containing the conserved heme binding domain. Primers were designed to the three conserved regions identified in the alignment. Primers P450-l+ (SEQ ID NO:23) and P450-la+ (SEQ ID NO:24) were designed from the I helix, Primer P450-2+ (SEQ ID NO:25) was designed from the B-Bulge and L-helix region and Primer P450-3"( SEQ ID NO:27) was designed as the reverse complement to the heme binding protein. Genomic fragments were then amplified via polymerase chain reaction (PCR).
After PCR amplification, the reaction products were separated by gel electrophoresis and fragments of the expected size were excised. The DNA was extracted from the agarose gel slices using the Qiaquick gel extraction procedure (Qiagen, Santa Clarita, California, USA). The fragments were then cloned into the PCRscript vector (Stratagene, La Jolla, California, USA) using the PCRscript Amp cloning kit
(Stratagene). Colonies containing inserts were picked to 1-2 ml of LB broth with 100 μg/ml ampicillin, 30-37°C, 16-24 hours, 230-300 φm. Plasmid isolation was performed using the Mo Bio miniplasmid prep kit (Mo Bio, Solano Beach, California, USA). This plasmid DNA was used as a PCR and sequencing template and for restriction digest analysis.
The cloned PCR products were sequenced using the Big-Dye sequencing kit from Applied Biosystems, (Foster City, California, USA) and were analyzed using the ABD 10 sequencer (Applied Biosystems, Foster City, California, USA). The sequence of the inserts was used to perform a TblastX search, using the protocol of Altschul, S.F, et al., Mol. Biol. 215:403-410 (1990), of the non-redundant protein database.
Unique sequences having a significant similarity to known cytochrome P450 proteins were retained. Using this approach, a total of nine different P450 sequences were identified from SCI 5847, seven from the genomic DNA template and two from the cDNA. Two P450 sequences were found in common between the DNA and cDNA templates. Of the fifty cDNA clones analyzed, two sequences were predominant, with twenty clones each. These two genes were then cloned from the genomic DNA.
The nucleic acid sequence of the genomic DNA was determined using the Big-Dye sequencing system (Applied Biosystems) and analyzed using an ABD 10 sequencer. This sequence is depicted in SEQ ID NO: 1. An open reading frame coding for a protein of 404 amino acids and a predicted molecular weight of 44.7 kDa was found within the cloned Bglll fragment. The deduced amino acid sequence of this polypeptide is depicted in SEQ ID NO: 2. The amino acid sequence of this polypeptide was found to share 51% identity with the NikF protein of Streptomyces tendae (Bruntner, C. et al, 1999, Mol. Gen. Genet. 262: 102-114) and 48% identity with the Sca-2 protein of S. carbophilus (Watanabe, I. Et al, 1995, Gene 163: 81-85). Both of these enzymes belong to the cytochrome P450 family 105. The invariable cysteine found in the heme-binding domain of all cytochrome P450 enzymes is found at residue 356. This gene for epothilone B hydroxylase has been named ebh. The ATG start codon of a putative ferredoxin gene of 64 amino acids is found nine basepairs downstream from the stop codon of ebh. This enzyme was found to share 50% identity with ferredoxin genes of S. griseoulus (O'Keefe, D.P., et al, 1991, Biochemistry 30: 447-455) and S. noursei (Brautaset, T., et al, 2000, Chem. Biol. 7: 395-403). The nucleic acid sequence encoding this ferredoxin is depicted in SEQ ID NO: 3 and the amino acid sequence for this ferredoxin polypeptide is depicted in SEQ ID NO:4.
The ebh gene sequence was also used to isolate variant cytochrome P450 genes from other microorganisms. Exemplary variant polynucleotides ebh43491, ebhl4930, ebh5363 , ebh53550, ebh.39444, eM43333 and ebh.35165 of the present invention and the species from which they were isolated are depicted in Table 1 below. The nucleic acid sequences for these variants are depicted in SEQ ID NO:36- 42, respectively. Table 1 : Variant polynucleotides
ATCC ID Species ebh gene designation
43491 Amycolatopsis orientalis ebh4249\
14930 Amycolatopsis orientalis ebh 14930
53630 Amvcolatopsis orientalis <?M53630
53550 Amvcolatopsis orientalis eM53550
39444 Amycolatopsis orientalis ebh39444
43333 Amvcolatopsis orientalis <?Wϊ43333
35165 Amvcolatopsis orientalis e 35165
The amino acid sequences encoded by the exemplary variants ebh43491, ebh!4930, ebh53630, ebh53550, ebh39444, eb/ι43333 and ebh35165 are depicted in SEQ ID NO:43-49, respectively. Table 2 provides a summary of the amino acid substitutions of these exemplary variants. Table 2: Amino acid Substitutions
Position ebh Substitution ebh variant
100 Gly Ser ebhl4930, ebh43333, ebh53550, ebh4349\
101 Lys Arg ebh 14930
130 Be Leu eM14930
192 Ser Gin e 14930
224 Ser Thr ebhl4930, ebh43333, ebh53550, ebh4349\
285 lie Val ebhl4930, ebh43333, ebh53550, ebh4349\
69 Ser Asn eM43333
256 Val Ala eM43333, eM53550, eb 3491
93 Ala Ser eM53550
326 Asp Glu e 53550, eM43491
333 Thr Ala eM53550, eb 3491
133 Leu Met eM43491
398 His Arg e&ft39444
Mutations were also introduced into the coding region of the ebh gene to identify mutants with improved yield, and or rate of biocon version and/or altered substrate specificity. Exemplary mutant nucleic acid sequences of the present invention are depicted in SEQ ID NO: 30, 32, 34, 60, 62, 64, 66, 68, 70, 72 and 74.
The nucleic acid sequence of SEQ ID NO:30 encodes a mutant ebh25-l which exhibits altered substrate specificity. Plasmid pANT849eb/ι25-l containing this mutant gene was deposited and accepted by an International Depository Authority under the provisions of the Budapest Treaty. The deposit was made on November , 2002 to the American Type Culture Collection at 10801 University Boulevard in Manassas, Virginia 20110-2209. The ATCC Accession Number is . All restrictions upon public access to this plasmid will be irrevocably removed upon granting of this patent application. The Deposit will be maintained in a public depository for a period of thirty years after the date of deposit or five years after the last request for a sample or for the enforceable life of the patent, whichever is longer. The above-referenced plasmid was viable at the time of the deposit. The deposit will be replaced if viable samples cannot be dispensed by the depository.
This S. lividans transformant identified in the screening of mutation 25 (primers NPB29-mut25f (SEQ ID NO:58) and NPB29-mut25r (SEQ ID NO:59)) was found to produce a product with a different HPLC elution time than epothilone B or epothilone F. A sample of this unknown was analyzed by LC-MS and was found to have a molecular weight of 523 (M.W.), consistent with a single hydroxylation of epothilone B. Plasmid DNA was isolated from the S. lividans culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO: 28) and NPB29-7r (SEQ ID NO:29) (see Example 17). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh.25-1 mutant was found to have two mutations resulting in changes in the amino acid sequence of the protein, asparagine 195 is changed to serine and serine 294 is changed to proline. The position targeted for mutation at codon 238 was found to have a two nucleotide change, which did not result in a change of the amino acid sequence of the protein. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO: 30 is depicted in SEQ ID NO:31.
The nucleic acid sequence of SEQ ID NO:32 encodes a mutant eM10-53, which exhibits improved bioconversion yield. This S. lividans transformant identified in the screening of mutation 10 (primers NPB29-mutl0f (SEQ ID NO:54) and
NPB29-mutl0r (SEQ ID NO:55)) produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. lividans culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29)(see Example 16). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh 10-53 mutant was found to have two mutations resulting in changes in the amino acid sequence of the protein, glutamic acid 231 is changed to arginine and phenylalanine 190 is changed to tyrosine. The position 231 was the target of the mutagenesis, the change at residue 190 is an inadvertent change that is an artifact of the mutagenesis procedure. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:32 is depicted in SEQ ID NO:33.
The nucleic acid sequence of SEQ ID NO:34 encodes a mutant ebh24-\6, which also exhibits improved bioconversion yield. This S. lividans transformant, ebh24-16 identified in the screening of mutation 24 (primers NPB29-mut24f (SEQ ID NO:56) and NPB29-mut24r (SEQ ID NO:57) also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. lividans culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh.24- 6 mutant was found to have two mutations resulting in changes in the amino acid sequence of the protein, phenylalanine 237 is changed to alanine and isoleucine 92 is changed to valine. The position 237 was the target of the mutagenesis, the change at residue 92 is an inadvertent change that is an artifact of the mutagenesis procedure. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:34 is depicted in SEQ ID NO:35.
The nucleic acid sequence of SEQ ID NO:60 encodes a mutant ebh24-16dS, which also exhibits improved bioconversion yield. This S. rimosus transformant, e 24-16d8 identified in the screening of mutation 59 (primer NPB29mut59 (SEQ ID NO:77)) also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh24-16dS mutant was found to have one mutation resulting in a change in the amino acid sequence of the protein, arginine 67 is changed to glutamine. This change is an artifact of the mutagenesis procedure. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:60 is SEQ ID NO:61. The nucleic acid sequence of SEQ ID NO:62 encodes a mutant ebh24-16zl 1, which also exhibits improved bioconversion yield. This S. rimosus transformant, eb/z24-16cll identified in the screening of mutation 59 (primer NPB29mut59 (SEQ ID NO:77)) also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh24-16c\ l mutant was found to have two additional mutations resulting in changes in the amino acid sequence of the protein, alanine 93 is changed to glycine and isoleucine 365 is changed to threonine. The position 93 is the target of the mutagenesis, the change at 365 is an artifact of the mutagenesis procedure. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:62 is depicted in SEQ ID NO:63.
The nucleic acid sequence of SEQ ID NO: 64 encodes a mutant ebh.24-16-16, which also exhibits improved bioconversion yield. This S. rimosus transformant, eM24-16-16 identified in the screening of random mutants of ebh.24- 6 also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29- 6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh24-\6-16 mutant was found to have one additional mutation resulting in changes in the amino acid sequence of the protein, valine 106 is changed to alanine. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:64 is depicted in SEQ ID NO:65.
The nucleic acid sequence of SEQ ID NO:66 encodes a mutant ebh24- 16-74, which also exhibits improved bioconversion yield. This S. rimosus transformant, ebh24- 16-74 identified in the screening of random mutants of ebh24-16 also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29- 6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh24- 16-74 mutant was found to have one additional mutation resulting in changes in the amino acid sequence of the protein, arginine 88 is changed to histidine. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO:66 is SEQ ID NO:67. The nucleic acid sequence of SEQ ID NO:68 encodes a mutant eM24-M18, which also exhibits improved bioconversion yield. This S. rimosus transformant, ebhM-lS identified in the screening of random mutants of ebh also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebΛM-18 mutant was found to have two mutations resulting in changes in the amino acid sequence of the protein, glutamic acid 31 is changed to lysine and methionine 176 is changed to valine. The amino acid sequence of the mutant polypeptide encoded by SEQ ID NO: 68 is depicted in SEQ ID NO:69.
The nucleic acid sequence of SEQ DD NO:72 encodes a mutant eWι24-16g8, which also exhibits improved bioconversion yield. This S. rimosus transformant, ebh24-16gS identified in the screening of mutation 50 (primer NPB29mut50 (SEQ DD NO:78)) also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ DD NO:28) and NPB29-7r (SEQ DD NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The ebh24-16g% mutant was found to have two additional mutations resulting in changes in the amino acid sequence of the protein, methionine 176 is changed to alanine and isoleucine 130 is changed to threonine. The position 176 is the target of the mutagenesis, the change at 130 is an artifact of the mutagenesis procedure. The amino acid sequence of the mutant polypeptide encoded by SEQ DD NO:72 is depicted in SEQ DD NO:73. The nucleic acid sequence of SEQ DD NO:74 encodes a mutant eb/z24-16b9, which also exhibits improved bioconversion yield. This S. rimosus transformant, ebh24-16 >9 identified in the screening of mutation 50 (primer NPB29mut50 (SEQ DD NO:78)) also produced a greater yield of epothilone F. Plasmid DNA was isolated from the S. rimosus culture and used as a template for PCR amplification using primers NPB29-6f (SEQ DD NO:28) and NPB29-7r (SEQ DD NO:29). The expected fragment was obtained and sequenced using the Big-Dye sequencing system. The eb/*24-16b9 mutant was found to have two additional mutations resulting in changes in the amino acid sequence of the protein, methionine 176 is changed to serine and alanine 140 is changed to threonine. The position 176 is the target of the mutagenesis, the change at 140 is an artifact of the mutagenesis procedure. The amino acid sequence of the mutant polypeptide encoded by SEQ DD NO:74 is depicted in SEQ DD NO:75.
A mixture composed of the plasmids pANT849eb/ι-24-16, pANT849eM-10- 53, pANT849e -24-16d8, pANT849eM-24-16cl l, pANT849eM-24-16-16, pant849eM-24- 16-74, p ANT849eM-24- 16b9, p ANT849eM-M 18 and p ANT849eM- 24-16g8 for these nine mutant genes was deposited and accepted by an International Depository Authority under the provisions of the Budapest Treaty. The deposit was made on November , 2002 to the American Type Culture Collection at 10801
University Boulevard in Manassas, Virginia 20110-2209. The ATCC Accession
Number is . All restrictions upon public access to this mixture of plasmids will be irrevocably removed upon granting of this patent application. The deposit will be maintained in a public depository for a period of thirty years after the date of deposit or five years after the last request for a sample or for the enforceable life of the patent, whichever is longer. The above-referenced mixture of plasmids was viable at the time of the deposit. The deposit will be replaced if viable samples cannot be dispensed by the depository. Thus, in accordance with another aspect of the present invention, there are provided isolated polypeptides of epothilone B hydroxylase and variants and mutants thereof and isolated polypeptides of ferredoxin or variants thereof. In one embodiment of the present invention, by "polypeptide" it is meant to include the amino acid sequence of SEQ DD NO: 2, and fragments or variants, which retain essentially the same biological activity and/or function as this epothilone B hydroxylase. In another embodiment of the present invention, by "polypeptide" it is meant to include the amino acid sequence of SEQ DD NO:4, and fragments and/or variants, which retain essentially the same biological activity and/or function as this ferredoxin. By "variants" as used herein it is meant to include polypeptides with amino acid sequences with conservative amino acid substitutions as compared to SEQ DD NO: 2 or 4 which are demonstrated to exhibit similar biological activity and/or function to SEQ DD NO:2 or 4. By "conservative amino acid substitutions" it is meant to include replacement, one for another, of the aliphatic amino acids such as Ala, Val, Leu and De, the hydroxyl residues Ser and Thr, the acidic residues Asp and Glu, and the amide residues Asn and Gin. Exemplary variant amino acid sequences of the present invention are depicted in SEQ DD NO:43-49 and the amino acid substitutions of these exemplary variants are described in Table 2, supra.
By "mutants" as used herein it is meant to include polypeptides encoded by nucleic acid sequences with one or more point mutations, or deletions or additions of nucleic acids as compared to SEQ DD NO: 1 or 3, but which still have similar activity to the polypeptides encoded by SEQ DD NO: 1 or 3. In a preferred embodiment, mutations are made to the nucleic acid that alter the substrate specificity and/or yield from the polypeptide encoded thereby. A preferred region of mutation with respect to the epothilone B hydroxylase gene is that region of the nucleic acid sequence coding for the approximately 113 amino acid residues comprising the active site of the enzyme. Also preferred are mutants with at least one amino acid substitution at amino acid position GLU31, ARG67, ARG88, ELE92, ALA93, VAL106, JLE130, ALAMO, MET176, PHE190, GLU 231, SER294, PHE237, or ILE365 of SEQ ID NO:l Exemplary mutants ebh25-l, ebhl0-53, ebh24-16, eWz24-16d8, e 24-16cl 1, ebh24-16-16, ebh24-16-14, ebh24-16g , ebh24-16b9 and the nucleic acid sequences encoding such mutants of the present invention are depicted in SEQ DD NO:31, 33, 35, 61, 63, 65, 67, 69, 71, 73 and 75, and SEQ DD NO:30, 32, 34, 60, 62, 64, 66, 68, 70, 72 and 74, respectively.
A 3-dimensional model of epothilone B hydroxylase has also been constructed in accordance with general teachings of Greer et al. (Comparative modeling of homologous proteins. Methods In Enzymology 202239-52, 1991), Lesk et al. (Homology Modeling: Inferences from Tables of Aligned Sequences. Curr. Op. Struc Biol. (2) 242-247, 1992), and Cardozo et al. (Homology modeling by the ICM method. Proteins 23, 403-14, 1995) on the basis of the known structure of a homologous protein EryF (PDB Code 1KTN chain A). Homology between these sequences is 34%. Alignment of the sequences of epothilone B hydroxylase (SEQ DD NO:2) and EryF (PDB Code 1KTN chain A; SEQ DD NO:76) is depicted in Figure 3. A homology model of epothilone B hydroxylase based upon sequence alignment with EryF is depicted in Figure 4.
An energy plot of the epothilone B hydroxylase model relative to EryF (PDB code 1 JL\) was also prepared and is depicted in Figure 5. An averaging window size of 51 residues was used at a given residue position to calculate the average of the energies of the 51 residues in the sequence that lie with the given residue at the central position. As shown in Figure 5, all energies along the sequence lie below zero thus indicating that the modeled structure as set forth in Figure 4 and Appendix 1 is reasonable. The three-dimensional structure represented in the homology model of epothilone B hydroxylase of Figure 4 is defined by a set of structure coordinates as set forth in Appendix 1. The term "structure coordinates" refers to Cartesian coordinates generated from the building of a homology model. As will be understood by those of skill in the art, however, a set of structure coordinates for a protein is a relative set of points that define a shape in three dimensions. Thus, it is possible that an entirely different set of coordinates could define a similar or identical shape. Moreover, slight variations in the individual coordinates, as emanate from generation of similar homology models using different alignment templates and/or using different methods in generating the homology model, will have minor effects on the overall shape. Variations in coordinates may also be generated because of mathematical manipulations of the structure coordinates. For example, the structure coordinates set forth in Appendix 1 could be manipulated by fractionalization of the structure coordinates; integer additions or subtractions to sets of the structure coordinates, inversion of the structure coordinates or any combination of the above. Various computational analyses are therefore necessary to determine whether a molecule or a portion thereof is sufficiently similar to all or parts of epothilone B hydroxylase described above as to be considered the same. Such analyses may be carried out in current software applications, such as SYBYL version 6.7 or INSIGHTII (Molecular Simulations Inc., San Diego, CA) version 2000 and as described in the accompanying User's Guides.
For example, the superimposition tool in the program SYBYL allows comparisons to be made between different structures and different conformations of the same structure. The procedure used in SYBYL to compare structures is divided into four steps: 1) load the structures to be compared; 2) define the atom equivalencies in these structures; 3) perform a fitting operation; and 4) analyze the results. Each structure is identified by a name. One structure is identified as the target (i.e., the fixed structure); the second structure (i.e., moving structure) is identified as the source structure. Since atom equivalency within SYBYL is defined by user input, for the purpose of this aspect of the present invention equivalent atoms are defined as protein backbone atoms (N, Cα, C and O) for all conserved residues between the two structures being compared. Further, only rigid fitting operations are considered . When a rigid fitting method is used, the working structure is translated and rotated to obtain an optimum fit with the target structure. The fitting operation uses an algorithm that computes the optimum translation and rotation to be applied to the moving structure, such that the root mean square difference of the fit over the specified pairs of equivalent atoms is an absolute minimum. This number, given in angstroms, is reported by SYBYL.
For the purposes of the present invention, any homology model of epothilone B hydroxylase that has a root mean square deviation of conserved residue backbone atoms (N, Cα, C, O) of less than about 4.0 A when superimposed on the corresponding backbone atoms described by structure coordinates listed in Appendix 1 are considered identical. More preferably, the root mean square deviation is less than about 3.0 A. More preferably the root mean square deviation is less than about 2.0 A.
For the purpose of this invention, any homology model of epothilone B hydroxylase that has a root mean square deviation of conserved residue backbone atoms (N, Cα, C, O) of less than about 2.0 A when superimposed on the corresponding backbone atoms described by structure coordinates listed in Appendix 1 are considered identical. More preferably, the root mean square deviation is less than about 1.0 A.
In another embodiment of the present invention, structural models wherein backbone atoms have been substituted with other elements which when superimposed on the corresponding backbone atoms have low root mean square deviations are considered to be identical. For example, an homology model where the original backbone carbon, and/or nitrogen and/or oxygen atoms are replaced with other elements having a root mean square deviation of about 4.0 A, more preferably about 3.0 A, even more preferably less than about 2A, when superimposed on the corresponding backbone atoms described by structure coordinates listed in Appendix 1 is considered identical.
The term "root mean square deviation" means the square root of the arithmetic mean of the squares of the deviations from the mean. It is a way to express the deviation or variation from a trend or object. For purposes of this invention, the "root mean square deviation" defines the variation in the backbone of a protein from the relevant portion of the backbone of the epothilone B hydroxylase portion of the complex as defined by the structure coordinates described herein.
The present invention as embodied by the homology model enables the structure-based design of additional mutants of epothilone B hydroxylase. For example, using the homology model of the present invention, residues lying within lOA of the binding site of epothilone B hydroxylase have now been defined. These residues include LEU39, GLN43, ALA45, MET57, LEU58, HIS62, PHE63, SER64, SER65, ASP66, ARG67, GLN68, SER69, LEU74, MET75, VAL76, ALA77, ARG78, GLN79, ILE80, ASP84, LYS85, PRO86, PHE87, ARG88, PRO89, SER90, LEU91, ILE92, ALA93, MET94, ASP95, HIS99, ARG103, PHE110, ELE155, PHE169, GLN170, CYS172, SER173, SER174, ARG175, MET176, LEU177, SER178, ARG179, ARG186, PHE190, LEU193, VAL233, GLY234, LEU235, ALA236, PHE237, LEU238, LEU239, LEU240, D_E241, ALA242, GLY243, HIS244, GLU245, THR246, THR247, ALA248, ASN249, MET250, LEU283, THR287, ILE288, ALA289, GLU290, THR291, ALA292, THR293, SER294, ARG295, PHE296, ALA297, THR298, GLU312, GLY313, VAL314, VAL315, GLY316, VAL344, ALA345, PHE346, GLY347, PHE348, VAL350, HIS351, GLN352, CYS353, LEU354, GLY355, GLN356, LEU358, ALA359, GLU362, LYS389, ASP391, SER392.THR393, D.E394 and TYR395 as set forth in Appendix 1. Mutants with mutations at one or more of these positions are expected to exhibit altered biological function and/or specificity and thus comprise another embodiment of preferred mutants of the present invention. Another embodiment of preferred mutants are molecules that have a root mean square deviation from the backbone atoms of said epothilone B hydroxylase of not more than about 4.θA.
The structure coordinates of an epothilone B hydroxylase homology model or portions thereof are stored in a machine-readable storage medium. Such data may be used for a variety of purposes, such as drug discovery.
Accordingly, another aspect of the present invention relates to machine- readable data storage medium comprising a data storage material encoded with the structure coordinates set forth in Appendix 1. The three-dimensional model structure of epothilone B hydroxylase can also be used to identify modulators of biological function and potential substrates of the enzyme. Various methods or combinations thereof can be used to identify such modulators.
For example, a test compound can be modeled that fits spatially into a binding site in epothilone B hydroxylase, according to Appendix 1. Structure coordinates of amino acids within 10 A of the binding region of epothilone B hydroxylase defined by amino acids LEU39, GLN43, ALA45, MET57, LEU58, HIS62, PHE63, SER64, SER65, ASP66, ARG67, GLN68, SER69, LEU74, MET75, VAL76, ALA77, ARG78, GLN79, ILE80, ASP84, LYS85, PRO86, PHE87, ARG88, PRO89, SER90, LEU91, ILE92, ALA93, MET94, ASP95, HIS99, ARG103, PHE110, ILE155, PHE169, GLN170, CYS 172, SER173, SER174, ARG175, MET176, LEU177, SER178, ARG179, ARG186, PHE190, LEU193, VAL233, GLY234, LEU235, ALA236, PHE237, LEU238, LEU239, LEU240, ILE241, ALA242, GLY243, HIS244, GLU245, THR246, THR247, ALA248, ASN249, MET250, LEU283, THR287, ILE288, ALA289, GLU290, THR291, ALA292, THR293, SER294, ARG295, PHE296, ALA297, THR298, GLU312, GLY313, VAL314, VAL315, GLY316, VAL344, ALA345, PHE346, GLY347, PHE348, VAL350, HIS351, GLN352, CYS353, LEU354, GLY355, GLN356, LEU358, ALA359, GLU362, LYS389, ASP391, SER392,THR393, H.E394 and TYR395, and the coordinated heme group, HEM1 can also be used to identify desirable structural and chemical features of such modulators. Identified structural or chemical features can then be employed to design or select compounds as potential epothilone B hydroxylase ligands. By structural and chemical features it is meant to include, but is not limited to, covalent bonding, van der Waals interactions, hydrogen bonding interactions, charge interaction, hydrophobic bonding interaction, and dipole interaction. Compounds identified as potential epothilone B hydroxylase ligands can then be synthesized and screened in an assay characterized by binding of a test compound to epothilone B hydroxylase, or in characterizing the ability of epothilone B hydroxylase to modulate a protease target in the presence of a small molecule. Examples of assays useful in screening of potential epothilone B hydroxylase ligands include, but are not limited to, screening in silico, in vitro assays and high throughput assays. As will be understood by those of skill in the art upon this disclosure, other structure-based design methods can be used. Various computational structure-based design methods have been disclosed in the art. For example, a number of computer modeling systems are available in which the sequence of epothilone B hydroxylase and the epothilone B hydroxylase structure (i.e., atomic coordinates of epothilone B hydroxylase as provided in Appendix 1 and/or the atomic coordinates within lOA of the binding region as provided above) can be input. This computer system then generates the structural details of one or more these regions in which a potential epothilone B hydroxylase modulator binds so that complementary structural details of the potential modulators can be determined. Design in these modeling systems is generally based upon the compound being capable of physically and structurally associating with epothilone B hydroxylase. In addition, the compound must be able to assume a conformation that allows it to associate with epothilone B hydroxylase. Some modeling systems estimate the potential inhibitory or binding effect of a potential epothilone B hydroxylase substrate or modulator prior to actual synthesis and testing.
Methods for screening chemical entities or fragments for their ability to associate with a given protein target are also well known. Often these methods begin by visual inspection of the binding site on the computer screen. Selected fragments or chemical entities are then positioned in a binding region of epothilone B hydroxylase. Docking is accomplished using software such as INSIGHTII, QUANTA and SYBYL, following by energy minimization and molecular dynamics with standard molecular mechanic force fields such as, MMFF, CHARMM and AMBER. Examples of computer programs which assist in the selection of chemical fragment or chemical entities useful in the present invention include, but are not limited to, GRDD (Goodford, 1985), AUTODOCK (Goodsell, 1990), and DOCK (Kuntz et al. 1982). Upon selection of preferred chemical entities or fragments, their relationship to each other and epothilone B hydroxylase can be visualized and then assembled into a single potential modulator. Programs useful in assembling the individual chemical entities include, but are not limited to CAVEAT (Bartlett et al. 1989) and 3D Database systems (Martin 1992).
Alternatively, compounds may be designed de novo using either an empty active site or optionally including some portion of a known inhibitor. Methods of this type of design include, but are not limited to LUDI (Bohm 1992) and LeapFrog (Tripos Inc., St. Louis MO).
Programs such as DOCK (Kuntz et al. 1982) can be used with the atomic coordinates from the homology model to identify potential ligands from databases or virtual databases which potentially bind the in the active site binding region which may therefore be suitable candidates for synthesis and testing.
Also provided in the present invention are vectors comprising polynucleotides of the present invention and host cells which are genetically engineered with vectors of the present invention to produce epothilone B hydroxylase or active fragments and variants or mutants of this enzyme and/or ferredoxin or active fragments thereof. Generally, any vector suitable to maintain, propagate or express polynucleotides to produce these polypeptides in the host cell may be used for expression in this regard. In accordance with this aspect of the invention the vector may be, for example, a plasmid vector, a single- or double- stranded phage vector, or a single- or double- stranded RNA or DNA viral vector. Vectors may be extra-chromosomal or designed for integration into the host chromosome. Such vectors include, but are not limited to, chromosomal, episomal and virus-derived vectors e.g., vectors derived from bacterial plasmids, bacteriophages, yeast episomes, yeast chromosomal elements, and viruses such as baculoviruses, papova viruses, SV40, vaccinia viruses, adenoviruses, fowl pox viruses, pseudorabies viruses and retroviruses, and vectors derived from combinations thereof, such as those derived from plasmid and bacteriophage genetic elements, cosmids and phagemids.
Useful expression vectors for prokaryotic hosts include, but are not limited to, bacterial plasmids, such as those from E. coli, Bacillus or Streptomyces, including pBluescript, pGEX-2T, pUC vectors, pET vectors, ColEl, pCRl, ρBR322, pMB9, pCW, pBMS200, pBMS2020, PU101, PIJ702, pANT849, pOJ260, pOJ446, pSET152, pKCl 139, pKC1218, pFD666 and their derivatives, wider host range plasmids, such as RP4, phage DNAs, e.g., the numerous derivatives of phage lambda, e.g., NM989, λGTIO and λGTl 1, and other phages, e.g., M13 and filamentous single stranded phage DNA. Vectors of the present invention for use in yeast will typically contain an origin of replication suitable for use in yeast and a selectable marker that is functional in yeast. Examples of yeast vectors useful in the present invention include, but are not limited to, Yeast Integrating plasmids (e.g., YIp5) and Yeast Replicating plasmids (the YRp and YEp series plasmids), Yeast Centromere plasmids (the YCp series plasmids), Yeast Artificial Chromosomes (YACs) which are based on yeast linear plasmids, denoted YLp, pGPD-2, 2μ plasmids and derivatives thereof, and improved shuttle vectors such as those described in Gietz et al, Gene, 74: 527-34 (1988) (YIplac, YEplac and YCplac).
Mammalian vectors useful for recombinant expression may include a viral origin, such as the SV40 origin (for replication in cell lines expressing the large T-antigen, such as COS1 and COS7 cells), the papillomavirus origin, or the EBV origin for long term episomal replication (for use, e.g., in 293-EBNA cells, which constitutively express the EBV EBNA-1 gene product and adenovirus EIA). Expression in mammalian cells can be achieved using a variety of plasmids, including, but not limited to, pSV2, pBC12BI, and p91023, pCDNA vectors as well as lytic virus vectors (e.g., vaccinia virus, adeno virus, and baculovirus), episomal virus vectors (e.g., bovine papillomavirus), and retroviral vectors (e.g., murine retro viruses). Useful vectors for insect cells include baculo viral vectors and pVL941.
Selection of an appropriate promoter to direct mRNA transcription and construction of expression vectors are well known. In general, however, expression constructs will contain sites for transcription initiation and termination, and, in the transcribed region, a ribosome binding site for translation. The coding portion of the mature transcripts expressed by the constructs will include a translation initiating codon at the beginning and a termination codon appropriately positioned at the end of the polypeptide to be translated.
Examples of useful promoters for prokaryotes include, but are not limited to phage promoters such as phage lambda pL promoter, the trc promoter, a hybrid derived from the trp and lac promoters, the bacteriophage T7 promoter, the TAC or TRC system, the major operator and promoter regions of phage lambda, the control regions of fd coat protein, snpA promoter, melC promotor, ermE* promoter or the αr BAD operon. Examples of useful promoters for yeast include, but are not limited to, the CYCl promoter, the GALl promoter, the GAL 10 promoter, ADHl promoter, the promoters of the yeast α-mating system, and the GPD promoter. Examples of promoters routinely used in mammalian expression vectors include, but are not limited to, the CMV immediate early promoter, the HSV thymidine kinase promoter, the early and late SV40 promoters, the promoters of retroviral LTRs, such as those of the Rous Sarcoma Virus(RSV), and metallothionein promoters, such as the mouse metallothionein-I promoter. Vectors comprising the polynucleotides can be introduced into host cells using any number of well known techniques including infection, transduction, transfection, transvection and transformation. The polynucleotides may be introduced into a host alone or with additional polynucleotides encoding, for example, a selectable marker or ferredoxin reductase. In a preferred embodiment of the present invention the polynucleotide for epothilone B hydroxylase and ferredoxin are introduced into the host cell. Host cells for the various expression constructs are well known, and those of skill can routinely select a host cell for expressing the epothilone B hydroxylase and/or ferredoxin in accordance with this aspect of the present invention. Examples of mammalian expression systems useful in the present invention include, but are not limited to, the C127, 3T3, CHO, HeLa, human kidney 293 and BHK cell lines, and the COS-7 line of monkey kidney fibroblasts.
Alternatively, as exemplified herein, epothilone B hydroxylase and ferredoxin can be expressed recombinantly in microorganisms.
Accordingly, another aspect of the present invention relates to recombinantly produced microorganisms which express epothilone B hydroxylase alone or in conjunction with the ferredoxin and which are capable of hydroxylating a compound , and in particular an epothilone, having a terminal alkyl group to produce ones having a terminal hydroxyalkyl group. The recombinantly produced microorganisms are produced by transforming cells such as bacterial cells with a plasmid comprising a nucleic acid sequence encoding epothilone B hydroxylase. In a preferred embodiment, the cells are transformed with a plasmid comprising a nucleic acid encoding epothilone B hydroxylase or mutants or variants thereof as well as the nucleic acid sequence encoding ferredoxin located downstream of the epothilone B hydroxylase gene. Examples of microorganisms which can be transformed with these plasmids to produce the recombinant microorganisms of the present invention include, but are not limited, Escherichia coli, Bacillus megaterium, Amycolatopsis orientalis, Sorangium cellulosum, Rhodococcus erythropolis, and Streptomyces species such as Streptomyces lividans, Streptomyces virginiae, Streptomyces venezuelae, Streptomyces albus, Streptomyces coelicolor, Streptomyces rimosus and Streptomyces griseus.
The recombinantly produced microorganisms of the present invention are useful in microbial processes or methods for production of compounds, and in particular epothilones, containing a terminal hydroxyalkyl group. In general, the hydroxyalkyl-bearing product can be produced by culturing the recombinantly produced microorganism or enzyme derived therefrom, capable of selectively hydroxylating a terminal carbon or alkyl, in the presence of a suitable substrate in an aqueous nutrient medium containing sources of assimilable carbon and nitrogen, under submerged aerobic conditions.
Suitable epothilones employed as substrate for the method of the present invention may be any such compound having a terminal carbon or terminal alkyl group capable of undergoing the enzymatic hydroxylation of the present invention. The starting material, or substrate, can be isolated from natural sources, such as Sorangium cellulosum, or they can be synthetically formed epothilones. Other substrates having a terminal carbon or terminal alkyl group capable of undergoing an enzymatic hydroxylation can be employed by the methods herein. For example, compactin can be used as a substrate, which upon hydroxylation forms the compound pravastatin. Methods for hydroxylating compactin to pravastatin via an
Actinomadura strain are set forth in U.S. Patent 5,942,423 and U.S. Patent 6,274,360. For example, using the recombinant microorganisms of the present invention at least one epothilone can be prepared as described in WO 00/39276, U. S. Serial. No. 09/468,854, filed December 21, 1999, the text of which is incoφorated herein as if set forth at length. An epothilone of the following Formula I
HO-CH2-(A1)π-(Q)m-(A2)0-E (I) where
A] and A2 are independently selected from the group of optionally substituted Cι-C3 alkyl and alkenyl; Q is an optionally substituted ring system containing one to three rings and at least one carbon to carbon double bond in at least one ring; n, m, and o are integers selected from the group consisting of zero and 1 , where at least one of m or n or o is 1 ; and
E is an epothilone core; can be prepared.
This method comprises the steps of contacting at least one epothilone of the following formula II CH3-(A,V(Q)m-(A2)o-E (II) where Ai, Q, A2, E, n, m, and o are defined as above; with a recombinantly produced microorganism, or an enzyme derived therefrom, which is capable of selectively catalyzing the hydroxylation of formula II, and effecting said hydroxylation. In a preferred embodiment, the starting material is epothilone B. Epothilone B can be obtained from the fermentation of Sorangium cellulosum So ce90, as described in DE 41 38 042 and WO 93/10121. The strain has been deposited at the Deutsche
Sammlung von Mikroorganismen (German Collection of Microorganisms) (DSM) under No. 6773. The process of fermentation is also described in Hofle, G., et al., Angew. Chem. Int. Ed. Engl, Vol 35, No. 13/14, 1567-1569 (1996). Epothilone B can also be obtained by chemical means, such as those disclosed by Meng, D., et al., J.
Am. Chem. Soc, Vol. 119, No. 42, 10073-10092 (1996); Nicolaou, K., et al., J. Am.
Chem. Soc, Vol. 119, No. 34, 7974-7991 (1997) and Schinzer, D., et al., Chem. Eur.
J., Vol. 5, No. 9, 2483-2491 (1999). Growth of the recombinantly produced microorganism selected for use in the process may be achieved by one of ordinary skill in the art by the use of appropriate nutrient medium. Appropriate media for the growing of the recombinantly produced microorganisms include those that provide nutrients necessary for the growth of microbial cells. See, for example, T. Nagodawithana and J. M. Wasileski, Chapter 2: "Media Design for Industrial Fermentations," Nutritional Requirements of
Commercially Important Microorganism, edited by T. W. Nagodawithana and G.
Reed, Esteekay Associates, Inc., Milwaukee, WI, 18-45 (1998); T. L. Miller and B.
W. Churchill, Chapter 10: "Substrates for Large-Scale Fermentations," Manual of
Industrial Microbiology and Biotechnology, edited by A.L. Demain and N. A. Solomon, American Society for Microbiology, Washington, D.C., 122-136 (1986). A typical medium for growth includes necessary carbon sources, nitrogen sources, and trace elements. Inducers may also be added to the medium. The term inducer as used herein, includes any compound enhancing formation of the desired enzymatic activity within the recombinantly produced microbial cell. Typical inducers as used herein may include solvents used to dissolve substrates, such as dimethyl sulfoxide, dimethyl formamide, dioxane, ethanol and acetone. Further, some substrates, such as epothilone B, may also be considered to be inducers.
Carbon sources may include sugars such as glucose, fructose, galactose, maltose, sucrose, mannitol, sorbital, glycerol starch and the like; organic acids such as sodium acetate, sodium citrate, and the like; and alcohols such as ethanol, propanol and the like. Preferred carbon sources include, but are not limited to, glucose, fructose, sucrose, glycerol and starch.
Nitrogen sources may include an N-Z amine A, corn steeped liquor, soybean meal, beef extract, yeast extract, tryptone, peptone, cottonseed meal, peanut meal, amino acids such as sodium glutamate and the like, sodium nitrate, ammonium sulfate and the like. Trace elements may include magnesium, manganese, calcium, cobalt, nickel, iron, sodium and potassium salts. Phosphates may also be added in trace or preferably, greater than trace amounts.
The medium employed for the fermentation may include more than one carbon or nitrogen source or other nutrient. For growth of the recombinantly produced microorganisms and/or hydroxylation according to the method of the present invention, the pH of the medium is preferably from about 5 to about 8 and the temperature is from about 14°C to about 37°C, preferably the temperature is 28°C. The duration of the reaction is 1 to 100 hours, preferably 8 to 72 hours. The medium is incubated for a period of time necessary to complete the biotransformation as monitored by high performance liquid chromatography (HPLC). Typically, the period of time needed to complete the transformation is twelve to one hundred hours and preferably about 72 hours after the addition of the substrate. The medium is placed on a rotary shaker (New Brunswick Scientific Innova 5000) operating at 150 to 300 φm and preferably about 250 φm with a throw of 2 inches. The hydroxyalkyl-bearing product can be recovered from the fermentation broth by conventional means that are commonly used for the recovery of other known biologically active substances. Examples of such recovery means include, but are not limited to, isolation and purification by extraction with a conventional solvent, such as ethyl acetate and the like; by pH adjustment; by treatment with a conventional resin, for example, by treatment with an anion or cation exchange resin or a non-ionic adsoφtion resin; by treatment with a conventional adsorbent, for example, by distillation, by crystallization; or by recrystallization, and the like.
The extract obtained above from the biotransformation reaction mixture can be further isolated and purified by column chromatography and analytical thin layer chromatography.
The ability of a recombinantly produced microorganism of the present invention to biotransform an epothilone having a terminal alkyl group to an epothilone having a terminal hydroxyalkyl group was demonstrated. In these experiments, a culture comprising a Streptomyces lividans clone containing a plasmid with the ebh gene as described in more detail in Example 11 was incubated with an epothilone B suspension for 3 days at 30°with agitation. A sample of the incubate was extracted with an equal volume of 25% methanol: 75% n-butanol, vortexed and allowed to settle for 5 minutes. Two hundred μl of the organic phase was transferred to an HPLC vial and analyzed by HPLC/MS (Example 12). A product peak of epothilone F eluted at a retention time of 15.9 minutes and had a protonated molecular weight of 524. The epothilone B substrate eluted at 19.0 minutes and had a protonated molecular weight of 508. The peak retention times and molecular weights were confirmed using known standards.
Rates of biotransformation of epothilone B by cells expressing ebh were also compared to rates of biotransformation by ebh mutants. Cells expressing ebh comprised a frozen spore preparation of. S. lividans (pANT849-eM). Cells expressing mutants comprises frozen spore preparations of S. lividans (pANT849- eb O-53) and S. lividans (pANT849-eM24-16). A frozen spore preparation of S. lividans TK24 was used as the control. The cells were pre-incubated for several days at 30°C. Following this pre-incubation, epothilone B in 100% EtOH was added to each culture to a final concentration of 0.05% weight/volume. Samples were then taken at 0, 24, 48 and 72 hours with the exception of the S. lividans (pANT849- ebh24-16) culture, in which the epothilone B had been completely converted to epothilone F at 48 hours. The samples were analyzed by HPLC. The results are calculated as a percentage of the epothilone B at time 0 hours.
Epothilone B:
Time (hours) TK24 pANT849-<?M pANT849-eM10-53 pANT849-eδA24-16
0 100% 100% 100% 100%
24 99% 78% 69% 56%
48 87% 19% 39% 0%
72 87% 0% 3% —
Epothilone F:
Time (hours) TK24 pANT849-e pANT849-e*M0-53 pANT849-e*Λ24-16
0 0% 0% 0% 0%
24 0% 4% 9% 23%
48 0% 21% 29% 52%
72 0% 14% 41% —
The ability of cells expressing ebh to biotransform compactin to pravastatin was also examined. In these experiments, frozen spore preparations of 5. lividans (pANT849) or S. lividans (pANT849-eM) were grown for several days at 30°C. Following the pre-incubation, an aliquot of each cell culture was transferred to a polypropylene culture tube, compactin was added to each culture tube, and the tubes were incubated for 24 hours, 30°C, 250 φm. An aliquot of the culture broth was then extracted and compactin and pravastatin values relative to the control S. lividans (pANT849) culture were measured via HPLC.
Compactin and pravastatin as a percentage of starting compactin concentration:
S. lividans (pANT849) S. lividans (pANT849-eM)
Compactin 36% 11% Pravastatin 1 1 % 53% As discussed supra, mutant e 25-l (SEQ DD NO:30) exhibits altered substrate specificity and biotransformation of epothilone B by this mutant resulted in a product with a different HPLC elution time than epothilone B or epothilone F. A sample of this unknown was analyzed by LC-MS and was found to have a molecular weight of 523 (M.W.), consistent with a single hydroxylation of epothilone B. The structure of the biotransformation product was determined as 24-hydroxyl-epothilone B, based on MS and NMR data (compared with data of epothilone B):
Figure imgf000033_0001
24-hydroxyl-epothilone B Formula A
Molecular Formula: C27H41 NO7 S Molecular Weight: 523
Mass Spectrum: ES+ (m/z): 524([M+H]+), 506. LC/MS/MS: +ESI (m z): 524, 506, 476, 436, 320 HRMS: Calculated for [M+H]+: 524.2682; Found: 524.2701 HPLC (Rt) 7.3 minutes (on the analytical HPLC system) LC/NMR Observed Chemical Shifts
Varian AS-600 (Proton: 599.624 MHz),
Solvent D2O/CD3CN (δ 1.94): -4/6
Proton: 57.30 (s, 1H), 6.43 (s, 1H), 5.30 (m, 1H), 4.35 (m, 1H),
3.81 (m, 1H), 3.74 (m, 1H), 3.68 (m, 1H), 3.43 (m, 1H), 2.87
(m, 1H), 2.66 (s, 3H), 2.40 (m, 2H), 1.58 (b, 1H), 1.48 (b, 1H),
1.35 (m, 3H), 1.18 (s, 3H), 1.13 (s, 3H), 0.87 (m, 6H)
*Peaks between 1.8-2.1 ppm were not observed due to solvent suppression. The proton chemical shift was assigned as follows:
Position Proton Pa
1 —
2 2.40 m
3 4.35 m
4 —
5 —
6 3.43 m
7 3.68 m
8 1.58 m
9 1.35 b
10 1.48 b
10 1.35 b
11 SSP
12 ~
13 2.87 m
14 SSP
15 5.30 m
16 —
17 6.43 s
18 —
19 7.30 s
20 —
21 2.66 s
22 1.18 s
23 0.87 m
24 3.81 m
24 3.74 m
25 0.87 m
26 1.13 s
27 SSP
*SSP: no observed due to solvent suppression. Accordingly, the compositions and methods of the present invention are useful in producing known compounds that are microtubule-stabilizing agents as well as new compounds comprising epothilone analogs such as 24-hydroxyl-epothilone B (Formula A) and pharmaceutically acceptable salts thereof expected to be useful as microtubule-stabilizing agents. The microtubule stabilizing agents produced using these compositions and methods are useful in the treatment of a variety of cancers and other proliferative diseases including, but not limited to, the following; carcinoma, including that of the bladder, breast, colon, kidney, liver, lung, ovary, pancreas, stomach, cervix, thyroid and skin; including squamous cell carcinoma; - hematopoietic tumors of lymphoid lineage, including leukemia, acute lymphocytic leukemia, acute lymphoblastic leukemia, B-cell lymphoma, T-cell lymphoma, Hodgkins lymphoma, non-Hodgkins lymphoma, hairy cell lymphoma and Burketts lymphoma; hematopoietic tumors of myeloid lineage, including acute and chronic myelogenous leukemias and promyelocytic leukemia; tumors of mesenchymal origin, including fibrosarcoma and rhabdomyoscarcoma; other tumors, including melanoma, seminoma, tetratocarcinoma, neuroblastoma and glioma; - tumors of the central and peripheral nervous system, including astrocytoma, neuroblastoma, glioma, and schwannomas; tumors of mesenchymal origin, including fibrosarcoma, rhabdomyosarcoma, and osteosarcoma; and other tumors, including melanoma, xenoderma pigmentosum, keratoactanthoma, seminoma, thyroid follicular cancer and teratocarcinoma.
Microtubule stabilizing agents produced using the compositions and methods of the present invention will also inhibit angiogenesis, thereby affecting the growth of tumors and providing treatment of tumors and tumor-related disorders. Such anti- angiogenesis properties of these compounds will also be useful in the treatment of other conditions responsive to anti-angiogenesis agents including, but not limited to, certain forms of blindness related to retinal vascularization, arthritis, especially inflammatory arthritis, multiple sclerosis, restinosis and psoriasis.
Microtubule stabilizing agents produced using the compositions and methods of the present invention will induce or inhibit apoptosis, a physiological cell death process critical for normal development and homeostasis. Alterations of apoptotic pathways contribute to the pathogenesis of a variety of human diseases. Compounds of the present invention such as those set forth in formula I and π and Formula A, as modulators of apoptosis, will be useful in the treatment of a variety of human diseases with aberrations in apoptosis including, but not limited to, cancer and precancerous lesions, immune response related diseases, viral infections, degenerative diseases of the musculoskeletal system and kidney disease.
Without wishing to be bound to any mechanism or moφhology, microtubule stabilizing agents produced using the compositions and methods of the present invention may also be used to treat conditions other than cancer or other proliferative diseases. Such conditions include, but are not limited to viral infections such as heφesvirus, poxvirus, Epstein-Barr virus, Sindbis virus and adenovirus; autoimmune diseases such as systemic lupus erythematosus, immune mediated glomerulonephritis, rheumatoid arthritis, psoriasis, inflammatory bowel diseases and autoimmune diabetes mellitus; neurodegenerative disorders such as Alzheimer's disease, ADDS-related dementia, Parkinson's disease, amyotrophic lateral sclerosis, retinitis pigmentosa, spinal muscular atrophy and cerebellar degeneration; ADDS; myelodysplastic syndromes; aplastic anemia; ischemic injury associated myocardial infarctions; stroke and reperfusion injury; restenosis; arrhythmia; atherosclerosis; toxin-induced or alcohol induced liver diseases; hematological diseases such as chronic anemia and aplastic anemia; degenerative diseases of the musculoskeletal system such as osteoporosis and arthritis; aspirin-sensitive rhinosinusitis; cystic fibrosis; multiple sclerosis; kidney diseases; and cancer pain.
The following nonlimiting examples are provided to further illustrate the present invention. EXAMPLES
Example 1: Reagents
R2 Medium was prepared as follows:
A solution containing sucrose (103 grams), K2SO4 (0.25 grams) MgCl2*6H2O (10.12 grams), glucose (10 grams), Difco Casaminoacids (0.1 grams) and distilled water (800 ml) was prepared. Eighty ml of this solution was then poured into a 200 ml screw capped bottle containing 2.2 grams Difco Bacto agar. The bottle was capped and autoclaved. At time of use, the medium was remelted and the following autoclaved solutions were added in the order listed: 1 ml KH2PO4 (0.5%)
8 ml CaCl2«2H2O (3.68%) 1.5 ml L-proline (20%) 10 ml TES buffer (5.73%, adjusted to pH 7.2)
0.2 ml Trace element solution containing ZnCl2(40mg), FeCl3»6H2O(200 mg), CuCl2»2H2O (10 mg), MnCl2»4H2O (10 mg), Na2B4O7«10H2O (10 mg), and (NH4)6Mo7O24»H2O
0.5 ml NaOH (lN)(sterilization not required)
0.5 ml Required growth factors for auxotrophs (Histidine (50 μg/ml); Cysteine (37 μg/ml); adenine, guanine, thymidine and uracil (7.5 μg/ml); and Vitamins (0.5 μg/ml).
R2YE medium was prepared in the same fashion as R2 medium. However, 5 ml of Difco yeast extract (10%) was added to each 100 ml flask at time of use.
P (protoplast) buffer was prepared as follows:
A basal solution made up of the following was prepared:
Sucrose (103 grams)
K2SO4 (0.25 grams)
MgCl2*6H2O (2.02 grams) Trace Element Solution as described for R2 medium (2 ml)
Distilled water to 800 ml Eighty ml aliquots of the basal solution were then dispensed and autoclaved. Before use, the following was added to each flask in the order listed: 1 ml KH2PO4 (0.5%) 10 ml CaCl2»2H2O (3.68%) TES buffer (5.75%, adjusted to pH 7.2) T (transformation) buffer was prepared by mixing the following sterile solutions: 25 ml Sucrose (10.3%) 75 ml distilled water
1 ml Trace Element Solution as described for R2 medium 1 ml K2SO4 (2.5%) The following are then added to 9.3 mis of this solution: 0.2 ml CaCl2 (5M)
0.5 ml Tris maleic acid buffer prepared from 1 M solution of Tris adjusted to pH 8.0 by adding maleic acid.
For use, 3 parts by volume of the above solution are added to 1 part by weight of PEG 1000, previously sterilized by autoclaving.
L (lysis) buffer was prepared by mixing the following sterile solutions: 100 ml Sucrose (10.3%) 10 ml TES buffer (5.73%, adjusted to pH 7.2) 1 ml K2SO4 (2.5%)
1 ml Trace Element Solution as described for R2 medium
1 ml KH2PO4 (0.5%)
0.1 ml MgCl2«6H2O (2.5 M)
1 ml CaCl2 (0.25 M)
CRM Medium
A solution containing the following components was prepared in 1 liter of dH2O: glucose (10 grams), sucrose (103 grams), MgCl2»6H2O (10.12 grams), BBL™ trypticase soy broth (15 grams) (Becton Dickinson Microbiology Systems, Sparks, Maryland, USA), and BBL™ yeast extract (5 grams) (Becton Dickinson Microbiology Systems). The solution was autoclaved for 30 minutes. Thiostrepton was added to a concentration of 10 μg/ml for cultures propagated with plasmids.
Electroporation Buffer
A solution containing 30% (wt/vol) PEG 1000, 10% glycerol, and 6.5 % sucrose was prepared in dH2O. The solution was sterilized by vacuum filtration through a 0.22 μm cellulose acetate filter.
Example 2: Extraction of Chromosomal DNA from Strain SC 15847
Genomic DNA was isolated from an Amycolatopsis orientalis soil isolate strain designation SC15847 (ATCC PT-1043) using a guanidine-detergent lysis method, DNAzol reagent (Invitrogen, Carlsbad, California, USA). The SCI 5847 culture was grown 24 hours at 28°C in F7 medium (glucose 2.2%, yeast extract 1.0%, malt extract 1.0 %, peptone 0.1%, pH 7.0). Twenty ml of culture was harvested by centrifugation and resuspended in 20 ml of DNAzol, mixed by pipetting and centrifuged 10 minutes in the Beckman TJ6 centrifuge. Ten ml of 100% ethanol was added, inverted several times and stored at room temperature 3 minutes. The DNA was spooled on a glass pipette washed in 100% ethanol and allowed to air dry 10 minutes. The pellet was resuspended in 500 μl of 8mM NaOH and once dissolved it was neutralized with 30 μl of IM HEPES pH7.2.
Example 3: PCR Reactions
PCR reactions were prepared in a volume of 50 μl, containing 200-500 ng of genomic DNA or 1.0 μl of the cDNA, a forward and reverse primer, and the forward primer being either P450-l+ (SEQ DD NO:23) or P450-la+(SEQ DD NO:24) or P450- 2+(SEQ DD NO:25) and the reverse primer P450-3" (SEQ DD NO:27)or P450-2"(SEQ DD NO:26). All primers were added to a final concentration of 1.4- 2.0 μM. The PCR reaction was prepared with 1 μl of Taq enzyme (2.5 units) (Stratagene), 5 μl of Taq buffer and 4 μl of 2.5 mM of dNTPs with dH2O to 50 μl. The cycling reactions were performed on a Geneamp® PCR system with the following protocol: 95°C for 5 minutes, 5 cycles [95°C 30 seconds, 37°C 15 seconds (30% ramp), 72°C 30 seconds], 35 cycles (94°C 30 seconds, 65°C 15 seconds, 72°C 30 seconds), 72°C 7 minutes. The expected sizes for the reactions are 340 bp for the P450-l+ (SEQ DD NO:23) or P450-la+ (SEQ DD NO:24) and P450-3" (SEQ DD NO:27) primer pairs, 240 bp for the P450-l+ (SEQ DD NO:23) and P450-2" (SEQDD NO:26) primer pairs and 130 bp for the P450-2+ (SEQ DD NO:25) and P450-3" (SEQ DD NO:27) primer pairs.
Example 4: Cloning of Epothilone B Hydroxylase and Ferredoxin Genes
Twenty μg of SC 15847 genomic DNA was digested with Bgiπ restriction enzyme for 6 hours at 37°C. A 30k nanosep column (Gelman Sciences, Ann Arbor, Michigan, USA) was used to concentrate the DNA and remove the enzyme and buffer. The reactions were concentrated to 40 μl and washed with 200 μl of TE. The digestion products were then separated a 0.7% agarose gel and genomic DNA in the range of 12—15 kb was excised from the gel and purified using the Qiagen gel extraction method. The genomic DNA was then ligated to plasmid pWB19N (U.S. Patent 5,516,679), which had been digested with BamHI and dephosphorylated using the SAP I enzyme (Roche Molecular Biochemicals, Indianapolis, Indiana, catalog#l 758 250). Ligation reactions were performed in a 15 μl volume with IU of T4 DNA ligase (Invitrogen) for 1 hour at room temperature. One μl of the ligation was transformed to 100 μl of chemically competent DH10B cells (Invitrogen) and 100 μl plated to five LB agar plates with 30 μg/ml of neomycin, 37°C overnight.
Five nylon membrane circles (Roche Molecular Biochemicals, Indianapolis, Indiana) were numbered and marked for orientation. The membranes were placed on the plates 2 minutes and then allowed to dry for 5 minutes. The membranes were then placed on Whatman filter disks saturated with 10% SDS for 5 minutes, 0.5N NaOH with 1.5 M NaCl for 5 minutes, 1.5 M NaCl with 1.0 M Tris pH 8.0 for 5 minutes, and 15 minutes on 2X SSC. The filters were hybridized as described previously for the Southern hybridization. Hybridizing colonies were picked to 2 ml of TB with 30 μg/ml neomycin and grown overnight at 37°C. Plasmid DNA was isolated using a miniprep column procedure (Mo Bio). This plasmid was named NPB29-1.
Example 5: DNA Sequencing and Analysis
The cloned PCR products were sequenced using fluorescent-dye-labeled terminator cycle sequencing, Big-Dye sequencing kit (Applied Biosystems, Foster city, California, USA) and were analyzed using laser-induced fluorescence capillary electrophoresis, ABI Prism 310 sequencer (Applied Biosystems).
Example 6: Extraction of Total RNA Total RNA was isolated from the SC15847 culture using a modification of the
Chomczynski and Sacchi method with a mono-phasic solution of phenol and guanidine isothiocyanate, Trizol reagent (Invitrogen). Five ml of an SCI 5847 frozen stock culture was thawed and used to inoculate 100 ml of F7 media in a 500 ml Erlenmeyer flask. The culture was grown in a shaker incubator at 230 φm, 30°C for 20 hours to an optical density at 600 nm (OD60o) of 9.0. The culture was placed in a 16°C shaker incubator at 230 φm for 20 minutes. Fifty-five milligrams of epothilone B was dissolved in 1 ml of 100% ethanol and added to the culture. A second ml of ethanol was used to rinse the residual epothilone B from the tube and added to the culture. The culture was incubated at 16°C, 230 φm for 30 hours. Thirty ml of the culture was transferred to a 50 ml tube, 150 mg of lysozyme was added to the culture and the culture was incubated 5 minutes at room temperature. Ten ml of the culture was placed in a 50 ml Falcon tube and centrifuged 5 minutes, 4°C in a TJ6 centrifuge. Two ml of chloroform was added and the tube was mixed vigorously for 15 seconds. The tube was incubated 2 minutes at room temperature and centrifuged 10 minutes, top speed in the TJ6 centrifuge. The aqueous layer was transferred to a fresh tube and 2.5 ml of isopropanol was added to precipitate the RNA. The tube was incubated 10 minutes at room temperature and centrifuged 10 minutes, 4°C. The supernatant was removed, the pellet was rinsed with 70% ethanol and dried briefly under vacuum. The pellet was resuspended in 150 μl of RNase-free dH2O. Fifty μl of 7.5M LiCI was added to the RNA and incubated at -20°C for 30 minutes. The RNA was pelleted by centrifugation 10 minutes, 4°C in a microcentrifuge. The pellet was rinsed with 200 μl of 70% ethanol, dried briefly under vacuum and resuspended in 150 μl of RNase free dH2O.
The RNA was treated with DNasel (Ambion, Austin, Texas, USA). Twenty- five μl of total RNA (5.3 μg/μl), 2.5 μl of DNasel buffer, 1.0 μl of DNase I added and incubated at 37°C for 25 minutes. Five μl of DNase I inactivation buffer added, incubated 2 minutes, centrifuged 1 minute, the supernatant was transferred to a fresh tube.
Example 7: cDNA Synthesis cDNA was synthesized from the total RNA using the Superscript II enzyme (Invitrogen). The reaction was prepared with 1 μl of total RNA (5.3 μg/μl), 9 μl of dH 0, 1 μl of dNTP mix (10 mM), and 1 μl of random hexamers. The reaction was incubated at 65°C for 5 minutes then placed on ice. The following components were then added: 4 μl of 1st strand buffer, 1 μl of RNase Inhibitor, 2.0 μl of 0.1 M DTT, and 1 μl of Superscript II enzyme. The reaction was incubated at room temperature 10 minutes, 42°C for 50 minutes and 70°C for 15 minutes. One μl of RNaseH was added and incubated 20 minutes at 37°C, 15 minutes at 70°C and stored at 4°C.
Example 8: DNA Labeling
The PCR conditions used to amplify the P450 specific products from genomic DNA and cDNA were used to amplify the insert of plasmid pCRscript-29. Plasmid pCRscript-29 contains a 340bp PCR fragment amplified from SC15847 genomic DNA using primers P450 1+(SEQ ID NO:23) and P450 3" (SEQ DD NO:27). Two μl of the plasmid prep was used as a template, with a total of 25 cycles. The amplified product was gel purified using the Qiaquick gel extraction system (Qiagen). The extracted DNA was ethanol precipitated and resuspended in 5 μl of TE, the yield was estimated to be 500 ng. This fragment was labeled with digoxigenin using the chem link labeling reagent (Roche Molecular Biochemicals, Indianapolis, Indiana catalog #1 836463). Five μl of the PCR product was mixed with 0.5 μl of Dig-chem link and dH O added to 20 μl. The reaction was incubated 30 minutes at 85°C and 5 μl of stop solution added. The probe concentration was estimated at 20 ng/μl. Example 9: Southern DNA Hybridization
Ten μl of genomic DNA (0.5 μg/μl) was digested with BamHI, Bglll, EcoRI, HindEI or Notl and separated at 12 volts for 16 hours. The gel was depurinated 10 minutes in 0.25 N HCI and transferred by vacuum to a nylon membrane (Roche Molecular Biochemicals) in 0.4 N NaOH 5" Hg , 90 minutes using a vacuum blotter (Bio-Rad Laboratories, Inc. Hercules, California, USA catalog # 165-5000). The membrane was rinsed in 1 M ammonium acetate and UV-crosslinked using the Stratalinker UV Crosslinker (Stratagene). The membrane was rinsed in 2X SSC and stored at room temperature. The membrane was prehybridized 1 hour at 42°C in 20 ml of Dig Easy Hyb buffer (Roche Molecular Biochemicals). The probe was denatured 10 minutes at 65°C and then placed on ice. Five ml of probe in Dig-Easy Hyb at an approximate concentration on 20 ng/ml was incubated with the membrane at 42°C overnight. The membrane was washed 2 times in 2X SCC with 0.1% SDS at room temperature, then 2 times in 0.5X SSC with 0.1% SDS at 65°C. The membrane was equilibrated in Genius buffer 1 (10 mM maleic acid, 15 mM NaCl; pH 7.5; 0.3% v/v Tween 20) (Roche Molecular Biochemicals, Indianapolis, Indiana) for 2 minutes, then incubated with 2% blocking solution (2% Blocking reagent in Genius Buffer l)(Roche Molecular Biochemicals Indianapolis, Indiana) for 1 hour at room temperature. The membrane was incubated with a 1:20,000 dilution of anti-dig antibody in 50 ml of blocking solution for 30 minutes. The membrane was washed 2 times, 15 minutes each in 50 ml of Genius buffer 1. The membrane was equilibrated for two minutes in Genius Buffer 3 (lOmM Tris-HCl, lOmM NaCl; pH 9.5). One ml of a 1:100 dilution of CSPD (disodium 3-(4-methoxyspiro{ l,2-dioxetane-3,2'-(5'- chloro)tricyclo[3.3.1.13'7]decan}-4-yl)phenyl phosphate) (Roche Molecular Biochemicals) in Genius buffer 3 was added to the membrane and incubated 5 minutes at room temperature, then placed at 37°C for 15 minutes. The membrane was exposed to Biomax ML film (Kodak, Rochester, New York, USA) for 1 hour.
Example 10: E. coli Transformation Competent cells were purchased from Invitrogen. E. coli strain DH10B was used as a host for genomic cloning. The chemically competent cells were thawed on ice and 100 μl aliquoted to a 17 x 100-mm polypropylene tube on ice. One μl of the ligation mixture was added to the cells and incubated on ice for 30 minutes. The cells were incubated at 42°C for 45 seconds, then placed on ice 1-2 minutes. 0.9 ml pf SOC. medium(Invitrogen) was added and the cells were incubated one hour at 30- 37°C at 200-240 φm. Cells were plated on a selective medium (Luria agar with neomycin or ampicillin at a concentration of 30 μg /ml or 100 μg /ml respectively).
Example 11: Transformation oi Streptomyces lividans TK24 Plasmid pWB 19N849 was constructed by digesting plasmid pWB 19N with
HindDI and treating with SAP I and digesting plasmid pANT849 (Keiser, et al., 2000, Practical Streptomyces Genetics, John Innes ) with HindlU. The two linearized fragments were ligated 1 hour at room temperature with IU of T4 DNA ligase. One μl of the ligation reaction was used to transform XL-1 Blue electrocompetent cells (Stratagene). The recovered cells were plated to LB neomycin (30 μg/ml) overnight at 37°C. Colonies were picked to 2 ml of LB with 30 μg/ml neomycin and incubated overnight at 30°C. MoBio plasmid minipreps were performed on all cultures. Plasmids constructed from the ligation of pWB19N and pANT849 were determined by electrophoretic mobility on 0.7 % agarose. The plasmid pWB19N849 was digested with HindUI and BglH to excise a 5.3 kb fragment equivalent to plasmid pANT849 digested with Bglll and Hindm. This 5.3 kb fragment was purified on an agarose gel and extracted using the Qiaquick gel extraction system.
A 1.469 kb DNA fragment containing the epothilone B hydroxylase gene and the downstream ferredoxin gene was amplified using PCR. The 50 μl PCR reaction was composed of 5 μl of Taq buffer, 2.5 μl glycerol, 1 μl of 20 ng/μl NPB29-1 plasmid, 0.4 μl of 25 mM dNTPs, 1.0 μl each of primers NPB29-6F (SEQ DD NO:28) and NPB29-7R (SEQ DD NO:29) (5 pmole/μl), 38.1 μl of dH2O and 0.5 μl of Taq enzyme (Stratagene). The reactions were performed on a Perkin Elmer 9700, 95°C for 5 minutes, then 30 cycles (96°C for 30 seconds, 60°C 30 seconds, 72°C for 2 minutes), and 72°C for 7 minutes. The PCR product was purified using a Qiagen minielute column with the PCR cleanup procedure. The purified product was digested with Bglll and HindDI and purified on a 0.7 % agarose gel. A 1.469 kb band was excised from the gel and eluted using a Qiagen minielute column. Five μl of this PCR product was ligated with 2 μl of the Bglll, Hindlll digested pANT849 vector in a 10 μl ligation reaction. The reaction was incubated at room temperature for 24 hours and then transformed to S. lividans TK24 protoplasts.
Twenty ml of YEME media was inoculated with a frozen spore suspension of S. lividans TK24 and grown 48 hours in a 125 ml bi -indent flask. Protoplasts were prepared as described in Practical Streptomyces Genetics. The ligation reaction was mixed with protoplasts, then 500 μl of transformation buffer was added, followed immediately by 5 ml of P buffer. The transformation reactions were spun down 7 minutes at 2,750 φm, resuspended in 100 μl of P buffer and plated to one R2YE plate. The plate was incubated at 28°C for 20 hours then overlaid with 5 ml of LB 0.7% agar with 250 μg/ml thiostrepton. After 7 days colonies were picked to an R2YE grid plate with 50 μg/ml of thiostrepton. The colonies were grown an additional 5 days at 28°C, then stored at 4°C.
This recombinant microorganism has been deposited with the ATCC and designated PTA-4022.
Example 12: Transformation of Streptomyces rimosus
The procedure of Pigac and Schrempf Appl. Environ Microb., Vol. 61, No. 1,
352-356 (1995) was used to transform S. rimosus. S. rimosus strain R6 593 was cultivated in 20 ml of CRM medium at 30 °C on a rotary shaker (250 φm). The cells were harvested at 24 hrs by centrifugation for 5 minutes, 5,000 φm, 4 °C, and resuspended in 20 ml of 10% sucrose, 4 °C, and centrifuged for 5 minutes, 5,000 φm, 4 °C. The pellet was resuspended in 10 ml of 15% glycerol, 4 °C and centrifuged for 5 minutes, 5,000 φm, 4 °C. The pellet was resuspended in 2 ml of 15% glycerol, 4 °C with 100 μg/ml lysozyme and incubated at 37 °C for 30 minutes, centrifuged for 5 minutes, 5,000 φm, 4 °C and resuspended in 2 ml of 15% glycerol, 4 °C. The 15% glycerol wash was repeated once and the pellet was resuspended in 1 to 2 ml of Electroporation Buffer. The cells were stored at -80°C in 50 - 200 μl aliquots.
The ligations were prepared as described for the S. lividans transformation. After the incubation of the ligation reaction, the volume was brought to 100 μl with dH2O, NaCl was added to 0.3M, and the reaction extracted with an equal volume of 24: 1 : 1 phenolxhoroform isoamyl alcohol. Twenty μg of glycogen was added and the ligated DNA was precipitated with 2 volumes of 100% ethanol at -20 °C for 30 minutes. The DNA was pelleted 10 minutes in a microcentrifuge, washed once with 70% ethanol, dried 5 minutes in a speed-vac concentrator and resuspended in 5 μl of dH2O.
One frozen aliquot of cells was thawed at room temperature and divided, 50 μl/ tube for each DNA sample for electroporation. The cells were stored on ice until use. DNA in 1 to 2 μl of dH2O was added and mixed. The cell and DNA mixture was transferred to a 2 mm gapped electrocuvette (Bio-Rad Laboratories, Richmond California USA) that was pre-chilled on ice. The cells were electroporated at a setting of 2 kV (lOkV/cm), 25μF, 400 Ω using a Gene Pulser™ (Bio-Rad Laboratories). The cells were diluted with 0.75 to 1.0 ml of CRM (0-4 °C), transferred to 15 ml culture tubes and incubated with agitation 3hrs at 30 °C. The cells were plated on trypticase soy broth agar plates with 10-30 μg/ml of thiostrepton.
Example 13: High Performance liquid chromatography The liquid chromatography separation was performed using a Waters 2690
Separation Module system (Waters Coφ., Milford, MA, USA) and a column, 4.6 x 150 mm, filled with SymmetryShield RP8, particle size 3.5 μm (Waters Coφ.,
Milford, MA, USA). The gradient mobile phase programming was used with a flow rate of 1.0 ml/minute. Eluent A was water/acetonitrile (20:1) + 10 mM ammonium acetate. Eluent B was acetonitrile/water (20:1). The mobile phase was a linear gradient from 12% B to 28 % B over 6 minutes and held isocratic at 28% B over 4 minutes. This was followed by a 28% B to 100% B linear gradient over 20 minutes and a linear gradient to 12% B over two minutes with a 3 minute hold at 12% B.
Example 14: Mass spectrometry
The column effluent was introduced directly into the electrospray ion source of a ZMD mass spectrometer (Micromass, Manchester, UK). The instrument was calibrated using Test Juice reference standard (Waters Coφ, Milford, MA, USA) and was delivered at a flow of 10 μl/minute from a syringe pump (Harvard Apparatus, Holliston, MA, USA). The mass spectrometer was operated at a low mass resolution of 13.2 and a high mass resolution of 11.2. Spectra were acquired from using a scan range of m/z 100 to 600 at an acquisition rate of 10 spectra /second. The ionization technique employed was positive electrospray (ES). The sprayer voltage was kept at 2900 V and the cone voltage of the ion source was kept at a potential of 17 V.
Example 15: Use of the ebh gene sequence (SEQ ID NO:l) to isolate cytochrome P450 genes from other microorganisms
Genomic DNA was isolated from a set of cultures (ATCC43491, ATCC 14930, ATCC53630, ATCC53550, ATCC39444, ATCC43333, ATCC35165) using the DNAzol reagent. The DNA was used as a template for PCR reactions using primers designed to the sequence of the ebh gene. Three sets of primers were used for amplification; NPB29-6f (SEQ DD NO:28) and NPB29-7r (SEQ DD NO:29), NPB29- 16f (SEQ DD NO:50) and NPB29-17r (SEQ DD NO:51), and NPB29-19f (SEQ DD NO:52) and NPB29-20r (SEQ DD NO:53).
PCR reactions were prepared in a volume of 20 μl, containing 200-500 ng of genomic DNA and a forward and reverse primer. All primers were added to a final concentration of 1.4- 2.0 μM. The PCR reaction was prepared with 0.2 μl of
Advantage™ 2 Taq enzyme (BD Biosciences Clontech, Palo Alto, California, USA), 2 μl of Advantage™ 2 Taq buffer and 0.2 μl of 2.5 mM of dNTPs with dH2O to 20 μl. The cycling reactions were performed on a Geneamp® 9700 PCR system or a Mastercycler® gradient (Eppendorf, Westbury, New York, USA) with the following protocol: 95°C for 5 minutes, 35 cycles (96°C 20 seconds, 54-69°C 30 seconds, 72°C 2 minutes), 72°C for 7 minutes. The expected size of the PCR products is approximately 1469 bp for the NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ ID NO:29) primer pair, 1034 bp for the NPB29-16f (SEQ DD NO:50) and NPB29-17r (SEQ DD NO:51) primer pair and 1318 bp for the NPB29-19f (SEQ DD NO:52) and NPB29-20r (SEQ ID NO:53) primer pair. The PCR reactions were analyzed on 0.7% agarose gels. PCR products of the expected size were excised from the gel and purified using the Qiagen gel extraction method. The purified products were sequenced using the Big-Dye sequencing kit and analyzed using an ABD 10 sequencer.
Example 16: Construction of plasmid pPCRscript-eWi
A 1.469 kb DNA fragment containing the epothilone B hydroxylase gene and the downstream ferredoxin gene was amplified using PCR. The 50 μl PCR reaction was composed of 5 μl of Taq buffer, 2.5 μl glycerol, 1 μl of 20 ng/μl NPB29-1 plasmid, 0.4 μl of 25 mM dNTPs, 1.0 μl each of primers NPB29-6f (SEQ ID NO:28) and NPB29-7r (SEQ DD NO:29) (5 pmole/μl), 38.1 μl of dH2O and 0.5 μl of Taq enzyme (Stratagene). The reactions were performed on a Geneamp® 9700 PCR system, with the following conditions; 95°C for 5 minutes, then 30 cycles (96°C for 30 seconds, 60°C 30 seconds, 72°C for 2 minutes), and 72°C for 7 minutes. The PCR product was purified using a Qiagen Qiaquick column with the PCR cleanup procedure. The purified product was digested with Bglll and Hindiπ and purified on a 0.7 % agarose gel. A 1.469 kb band was excised from the gel and eluted using a Qiagen Qiaquick gel extraction procedure. The fragments were then cloned into the pPCRscript Amp vector using the PCRscript Amp cloning kit. Colonies containing inserts were picked to 1-2 ml of LB (Luria Broth) with 100 μg/ml ampicillin, 30- 37°C, 16-24 hours, 230-300 φm. Plasmid isolation was performed using the Mo Bio miniplasmid prep kit. The sequence of the insert was confirmed by cycle sequencing with the Big-Dye sequencing kit. This plasmid was named pPCRscript-eb/i.
Example 17: Mutagenesis of the ebh gene for improved yield or altered specificity
The Quikchange® XL Site-Directed Mutagenesis Kit and the Quikchange® Multi Site-Directed Mutagenesis kit, both from Stratagene were used to introduce mutations in the coding region of the ebh gene. Both of these methods employ DNA primers 35-45 bases in length containing the desired mutation (SEQ DD NO:54-59 and 77), a methylated circular plasmid template and PfuTurbo® DNA Polymerase (U.S. Patent Nos 5,545,552 and 5,866,395 and 5,948,663) to generate copies of the plasmid template incoφorating the mutation carried on the mutagenic primers. Subsequent digestion of the reaction with the restriction endonuclease enzyme Dpnl, selectively digests the methylated plasmid template, but leaves the non-methylated mutated plasmid intact. The manufacturer's instructions were followed for all procedures with the exception of the Dpnl digestion step in which the incubation time was increased from 1 hr to 3 hrs. The pPCRscript-eM vector was used as the template for mutagenesis.
One to two μl of the reaction was transformed to either XL 1 -Blue® electrocompetent or XLIO-Gold® ultracompetent cells (Stratagene). Cells were plated to a density of greater than 100 colonies per plate on LA (Luria Agar) 100 μg/ml ampicillin plates, and incubated 24-48 hrs at 30-37°C. The entire plate was resuspended in 5 ml of LB containing 100 μg/ml ampicillin. Plasmid was isolated directly from the resuspended cells by centrifuging the cells and then purifying the plasmid using the Mo Bio miniprep procedure. This plasmid was then used as a template for PCR with primers NPB29-6f (SEQ ID NO:28)and NPB29-7r (SEQ DD NO:29) to amplify a mutated expression cassette. Digestion of the 1.469 kb PCR product with the restriction enzymes Bglll and Hindlll was used to prepare this fragment for ligation to vector pANT849 also digested with Bglll and HindM. Alternatively, the resuspended cells were used to inoculate 20- 50 ml of LB containing 100 μg/ml ampicillin and grown 18-24 hrs at 30-37°C. Qiagen midi-preps were performed on the cultures to isolate plasmid DNA containing the desired mutation. Digestion with the restriction enzymes Bglll and Hindll was used to excise the mutated expression cassette for ligation to BglH and Hindm digested plasmid pANT849. Screening of mutants was performed in S. lividans or S. rimosus as described.
Alternatively, the method of Leung et al, Technique-A Journal of Methods in Cell and Molecular Biology, Vol. 1, No. 1, 11-15 (1989) was used to generate random mutation libraries of the ebh gene. Manganese and/or reduced dATP concentration is used to control the mutagenesis frequency of the Taq polymerase. The plasmid pCRscript-eM was digested with Notl to linearize the plasmid. The Polymerase buffer was prepared with 0.166 M (NH4)2SO4, 0.67M Tris-HCl pH 8.8, 61 mM MgCl2, 67 μM EDTA ρH8.0, 1.7 mg/ml Bovine Serum Albumin). The PCR reaction was prepared with 10 μl of Not I digested pCRscript-eM (O.lng/μl), 10 μl of polymerase buffer, 1.0 μl of IM β-mercaptoethanol, 10.0 μl of DMSO, 1.0 μl of NPB29-6f (SEQ ID NO:28) primer (100 pmole/μl), 1.0 μl of NPB29-7r (SEQ ID NO:29) primer (100 pmole/μl), 10 μl of 5 mM MnCl2, 10.0 μl 10 mM dGTP, 10.0 μl 2 mM dATP, 10 mM dTTP, 10.0 μl 10 mM dCTP, and 2.0 μl Taq polymerase. dH2O was added to 100 μl. Reactions were also prepared as described above but without MnCl . The cycling reactions were performed a GeneAmp® PCR system with the following protocol: 95°C for 1 minute, 25-30 cycles (94 °C for 1 minute, 55 °C for 30 seconds, 72 °C for 4 minutes), 72 °C for 7 minutes. The PCR reactions were separated on an agarose gel using a Qiagen spin column. The fragments were then digested with Bglll and Hindm and purified using a Qiagen spin column. The purified fragments were then ligated to BglH and Hindm digested pANT849 plasmids. Screening of mutants was performed in S. lividans and S. rimosus.
Table of Characterized Mutants
Mutant Position Substitution Wild-type ebh24-16 92 Valine Isoleucine
237 Alanine Phenylalanine ebh25-l 195 Serine Asparagine
294 Proline Serine ebhlO-53 190 Tyrosine Phenylalanine
231 Arginine Glutamic acid ebh24-16d& 92 Valine Isoleucine
237 Alanine Phenylalanine
67 Glutamine Arginine eM24-16cl l 92 Valine Isoleucine
93 Glycine Alanine
237 Alanine Phenylalanine
365 Threonine Isoleucine eM24-16-16 92 Valine Isoleucine
106 Alanine Valine
237 Alanine Phenylalanine eM24- 16-74 88 Histidine Arginine
92 Valine Isoleucine
237 Alanine Phenylalanine ebA-M18 31 Lysine Glutamic acid
176 Valine Methionine eM24-16g8 92 Valine Isoleucine 237 Alanine Phenylalanine
67 Glutamine Arginine
130 Threonine Isoleucine
176 Alanine Methionine eb/*24-16b9 92 Valine Isoleucine
237 Alanine Phenylalanine
67 Glutamine Arginine
140 Threonine Alanine
176 Serine Methionine
Example 18: Comparison of epothilone B transformation in cells expressing ebh and mutants thereof
In these experiments, twenty ml of YEME medium in a 125 ml bi-indented flask was inoculated with 200 μl of a frozen spore preparation of S. lividans TK24, 5. lividans (pANT849-eM), S. lividans (pANT849-ebM0-53) or S. lividans (pANT849- ebh24-16) and incubated 48 hours at 230 φm, 30°C. Thiostrepton, 10 μg/ml was added to media inoculated with S. lividans (pANT849-eM), S. lividans (pANT849- ebhl -53) and S. lividans (pANT849-eM24-16). Four ml of culture was transferred to 20 ml of R5 medium in a 125 ml Erlenmeyer flask and incubated 18 hrs at 230 φm, 30°C. Epothilone B in 100% EtOH was added to each culture to a final concentration of 0.05% weight/volume. Samples were taken at 0, 24, 48 and 72 hours with the exception of the S. lividans (pANT849-eM24-16) culture, in which the epothilone B had been completely converted to epothilone F at 48 hours. The samples were analyzed by HPLC. Results were calculated as a percentage of the epothilone B at time 0 hours. Epothilone B:
Time (hours) TK24 pANT849-<?M pANT849-*M 10-53 pANT849-«?Wi24-16
0 100% 100% 100% 100%
24 99% 78% 69% 56%
48 87% 19% 39% 0%
72 87% 0% 3%
Epothilone F:
Time (hours) TK24 PANT849-β£Λ PANT849-eftΛ 10-53 PANT849-efeΛ24-16 0 0% 0% 0% 0%
24 0% 4% 9% 23%
48 0% 21% 29% 52%
72 0% 14% 41% —
Alternatively, the bioconversion of epothilone B to epothilone F was performed in S. rimosus host cells transformed with expression plasmids containing the ebh gene and its variants or mutants. One-hundred μl of a frozen S. rimosus transformant culture was inoculated to 20 ml CRM media with 10 μg/ml thiostrepton and cultivated 16-24 hr, 30°C, 230- 300 φm. Epothilone B in 100% ethanol was added to each culture to a final concentration of 0.05% weight/volume. The reaction was typically incubated 20- 40hrs at 30 °C, 230-300 φm. The concentration of epothilones B and F was determined by HPLC analysis.
Evaluation of mutants in S. rimosus
Mutant Epothilone F yield e -M18 55% ebh24-16dS 75% ebh24-16z\ \ 75% ebh24Λ6Λ6 75% eM24-16-74 75% eb/ι24-16b9 80% eM24-16g8 85%
Example 19: Biotransformation of compactin to pravastatin
Twenty ml of R2YE media with 10 μg/ml thiostrepton in a 125 ml flask was inoculated with 200 μl of a frozen spore preparation of S. lividans (pANT849), S. lividans (pANT849-eb/ι) and incubated 72 hours at 230 φm, 28°C. Four ml of culture was inoculated to 20 ml of R2YE media and grown 24 hours at 230 φm, 28°C. One ml of culture was transferred to a 15 ml polypropylene culture tube, 10 μl of compactin (40 mg/ml) was added to each culture and incubated for 24 hours, 28°C, 250 φm. Five hundred μl of the culture broth was transferred to a fresh 15 ml polypropylene culture tube. Five hundred μl of 50 mM sodium hydroxide was added and vortexed. Three ml of methanol was added and vortexed, the tube was centrifuged 10 minutes at 3000 φm in a TJ-6 table-top centrifuge. The organic phase was analyzed by HPLC. Compactin and pravastatin values were assessed relative to the control S. lividans (pANT849) culture.
Compactin and Pravastatin as a Percentage of Starting Compactin Concentration:
S. lividans (pANT849) S. lividans (pANT849-eM)
Compactin 36% 11%
Pravastatin 11% 53%
Example 20: High performance liquid chromatography method for compactin and pravastatin detection The liquid chromatography separation was performed using a Hewlett
Packard 1090 Series Separation system (Agilent Technologies, Palo Alto, California, USA) and a column, 50x46 mm, filled with Spherisorb ODS2, particle size 5 μm (Keystone Scientific, Inc, Bellefonte, Pennsylvania, USA). The gradient mobile phase programming was used with a flow rate of 2.0 ml/minute. Eluent A was water, 10 mM ammonium acetate and 0.05% Phosphoric Acid. Eluent B was acetonitrile. The mobile phase was a linear gradient from 20% B to 90 % B over 4 minutes.
Example 21: Structure determination of the biotransformation product of mutant eb lSΛ Analytical HPLC was performed using a Hewlett Packard 1100 Series Liquid
Chromatograph with a YMC Packed ODS-AQ column, 4.6 mm i.d. x 15 cm 1. A gradient system of water (solvent A) and acetonitrile (solvent B) was used: 20% to 90% B linear gradient, 10 minutes; 90% to 20% linear gradient, 2 minutes. The flow rate was 1 ml/minute and UV detection was at 254 nm. Preparative HPLC was performed using the following equipment and conditions:
Pump: Varian ProStar Solvent Delivery Module (Varian Inc., Palo Alto, California, USA). Detector: Gynkotek UVD340S.
Column: YMC ODS-A column (30mmDD X 100 mm length, 5μ Dparticle size). Elution flow rate: 30 ml/minute
Elution gradient: (solvent A: water; solvent B: acetonitrile), 20% B, 2 minutes; 20% to 60% B linear gradient, 18 minutes; 60% B, 2 minutes; 60 % to 90%o B linear gradient, 1 minute; 90 % B, 3 minutes; 90 % to 20% B linear gradient, 2 minutes. Detection: UV, 210 nm. LC/NMR was performed as follows: 40 μl of sample was injected onto a
YMC Packed ODS-AQ column (4.6 mm i.d. x 15 cm 1). The column was eluted at 1 ml/minute flow rate with a gradient system of D2O (solvent A) and acetonitrile-d3 (solvent B): 30% B, 1 minute; 30% to 80% B linear gradient, 11 minutes. The eluent passed a UV detection cell (monitored at 254 nm) before flowing through a F19/H1 NMR probe (60 μl active volume) in Varian AS -600 NMR spectrometer. The biotransformation product was eluted at around 7.5 minutes and the flow was stopped manually to allow the eluent to remain in the NMR probe for NMR data acquisition.
Isolation and analysis was performed as follows. The butanol/methanol extract (about 10 ml) was evaporated to dryness under nitrogen stream. One ml methanol was added to the residue (38 mg) and insoluble material was removed by centrifugation (13000 φm, 2 min). 0.1 ml of the supernatant was used for LC/NMR study and the rest of 0.9 ml was subjected to the preparative HPLC (0.2-0.4 ml per injection). Two major peaks were observed and collected: peak A was eluted between 14 and 15 minutes, while peak B was eluted between 16.5 and 17.5 minutes. Analytical HPLC analysis indicated that peak B was the parent compound, epothilone B (Rt 8.5 minutes), and peak A was the biotransformation product (Rt 7.3 minutes). The peak A fractions were pooled and MS analysis data was obtained with the pooled fractions. The pooled fraction was evaporated to a small volume, then was lyophilized to give 3 mg of white solid. NMR and HPLC analysis of the white solid (dissolved in methanol) revealed that the biotransformation product was partially decomposed during the drying process. APPENDIX 1
Atom No. Residue Atom Name X-coord Y-coord Z-coord
1 ALA9 N -39.918 -4.913 -1.651
2 ALA9 CA -38.454 -5.033 -1.537
3 ALA9 C -37.953 -4.886 -0.099
4 ALA9 O -38.625 -4.31 0.765
5 ALA9 CB -37.809 -3.967 -2.415
6 THR10 N -36.781 -5.447 0.146
7 THR10 CA -36.187 -5:437 1.49
8 THR10 C -34.916 -4.585 1.553
9 THR10 O -34.016 -4.735 0.72
10 THR10 CB -35.871 -6.887 1.846
11 THR10 OG1 -37.075 -7.631 1.717
12 THR10 CG2 -35.355 -7.053 3.271
13 LEU11 N -34.858 -3.699 2.536
14 LEU11 CA -33.669 -2.853 2.745
15 LEU11 C -32.511 -3.649 3.353
16 LEU 11 O -32.706 -4.468 4.259
17 LEU 11 CB -34.033 -1.707 3.687
18 LEU11 CG -35.079 -0.78 3.078
19 LEU 11 CD1 -35.53 0.265 4.091
20 LEU11 CD2 -34.555 -0.111 1.81
21 PR012 N -31.32 -3.422 2.823
22 PR012 CA -30.121 -4.119 3.302
23 PR012 C -29.652 -3.606 4.663
24 PR012 O -29.656 -2.397 4.918
25 PR012 CB -29.081 -3.842 2.259
26 PR012 CG -29.597 -2.771 1.309
27 PR012 CD -31.031 -2.493 1.729
28 LEU13 N -29.278 -4.522 5.54
29 LEU13 CA -28.676 -4.118 6.819
30 LEU13 C -27.183 -3.88 6.627
31 LEU 13 O -26.449 -4.806 6.267
32 LEU 13 CB -28.898 -5.196 7.872
33 LEU13 CG -30.374 -5.354 8.217
34 LEU13 CD1 -30.587 -6.516 9.181
35 LEU13 CD2 -30.945 -4.067 8.802 6 ALA14 N -26.72 -2.741 7.112 7 ALA14 CA -25.355 -2.266 6.825 8 ALA14 C -24.244 -2.941 7.634 9 ALA14 O -23.058 -2.719 7.372 0 ALA14 CB -25.311 -0.764 7.075 1 ARG 15 N -24.628 -3.792 8.569 2 ARG15 CA -23.664 -4.537 9.379 3 ARG15 C -23.478 -5.983 8.91 4 ARG15 O -22.815 -6.767 9.599 5 ARG15 CB -24.174 -4.519 10.81 6 ARG15 CG -25.655 -4.879 10.84 7 ARG15 CD -26.2 -4.843 12.26 8 ARG15 NE -27.657 -5.039 12.256 9 ARG15 CZ -28.358 -5.301 13.36 0 ARG 15 NH1 -29.69 -5.376 13.3 1 ARG15 NH2 -27.735 -5.412 14.536 2 LYS16 N -24.096 -6.351 7.798 LYS16 CA -24.016 -7.741 7.335
LYS16 C -22.639 -8.128 6.807
LYS16 0 -21.959 -7.359 6.115
LYS16 CB -25.061 -7.977 6.252
LYS16 CG -26.466 -7.985 6.839
LYS16 CD -26.605 -9.079 7.892
LYS16 CE -28.002 -9.092 8.499
LYS16 NZ -28.113 -10.128 9.537
CYS 17 N -22.317 -9.392 7.036
CYS 17 CA -21.061 -10.004 6.56
CYS17 C -20.737 -9.771 5.066
CYS17 0 -19.662 -9.205 4.833
CYS17 CB -21.096 -11.501 6.864
CYS17 SG -21.33 -11.937 8.602
PR018 N -21.635 -10.003 4.1
PR018 CA -21.293 -9.756 2.683
PR018 C -21.123 -8.291 2.246
PR018 0 -21.013 -8.061 1.036
PR018 CB -22.388 -10.383 1.878
PR018 CG -23.509 -10.812 2.802
PR018 CD -23.002 -10.554 4.207
PHE19 N -21.137 -7.33 3.162
PHE19 CA -20.792 -5.947 2.834
PHE19 C -19.279 -5.777 2.788
PHE19 0 -18.789 -4.92 2.036
PHE19 CB -21.36 -5.007 3.894
PHE19 CG -22.8 -4.568 3.654
PHE19 CD1 -23.051 -3.27 3.232
PHE19 CD2 -23.856 -5.444 3.867
PHE19 CE1 -24.355 -2.853 3.003
PHE19 CE2 -25.159 -5.03 3.629
PHE19 CZ -25.409 -3.735 3.197
SER20 N -18.573 -6.687 3.449
SER20 CA -17.102 -6.717 3.446
SER20 C -16.569 -7.839 4.342
SER20 0 -16.632 -7.723 5.573
SER20 CB -16.557 -5.371 3.929
SER20 OG -17.236 -5.019 5.129
PR021 N -15.974 -8.867 3.753
PR021 CA -15.978 -9.134 2.304
PR021 C -17.267 -9.836 1.856
PR021 0 -18.026 -10.327 2.702
PR021 CB -14.8 -10.047 2.11 1
PR021 CG -14.442 -10.669 3.455
PR021 CD -15.306 -9.949 4.481
PR022 N -17.551 -9.859 0.561
PR022 CA -16.897 -9.007 -0.445
PR022 C -17.4 -7.575 -0.296
PR022 0 -18.341 -7.371 0.469
PR022 CB -17.32 -9.591 -1.762
PR022 CG -18.478 -10.549 -1.528
PR022 CD -18.669 -10.604 -0.021
PR023 N -16.687 -6.605 -0.842
PR023 CA -17.224 -5.241 -0.897 107 PR023 C -18.525 -5.21 -1.693
108 PR023 0 -18.524 -5.083 -2.925
109 PR023 CB -16.159 -4.417 -1.547
110 PR023 CG -15.004 -5.321 -1.95
111 PR023 CD -15.388 -6.725 -1.509
112 GLU24 N -19.62 -5.122 -0.956
113 GLU24 CA -20.963 -5.192 -1.547
114 GLU24 C -21.415 -3.843 -2.088
115 GLU24 0 -22.323 -3.794 -2.93
116 GLU24 CB -21.934 -5.68 -0.48
117 GLU24 CG -23.27 -6.137 -1.052
118 GLU24 CD -23.982 -7.017 -0.024
119 GLU24 0E1 -24.613 -7.981 -0.433
120 GLU24 0E2 -23.833 -6.745 1.158
121 TYR25 N -20.573 -2.843 -1.878
122 TYR25 CA -20.842 -1.47 -2.303
123 TYR25 C -20.704 -1.311 -3.816
124 TYR25 0 -21.364 -0.436 -4.385
125 TYR25 CB -19.828 -0.568 -1.608
126 TYR25 CG -19.616 -0.882 -0.128
127 TYR25 CD1 -20.662 -0.753 0.779
128 TYR25 CD2 -18.364 -1.298 0.31 1
129 TYR25 CE1 -20.461 -1.062 2.119
130 TYR25 CE2 -18.163 -1.605 1.65
131 TYR25 CZ -19.213 -1.492 2.55
132 TYR25 OH -19.026 -1.859 3.866
133 GLU26 N -20.1 -2.296 -4.468
134 GLU26 CA -20.009 -2.293 -5.928
135 GLU26 C -21.404 -2.483 -6.52
136 GLU26 0 -21.92 -1.572 -7.177
137 GLU26 CB -19.129 -3.454 -6.39
138 GLU26 CG -17.813 -3.593 -5.628
139 GLU26 CD -16.94 -2.342 -5.707
140 GLU26 OE1 -16.345 -2.12 -6.749
141 GLU26 OE2 -16.773 -1.731 -4.657
142 ARG27 N -22.105 -3.488 -6.017
143 ARG27 CA -23.437 -3.805 -6.538
144 ARG27 C -24.504 -2.909 -5.921
145 ARG27 0 -25.496 -2.591 -6.59
146 ARG27 CB -23.752 -5.26 -6.22
147 ARG27 CG -22.7 -6.189 -6.812
148 ARG27 CD -23.031 -7.653 -6.55
149 ARG27 NE -23.146 -7.926 -5.108
150 ARG27 CZ -22.251 -8.648 -4.428
151 ARG27 NH1 -21.16 -9.11 -5.043
152 ARG27 NH2 -22.428 -8.879 -3.126
153 LEU28 N -24.197 -2.331 -4.771
154 LEU28 CA -25.11 -1.358 -4.168
155 LEU28 C -25.131 -0.079 -4.987
156 LEU28 0 -26.214 0.286 -5.45
157 LEU28 CB -24.67 -1.039 -2.746
158 LEU28 CG -24.868 -2.224 -1.81
159 LEU28 CD1 -24.303 -1.916 -0.43
160 LEU28 CD2 -26.34 -2.609 -1.716 161 ARG29 N -23.969 0.307 -5.49
162 ARG29 CA -23.835 1.502 -6.327
163 ARG29 C -24.521 1.334 -7.677
164 ARG29 0 -25.271 2.226 -8.096
165 ARG29 CB -22.345 1 .682 -6.568
166 ARG29 CG -21.997 2.947 -7.336
167 ARG29 CD -20.519 2.941 -7.711
168 ARG29 NE -19.696 2.563 -6.551
169 ARG29 CZ -18.945 1.459 -6.523
170 ARG29 NH1 -18.872 0.673 -7.6
171 ARG29 NH2 -18.265 1.145 -5.421
172 ARG30 N -24.494 0.109 -8.182
173 ARG30 CA -25.112 -0.208 -9.475
174 ARG30 C -26.629 -0.386 -9.407
175 ARG30 0 -27.282 -0.429 -10.455
176 ARG30 CB -24.503 -1.512 -9.971
177 ARG30 CG -22.992 -1.401 -10.1
178 ARG30 CD -22.376 -2.745 -10.463
179 ARG30 NE -20.909 -2.659 -10.479
180 ARG30 CZ -20.12 -3.648 -10.054
181 ARG30 NH1 -20.658 -4.772 -9.576
182 ARG30 NH2 -18.793 -3.508 -10.099
183 GLU31 N -27.194 -0.493 -8.215
184 GLU31 CA -28.653 -0.576 -8.109
185 GLU31 C -29.207 0.713 -7.51
186 GLU31 0 -30.393 1.032 -7.656
187 GLU31 CB -29.025 -1.746 -7.203
188 GLU31 CG -28.381 -3.055 -7.65
189 GLU31 CD -28.814 -3.443 -9.061
190 GLU31 0E1 -30.013 -3.448 -9.301
191 GLU31 0E2 -27.961 -3.944 -9.782
192 SER32 N -28.319 1.439 -6.855
193 SER32 CA -28.652 2.672 -6.147
194 SER32 C -27.386 3.393 -5.683
195 SER32 0 -26.706 2.984 -4.731
196 SER32 CB -29.509 2.309 -4.939
197 SER32 OG -28.842 1.268 -4.234
198 PR033 N -27.148 4.543 -6.292
199 PR033 CA -26.039 5.408 -5.869
200 PR033 C -26.227 5.972 -4.454
201 PR033 0 -25.241 6.254 -3.758
202 PR033 CB -26.023 6.511 -6.879
203 PR033 CG -27.203 6.364 -7.829
204 PR033 CD -27.933 5.107 -7.394
205 VAL34 N -27.478 6.094 -4.033
206 VAL34 CA -27.83 6.472 -2.661
207 VAL34 C -28.828 5.447 -2.122
208 VAL34 0 -30.01 5.467 -2.487
209 VAL34 CB -28.483 7.85 -2.686
210 VAL34 CG1 -28.789 8.339 -1.275
211 VAL34 CG2 -27.616 8.865 -3.42
212 SER35 N -28.344 4.546 -1.286
213 SER35 CA -29.186 3.438 -0.802
214 SER35 C -29.512 3.536 0.688 215 SER35 0 -28.615 3.692 1.521
216 SER35 CB -28.456 2.126 -1.077
217 SER35 OG -27.19 2.169 -0.43
218 ARG36 N -30.785 3.413 1.025
219 ARG36 CA -31.168 3.431 2.443
220 ARG36 C -30.894 2.072 3.082
221 ARG36 0 -31.516 1.059 2.741
222 ARG36 CB -32.645 3.779 2.597
223 ARG36 CG -33.016 3.857 4.076
224 ARG36 CD -34.513 4.047 4.295
225 ARG36 NE -34.987 5.35 3.804
226 ARG36 CZ -36.272 5.582 3.523
227 ARG36 NH1 -37.16 4.59 3.609
228 ARG36 NH2 -36.662 6.791 3.113
229 VAL37 N -29.921 2.067 3.974
230 VAL37 CA -29.543 0.855 4.695
231 VAL37 C -29.982 0.926 6.152
232 VAL37 0 -30.313 1.995 6.684
233 VAL37 CB -28.03 0.681 4.608
234 VAL37 CG1 -27.591 0.391 3.177
235 VAL37 CG2 -27.298 1.898 5.163
236 GLY38 N -30.064 -0.24 6.761
237 GLY38 CA -30.404 -0.332 8.18
238 GLY38 C -29.151 -0.563 9.016
239 GLY38 0 -28.562 -1.652 9.003
240 LEU39 N -28.764 0.463 9.75
241 LEU39 CA -27.607 0.399 10.656
242 LEU39 C -27.911 -0.554 11.817
243 LEU39 0 -29.028 -1.085 11.882
244 LEU39 CB -27.353 1.814 11.187
245 LEU39 CG -26.198 2.546 10.5
246 LEU39 CD1 -26.368 2.665 8.988
247 LEU39 CD2 -26.011 3.925 11.12
248 PRO40 N -26.919 -0.869 12.643
249 PRO40 CA -27.183 -1.62 13.875
250 PRO40 C -28.423 -1.116 14.614
251 PRO40 0 -28.771 0.073 14.574
252 PRO40 CB -25.933 -1.51 14.691
253 PRO40 CG -24.84 -0.886 13.837
254 PRO40 CD -25.497 -0.52 12.516
255 SER41 N -29.188 -2.109 15.042
256 SER41 CA -30.511 -1.986 15.686
257 SER41 C -31.548 -1.213 14.856
258 SER41 0 -32.379 -0.492 15.419
259 SER41 CB -30.387 -1.382 17.087
260 SER41 OG -30.036 -0.008 17.001
261 GLY42 N -31.474 -1.34 13.539
262 GLY42 CA -32.521 -0.831 12.644
263 GLY42 C -32.557 0.686 12.434
264 GLY42 O -33.59 1.208 11.997
265 GLN43 N -31.471 1.392 12.713
266 GLN43 CA -31.501 2.847 12.494
267 GLN43 C -31.201 3.16 11.025
268 GLN43 0 -30.079 2.955 10.551 269 GLN43 CB -30.507 3.53 13.437
270 GLN43 CG -30.681 5.05 13.439
271 GLN43 CD -29.873 5.699 14.567
272 GLN43 0E1 -30.31 6.682 15.184
273 GLN43 NE2 -28.723 5.116 14.852
274 THR44 N -32.227 3.582 10.304
275 THR44 CA -32.096 3.832 8.859
276 THR44 C -31.194 5.02 8.534
277 THR44 0 -31.231 6.071 9.187
278 THR44 CB -33.475 4.077 8.258
279 THR44 0G1 -34.009 5.268 8.823
280 THR44 CG2 -34.428 2.923 8.551
281 ALA45 N -30.35 4.799 7.541
282 ALA45 CA -29.426 5.833 7.07
283 ALA45 C -29.16 5.718 5.572
284 ALA45 0 -29.105 4.619 5.009
285 ALA45 CB -28.1 15 5.705 7.836
286 TRP46 N -28.989 6.859 4.931
287 TRP46 CA -28.702 6.865 3.492
288 TRP46 C -27.212 6.698 3.221
289 TRP46 0 -26.408 7.589 3.517
290 TRP46 CB -29.185 8.173 2.881
291 TRP46 CG -30.693 8.309 2.805
292 TRP46 CD1 -31.509 9.009 3.665
293 TRP46 CD2 -31.552 7.723 1.804
294 TRP46 NE1 -32.788 8.894 3.228
295 TRP46 CE2 -32.862 8.146 2.116
296 TRP46 CE3 -31.324 6.922 0.701
297 TRP46 CZ2 -33.913 7.774 1.295
298 TRP46 CZ3 -32.389 6.538 -0.105
299 TRP46 CH2 -33.68 6.967 0.19
300 ALA47 N -26.863 5.559 2.652
301 ALA47 CA -25.475 5.257 2.302
302 ALA47 C -25.153 5.708 0.882
303 ALA47 O -25.772 5.272 -0.1
304 ALA47 CB -25.248 3.756 2.427
305 LEU48 N -24.185 6.602 0.797
306 LEU48 CA -23.751 7.129 -0.501
307 LEU48 C -22.648 6.252 -1.067
308 LEU48 0 -21.546 6.197 -0.51 1
309 LEU48 CB -23.222 8.543 -0.317
310 LEU48 CG -24.27 9.464 0.289
311 LEU48 CD1 -23.707 10.863 0.454
312 LEU48 CD2 -25.524 9.515 -0.569
313 THR49 N -22.948 5.601 -2.176
314 THR49 CA -22.01 4.636 -2.75
315 THR49 C -21.197 5.214 -3.907
316 THR49 0 -20.047 4.803 -4.09
317 THR49 CB -22.774 3.391 -3.196
318 THR49 OG1 -23.783 3.769 -4.125
319 THR49 CG2 -23.458 2.703 -2.02
320 ARG50 N -21.724 6.2 -4.616
321 ARG50 CA -20.899 6.838 -5.655
322 ARG50 C -20.007 7.927 -5.081 323 ARG50 O -20.456 8.712 -4.234
324 ARG50 CB -21.737 7.467 -6.758
325 ARG50 CG -22.426 6.441 -7.639
326 ARG50 CD -22.852 7.085 -8.951
327 ARG50 NE -23.597 8.327 -8.704
328 ARG50 CZ -23.779 9.27 -9.629
329 ARG50 NH1 -24.462 10.375 -9.326
330 ARG50 NH2 -23.274 9.111 -10.854
331 LEU51 N -18.92 8.175 -5.797
332 LEU51 CA -17.931 9.19 -5.399
333 LEU51 C -18.52 10.584 -5.583
334 LEU51 0 -18.42 1 1.426 -4.682
335 LEU51 CB -16.726 9.066 -6.33
336 LEU51 CG -15.377 9.193 -5.621
337 LEU51 CD1 -14.233 9.154 -6.628
338 LEU51 CD2 -15.267 10.433 -4.746
339 GLU52 N -19.404 10.68 -6.562
340 GLU52 CA -20.088 11.93 -6.891
341 GLU52 C -21.101 12.314 -5.811
342 GLU52 O -21.114 13.477 -5.389
343 GLU52 CB -20.821 11.759 -8.229
344 GLU52 CG -19.897 11.56 -9.439
345 GLU52 CD -19.749 10.09 -9.853
346 GLU52 OE1 -19.796 9.24 -8.971
347 GLU52 OE2 -19.502 9.849 -11.025
348 ASP53 N -21.659 11.313 -5.146
349 ASP53 CA -22.646 11.572 -4.096
350 ASP53 C -21.953 11.905 -2.783
351 ASP53 0 -22.4 12.804 -2.063
352 ASP53 CB -23.493 10.322 -3.876
353 ASP53 CG -24.263 9.94 -5.133
354 ASP53 OD1 -24.319 8.749 -5.405
355 ASP53 OD2 -24.633 10.838 -5.878
356 ILE54 N -20.75 11.382 -2.614
357 ILE54 CA -19.991 11.62 -1.387
358 ILE54 C -19.301 12.976 -1.41
359 ILE54 0 -19.36 13.7 -0.409
360 ILE54 CB -18.963 10.509 -1.269
361 ILE54 CG1 -19.674 9.167 -1.252
362 ILE54 CG2 -18.113 10.671 -0.015
363 ILE54 CD1 -18.677 8.03 -1.365
364 ARG55 N -18.916 13.43 -2.592
365 ARG55 CA -18.346 14.776 -2.704
366 ARG55 C -19.44 15.836 -2.679
367 ARG55 0 -19.252 16.893 -2.065
368 ARG55 CB -17.551 14.883 -3.998
369 ARG55 CG -16.293 14.028 -3.94
370 ARG55 CD -15.498 14.133 -5.235
371 ARG55 NE -16.277 13.61 -6.367
372 ARG55 CZ -15.712 13.028 -7.427
373 ARG55 NH1 -14.383 12.947 -7.513
374 ARG55 NH2 -16.475 12.553 -8.413
375 GLU56 N -20.64 15.438 -3.068
376 GLU56 CA -21.795 16.331 -2.984 377 GLU56 C -22.287 16.444 -1.539
378 GLU56 O -22.628 17.546 -1.095
379 GLU56 CB -22.875 15.722 -3.866
380 GLU56 CG -24.103 16.605 -4.028
381 GLU56 CD -25.1 12 15.838 -4.874
382 GLU56 0E1 -25.906 16.463 -5.56
383 GLU56 OE2 -25.055 14.616 -4.834
384 MET57 N -22.065 15.392 -0.767
385 MET57 CA -22.379 15.386 0.665
386 MET57 C -21.4 16.241 1.459
387 MET57 O -21.827 17.091 2.248
388 MET57 CB -22.242 13.948 1.141
389 MET57 CG -22.423 13.805 2.646
390 MET57 SD -21.979 12.184 3.306
391 MET57 CE -20.221 12.196 2.89
392 LEU58 N -20.14 16.197 1.056
393 LEU58 CA -19.089 16.973 1.726
394 LEU58 C -19.07 18.444 1.307
395 LEU58 0 -18.398 19.263 1.946
396 LEU58 CB -17.751 16.327 1.389
397 LEU58 CG -17.638 14.941 2.013
398 LEU58 CD1 -16.504 14.133 1.394
399 LEU58 CD2 -17.49 15.03 3.528
400 SER59 N -19.807 18.776 0.261
401 SER59 CA -19.959 20.171 -0.144
402 SER59 C -21.305 20.739 0.304
403 SER59 O -21.531 21.951 0.204
404 SER59 CB -19.852 20.24 -1.661
405 SER59 OG -18.59 19.697 -2.022
406 SER60 N -22.175 19.879 0.807
407 SER60 CA -23.5 20.318 1.246
408 SER60 C -23.505 20.806 2.685
409 SER60 O -23.464 19.996 3.62
410 SER60 CB -24.477 19.156 1.138
411 SER60 OG -25.689 19.581 1.749
412 PR061 N -23.91 22.058 2.835
413 PR061 CA -24.023 22.695 4.154
414 PR061 C -25.231 22.233 4.983
415 PR061 O -25.41 22.7 6.113
416 PR061 CB -24.145 24.157 3.853
417 PR061 CG -24.401 24.343 2.364
418 PR061 CD -24.301 22.959 1.747
419 HIS62 N -26.044 21.333 4.451
420 HIS62 CA -27.21 20.856 5.18
421 HIS62 C -26.949 19.497 5.813
422 HIS62 O -27.863 18.935 6.427
423 HIS62 CB -28.379 20.764 4.214
424 HIS62 CG -28.703 22.084 3.55
425 HIS62 ND1 -28.955 23.252 4.171
426 HIS62 CD2 -28.796 22.32 2.198
427 HIS62 CE1 -29.197 24.205 3.248
428 HIS62 NE2 -29.098 23.627 2.029
429 PHE63 N -25.765 18.945 5.596
430 PHE63 CA -25.385 17.693 6.258 431 PHE63 C -24.492 17.977 7.456
432 PHE63 O -23.261 17.885 7.396
433 PHE63 CB -24.686 16.783 5.262
434 PHE63 CG -25.651 16.13 4.284
435 PHE63 CD1 -26.92 15.76 4.71
436 PHE63 CD2 -25.265 15.901 2.972
437 PHE63 CE1 -27.804 15.161 3.824
438 PHE63 CE2 -26.147 15.298 2.087
439 PHE63 CZ -27.415 14.928 2.512
440 SER64 N -25.159 18.211 8.569
441 SER64 CA -24.502 18.656 9.795
442 SER64 C -23.765 17.525 10.507
443 SER64 0 -24.07 16.34 10.339
444 SER64 CB -25.587 19.225 10.7
445 SER64 OG -24.96 19.785 11.84
446 SER65 N -22.719 17.898 11.218
447 SER65 CA -22.006 16.938 12.053
448 SER65 C -22.463 17.032 13.513
449 SER65 O -22.031 16.247 14.365
450 SER65 CB -20.522 17.234 11.936
451 SER65 OG -20.167 17.174 10.564
452 ASP66 N -23.368 17.961 13.782
453 ASP66 CA -23.901 18.186 15.122
454 ASP66 C -25.388 18.496 14.919
455 ASP66 0 -25.978 18.026 13.938
456 ASP66 CB -23.149 19.393 15.69
457 ASP66 CG -22.904 19.311 17.192
458 ASP66 OD1 -21.835 19.724 17.618
459 ASP66 OD2 -23.871 19.048 17.899
460 ARG67 N -25.972 19.246 15.842
461 ARG67 CA -27.32 19.831 15.692
462 ARG67 C -28.423 18.78 15.619
463 ARG67 0 -28.768 18.296 14.533
464 ARG67 CB -27.384 20.684 14.423
465 ARG67 CG -26.263 21 .716 14.336
466 ARG67 CD -26.329 22.778 15.428
467 ARG67 NE -25.137 23.64 15.358
468 ARG67 CZ -25.091 24.799 14.695
469 ARG67 NH1 -26.189 25.28 14.107
470 ARG67 NH2 -23.957 25.503 14.663
471 GLN68 N -28.983 18.45 16.768
472 GLN68 CA -30.127 17.538 16.79
473 GLN68 C -31.414 18.348 16.65
474 GLN68 0 -31.728 19.187 17.503
475 GLN68 CB -30.116 16.757 18.1
476 GLN68 CG -31.207 15.692 18.12
477 GLN68 CD -31.109 14.852 19.389
478 GLN68 OE1 -31.941 14.973 20.296
479 GLN68 NE2 -30.137 13.955 19.406
480 SER69 N -32.129 18.102 15.565
481 SER69 CA -33.37 18.833 15.272
482 SER69 C -34.444 18.558 16.32
483 SER69 0 -34.447 17.495 16.958
484 SER69 CB -33.885 18.387 13.91 485 SER69 OG -34.261 17.025 14.033
486 PRO70 N -35.332 19.526 16.499
487 PRO70 CA -36.438 19.385 17.447
488 PRO70 C -37.244 18.122 17.171
489 PRO70 0 -37.547 17.795 16.018
490 PRO70 CB -37.267 20.622 17.291
491 PRO70 CG -36.6 21.547 16.285
492 PRO70 CD -35.348 20.824 15.815
493 SER71 N -37.424 17.369 18.245
494 SER71 CA -38.1 15 16.065 18.289
495 SER71 C -37.589 15.02 17.298
496 SER71 0 -38.378 14.228 16.769
497 SER71 CB -39.625 16.244 18.111
498 SER71 OG -39.919 16.638 16.777
499 PHE72 N -36.282 14.985 17.081
500 PHE72 CA -35.679 13.876 16.321
501 PHE72 C -34.364 13.43 16.957
502 PHE72 O -33.281 13.768 16.458
503 PHE72 CB -35.428 14.283 14.872
504 PHE72 CG -36.682 14.456 14.018
505 PHE72 CD1 -37.097 15.724 13.63
506 PHE72 CD2 -37.402 13.339 13.617
507 PHE72 CE1 -38.238 15.875 12.853
508 PHE72 CE2 -38.544 13.489 12.84
509 PHE72 CZ -38.962 14.758 12.459
510 PR073 N -34.469 12.59 17.979
511 PR073 CA -33.31 12.19 18.786
512 PR073 C -32.522 11.027 18.18
513 PR073 O -32.606 9.895 18.668
514 PR073 CB -33.898 11.776 20.099
515 PR073 CG -35.392 11.555 19.917
516 PR073 CD -35.708 12.004 18.5
517 LEU74 N -31.772 11.304 17.127
518 LEU74 CA -30.933 10.263 16.521
519 LEU74 C -29.707 9.976 17.375
520 LEU74 O -29.08 10.892 17.926
521 LEU74 CB -30.474 10.697 15.135
522 LEU74 CG -31.627 10.794 14.146
523 LEU74 CD1 -31.094 11.194 12.776
524 LEU74 CD2 -32.381 9.471 14.05
525 MET75 N -29.359 8.705 17.454
526 MET75 CA -28.167 8.306 18.208
527 MET75 C -27.099 7.808 17.243
528 MET75 O -27.166 6.675 16.746
529 MET75 CB -28.539 7.208 19.198
530 MET75 CG -27.367 6.867 20.1 14
531 ET75 SD -27.678 5.549 21.31
532 MET75 CE -28.002 4.197 20.154
533 VAL76 N -26.117 8.657 16.992
534 VAL76 CA -25.071 8.327 16.017
535 VAL76 C -24.274 7.103 16.455
536 VAL76 O -23.953 6.925 17.636
537 VAL76 CB -24.151 9.527 15.809
538 VAL76 CG1 -24.904 10.676 15.149 539 VAL76 CG2 -23.504 9.986 17.109
540 ALA77 N -23.836 6.34 15.467
541 ALA77 CA -23.158 5.062 15.727
542 ALA77 C -21.703 5.203 16.177
543 ALA77 0 -21.033 4.194 16.42
544 ALA77 CB -23.22 4.212 14.465
545 ARG78 N -21.218 6.431 16.271
546 ARG78 CA -19.868 6.689 16.762
547 ARG78 C -19.868 7.178 18.215
548 ARG78 0 -18.816 7.163 18.865
549 ARG78 CB -19.274 7.772 15.874
550 ARG78 CG -19.445 7.436 14.398
551 ARG78 CD -19.068 8.629 13.528
552 ARG78 NE -19.848 9.81 13.932
553 ARG78 CZ -19.36 11.053 13.921
554 ARG78 NH1 -18.1 14 11.278 13.497
555 ARG78 NH2 -20.12 12.072 14.33
556 GLN79 N -21.028 7.577 18.722
557 GLN79 CA -21.128 8.129 20.088
558 GLN79 C -22.484 7.818 20.715
559 GLN79 O -23.48 8.503 20.45
560 GLN79 CB -20.937 9.651 20.09
561 GLN79 CG -19.486 10.085 19.884
562 GLN79 CD -19.353 11.607 19.931
563 GLN79 OE1 -19.071 12.193 20.986
564 GLN79 NE2 -19.508 12.226 18.773
565 ILE80 N -22.504 6.806 21.562
566 ILE80 CA -23.733 6.44 22.273
567 ILE80 C -23.732 7.034 23.679
568 ILE80 O -22.666 7.316 24.24
569 ILE80 CB -23.847 4.919 22.333
570 ILE80 CG1 -22.684 4.305 23.109
571 ILE80 CG2 -23.905 4.35 20.92
572 ILE80 CD1 -22.794 2.788 23.191
573 ARG81 N -24.932 7.278 24.188
574 ARG81 CA -25.15 7.84 25.535
575 ARG81 C -24.657 9.276 25.691
576 ARG81 O -23.493 9.571 25.411
577 ARG81 CB -24.51 6.964 26.603
578 ARG81 CG -25.437 5.843 27.046
579 ARG81 CD -25.685 5.92 28.555
580 ARG81 NE -26.269 7.22 28.93
581 ARG81 CZ -25.651 8.095 29.722
582 ARG81 NH1 -24.439 7.82 30.204
583 ARG81 NH2 -26.234 9.257 30.008
584 ARG82 N -25.448 10.076 26.389
585 ARG82 CA -25.192 11.523 26.511
586 ARG82 C -23.872 11.866 27.204
587 ARG82 O -23.108 12.684 26.682
588 ARG82 CB -26.32 12.122 27.333
589 ARG82 CG -27.683 11.796 26.74
590 ARG82 CD -28.801 12.301 27.643
591 ARG82 NE -28.71 11.659 28.967
592 ARG82 CZ -28.623 12.34 30.1 14 593 ARG82 NH1 -28.477 11.689 31.271
594 ARG82 NH2 -28.606 13.675 30.096
595 GLU83 N -23.495 11.077 28.198
596 GLU83 CA -22.237 11.334 28.909
597 GLU83 C -21.03 10.69 28.227
598 GLU83 0 -19.894 10.902 28.657
599 GLU83 CB -22.361 10.828 30.338
600 GLU83 CG -23.385 11.651 31.114
601 GLU83 CD -23.478 11.172 32.56
602 GLU83 OE1 -23.428 9.967 32.761
603 GLU83 OE2 -23.71 12.011 33.418
604 ASP84 N -21.274 9.941 27.165
605 ASP84 CA -20.201 9.327 26.386
606 ASP84 C -20.095 10.012 25.024
607 ASP84 0 -19.257 9.646 24.19
608 ASP84 CB -20.481 7.841 26.237
609 ASP84 CG -20.585 7.191 27.613
610 ASP84 OD1 -19.547 6.906 28.193
611 ASP84 OD2 -21.704 7.048 28.092
612 LYS85 N -20.939 11.017 24.831
613 LYS85 CA -20.846 11.928 23.681
614 LYS85 C -19.997 13.228 23.804
615 LYS85 O -20.236 14.084 22.942
616 LYS85 CB -22.27 12.347 23.327
617 LYS85 CG -23.107 11.173 22.832
618 LYS85 CD -24.573 11.567 22.679
619 LYS85 CE -25.408 10.408 22.148
620 LYS85 NZ -26.824 10.785 22.036
621 PR086 N -19.054 13.455 24.73
622 PR086 CA -18.316 14.731 24.698
623 PR086 C -17.168 14.8 23.679
624 PR086 0 -16.339 15.713 23.772
625 PR086 CB -17.779 14.922 26.08
626 PR086 CG -17.866 13.6 26.815
627 PR086 CD -18.543 12.646 25.852
628 PHE87 N -17.14 13.906 22.701
629 PHE87 CA -16.12 13.963 21.653
630 PHE87 C -16.67 14.817 20.51
631 PHE87 0 -15.963 15.16 19.559
632 PHE87 CB -15.848 12.556 21.128
633 PHE87 CG -15.724 11.449 22.174
634 PHE87 CD1 -16.447 10.277 21.996
635 PHE87 CD2 -14.904 1 1.591 23.286
636 PHE87 CE1 -16.358 9.254 22.93
637 PHE87 CE2 -14.817 10.567 24.22
638 PHE87 CZ -15.544 9.399 24.044
639 ARG88 N -17.948 15.143 20.627
640 ARG88 CA -18.629 16.037 19.686
641 ARG88 C -18.178 17.519 19.7
642 ARG88 0 -18.118 18.064 18.59
643 ARG88 CB -20.122 15.915 19.965
644 ARG88 CG -20.964 16.678 18.953
645 ARG88 CD -22.429 16.294 19.089
646 ARG88 NE -22.593 14.851 18.868 647 ARG88 CZ -23.307 14.07 19.679
648 ARG88 NH1 -23.373 12.757 19.45
649 ARG88 NH2 -23.922 14.598 20.739
650 PR089 N -17.919 18.194 20.826
651 PR089 CA -17.186 19.48 20.763
652 PR089 C -15.737 19.333 20.277
653 PR089 0 -14.786 19.454 21.057
654 PR089 CB -17.206 20.033 22.154
655 PR089 CG -17.798 19.004 23.096
656 PR089 CD -18.208 17.832 22.224
657 SER90 N -15.606 19.29 18.963
658 SER90 CA -14.334 19.04 18.296
659 SER90 C -14.43 19.413 16.824
660 SER90 0 -15.534 19.592 16.293
661 SER90 CB -14.069 17.55 18.375
662 SER90 OG -15.095 16.928 17.609
663 LEU91 N -13.326 19.173 16.14
664 LEU91 CA -13.154 19.564 14.737
665 LEU91 C -14.042 18.804 13.745
666 LEU91 O -14.491 19.39 12.754
667 LEU91 CB -11.702 19.238 14.405
668 LEU91 CG -11.325 19.637 12.988
669 LEU91 CD1 -11.253 21.153 12.877
670 LEU91 CD2 -9.989 19.012 12.606
671 ILE92 N -14.422 17.582 14.076
672 ILE92 CA -15.199 16.791 13.12
673 ILE92 C -16.712 16.857 13.368
674 ILE92 0 -17.487 16.497 12.474
675 ILE92 CB -14.682 15.351 13.173
676 ILE92 CG1 -15.288 14.488 12.07
677 ILE92 CG2 -14.932 14.719 14.539
678 ILE92 CD1 -14.775 13.055 12.137
679 ALA93 N -17.14 17.407 14.494
680 ALA93 CA -18.578 17.414 14.759
681 ALA93 C -19.15 18.822 14.872
682 ALA93 0 -20.335 19.048 14.589
683 ALA93 CB -18.865 16.593 16.004
684 MET94 N -18.294 19.776 15.191
685 MET94 CA -18.739 21.168 15.216
686 MET94 C -18.99 21.683 13.811
687 MET94 0 -18.221 21.436 12.88
688 MET94 CB -17.695 22.042 15.893
689 ET94 CG -17.822 21.982 17.407
690 MET94 SD -16.686 23.058 18.31
691 MET94 CE -17.561 23.095 19.891
692 ASP95 N -20.089 22.398 13.672
693 ASP95 CA -20.42 23.024 12.393
694 ASP95 C -19.831 24.427 12.371
695 ASP95 0 -19.589 25.001 13.438
696 ASP95 CB -21.938 23.082 12.258
697 ASP95 CG -22.52 21.677 12.373
698 ASP95 OD1 -22.276 20.87 11.484
699 ASP95 OD2 -23.173 21.412 13.37
700 PR096 N -19.488 24.936 11.201 701 PR096 CA -19.076 26.343 11.099
702 PR096 C -20.177 27.263 11.641
703 PR096 0 -21.353 26.892 11.581
704 PR096 CB -18.812 26.567 9.64
705 PR096 CG -19.078 25.278 8.875
706 PR096 CD -19.532 24.256 9.905
707 PR097 N -19.817 28.38 12.263
708 PR097 CA -18.428 28.85 12.436
709 PR097 C -17.649 28.271 13.631
710 PR097 0 -16.462 28.595 13.772
711 PR097 CB -18.567 30.329 12.615
712 PR097 CG -20.013 30.649 12.964
713 PR097 CD -20.777 29.345 12.804
714 GLU98 N -18.233 27.353 14.389
715 GLU98 CA -17.555 26.761 15.556
716 GLU98 C -16.353 25.946 15.099
717 GLU98 0 -15.224 26.174 15.555
718 GLU98 CB -18.513 25.782 16.223
719 GLU98 CG -19.894 26.372 16.474
720 GLU98 CD -20.857 25.236 16.81 1
721 GLU98 0E1 -20.697 24.171 16.227
722 GLU98 0E2 -21.799 25.49 17.544
723 HIS99 N -16.575 25.223 14.013
724 HIS99 CA -15.52 24.448 13.359
725 HIS99 C -14.43 25.323 12.743
726 HIS99 0 -13.249 24.993 12.887
727 HIS99 CB -16.19 23.646 12.252
728 HIS99 CG -15.238 23.09 1 1.22
729 HIS99 ND1 -14.522 21.957 11.317
730 HIS99 CD2 -14.946 23.649 9.998
731 HIS99 CE1 -13.779 21.805 10.203
732 HIS99 NE2 -14.042 22.852 9.39
733 GLY100 N -14.792 26.524 12.322
734 GLY100 CA -13.832 27.439 11.702
735 GLY100 C -12.859 27.944 12.756
736 GLY100 0 -11.648 27.716 12.64
737 LYS101 N -13.419 28.385 13.872
738 LYS101 CA -12.626 28.895 14.993
739 LYS101 C -11.711 27.823 15.579
740 LYS101 0 -10.485 28.02 15.622
741 LYS101 CB -13.608 29.33 16.07
742 LYS101 CG -12.893 29.892 17.291
743 LYS101 CD -13.829 29.939 18.492
744 LYS101 CE -14.189 28.531 18.955
745 LYS101 NZ -12.986 27.796 19.381
746 ALA102 N -12.251 26.624 15.738
747 ALA102 CA -11.474 25.523 16.313
748 ALA102 C -10.381 25.022 15.373
749 ALA102 0 -9.243 24.859 15.828
750 ALA102 CB -12.425 24.379 16.645
751 ARG103 N -10.622 25.091 14.074
752 ARG103 CA -9.63 24.64 13.097
753 ARG103 C -8.492 25.644 12.958
754 ARG103 0 -7.325 25.236 13.033 755 ARG 103 CB -10.347 24.476 11.762
756 ARG 103 CG -9.496 23.785 10.705
757 ARG 103 CD -10.366 23.455 9.496
758 ARG103 NE -9.651 22.682 8.467
759 ARG 103 CZ -9.807 21.367 8.287
760 ARG103 NH1 -10.493 20.645 9.175
761 ARG103 NH2 -9.174 20.755 7.285
762 ARG104 N -8.811 26.923 13.087
763 ARG104 CA -7.775 27.957 13.006
764 ARG104 C -6.906 27.966 14.256
765 ARG 104 0 -5.675 28.083 14.149
766 ARG 104 CB -8.442 29.316 12.84
767 ARG104 CG -9.166 29.412 11.502
768 ARG104 CD -9.828 30.772 11.319
769 ARG104 NE -10.874 30.999 12.329
770 ARG104 CZ -11.061 32.171 12.941
771 ARG104 NH1 -10.231 33.188 12.701
772 ARG 104 NH2 -12.048 32.31 13.829
773 ASP105 N -7.5 27.625 15.388
774 ASP105 CA -6.718 27.493 16.616
775 ASP105 C -5.828 26.253 16.594
776 ASP105 O -4.602 26.392 16.716
777 ASP105 CB -7.67 27.427 17.806
778 ASP 105 CG -8.198 28.814 18.165
779 ASP105 OD1 -7.389 29.588 18.666
780 ASP105 OD2 -9.411 28.938 18.257
781 VAL106 N -6.379 25.125 16.173
782 VAL106 CA -5.636 23.86 16.236
783 VAL106 C -4.51 23.761 15.214
784 VAL106 0 -3.414 23.348 15.612
785 VAL106 CB -6.611 22.703 16.046
786 VAL106 CG1 -5.886 21.37 15.89
787 VAL106 CG2 -7.587 22.637 17.212
788 VAL107 N -4.641 24.427 14.075
789 VAL107 CA -3.565 24.397 13.071
790 VAL107 C -2.362 25.259 13.474
791 VAL107 0 -1.225 24.918 13.123
792 VAL107 CB -4.142 24.869 11.737
793 VAL107 CG1 -3.06 25.104 10.687
794 VAL107 CG2 -5.175 23.879 11.213
795 GLY108 N -2.576 26.155 14.426
796 GLY108 CA -1.49 26.985 14.953
797 GLY108 C -0.51 1 26.183 15.813
798 GLY108 O 0.685 26.491 15.837
799 GLU109 N -1.006 25.191 16.537
800 GLU109 CA -0.109 24.388 17.376
801 GLU109 C 0.121 22.976 16.836
802 GLU109 0 1.086 22.311 17.229
803 GLU109 CB -0.677 24.35 18.784
804 GLU 109 CG -0.577 25.728 19.424
805 GLU109 CD 0.886 26.1 19.659
806 GLU109 OE1 1.612 25.244 20.147
807 GLU109 OE2 1.22 27.255 19.442
808 PHE110 N -0.686 22.572 15.873 809 PHE110 CA -0.511 21.269 15.221
810 PHE110 C 0.017 21.468 13.798
811 PHE110 0 -0.547 20.963 12.819
812 PHE110 CB -1.866 20.568 15.206
813 PHE110 CG -1.834 19.088 14.838
814 PHE110 CD1 -0.842 18.264 15.352
815 PHE110 CD2 -2.808 18.564 13.998
816 PHE110 CE1 -0.819 16.915 15.019
817 PHE110 CE2 -2.784 17.216 13.665
818 PHE110 CZ -1.79 16.392 14.176
819 THR111 N 1.103 22.217 13.706
820 THR111 CA 1.68 22.585 12.409
821 THR111 C 2.353 21.411 1 1.71
822 THR111 0 2.846 20.47 12.346
823 THR111 CB 2.745 23.65 12.628
824 THR111 0G1 3.887 23.019 13.193
825 THR111 CG2 2.27 24.756 13.561
826 VAL112 N 2.564 21.605 10.417
827 VAL112 CA 3.302 20.63 9.605
828 VAL112 C 4.802 20.712 9.887
829 VAL112 0 5.492 19.689 9.86
830 VAL112 CB 3.026 20.929 8.134
831 VAL112 CG1 3.819 20.01 7.21
832 VAL112 CG2 1.535 20.833 7.832
833 LYS113 N 5.227 21.845 10.425
834 LYS113 CA 6.608 22.003 10.884
835 LYS113 C 6.892 21 .096 12.082
836 LYS113 0 7.864 20.332 12.044
837 LYS113 CB 6.795 23.456 1 1.298
838 LYS113 CG 8.168 23.696 11.914
839 LYS113 CD 8.232 25.064 12.582
840 LYS113 CE 7.189 25.184 13.692
841 LYS113 NZ 7.407 24.178 14.747
842 ARG114 N 5.945 21.013 13.008
843 ARG114 CA 6.085 20.094 14.141
844 ARG114 C 6.098 18.627 13.713
845 ARG114 0 7.034 17.912 14.09
846 ARG114 CB 4.916 20.313 15.096
847 ARG114 CG 4.939 19.283 16.22
848 ARG114 CD 3.721 19.388 17.131
849 ARG114 NE 3.696 20.666 17.858
850 ARG114 CZ 4.078 20.792 19.131
851 ARG114 NH1 3.903 21.953 19.766
852 ARG114 NH2 4.537 19.73 19.798
853 MET115 N 5.28 18.265 12.737
854 MET115 CA 5.23 16.862 12.311
855 MET115 C 6.438 16.467 1 1.456
856 MET115 0 6.99 15.378 1 1.662
857 MET115 CB 3.926 16.642 11.555
858 MET115 CG 2.739 16.915 12.474
859 MET115 SD 1.093 16.637 11.78
860 MET115 CE 1.057 17.94 10.532
861 LYS116 N 7.027 17.445 10.787
862 LYS116 CA 8.25 17.222 10.01 863 LYS116 C 9.492 17.156 10.902
864 LYS116 O 10.434 16.413 10.59
865 LYS116 CB 8.372 18.392 9.042
866 LYS116 CG 9.635 18.337 8.194
867 LYS116 CD 9.738 19.592 7.338
868 LYS116 CE 9.703 20.841 8.213
869 LYS116 NZ 9.753 22.063 7.395
870 ALA117 N 9.404 17.748 12.084
871 ALA117 CA 10.49 17.663 13.066
872 ALA117 C 10.354 16.43 13.962
873 ALA117 0 1 1.331 16 14.587
874 ALA117 CB 10.469 18.924 13.922
875 LEU118 N 9.185 15.81 13.933
876 LEU118 CA 8.975 14.544 14.64
877 LEU118 C 9.351 13.359 13.76
878 LEU118 0 9.591 12.26 14.275
879 LEU118 CB 7.512 14.434 15.05
880 LEU118 CG 7.153 15.474 16.104
881 LEU118 CD1 5.654 15.48 16.372
882 LEU118 CD2 7.934 15.246 17.393
883 GLN119 N 9.563 13.632 12.483
884 GLN119 CA 10.052 12.633 11.518
885 GLN119 C 11.263 1 1.797 11.989
886 GLN119 0 11.09 10.573 12.041
887 GLN119 CB 10.378 13.373 10.227
888 GLN119 CG 10.944 12.471 9.144
889 GLN119 CD 11.394 13.351 7.985
890 GLN119 OE1 11.701 12.857 6.894
891 GLN119 NE2 11.444 14.647 8.243
892 PRO120 N 12.388 12.361 12.439
893 PRO120 CA 13.485 1 1.486 12.885
894 PRO120 C 13.21 1 10.732 14.195
895 PRO120 0 13.761 9.639 14.381
896 PRO120 CB 14.672 12.386 13.05
897 PRO120 CG 14.237 13.832 12.892
898 PRO120 CD 12.764 13.785 12.533
899 ARG121 N 12.229 1 1.159 14.974
900 ARG121 CA 1 1.917 10.438 16.203
901 ARG121 C 11.02 9.25 15.868
902 ARG121 0 11.331 8.136 16.303
903 ARG121 CB 11.218 1 1.385 17.174
904 ARG121 CG 1 1.741 1 1.209 18.597
905 ARG121 CD 1 1.481 9.812 19.149
906 ARG121 NE 12.184 9.613 20.424
907 ARG121 CZ 12.714 8.443 20.784
908 ARG121 NH1 13.415 8.346 21.915
909 ARG121 NH2 12.601 7.386 19.977
910 ILE122 N 10.18 9.421 14.857
911 ILE122 CA 9.316 8.332 14.381
912 ILE122 C 10.135 7.27 13.656
913 ILE122 0 9.975 6.073 13.928
914 ILE122 CB 8.309 8.918 13.396
915 ILE122 CG1 7.456 9.995 14.052
916 ILE122 CG2 7.422 7.825 12.807 917 ILE122 CD1 6.509 10.636 13.044
918 GLN123 N 11.179 7.724 12.982
919 GLN123 CA 12.088 6.827 12.269
920 GLN123 C 12.914 5.997 13.245
921 GLN123 0 12.897 4.76 13.156
922 GLN123 CB 12.989 7.717 11.423
923 GLN123 CG 13.978 6.941 10.567
924 GLN123 CD 14.72 7.939 9.684
925 GL 123 OE1 15.954 7.96 9.626
926 GLN123 NE2 13.946 8.8 9.044
927 GLN124 N 13.295 6.633 14.34
928 GLN124 CA 14.049 5.959 15.394
929 GLN124 C 13.184 4.947 16.144
930 GLN124 0 13.621 3.798 16.284
931 GLN124 CB 14.544 7.04 16.345
932 GLN124 CG 15.429 6.495 17.455
933 GLN124 CD 15.912 7.668 18.3
934 GLN124 OE1 16.786 7.524 19.162
935 GLN124 NE2 15.357 8.832 18.008
936 ILE125 N 11.904 5.252 16.299
937 ILE125 CA 10.961 4.328 16.947
938 ILE125 C 10.716 3.072 16.112
939 ILE125 0 10.861 1.961 16.642
940 ILE125 CB 9.638 5.064 17.148
941 ILE125 CG1 9.792 6.214 18.13
942 ILE125 CG2 8.543 4.122 17.628
943 ILE125 CD1 8.487 6.984 18.275
944 VAL126 N 10.649 3.229 14.797
945 VAL126 CA 10.44 2.064 13.928
946 VAL126 C 11.693 1.2 13.87
947 VAL126 O 11.603 -0.021 14.062
948 VAL126 CB 10.119 2.529 12.513
949 VAL126 CG1 9.754 1.334 11.641
950 VAL126 CG2 8.988 3.544 12.503
951 ASP127 N 12.843 1.855 13.909
952 ASP127 CA 14.121 1.141 13.889
953 ASP127 C 14.314 0.34 15.17
954 ASP127 O 14.537 -0.876 15.088
955 ASP127 CB 15.258 2.153 13.769
956 ASP127 CG 15.158 2.967 12.481
957 ASP127 OD1 15.632 4.097 12.49
958 ASP127 OD2 14.686 2.426 11.489
959 GLU128 N 13.903 0.919 16.288
960 GLU128 CA 14.048 0.26 17.589
961 GLU128 C 13.094 -0.915 17.762
962 GLU128 0 13.527 -1.952 18.281
963 GLU128 CB 13.764 1.281 18.684
964 GLU128 CG 14.807 2.39 18.707
965 GLU128 CD 14.367 3.489 19.668
966 GLU128 OE1 13.584 4.333 19.247
967 GLU128 OE2 14.794 3.452 20.812
968 HIS129 N 11.934 -0.861 17.128
969 HIS129 CA 11.002 -1.985 17.237
970 HIS129 C 11.411 -3.142 16.333 971 HIS129 0 11.344 -4.297 16.772
972 HIS129 CB 9.592 -1.533 16.885
973 HIS129 CG 8.963 -0.57 17.87
974 HIS129 ND1 7.942 0.266 17.612
975 HIS129 CD2 9.3 -0.394 19.192
976 HIS129 CE1 7.647 0.969 18.724
977 HIS129 NE2 8.488 0.561 19.701
978 ILE130 N 12.061 -2.848 15.218
979 ILE130 CA 12.564 -3.95 14.394
980 ILE130 C 13.768 -4.577 15.089
981 ILE130 O 13.69 -5.756 15.459
982 ILE130 CB 12.968 -3.449 13.012
983 ILE130 CG1 11.841 -2.659 12.36
984 ILE130 CG2 13.341 -4.632 12.125
985 ILE130 CD1 12.258 -2.117 10.996
986 ASP131 N 14.65 -3.712 15.575
987 ASP131 CA 15.874 -4.12 16.283
988 ASP131 C 15.604 -5.033 17.473
989 ASP131 O 15.932 -6.226 17.435
990 ASP131 CB 16.565 -2.874 16.84
991 ASP131 CG 17.175 -1 .999 15.749
992 ASP131 OD1 17.222 -0.791 15.952
993 ASP131 OD2 17.743 -2.564 14.826
994 ALA132 N 14.882 -4.505 18.448
995 ALA132 CA 14.708 -5.198 19.727
996 ALA132 C 13.582 -6.228 19.763
997 ALA132 0 13.489 -6.983 20.738
998 ALA132 CB 14.465 -4.147 20.803
999 LEU133 N 12.752 -6.286 18.736
1000 LEU133 CA 11.712 -7.311 18.741
1001 LEU133 C 12.08 -8.444 17.798
1002 LEU133 0 12.567 -9.492 18.239
1003 LEU133 CB 10.366 -6.697 18.372
1004 LEU133 CG 9.925 -5.686 19.427
1005 LEU133 CD1 8.679 -4.93 18.987
1006 LEU 133 CD2 9.698 -6.366 20.773
1007 LEU134 N 11.901 -8.215 16.51 1
1008 LEU134 CA 12.139 -9.288 15.539
1009 LEU134 C 12.895 -8.777 14.32
1010 LEU134 0 12.319 -8.632 13.237
1011 LEU 134 CB 10.808 -9.885 15.087
1012 LEU134 CG 10.481 -11.234 15.731
1013 LEU134 CD1 11.66 -12.193 15.635
1014 LEU134 CD2 9.997 -1 1.115 17.173
1015 ALA135 N 14.194 -8.586 14.486
1016 ALA135 CA 15.038 -8.142 13.371
1017 ALA135 C 15.606 -9.293 12.538
1018 ALA135 0 16.184 -9.051 1 1.472
1019 ALA135 CB 16.193 -7.323 13.935
1020 GLY136 N 15.402 -10.522 12.984
1021 GLY136 CA 15.957 -11.679 12.272
1022 GLY136 C 14.865 -12.524 11.62
1023 GLY136 0 14.069 -12.022 10.829
1024 PR0137 N 14.906 -13.813 11.903 1025 PR0137 CA 13.938 -14.772 1 1.353
1026 PR0137 C 12.589 -14.709 12.067
1027 PR0137 0 12.21 -13.679 12.637
1028 PR0137 CB 14.573 -16.111 11.568
1029 PR0137 CG 15.748 -15.953 12.524
1030 PR0137 CD 15.899 -14.46 12.763
1031 LYS138 N 1 1.86 -15.811 11.945
1032 LYS138 CA 10.575 -16.043 12.639
1033 LYS138 C 9.412 -15.227 12.069
1034 LYS138 O 9.605 -14.143 11 .508
1035 LYS138 CB 10.733 -15.765 14.135
1036 LYS138 CG 11.795 -16.66 14.765
1037 LYS138 CD 12.022 -16.303 16.23
1038 LYS138 CE 13.155 -17.128 16.829
1039 LYS138 NZ 12.859 -18.567 16.746
1040 PR0139 N 8.256 -15.868 12.022
1041 PR0139 CA 6.996 -15.155 11.797
1042 PR0139 C 6.612 -14.289 12.995
1043 PR0139 O 6.167 -14.795 14.031
1044 PR0139 CB 5.979 -16.232 1 1.583
1045 PR0139 CG 6.595 -17.575 1 1.948
1046 PR0139 CD 8.04 -17.286 12.322
1047 ALA140 N 6.749 -12.987 12.824
1048 ALA140 CA 6.355 -12.036 13.868
1049 ALA140 C 5.006 -11.411 13.552
1050 ALA140 0 4.591 -11.359 12.391
1051 ALA140 CB 7.395 -10.931 13.953
1052 ASP141 N 4.297 -10.989 14.582
1053 ASP141 CA 3.051 -10.264 14.336
1054 ASP141 C 3.363 -8.779 14.165
1055 ASP141 O 3.466 -8.032 15.149
1056 ASP141 CB 2.073 -10.492 15.481
1057 ASP141 CG 0.741 -9.84 15.132
1058 ASP141 OD1 0.583 -8.673 15.465
1059 ASP141 OD2 0.016 -10.426 14.338
1060 LEU 142 N 3.261 -8.332 12.923
1061 LEU 142 CA 3.692 -6.983 12.541
1062 LEU142 C 2.753 -5.893 13.048
1063 LEU142 0 3.232 -4.806 13.4
1064 LEU142 CB 3.78 -6.96 11.012
1065 LEU142 CG 4.336 -5.66 10.428
1066 LEU142 CD1 5.227 -5.944 9.225
1067 LEU142 CD2 3.241 -4.659 10.063
1068 VAL143 N 1.509 -6.243 13.329
1069 VAL143 CA 0.585 -5.247 13.868
1070 VAL143 C 0.992 -4.867 15.287
1071 VAL143 O 1.481 -3.748 15.477
1072 VAL143 CB -0.829 -5.809 13.859
1073 VAL143 CG1 -1.823 -4.772 14.374
1074 VAL143 CG2 -1.212 -6.26 12.457
1075 GLN144 N 1.184 -5.874 16.1 19
1076 GLN144 CA 1.491 -5.656 17.535
1077 GLN144 C 2.945 -5.249 17.797
1078 GLN144 O 3.212 -4.566 18.791 1079 GLN144 CB 1.203 -6.982 18.23
1080 GLN144 CG 1.485 -6.966 19.726
1081 GLN144 CD 1.232 -8.364 20.277
1082 GLN144 0E1 1.815 -8.777 21.285
1083 GLN144 NE2 0.374 -9.091 19.582
1084 ALA145 N 3.842 -5.539 16.87
1085 ALA145 CA 5.246 -5.186 17.088
1086 ALA145 C 5.672 -3.884 16.412
1087 ALA145 0 6.594 -3.211 16.888
1088 ALA145 CB 6.108 -6.329 16.561
1089 LEU146 N 4.988 -3.499 15.349
1090 LEU146 CA 5.424 -2.324 14.588
1091 LEU146 C 4.294 -1.342 14.317
1092 LEU146 0 4.308 -0.207 14.815
1093 LEU146 CB 5.964 -2.825 13.252
1094 LEU146 CG 7.225 -3.659 13.433
1095 LEU146 CD1 7.467 -4.589 12.254
1096 LEU146 CD2 8.432 -2.772 13.705
1097 SER147 N 3.245 -1.868 13.71
1098 SER147 CA 2.169 -1.053 13.134
1099 SER147 C 1.274 -0.369 14.164
1100 SER147 0 0.727 0.708 13.911
1101 SER147 CB 1.325 -2.001 12.301
1102 SER147 OG 0.198 -1.277 11.856
1103 LEU 148 N 1.174 -0.97 15.331
1104 LEU 148 CA 0.484 -0.358 16.464
1105 LEU148 C 1.433 0.51 17.316
1106 LEU 148 O 1.132 1.707 17.436
1107 LEU148 CB -0.204 -1.475 17.259
1108 LEU148 CG -1.13 -0.987 18.372
1109 LEU 148 CD1 -2.317 -1.93 18.53
1110 LEU 148 CD2 -0.404 -0.81 19.703
1111 PR0149 N 2.553 0.008 17.848
1112 PR0149 CA 3.299 0.829 18.809
1113 PR0149 C 3.987 2.052 18.203
1114 PR0149 0 4.043 3.07 18.9
1115 PR0149 CB 4.31 -0.075 19.439
1116 PR0149 CG 4.261 -1.43 18.764
1117 PR0149 CD 3.122 -1.352 17.766
1118 VAL150 N 4.316 2.051 16.918
1119 VAL150 CA 4.873 3.276 16.323
1120 VAL150 C 3.867 4.442 16.385
1121 VAL150 O 4.127 5.334 17.201
1122 VAL150 CB 5.399 3.041 14.905
1123 VAL150 CG1 5.892 4.345 14.284
1124 VAL150 CG2 6.514 2.004 14.891
1125 PR0151 N 2.695 4.396 15.75
1126 PR0151 CA 1.816 5.574 15.799
1127 PR0151 C 1.187 5.843 17.167
1128 PR0151 O 1.009 7.014 17.532
1129 PR0151 CB 0.742 5.307 14.799
1130 PR0151 CG 0.88 3.895 14.266
1131 PR0151 CD 2.136 3.336 14.896
1132 SER152 N 1.059 4.817 17.993 1133 SER152 CA 0.504 5.027 19.326
1134 SER152 C 1.506 5.73 20.241
1135 SER152 o 1.136 6.724 20.879
1136 SER152 CB 0.1 17 3.671 19.898
1137 SER152 OG -0.849 3.09 19.031
1138 LEU153 N 2.785 5.428 20.079
1139 LEU153 CA 3.817 6.088 20.883
1140 LEU153 C 4.17 7.458 20.312
1141 LEU153 O 4.34 8.406 21.091
1142 LEU153 CB 5.06 5.206 20.899
1143 LEU153 CG 6.168 5.789 21.769
1144 LEU153 CD1 5.708 5.934 23.216
1145 LEU153 CD2 7.424 4.928 21.689
1146 VAL154 N 3.995 7.622 19.009
1147 VAL154 CA 4.232 8.925 18.383
1148 VAL154 C 3.185 9.944 18.813
1149 VAL154 0 3.566 11.036 19.256
1150 VAL154 CB 4.205 8.777 16.864
1151 VAL154 CG1 4.148 10.134 16.169
1152 VAL154 CG2 5.402 7.976 16.368
1153 ILE155 N 1.945 9.513 18.977
1154 ILE155 CA 0.935 10.467 19.431
1155 ILE155 C 0.932 10.621 20.956
1156 ILE155 O 0.6 1 1.709 21.446
1157 ILE155 CB -0.433 10.065 18.902
1158 ILE155 CG1 -1.405 11.218 19.089
1159 ILE155 CG2 -0.956 8.814 19.593
1160 ILE155 CD1 -0.954 12.46 18.327
1161 CYS156 N 1.569 9.697 21 .66
1162 CYS156 CA 1.787 9.891 23.093
1163 CYS156 C 2.835 10.973 23.317
1164 CYS 156 O 2.551 1 1.93 24.047
1165 CYS 156 CB 2.261 8.59 23.732
1166 CYS 156 SG 1.018 7.295 23.935
1167 GLU157 N 3.838 1 1.005 22.454
1168 GLU157 CA 4.902 12.011 22.559
1169 GLU157 C 4.512 13.364 21.957
1170 GLU157 O 5.08 14.393 22.339
1171 GLU157 CB 6.109 11.474 21.801
1172 GLU157 CG 6.57 10.14 22.372
1173 GLU 157 CD 7.588 9.499 21.434
1174 GLU157 OE1 8.764 9.522 21.767
1175 GLU157 OE2 7.162 8.932 20.437
1176 LEU158 N 3.5 13.37 21.107
1177 LEU158 CA 3.042 14.616 20.492
1178 LEU158 C 2.03 15.308 21.401
1179 LEU158 O 2.089 16.535 21.586
1180 LEU 158 CB 2.412 14.232 19.149
1181 LEU 158 CG 2.171 15.389 18.175
1182 LEU158 CD1 2.086 14.868 16.745
1183 LEU158 CD2 0.93 16.213 18.504
1184 LEU159 N 1.21 1 14.518 22.072
1185 LEU 159 CA 0.183 15.099 22.929
1186 LEU159 C 0.747 15.411 24.309 1187 LEU159 0 0.832 16.594 24.66
1188 LEU159 CB -0.979 14.12 23.044
1189 LEU159 CG -2.24 14.827 23.524
1190 LEU159 CD1 -2.637 15.915 22.535
1191 LEU159 CD2 -3.385 13.84 23.707
1192 GLY160 N 1.347 14.417 24.943
1193 GLY160 CA 1.874 14.572 26.306
1194 GLY160 C 1.433 13.413 27.2
1195 GLY160 0 1.183 13.581 28.398
1196 VAL161 N 1.366 12.238 26.601
1197 VAL161 CA 0.869 1 1.037 27.284
1198 VAL161 C 2.006 10.078 27.635
1199 VAL161 0 2.715 9.58 26.752
1200 VAL161 CB -0.11 1 10.348 26.338
1201 VAL161 CG1 -0.763 9.125 26.976
1202 VAL161 CG2 -1.175 11.327 25.866
1203 PR0162 N 2.15 9.806 28.922
1204 PR0162 CA 3.13 8.826 29.4
1205 PR0162 C 2.838 7.41 28.901
1206 PR0162 0 1.68 7.021 28.689
1207 PR0162 CB 3.066 8.899 30.894
1208 PR0162 CG 1.972 9.874 31.302
1209 PR0162 CD 1.358 10.384 30.009
1210 TYR163 N 3.882 6.593 28.912
1211 TYR163 CA 3.793 5.209 28.41
1212 TYR 163 C 3.104 4.257 29.393
1213 TYR163 0 2.72 3.153 29.002
1214 TYR163 CB 5.192 4.684 28.071
1215 TYR163 CG 6.111 4.367 29.254
1216 TYR163 CD1 6.895 5.363 29.826
1217 TYR163 CD2 6.181 3.067 29.743
1218 TYR163 CE1 7.726 5.066 30.898
1219 TYR 163 CE2 7.01 1 2.768 30.815
1220 TYR 163 CZ 7.78 3.77 31.392
1221 TYR 163 OH 8.589 3.478 32.467
1222 SER164 N 2.806 4.747 30.589
1223 SER164 CA 2.007 3.992 31.561
1224 SER164 C 0.51 4.158 31.301
1225 SER164 O -0.319 3.566 32
1226 SER164 CB 2.303 4.538 32.952
1227 SER164 OG 1.766 5.854 33.017
1228 ASP165 N 0.173 5.056 30.389
1229 ASP165 CA -1.215 5.273 30.002
1230 ASP165 C -1.445 4.619 28.649
1231 ASP165 0 -2.542 4.126 28.344
1232 ASP165 CB -1.463 6.775 29.944
1233 ASP165 CG -1.331 7.38 31.343
1234 ASP 165 OD1 -2.358 7.592 31.968
1235 ASP165 OD2 -0.21 7.683 31.732
1236 HIS166 N -0.343 4.475 27.929
1237 HIS166 CA -0.299 3.666 26.71
1238 HIS166 C -0.63 2.223 27.09
1239 HIS166 0 -0.515 1.86 28.266
1240 HIS166 CB 1.11 3.792 26.129 1241 HIS166 CG 1.387 3.018 24.856
1242 HIS166 ND1 0.916 3.295 23.626
1243 HIS166 CD2 2.174 1.896 24.741
1244 HIS166 CE1 1.378 2.374 22.756
1245 HIS166 NE2 2.156 1.51 23.445
1246 GLU167 N -1.239 1.506 26.155
1247 GLU167 CA -1.754 0.127 26.342
1248 GLU167 C -3.12 0.07 27.045
1249 GLU167 0 -4.04 -0.549 26.498
1250 GLU167 CB -0.743 -0.752 27.077
1251 GLU167 CG 0.54 -0.919 26.271
1252 GLU167 CD 1.593 -1.638 27.107
1253 GLU167 OE1 1.207 -2.478 27.907
1254 GLU167 OE2 2.766 -1.386 26.875
1255 PHE168 N -3.329 0.846 28.097
1256 PHE168 CA -4.652 0.854 28.729
1257 PHE168 C -5.586 1.779 27.954
1258 PHE168 O -6.692 1.36 27.587
1259 PHE168 CB -4.53 1.304 30.179
1260 PHE168 CG -5.824 1.165 30.977
1261 PHE168 CD1 -6.696 0.117 30.709
1262 PHE168 CD2 -6.126 2.078 31.979
1263 PHE168 CE1 -7.875 -0.01 31.432
1264 PHE168 CE2 -7.305 1.951 32.703
1265 PHE168 CZ -8.18 0.908 32.428
1266 PHE169 N -5.016 2.851 27.423
1267 PHE169 CA -5.773 3.717 26.514
1268 PHE169 C -5.944 3.029 25.162
1269 PHE169 0 -7.031 3.098 24.579
1270 PHE169 CB -5.003 5.024 26.316
1271 PHE169 CG -5.736 6.088 25.497
1272 PHE169 CD1 -6.361 7.145 26.147
1273 PHE169 CD2 -5.758 6.022 24.109
1274 PHE169 CE1 -7.037 8.111 25.413
1275 PHE169 CE2 -6.436 6.985 23.375
1276 PHE169 CZ -7.082 8.028 24.027
1277 GLN170 N -5.019 2.134 24.851
1278 GLN170 CA -5.042 1.407 23.584
1279 GLN170 C -6.148 0.359 23.564
1280 GLN170 O -6.903 0.281 22.588
1281 GLN170 CB -3.705 0.693 23.444
1282 GLN170 CG -3.611 -0.121 22.163
1283 GLN170 CD -3.411 0.818 20.985
1284 GLN170 OE1 -2.392 1.516 20.917
1285 GLN170 NE2 -4.408 0.885 20.125
1286 SER171 N -6.372 -0.281 24.698
1287 SER171 CA -7.424 -1.295 24.769
1288 SER171 C -8.811 -0.665 24.856
1289 SER171 O -9.706 -1.107 24.125
1290 SER171 CB -7.171 -2.209 25.967
1291 SER171 OG -7.132 -1.427 27.155
1292 CYS172 N -8.906 0.51 1 25.457
1293 CYS172 CA 10.204 1.184 25.525
1294 CYS172 C 10.569 1.806 24.18 1295 CYS172 O -11.691 1.593 23.703
1296 CYS172 CB -10.149 2.266 26.593
1297 CYS172 SG -9.817 1.701 28.277
1298 SER173 N -9.559 2.253 23.453
1299 SER173 CA ■ -9.781 2.826 22.121
1300 SER173 C -9.949 1.765 21.033
1301 SER173 0 -10.363 2.096 19.916
1302 SER173 CB -8.612 3.741 21.775
1303 SER173 OG -7.418 2.972 21.747
1304 SER174 N -9.687 0.509 21.356
1305 SER174 CA -10.001 -0.575 20.427
1306 SER174 C -1 1.395 -1.133 20.713
1307 SER174 0 -12.128 -1.464 19.771
1308 SER174 CB -8.949 -1.668 20.566
1309 SER174 OG -7.691 -1.099 20.225
1310 ARG 175 N -1 1.85 -0.974 21.949
1311 ARG 175 CA -13.224 -1.373 22.294
1312 ARG175 C -14.226 -0.342 21.787
1313 ARG 175 O -15.298 -0.72 21.298
1314 ARG 175 CB -13.371 -1.514 23.805
1315 ARG 175 CG -12.486 -2.622 24.36
1316 ARG175 CD -12.761 -2.871 25.837
1317 ARG175 NE -12.544 -1.662 26.646
1318 ARG175 CZ -13.06 -1.512 27.869
1319 ARG175 NH1 -12.78 -0.421 28.584
1320 ARG175 NH2 -13.816 -2.478 28.397
1321 MET176 N -13.739 0.876 21.61 1
1322 MET176 CA -14.516 1.951 20.985
1323 MET176 C -14.649 1.843 19.467
1324 ET176 O -15.284 2.71 18.855
1325 MET176 CB -13.806 3.259 21.259
1326 MET176 CG -13.86 3.657 22.721
1327 MET176 SD -13.036 5.228 23.009
1328 MET176 CE -13.493 5.972 21.425
1329 LEU177 N -14.036 0.846 18.853
1330 LEU177 CA -14.184 0.676 17.411
1331 LEU177 C -15.219 -0.388 17.059
1332 LEU177 O -15.593 -0.533 15.886
1333 LEU 177 CB -12.836 0.29 16.827
1334 LEU177 CG -1 1.824 1.426 16.9
1335 LEU177 CD1 -10.568 1.035 16.135
1336 LEU177 CD2 -12.4 2.713 16.32
1337 SER178 N -15.706 -1.099 18.062
1338 SER178 CA -16.693 -2.149 17.793
1339 SER178 C -18.117 -1.673 18.08
1340 SER178 O -18.628 -1.797 19.2
1341 SER178 CB -16.344 -3.402 18.599
1342 SER178 OG -16.323 -3.095 19.988
1343 ARG 179 N -18.765 -1.209 17.022
1344 ARG179 CA -20.148 -0.697 17.082
1345 ARG179 C -21.17 -1.832 17.192
1346 ARG 179 O -21.743 -2.266 16.187
1347 ARG 179 CB -20.4 0.027 15.768
1348 ARG 179 CG -19.286 1.01 15.431 1349 ARG179 CD -19.098 1.114 13.922
1350 ARG179 NE -18.628 -0.179 13.39
1351 ARG179 CZ -19.337 -0.967 12.576
1352 ARG179 NH1 -18.903 -2.2 12.307
1353 ARG179 NH2 -20.546 -0.583 12.156
1354 GLU180 N -21.375 -2.313 18.405
1355 GLU180 CA -22.261 -3.454 18.627
1356 GLU180 C -23.553 -3.038 19.318
1357 GLU180 0 -23.676 -1.923 19.833
1358 GLU180 CB -21.517 -4.449 19.508
1359 GLU180 CG -20.175 -4.838 18.899
1360 GLU180 CD -19.442 -5.795 19.828
1361 GLU180 OE1 -20.124 -6.592 20.457
1362 GLU180 0E2 -18.219 -5.763 19.834
1363 VAL181 N -24.492 -3.969 19.374
1364 VAL181 CA -25.72 -3.744 20.147
1365 VAL181 C -25.463 -4.084 21.616
1366 VAL181 0 -26.012 -3.452 22.525
1367 VAL181 CB -26.823 -4.627 19.569
1368 VAL181 CG1 -28.119 -4.498 20.362
1369 VAL181 CG2 -27.062 -4.297 18.099
1370 THR182 N -24.438 -4.897 21.822
1371 THR182 CA -23.936 -5.215 23.166
1372 THR182 C -22.767 -4.302 23.547
1373 THR182 O -21.827 -4.739 24.222
1374 THR182 CB -23.459 -6.664 23.183
1375 THR182 OG1 -22.348 -6.789 22.302
1376 THR182 CG2 -24.551 -7.622 22.719
1377 ALA183 N -22.882 -3.025 23.214
1378 ALA183 CA -21.777 -2.062 23.352
1379 ALA183 C -21.585 -1.459 24.748
1380 ALA183 O -21.031 -0.36 24.855
1381 ALA183 CB -21.993 -0.933 22.352
1382 GLU184 N -21.832 -2.224 25.799
1383 GLU184 CA -21.706 -1.688 27.158
1384 GLU184 C -20.242 -1.537 27.568
1385 GLU184 0 -19.888 -0.536 28.199
1386 GLU184 CB -22.415 -2.636 28.117
1387 GLU184 CG -22.387 -2.118 29.551
1388 GLU184 CD -23.145 -3.086 30.454
1389 GLU184 OE1 -22.924 -3.047 31.655
1390 GLU184 OE2 -23.953 -3.832 29.917
1391 GLU185 N -19.374 -2.344 26.978
1392 GLU185 CA -17.936 -2.201 27.244
1393 GLU185 C -17.307 -1.143 26.337
1394 GLU185 O -16.294 -0.542 26.708
1395 GLU185 CB -17.216 -3.541 27.073
1396 GLU185 CG -17.189 -4.388 28.351
1397 GLU185 CD -18.561 -4.959 28.705
1398 GLU185 OE1 -19.308 -5.237 27.774
1399 GLU185 OE2 -18.899 -4.953 29.879
1400 ARG186 N -18.044 -0.74 25.316
1401 ARG186 CA -17.607 0.339 24.434
1402 ARG186 C -18.008 1.676 25.049 1403 ARG186 0 -17.213 2.624 25.056
1404 ARG186 CB -18.317 0.135 23.103
1405 ARG186 CG -17.936 1.175 22.064
1406 ARG 186 CD -18.718 0.942 20.779
1407 ARG186 NE -18.234 1.82 19.708
1408 ARG186 CZ -19.002 2.705 19.073
1409 ARG186 NH1 -20.296 2.816 19.386
1410 ARG186 NH2 -18.474 3.477 18.122
1411 MET187 N -19.086 1.627 25.817
1412 MET187 CA -19.545 2.775 26.601
1413 MET187 C -18.651 2.978 27.82
1414 MET187 0 -18.251 4.113 28.111
1415 MET187 CB -20.958 2.459 27.07
1416 ET187 CG -21.569 3.594 27.88
1417 MET187 SD -23.104 3.161 28.726
1418 MET187 CE -23.995 2.43 27.333
1419 THR188 N -18.13 1 .874 28.332
1420 THR188 CA -17.174 1.925 29.44
1421 THR188 C -15.819 2.442 28.969
1422 THR188 0 -15.237 3.307 29.634
1423 THR188 CB -17.013 0.516 30
1424 THR188 0G1 -18.274 0.091 30.499
1425 THR188 CG2 -16.01 1 0.473 31.149
1426 ALA189 N -15.477 2.139 27.726
1427 ALA189 CA -14.243 2.652 27.133
1428 ALA189 C -14.333 4.147 26.838
1429 ALA189 0 -13.403 4.884 27.192
1430 ALA189 CB -13.996 1.884 25.844
1431 PHE190 N -15.518 4.605 26.461
1432 PHE190 CA -15.762 6.042 26.26
1433 PHE190 C -15.632 6.81 27.572
1434 PHE190 0 -14.815 7.736 27.678
1435 PHE190 CB -17.194 6.258 25.773
1436 PHE190 CG -17.566 5.772 24.375
1437 PHE190 CD1 -16.652 5.837 23.334
1438 PHE190 CD2 -18.848 5.293 24.139
1439 PHE190 CE1 -17.013 5.406 22.063
1440 PHE190 CE2 -19.208 4.861 22.871
1441 PHE190 CZ -18.291 4.917 21.832
1442 GLU191 N -16.281 6.297 28.605
1443 GLU191 CA -16.292 6.969 29.908
1444 GLU191 C -14.921 6.971 30.575
1445 GLU191 O -14.432 8.05 30.936
1446 GLU191 CB -17.28 6.233 30.802
1447 GLU191 CG -17.348 6.853 32.193
1448 GLU191 CD -18.28 6.023 33.069
1449 GLU191 OE1 -18.424 4.843 32.777
1450 GLU191 OE2 -18.894 6.597 33.957
1451 SER192 N -14.202 5.866 30.453
1452 SER192 CA -12.877 5.76 31.071
1453 SER192 C -11.82 6.545 30.301
1454 SER192 O -10.892 7.077 30.921
1455 SER192 CB -12.467 4.291 31.126
1456 SER 192 OG -12.37 3.801 29.792 1457 LEU193 N -12.082 6.827 29.036
1458 LEU193 CA -11.152 7.64 28.256
1459 LEU193 C -11.441 9.127 28.435
1460 LEU193 O -10.514 9.943 28.377
1461 LEU193 CB -11.243 7.218 26.798
1462 LEU193 CG -9.95 6.547 26.343
1463 LEU193 CD1 -9.372 5.603 27.391
1464 LEU193 CD2 -10.117 5.842 25.003
1465 GLU194 N -12.63 9.438 28.923
1466 GLU194 CA -12.93 10.811 29.327
1467 GLU194 C -12.368 1 1.096 30.711
1468 GLU194 0 -11.82 12.182 30.938
1469 GLU194 CB -14.437 1 1.017 29.337
1470 GLU194 CG -14.97 1 1.164 27.922
1471 GLU194 CD -14.35 12.405 27.287
1472 GLU194 OE1 -13.524 12.237 26.403
1473 GLU194 OE2 -14.826 13.487 27.596
1474 ASN 195 N -12.26 10.058 31.523
1475 ASN 195 CA -11.645 10.215 32.844
1476 ASN 195 C -10.126 10.268 32.715
1477 ASN 195 O -9.479 11.112 33.356
1478 ASN 195 CB -12.076 9.054 33.736
1479 ASN 195 CG -13.582 9.104 34.008
1480 ASN 195 OD1 -14.272 8.076 33.958
1481 ASN195 ND2 -14.076 10.3 34.287
1482 TYR196 N -9.64 9.613 31.673
1483 TYR196 CA -8.236 9.692 31.267
1484 TYR 196 C -7.88 1 1.104 30.817
1485 TYR 196 O -6.953 11.707 31.371
1486 TYR196 CB -8.065 8.757 30.078
1487 TYR196 CG -7.054 7.633 30.253
1488 TYR196 CD1 -5.806 7.739 29.658
1489 TYR196 CD2 -7.39 6.5 30.982
1490 TYR196 CE1 -4.884 6.711 29.799
1491 TYR 196 CE2 -6.466 5.472 31.126
1492 TYR 196 CZ -5.216 5.581 30.532
1493 TYR 196 OH -4.301 4.56 30.661
1494 LEU197 N -8.76 11.708 30.032
1495 LEU 197 CA -8.543 13.084 29.57
1496 LEU 197 C -8.718 14.131 30.663
1497 LEU 197 O -7.966 15.11 30.658
1498 LEU197 CB -9.53 13.394 28.458
1499 LEU197 CG -9.196 12.63 27.188
1500 LEU197 CD1 -10.305 12.816 26.168
1501 LEU197 CD2 -7.852 13.072 26.619
1502 ASP198 N -9.49 13.83 31.695
1503 ASP198 CA -9.6 14.749 32.834
1504 ASP198 C -8.257 14.841 33.551
1505 ASP198 O -7.698 15.938 33.694
1506 ASP198 CB -10.627 14.209 33.829
1507 ASP198 CG -12.016 14.052 33.214
1508 ASP198 OD1 -12.428 14.949 32.492
1509 ASP198 OD2 -12.706 13.123 33.627
1510 GLU199 N -7.629 13.685 33.696 1511 GLU199 CA -6.334 13.598 34.368
1512 GLU199 C -5.221 14.182 33.506
1513 GLU199 0 -4.521 15.091 33.965
1514 GLU 199 CB -6.053 12.121 34.608
1515 GLU199 CG -7.157 11.486 35.444
1516 GLU 199 CD -7.084 9.966 35.341
1517 GLU 199 OE1 -7.502 9.312 36.287
1518 GLU 199 OE2 -6.717 9.484 34.277
1519 LEU200 N -5.26 13.885 32.219
1520 LEU200 CA -4.209 14.315 31.289
1521 LEU200 C -4.22 15.821 31.02
1522 LEU200 O -3.168 16.467 31.128
1523 LEU200 CB -4.459 13.57 29.982
1524 LEU200 CG -3.421 13.888 28.914
1525 LEU200 CD1 -2.036 13.415 29.338
1526 LEU200 CD2 -3.815 13.251 27.587
1527 VAL201 N -5.406 16.402 30.938
1528 VAL201 CA -5.521 17.832 30.642
1529 VAL201 C -5.196 18.69 31.859
1530 VAL201 0 -4.491 19.7 31.709
1531 VAL201 CB -6.945 18.094 30.153
1532 VAL201 CG1 -7.324 19.57 30.184
1533 VAL201 CG2 -7.159 17.508 28.761
1534 THR202 N -5.431 18.149 33.045
1535 THR202 CA -5.103 18.884 34.267
1536 THR202 C -3.643 18.677 34.654
1537 THR202 O -2.981 19.624 35.101
1538 THR202 CB -6.02 18.391 35.378
1539 THR202 OG1 -7.359 18.589 34.945
1540 THR202 CG2 -5.814 19.173 36.671
1541 LYS203 N -3.08 17.579 34.182
1542 LYS203 CA -1.672 17.284 34.434
1543 LYS203 C -0.755 18.1 13 33.539
1544 LYS203 0 0.305 18.539 34.015
1545 LYS203 CB -1.474 15.79 34.209
1546 LYS203 CG -0.041 15.331 34.439
1547 LYS203 CD 0.025 13.812 34.569
1548 LYS203 CE -0.557 13.099 33.352
1549 LYS203 NZ 0.265 13.325 32.154
1550 LYS204 N -1.256 18.545 32.391
1551 LYS204 CA -0.505 19.493 31.553
1552 LYS204 C -0.788 20.954 31.896
1553 LYS204 0 -0.031 21.846 31.499
1554 LYS204 CB -0.821 19.218 30.092
1555 LYS204 CG -0.076 17.965 29.664
1556 LYS204 CD 1.425 18.213 29.729
1557 LYS204 CE 2.202 16.906 29.69
1558 LYS204 NZ 1.918 16.1 15 30.896
1559 GLU205 N -1.781 21.179 32.741
1560 GLU205 CA -2.033 22.524 33.264
1561 GLU205 C -1.215 22.777 34.526
1562 GLU205 O -1.027 23.931 34.927
1563 GLU205 CB -3.518 22.66 33.57
1564 GLU205 CG -4.309 22.726 32.273 1565 GLU205 CD -5.788 22.444 32.51
1566 GLU205 OE1 -6.547 22.661 31.573
1567 GLU205 OE2 -6.093 21.798 33.504
1568 ALA206 N -0.712 21.707 35.12
1569 ALA206 CA 0.208 21.844 36.249
1570 ALA206 C 1.649 21.772 35.756
1571 ALA206 0 2.464 22.661 36.034
1572 ALA206 CB -0.059 20.711 37.233
1573 ASN207 N 1.92 20.765 34.945
1574 ASN207 CA 3.253 20.587 34.366
1575 ASN207 C 3.307 21 .204 32.976
1576 ASN207 O 2.922 20.574 31.982
1577 ASN207 CB 3.568 19.096 34.27
1578 ASN207 CG 3.565 18.441 35.65
1579 ASN207 OD1 4.361 18.793 36.527
1580 ASN207 ND2 2.641 17.515 35.835
1581 ALA208 N 3.786 22.435 32.932
1582 ALA208 CA 3.924 23.166 31.668
1583 ALA208 C 5.045 22.601 30.795
1584 ALA208 0 6.235 22.809 31.052
1585 ALA208 CB 4.202 24.631 31.982
1586 THR209 N 4.636 21.874 29.77
1587 THR209 CA 5.581 21.251 28.834
1588 THR209 C 5.499 21.873 27.446
1589 THR209 O 4.665 22.737 27.168
1590 THR209 CB 5.253 19.774 28.706
1591 THR209 OG1 3.938 19.693 28.18
1592 THR209 CG2 5.296 19.059 30.052
1593 GLU210 N 6.34 21.363 26.562
1594 GLU210 CA 6.41 1 21.861 25.18
1595 GLU210 C 5.542 21.076 24.19
1596 GLU210 0 5.586 21.361 22.989
1597 GLU210 CB 7.861 21.818 24.692
1598 GLU210 CG 8.791 22.752 25.467
1599 GLU210 CD 9.689 21.967 26.424
1600 GLU210 OE1 9.258 20.906 26.861
1601 GLU210 OE2 10.778 22.442 26.707
1602 ASP211 N 4.786 20.097 24.662
1603 ASP211 CA 3.977 19.273 23.746
1604 ASP211 C 2.732 20.003 23.249
1605 ASP211 0 2.331 21.027 23.817
1606 ASP211 CB 3.605 17.956 24.418
1607 ASP211 CG 2.942 18.154 25.781
1608 ASP211 OD1 2.12 19.054 25.925
1609 ASP211 OD2 3.336 17.427 26.681
1610 ASP212 N 2.034 19.382 22.309
1611 ASP212 CA 0.906 20.044 21.64
1612 ASP212 C -0.365 20.067 22.496
1613 ASP212 0 -1.223 20.928 22.262
1614 ASP212 CB 0.653 19.331 20.312
1615 ASP212 CG -0.355 20.078 19.435
1616 ASP212 OD1 -0.505 21.277 19.623
1617 ASP212 OD2 -1.022 19.415 18.653
1618 LEU213 N -0.398 19.318 23.589 1619 LEU213 CA -1.529 19.451 24.508
1620 LEU213 C -1.474 20.819 25.18
1621 LEU213 O -2.372 21.628 24.907
1622 LEU213 CB -1.498 18.346 25.557
1623 LEU213 CG -2.75 18.365 26.427
1624 LEU213 CD1 -4.011 18.334 25.574
1625 LEU213 CD2 -2.751 17.202 27.41
1626 LEU214 N -0.306 21.193 25.691
1627 LEU214 CA -0.187 22.52 26.307
1628 LEU214 C -0.094 23.607 25.241
1629 LEU214 0 -0.613 24.711 25.445
1630 LEU214 CB 1.034 22.608 27.21
1631 LEU214 CG 0.987 23.94 27.954
1632 LEU214 CD1 -0.18 23.972 28.934
1633 LEU214 CD2 2.288 24.25 28.671
1634 GLY215 N 0.35 23.222 24.056
1635 GLY215 CA 0.292 24.093 22.882
1636 GLY215 C -1.121 24.618 22.629
1637 GLY215 0 -1.327 25.838 22.586
1638 ARG216 N -2.103 23.733 22.582
1639 ARG216 CA -3.473 24.198 22.351
1640 ARG216 C -4.154 24.727 23.616
1641 ARG216 0 -5.077 25.542 23.506
1642 ARG216 CB -4.3 23.068 21.765
1643 ARG216 CG -3.636 22.456 20.539
1644 ARG216 CD -4.555 21.415 19.912
1645 ARG216 NE -5.402 20.812 20.953
1646 ARG216 CZ -5.073 19.756 21.699
1647 ARG216 NH1 -3.937 19.093 21.471
1648 ARG216 NH2 -5.905 19.342 22.652
1649 GLN217 N -3.583 24.445 24.776
1650 GLN217 CA -4.102 25.002 26.031
1651 GLN217 C -3.624 26.435 26.28
1652 GLN217 0 -4.198 27.131 27.125
1653 GLN217 CB -3.648 24.109 27.181
1654 GLN217 CG -4.235 22.711 27.043
1655 GLN217 CD -3.691 21.772 28.1 14
1656 GLN217 OE1 -2.544 21.311 28.052
1657 GLN217 NE2 -4.552 21.446 29.059
1658 ILE218 N -2.608 26.875 25.551
1659 ILE218 CA -2.179 28.276 25.625
1660 ILE218 C -2.638 29.086 24.409
1661 ILE218 O -2.242 30.25 24.267
1662 ILE218 CB -0.66 28.352 25.774
1663 ILE218 CG1 0.061 27.755 24.572
1664 ILE218 CG2 -0.211 27.665 27.059
1665 ILE218 CD1 1.574 27.781 24.754
1666 LEU219 N -3.431 28.478 23.538
1667 LEU219 CA -3.953 29.194 22.365
1668 LEU219 C -4.858 30.352 22.75
1669 LEU219 O -5.716 30.229 23.629
1670 LEU219 CB -4.756 28.24 21.493
1671 LEU219 CG -3.859 27.411 20.59
1672 LEU219 CD1 -4.674 26.345 19.873 1673 LEU219 CD2 -3.135 28.304 19.588
1674 LYS220 N -4.667 31.454 22.047
1675 LYS220 CA -5.484 32.654 22.234
1676 LYS220 C -5.341 33.562 21.012
1677 LYS220 0 -4.556 34.519 21.016
1678 LYS220 CB -5.01 33.38 23.489
1679 LYS220 CG -5.91 34.56 23.842
1680 LYS220 CD -5.389 35.289 25.074
1681 LYS220 CE -6.258 36.494 25.418
1682 LYS220 NZ -5.74 37.191 26.607
1683 GLN221 N -6.048 33.217 19.951
1684 GLN221 CA -5.987 34.031 18.732
1685 GLN221 C -6.904 35.234 18.892
1686 GLN221 0 -7.981 35.1 12 19.48
1687 GLN221 CB -6.389 33.179 17.535
1688 GLN221 CG -5.417 32.015 17.369
1689 GLN221 CD -5.828 31.088 16.227
1690 GLN221 0E1 -7.019 30.872 15.966
1691 GLN221 NE2 -4.823 30.508 15.595
1692 ARG222 N -6.553 36.345 18.268
1693 ARG222 CA -7.309 37.589 18.486
1694 ARG222 C -8.774 37.467 18.066
1695 ARG222 0 -9.669 37.72 18.877
1696 ARG222 CB -6.649 38.705 17.685
1697 ARG222 CG -7.362 40.034 17.911
1698 ARG222 CD -6.787 41.134 17.026
1699 ARG222 NE -7.505 42.401 17.232
1700 ARG222 CZ -8.368 42.909 16.349
1701 ARG222 NH1 -8.626 42.255 15.213
1702 ARG222 NH2 -8.98 44.068 16.604
1703 GLU223 N -9.009 36.864 16.912
1704 GLU223 CA -10.382 36.702 16.426
1705 GLU223 C -10.985 35.329 16.735
1706 GLU223 0 -12.083 35.029 16.257
1707 GLU223 CB -10.395 36.959 14.926
1708 GLU223 CG -9.977 38.396 14.634
1709 GLU223 CD -9.946 38.649 13.13
1710 GLU223 0E1 -9.041 39.35 12.701
1711 GLU223 OE2 -10.749 38.047 12.434
1712 SER224 N -10.28 34.5 17.488
1713 SER224 CA -10.803 33.162 17.775
1714 SER224 C -11.036 32.957 19.266
1715 SER224 0 -11.791 32.067 19.67
1716 SER224 CB -9.789 32.13 17.308
1717 SER224 OG -9.509 32.374 15.941
1718 GLY225 N -10.409 33.796 20.069
1719 GLY225 CA -10.436 33.613 21.517
1720 GLY225 C -9.539 32.435 21.884
1721 GLY225 O -8.577 32.109 21.174
1722 GLU226 N -9.863 31.807 22.998
1723 GLU226 CA -9.128 30.613 23.422
1724 GLU226 C -10.067 29.417 23.535
1725 GLU226 0 -11.22 29.553 23.963
1726 GLU226 CB -8.424 30.894 24.745 1727 GLU226 CG -9.368 31.316 25.86
1728 GLU226 CD -8.548 31.714 27.084
1729 GLU226 OE1 -8.364 30.873 27.952
1730 GLU226 OE2 -8.166 32.875 27.147
1731 ALA227 N -9.567 28.262 23.127
1732 ALA227 CA -10.372 27.035 23.163
1733 ALA227 C -10.725 26.657 24.598
1734 ALA227 O -9.859 26.603 25.477
1735 ALA227 CB -9.587 25.904 22.508
1736 ASP228 N -12.009 26.456 24.833
1737 ASP228 CA -12.471 26.085 26.175
1738 ASP228 C -12.163 24.618 26.455
1739 ASP228 0 -1 1.944 23.836 25.52
1740 ASP228 CB -13.961 26.399 26.323
1741 ASP228 CG -14.816 25.698 25.268
1742 ASP228 OD1 -14.745 24.475 25.201
1743 ASP228 OD2 -15.656 26.364 24.686
1744 HIS229 N -12.329 24.215 27.704
1745 HIS229 CA -1 1.958 22.854 28.129
1746 HIS229 C -12.84 21.733 27.559
1747 HIS229 O -12.334 20.622 27.37
1748 HIS229 CB -11.971 22.807 29.658
1749 HIS229 CG -13.265 23.255 30.319
1750 HIS229 ND1 -14.34 22.487 30.584
1751 HIS229 CD2 -13.557 24.519 30.78
1752 HIS229 CE1 -15.293 23.238 31.171
1753 HIS229 NE2 -14.808 24.494 31.292
1754 GLY230 N -14.024 22.066 27.068
1755 GLY230 CA -14.88 21.073 26.412
1756 GLY230 C -14.27 20.684 25.07
1757 GLY230 0 -13.958 19.508 24.84
1758 GLU231 N -13.866 21.704 24.329
1759 GLU231 CA -13.239 21.508 23.021
1760 GLU231 C -11.809 21.001 23.152
1761 GLU231 0 -11.365 20.21 22.315
1762 GLU231 CB -13.196 22.856 22.318
1763 GLU231 CG -14.589 23.417 22.086
1764 GLU231 CD -14.471 24.888 21.707
1765 GLU231 OE1 -15.12 25.296 20.756
1766 GLU231 OE2 -13.758 25.592 22.418
1767 LEU232 N -11.181 21.28 24.281
1768 LEU232 CA -9.822 20.803 24.524
1769 LEU232 C -9.841 19.292 24.755
1770 LEU232 O -9.061 18.578 24.1 12
1771 LEU232 CB -9.297 21.541 25.756
1772 LEU232 CG -7.777 21.685 25.784
1773 LEU232 CD1 -7.057 20.385 26.124
1774 LEU232 CD2 -7.256 22.293 24.486
1775 VAL233 N -10.877 18.804 25.419
1776 VAL233 CA -11.016 17.36 25.627
1777 VAL233 C -11.406 16.646 24.331
1778 VAL233 0 -10.729 15.676 23.963
1779 VAL233 CB -12.066 17.13 26.71
1780 VAL233 CG1 -12.478 15.667 26.802 1781 VAL233 CG2 -11.571 17.632 28.062
1782 GLY234 N -12.258 17.278 23.536
1783 GLY234 CA -12.641 16.729 22.227
1784 GLY234 C -1 1.443 16.59 21.287
1785 GLY234 0 -11.116 15.477 20.849
1786 LEU235 N -10.687 17.668 21.146
1787 LEU235 CA -9.532 17.691 20.238
1788 LEU235 C -8.375 16.809 20.702
1789 LEU235 0 -7.846 16.046 19.882
1790 LEU235 CB -9.04 19.13 20.146
1791 LEU235 CG -10.08 20.034 19.495
1792 LEU235 CD1 -9.781 21.505 19.761
1793 LEU235 CD2 -10.2 19.75 18.003
1794 ALA236 N -8.162 16.713 22.006
1795 ALA236 CA -7.065 15.885 22.523
1796 ALA236 C -7.38 14.407 22.375
1797 ALA236 0 -6.525 13.633 21.922
1798 ALA236 CB -6.861 16.193 24.002
1799 PHE237 N -8.66 14.095 22.475
1800 PHE237 CA -9.11 12.723 22.306
1801 PHE237 C -8.956 12.273 20.864
1802 PHE237 0 -8.27 11.274 20.617
1803 PHE237 CB -10.58 12.657 22.682
1804 PHE237 CG -11.12 1 1.24 22.674
1805 PHE237 CD1 -10.824 10.394 23.733
1806 PHE237 CD2 -11.885 10.786 21.608
1807 PHE237 CE1 -11.305 9.095 23.736
1808 PHE237 CE2 -12.366 9.486 21.61
1809 PHE237 CZ -12.076 8.644 22.676
1810 LEU238 N -9.329 13.135 19.931
1811 LEU238 CA -9.272 12.754 18.516
1812 LEU238 C -7.845 12.681 17.984
1813 LEU238 0 -7.532 1 1.745 17.236
1814 LEU238 CB -10.056 13.766 17.695
1815 LEU238 CG -11.539 13.75 18.042
1816 LEU238 CD1 -12.279 14.795 17.221
1817 LEU238 CD2 -12.145 12.369 17.814
1818 LEU239 N -6.947 13.467 18.554
1819 LEU239 CA -5.551 13.397 18.122
1820 LEU239 C -4.861 12.158 18.68
1821 LEU239 0 -4.202 11.444 17.913
1822 LEU239 CB -4.821 14.652 18.586
1823 LEU239 CG -5.364 15.898 17.894
1824 LEU239 CD1 -4.722 17.162 18.454
1825 LEU239 CD2 -5.169 15.82 16.384
1826 LEU240 N -5.275 1 1.736 19.864
1827 LEU240 CA -4.667 10.56 20.485
1828 LEU240 C -5.217 9.265 19.877
1829 LEU240 0 -4.445 8.316 19.674
1830 LEU240 CB -4.952 10.634 21.981
1831 LEU240 CG -3.966 9.808 22.798
1832 LEU240 CD1 -2.53 10.2 22.479
1833 LEU240 CD2 -4.227 9.976 24.289
1834 ILE241 N -6.425 9.337 19.333 1835 ILE241 CA -7.027 8.197 18.621
1836 ILE241 C -6.509 8.091 17.184
1837 ILE241 0 -6.406 6.98 16.64
1838 ILE241 CB -8.544 8.391 18.599
1839 ILE241 CG1 -9.122 8.403 20.008
1840 ILE241 CG2 -9.233 7.311 17.771
1841 ILE241 CD1 -8.939 7.06 20.699
1842 ALA242 N -5.959 9.182 16.676
1843 ALA242 CA -5.353 9.154 15.345
1844 ALA242 C -4.049 8.363 15.361
1845 ALA242 0 -3.842 7.511 14.487
1846 ALA242 CB -5.09 10.583 14.884
1847 GLY243 N -3.34 8.426 16.473
1848 GLY243 CA -2.135 7.612 16.614
1849 GLY243 C -2.461 6.175 17.012
1850 GLY243 0 -2.095 5.238 16.289
1851 HIS244 N -3.274 6.021 18.047
1852 HIS244 CA -3.556 4.687 18.603
1853 HIS244 C -4.424 3.78 17.729
1854 HIS244 0 -4.288 2.555 17.808
1855 HIS244 CB -4.271 4.846 19.946
1856 HIS244 CG -3.394 5.206 21.132
1857 HIS244 ND1 -2.995 6.436 21.502
1858 HIS244 CD2 -2.87 4.327 22.051
1859 HIS244 CE1 -2.232 6.348 22.61
1860 HIS244 NE2 -2.156 5.042 22.95
1861 GLU245 N -5.298 4.33 16.905
1862 GLU245 CA -6.157 3.454 16.101
1863 GLU245 C -6.041 3.723 14.61
1864 GLU245 O -5.883 2.788 13.812
1865 GLU245 CB -7.616 3.66 16.504
1866 GLU245 CG -7.895 3.313 17.963
1867 GLU245 CD -7.613 1 .839 18.255
1868 GLU245 OE1 -7.721 1.028 17.348
1869 GLU245 OE2 -7.228 1.562 19.381
1870 THR246 N -5.987 4.996 14.26
1871 THR246 CA -6.101 5.374 12.849
1872 THR246 C -4.863 4.962 12.066
1873 THR246 0 -4.949 4.04 11.244
1874 THR246 CB -6.314 6.88 12.759
1875 THR246 OG1 -7.415 7.225 13.59
1876 THR246 CG2 -6.614 7.344 1 1.338
1877 THR247 N -3.702 5.384 12.532
1878 THR247 CA -2.48 5.072 11.792
1879 THR247 C -2.013 3.634 12.044
1880 THR247 0 -1.437 3.032 1 1.132
1881 THR247 CB -1.4 6.078 12.171
1882 THR247 OG1 -1.937 7.39 12.062
1883 THR247 CG2 -0.192 5.981 11.246
1884 ALA248 N -2.533 3.007 13.09
1885 ALA248 CA -2.225 1.596 13.35
1886 ALA248 C -2.915 0.676 12.342
1887 ALA248 O -2.236 -0.089 11.643
1888 ALA248 CB -2.678 1.25 14.763 1889 ASN249 N -4.175 0.958 12.049
1890 ASN249 CA -4.878 0.157 11.042
1891 ASN249 C -4.453 0.517 9.624
1892 ASN249 0 -4.313 -0.39 8.791
1893 ASN249 CB -6.377 0.361 11.199
1894 ASN249 CG -6.902 -0.561 12.291
1895 ASN249 0D1 -6.261 -1.569 12.613
1896 ASN249 ND2 -8.133 -0.32 12.703
1897 MET250 N -3.945 1.727 9.463
1898 MET250 CA -3.472 2.183 8.159
1899 MET250 C -2.137 1.529 7.787
1900 MET250 0 -2.018 1.009 6.669
1901 MET250 CB -3.231 3.702 8.255
1902 MET250 CG -3.343 4.33 6.851
1903 MET250 SD -2.234 5.768 6.665
1904 MET250 CE -1.954 6.241 8.406
1905 ILE251 N -1.267 1.317 8.764
1906 ILE251 CA 0.019 0.667 8.477
1907 ILE251 C -0.132 -0.844 8.328
1908 ILE251 0 0.449 -1.427 7.402
1909 ILE251 CB 1.001 0.949 9.613
1910 ILE251 CG1 1.293 2.434 9.757
1911 ILE251 CG2 2.305 0.188 9.404
1912 ILE251 CD1 2.264 2.698 10.902
1913 SER252 N -1.081 -1.421 9.047
1914 SER252 CA -1.254 -2.875 8.973
1915 SER252 C -1.947 -3.301 7.679
1916 SER252 0 -1.444 -4.204 6.998
1917 SER252 CB -2.03 -3.36 10.197
1918 SER252 OG -3.28 -2.684 10.279
1919 LEU253 N -2.85 -2.465 7.194
1920 LEU253 CA -3.558 -2.762 5.948
1921 LEU253 C -2.699 -2.386 4.739
1922 LEU253 O -2.665 -3.129 3.748
1923 LEU253 CB -4.857 -1.963 5.994
1924 LEU253 CG -5.781 -2.185 4.804
1925 LEU253 CD1 -6.009 -3.665 4.521
1926 LEU253 CD2 -7.109 -1.479 5.058
1927 GLY254 N -1.818 -1.42 4.948
1928 GLY254 CA -0.841 -1.031 3.933
1929 GLY254 C 0.161 -2.148 3.671
1930 GLY254 O 0.267 -2.62 2.531
1931 THR255 N 0.707 -2.706 4.742
1932 THR255 CA 1.71 1 -3.772 4.62
1933 THR255 C 1.123 -5.042 4.017
1934 THR255 0 1.715 -5.592 3.079
1935 THR255 CB 2.255 -4.105 6.007
1936 THR255 OG1 2.837 -2.935 6.563
1937 THR255 CG2 3.334 -5.18 5.938
1938 VAL256 N -0.133 -5.321 4.331
1939 VAL256 CA -0.797 -6.505 3.781
1940 VAL256 C -1.1 1 -6.37 2.291
1941 VAL256 0 -0.832 -7.307 1.531
1942 VAL256 CB -2.083 -6.706 4.571 1943 VAL256 CG1 -3.028 -7.693 3.905
1944 VAL256 CG2 -1.774 -7.144 5.993
1945 THR257 N -1.372 -5.158 1.833
1946 THR257 CA -1.675 -4.982 0.413
1947 THR257 C -0.401 -4.902 -0.427
1948 THR257 0 -0.357 -5.499 -1.512
1949 THR257 CB -2.502 -3.717 0.248
1950 THR257 OG1 -3.63 -3.818 1.106
1951 THR257 CG2 -3.002 -3.558 -1.183
1952 LEU258 N 0.69 -4.465 0.185
1953 LEU258 CA 1.976 -4.434 -0.526
1954 LEU258 C 2.588 -5.828 -0.61
1955 LEU258 0 3.147 -6.205 -1.648
1956 LEU258 CB 2.936 -3.524 0.233
1957 LEU258 CG 2.45 -2.08 0.263
1958 LEU258 CD1 3.329 -1 .229 1.172
1959 LEU258 CD2 2.391 -1 .492 -1.141
1960 LEU259 N 2.248 -6.652 0.368
1961 LEU259 CA 2.721 -8.034 0.407
1962 LEU259 C 1.818 -8.965 -0.407
1963 LEU259 0 2.223 -10.083 -0.747
1964 LEU259 CB 2.742 -8.462 1.869
1965 LEU259 CG 3.979 -9.291 2.183
1966 LEU259 CD1 5.235 -8.559 1.727
1967 LEU259 CD2 4.05 -9.61 3.672
1968 GLU260 N 0.649 -8.473 -0.791
1969 GLU260 CA -0.221 -9.215 -1.707
1970 GLU260 C 0.163 -8.932 -3.151
1971 GLU260 0 0.033 -9.804 -4.019
1972 GLU260 CB -1.67 -8.773 -1.531
1973 GLU260 CG -2.53 -9.85 -0.883
1974 GLU260 CD -2.442 -9.78 0.637
1975 GLU260 0E1 -1.632 -10.498 1.204
1976 GLU260 0E2 -3.287 -9.103 1.202
1977 ASN261 N 0.693 -7.743 -3.382
1978 ASN261 CA 1.158 -7.381 -4.723
1979 ASN261 C 2.669 -7.181 -4.742
1980 ASN261 O 3.134 -6.032 -4.804
1981 ASN261 CB 0.468 -6.089 -5.161
1982 ASN261 CG -0.986 -6.311 -5.586
1983 ASN261 OD1 -1.784 -6.942 -4.881
1984 ASN261 ND2 -1.339 -5.701 -6.705
1985 PR0262 N 3.404 -8.259 -4.986
1986 PR0262 CA 4.864 -8.219 -4.846
1987 PR0262 C 5.563 -7.432 -5.958
1988 PR0262 0 6.612 -6.834 -5.706
1989 PR0262 CB 5.298 -9.652 -4.871
1990 PR0262 CG 4.108 -10.533 -5.223
1991 PR0262 CD 2.912 -9.601 -5.319
1992 ASP263 N 4.884 -7.222 -7.077
1993 ASP263 CA 5.442 -6.411 -8.166
1994 ASP263 C 5.27 -4.909 -7.918
1995 ASP263 0 6.133 -4.124 -8.327
1996 ASP263 CB 4.783 -6.822 -9.488 1997 ASP263 CG 3.253 -6.778 -9.42
1998 ASP263 OD1 2.69 -5.734 -9.721
1999 ASP263 OD2 2.673 -7.766 -8.992
2000 GLN264 N 4.358 -4.558 -7.024
2001 GLN264 CA 4.149 -3.154 -6.675
2002 GLN264 C 5.104 -2.803 -5.545
2003 GLN264 O 5.782 -1.769 -5.59
2004 GLN264 CB 2.709 -3.002 -6.206
2005 GLN264 CG 1.723 -3.483 -7.265
2006 GLN264 CD 1.637 -2.485 -8.412
2007 GLN264 OE1 1.631 -1.274 -8.178
2008 GLN264 NE2 1.592 -2.991 -9.63
2009 LEU265 N 5.398 -3.825 -4.758
2010 LEU265 CA 6.389 -3.701 -3.693
2011 LEU265 C 7.808 -3.677 -4.263
2012 LEU265 0 8.639 -2.888 -3.798
2013 LEU265 CB 6.218 -4.903 -2.775
2014 LEU265 CG 7.134 -4.809 -1.565
2015 LEU265 CD1 6.869 -3.518 -0.802
2016 LEU265 CD2 6.958 -6.023 -0.662
2017 ALA266 N 7.993 -4.309 -5.411
2018 ALA266 CA 9.286 -4.267 -6.093
2019 ALA266 C 9.528 -2.929 -6.785
2020 ALA266 O 10.66 -2.434 -6.737
2021 ALA266 CB 9.333 -5.39 -7.123
2022 LYS267 N 8.466 -2.235 -7.167
2023 LYS267 CA 8.641 -0.891 -7.725
2024 LYS267 C 8.887 0.136 -6.625
2025 LYS267 0 9.706 1.042 -6.818
2026 LYS267 CB 7.406 -0.501 -8.523
2027 LYS267 CG 7.223 -1.394 -9.742
2028 LYS267 CD 6.072 -0.894 -10.604
2029 LYS267 CE 4.779 -0.825 -9.803
2030 LYS267 NZ 3.688 -0.267 -10.615
2031 ILE268 N 8.413 -0.162 -5.427
2032 ILE268 CA 8.717 0.664 -4.254
2033 ILE268 C 10.181 0.531 -3.84
2034 ILE268 O 10.879 1.544 -3.697
2035 ILE268 CB 7.827 0.171 -3.117
2036 ILE268 CG1 6.38 0.576 -3.335
2037 ILE268 CG2 8.311 0.638 -1.75
2038 ILE268 CD1 5.504 0.057 -2.205
2039 LYS269 N 10.693 -0.688 -3.902
2040 LYS269 CA 12.068 -0.95 -3.463
2041 LYS269 C 13.116 -0.675 -4.542
2042 LYS269 0 14.306 -0.554 -4.228
2043 LYS269 CB 12.126 -2.405 -3.021
2044 LYS269 CG 11.167 -2.628 -1.858
2045 LYS269 CD 10.997 -4.107 -1.542
2046 LYS269 CE 12.315 -4.756 -1.148
2047 LYS269 NZ 12.106 -6.181 -0.856
2048 ALA270 N 12.679 -0.53 -5.782
2049 ALA270 CA 13.585 -0.106 -6.851
2050 ALA270 C 13.478 1.396 -7.101 2051 ALA270 0 14.286 1.974 -7.838
2052 ALA270 CB 13.233 -0.863 -8.125
2053 ASP271 N 12.486 2.017 -6.486
2054 ASP271 CA 12.271 3.453 -6.649
2055 ASP271 C 11.505 4.006 -5.448
2056 ASP271 0 10.267 4.02 -5.445
2057 ASP271 CB 11.48 3.653 -7.944
2058 ASP271 CG 1 1.354 5.125 -8.337
2059 ASP271 0D1 10.975 5.919 -7.482
2060 ASP271 0D2 1 1.493 5.405 -9.517
2061 PR0272 N 12.238 4.705 -4.592
2062 PR0272 CA 11.686 5.248 -3.337
2063 PR0272 C 10.72 6.438 -3.497
2064 PR0272 0 9.973 6.74 -2.558
2065 PR0272 CB 12.887 5.657 -2.54
2066 PR0272 CG 14.133 5.544 -3.406
2067 PR0272 CD 13.673 4.968 -4.734
2068 GLY273 N 10.586 6.971 -4.702
2069 GLY273 CA 9.607 8.03 -4.968
2070 GLY273 C 8.207 7.423 -5.037
2071 GLY273 0 7.257 7.968 -4.456
2072 LYS274 N 8.167 6.171 -5.473
2073 LYS274 CA 6.916 5.418 -5.566
2074 LYS274 C 6.39 4.954 -4.21
2075 LYS274 O 5.225 4.55 -4.144
2076 LYS274 CB 7.138 4.184 -6.431
2077 LYS274 CG 7.528 4.547 -7.856
2078 LYS274 CD 7.755 3.287 -8.681
2079 LYS274 CE 8.177 3.615 -10.107
2080 LYS274 NZ 8.465 2.383 -10.858
2081 THR275 N 7.12 5.182 -3.127
2082 THR275 CA 6.593 4.814 -1.813
2083 THR275 C 5.522 5.804 -1.352
2084 THR275 0 4.516 5.354 -0.798
2085 THR275 CB 7.725 4.76 -0.789
2086 THR275 OG1 8.169 6.074 -0.485
2087 THR275 CG2 8.912 3.963 -1.305
2088 LEU276 N 5.564 7.036 -1.844
2089 LEU276 CA 4.543 8.012 -1.446
2090 LEU276 C 3.312 7.905 -2.346
2091 LEU276 0 2.175 8.051 -1.876
2092 LEU276 CB 5.14 9.411 -1.538
2093 LEU276 CG 4.182 10.462 -0.987
2094 LEU276 CD1 3.836 10.177 0.472
2095 LEU276 CD2 4.77 11.861 -1.133
2096 ALA277 N 3.53 7.375 -3.539
2097 ALA277 CA 2.417 7.126 -4.451
2098 ALA277 C 1.71 1 5.836 -4.052
2099 ALA277 0 0.475 5.796 -4.026
2100 ALA277 CB 2.963 7.021 -5.869
2101 ALA278 N 2.472 4.947 -3.431
2102 ALA278 CA 1.909 3.727 -2.859
2103 ALA278 C 1.12 4.01 -1.591
2104 ALA278 0 0.051 3.416 -1.427 2105 ALA278 CB 3.048 2.773 -2.523
2106 ILE279 N 1.472 5.064 -0.867
2107 ILE279 CA 0.698 5.447 0.324
2108 ILE279 C -0.692 5.926 -0.078
2109 ILE279 0 -1.691 5.368 0.396
2110 ILE279 CB 1.401 6.588 1.063
2111 ILE279 CG1 2.806 6.209 1.513
2112 ILE279 CG2 0.577 7.041 2.264
2113 ILE279 CD1 2.805 4.984 2.416
2114 GLU280 N -0.748 6.688 -1.159
2115 GLU280 CA -2.037 7.217 -1.616
2116 GLU280 C -2.849 6.159 -2.358
2117 GLU280 0 -4.075 6.123 -2.217
2118 GLU280 CB -1.784 8.404 -2.537
2119 GLU280 CG -0.943 9.484 -1.862
2120 GLU280 CD -1.616 9.992 -0.587
2121 GLU280 0E1 -2.453 10.875 -0.699
2122 GLU280 0E2 -1.19 9.569 0.479
2123 GLU281 N -2.169 5.173 -2.916
2124 GLU281 CA -2.857 4.083 -3.604
2125 GLU281 C -3.402 3.048 -2.616
2126 GLU281 0 -4.497 2.514 -2.842
2127 GLU281 CB -1.846 3.441 -4.546
2128 GLU281 CG -2.451 2.329 -5.39
2129 GLU281 CD -3.395 2.862 -6.465
2130 GLU281 0E1 -3.893 2.017 -7.199
2131 GLU281 0E2 -3.446 4.068 -6.653
2132 LEU282 N -2.776 2.957 -1.452
2133 LEU282 CA -3.272 2.102 -0.369
2134 LEU282 C -4.527 2.703 0.232
2135 LEU282 0 -5.563 2.03 0.269
2136 LEU282 CB -2.212 2.019 0.727
2137 LEU282 CG -1.025 1.151 0.332
2138 LEU282 CD1 0.163 1.385 1.256
2139 LEU282 CD2 -1.415 -0.319 0.305
2140 LEU283 N -4.511 4.018 0.378
2141 LEU283 CA -5.666 4.738 0.922
2142 LEU283 C -6.823 4.808 -0.066
2143 LEU283 0 -7.989 4.766 0.346
2144 LEU283 CB -5.202 6.145 1.257
2145 LEU283 CG -4.178 6.103 2.379
2146 LEU283 CD1 -3.386 7.399 2.461
2147 LEU283 CD2 -4.848 5.766 3.706
2148 ARG284 N -6.512 4.723 -1.346
2149 ARG284 CA -7.561 4.67 -2.355
2150 ARG284 C -8.306 3.337 -2.3
2151 ARG284 0 -9.482 3.316 -1.923
2152 ARG284 CB -6.921 4.824 -3.726
2153 ARG284 CG -7.99 4.956 -4.798
2154 ARG284 CD -7.417 4.674 -6.18
2155 ARG284 NE -6.879 3.305 -6.258
2156 ARG284 CZ -7.603 2.231 -6.583
2157 ARG284 NH1 -8.911 2.35 -6.816
2158 ARG284 NH2 -7.021 1.032 -6.658 2159 ILE285 N -7.588 2.233 -2.423
2160 ILE285 CA -8.284 0.942 -2.519
2161 ILE285 C -8.742 0.397 -1.155
2162 ILE285 O -9.703 -0.385 -1 .087
2163 ILE285 CB -7.36 -0.039 -3.247
2164 ILE285 CG1 -8.033 -1 .383 -3.499
2165 ILE285 CG2 -6.045 -0.238 -2.501
2166 ILE285 CD1 -7.1 19 -2.327 -4.272
2167 PHE286 N -8.188 0.934 -0.082
2168 PHE286 CA -8.543 0.5 1.268
2169 PHE286 C -8.451 1.645 2.27
2170 PHE286 0 -7.544 1.66 3.115
2171 PHE286 CB -7.575 -0.594 1.708
2172 PHE286 CG -7.737 -1.948 1.025
2173 PHE286 CD1 -6.675 -2.503 0.323
2174 PHE286 CD2 -8.943 -2.632 1.117
2175 PHE286 CE1 -6.822 -3.736 -0.298
2176 PHE286 CE2 -9.09 -3.865 0.495
2177 PHE286 CZ -8.03 -4.417 -0.213
2178 THR287 N -9.377 2.584 2.193
2179 THR287 CA -9.413 3.636 3.212
2180 THR287 C -9.931 3.053 4.519
2181 THR287 O -10.843 2.216 4.543
2182 THR287 CB -10.294 4.801 2.77
2183 THR287 OG1 -10.207 5.833 3.745
2184 THR287 CG2 -11.759 4.423 2.643
2185 ILE288 N -9.305 3.459 5.609
2186 ILE288 CA -9.745 2.966 6.91 1
2187 ILE288 C -10.966 3.747 7.391
2188 ILE288 O -11.856 3.155 8.014
2189 ILE288 CB -8.584 3.044 7.894
2190 ILE288 CG1 -8.04 4.459 8.013
2191 ILE288 CG2 -7.469 2.097 7.461
2192 ILE288 CD1 -6.938 4.507 9.052
2193 ALA289 N -11.1 16 4.965 6.89
2194 ALA289 CA -12.34 5.743 7.09
2195 ALA289 C -13.315 5.37 5.982
2196 ALA289 O -13.433 6.062 4.964
2197 ALA289 CB -12.003 7.228 7.013
2198 GLU290 N -13.969 4.239 6.174
2199 GLU290 CA -14.796 3.652 5.128
2200 GLU290 C -16.223 4.179 5.178
2201 GLU290 O -16.891 4.234 4.138
2202 GLU290 CB -14.766 2.14 5.34
2203 GLU290 CG -15.669 1.375 4.381
2204 GLU290 CD -15.736 -0.091 4.802
2205 GLU290 OE1 -16.751 -0.475 5.367
2206 GLU290 OE2 -14.809 -0.819 4.472
2207 THR291 N -16.659 4.619 6.347
2208 THR291 CA -17.992 5.216 6.481
2209 THR291 C -17.983 6.47 7.349
2210 THR291 O -17.68 6.437 8.55
2211 THR291 CB -18.978 4.219 7.094
2212 THR291 OG1 -18.522 3.832 8.382 2213 THR291 CG2 -19.168 2.961 6.257
2214 ALA292 N -18.397 7.562 6.734
2215 ALA292 CA -18.676 8.799 7.471
2216 ALA292 C -20.103 8.704 8.001
2217 ALA292 0 -21.051 9.169 7.355
2218 ALA292 CB -18.552 9.986 6.521
2219 THR293 N -20.231 8.1 9.172
2220 THR293 CA -21.535 7.709 9.721
2221 THR293 C -22.161 8.802 10.585
2222 THR293 0 -22.152 8.733 11.82
2223 THR293 CB -21.308 6.447 10.546
2224 THR293 0G1 -20.564 5.523 9.756
2225 THR293 CG2 -22.617 5.788 10.962
2226 SER294 N -22.703 9.805 9.913
2227 SER294 CA -23.293 10.956 10.601
2228 SER294 C -24.198 11.766 9.675
2229 SER294 O -25.386 11.443 9.529
2230 SER294 CB -22.167 11.822 1 1.164
2231 SER294 OG -20.976 11.559 10.426
2232 ARG295 N -23.598 12.789 9.076
2233 ARG295 CA -24.233 13.782 8.187
2234 ARG295 C -25.738 13.903 8.366
2235 ARG295 0 -26.524 13.3 7.627
2236 ARG295 CB -23.905 13.424 6.747
2237 ARG295 CG -22.4 13.455 6.518
2238 ARG295 CD -21.819 14.841 6.786
2239 ARG295 NE -20.362 14.859 6.577
2240 ARG295 CZ -19.475 14.679 7.56
2241 ARG295 NH1 -19.892 14.437 8.805
2242 ARG295 NH2 -18.167 14.719 7.293
2243 PHE296 N -26.119 14.646 9.387
2244 PHE296 CA -27.528 14.825 9.712
2245 PHE296 C -28.176 15.754 8.701
2246 PHE296 0 -27.736 16.899 8.529
2247 PHE296 CB -27.623 15.428 11.1 1
2248 PHE296 CG -29.052 15.695 1 1.562
2249 PHE296 CD1 -29.564 16.985 1 1.533
2250 PHE296 CD2 -29.843 14.643 12.002
2251 PHE296 CE1 -30.871 17.221 1 1.936
2252 PHE296 CE2 -31.149 14.879 12.406
2253 PHE296 CZ -31.663 16.167 12.37
2254 ALA297 N -29.2 15.255 8.032
2255 ALA297 CA -29.931 16.073 7.065
2256 ALA297 C -30.783 17.111 7.781
2257 ALA297 O -31.769 16.781 8.45
2258 ALA297 CB -30.819 15.165 6.224
2259 THR298 N -30.369 18.361 7.668
2260 THR298 CA -31.129 19.47 8.255
2261 THR298 C -32.139 20.005 7.246
2262 THR298 O -33.087 20.712 7.603
2263 THR298 CB -30.17 20.586 8.659
2264 THR298 OG1 -29.565 21.12 7.488
2265 THR298 CG2 -29.068 20.082 9.582
2266 ALA299 N -31.926 19.649 5.992 2267 ALA299 CA -32.881 19.968 4.932
2268 ALA299 C -33.091 18.734 4.068
2269 ALA299 O -32.427 17.712 4.27
2270 ALA299 CB -32.331 21.11 4.086
2271 ASP300 N -34.041 18.817 3.151
2272 ASP300 CA -34.256 17.727 2.191
2273 ASP300 C -33.253 17.852 1.048
2274 ASP300 0 -33.498 18.545 0.053
2275 ASP300 CB -35.679 17.801 1.648
2276 ASP300 CG -36.682 17.714 2.793
2277 ASP300 OD1 -36.686 16.69 3.463
2278 ASP300 OD2 -37.289 18.733 3.09
2279 VAL301 N -32.128 17.177 1.199
2280 VAL301 CA -31.029 17.337 0.244
2281 VAL301 C -31.065 16.261 -0.833
2282 VAL301 O -30.956 15.062 -0.55
2283 VAL301 CB -29.711 17.263 1.007
2284 VAL301 CG1 -28.543 17.673 0.118
2285 VAL301 CG2 -29.756 18.154 2.24
2286 GLU302 N -31.242 16.695 -2.067
2287 GLU302 CA -31.23 15.75 -3.184
2288 GLU302 C -29.799 15.413 -3.603
2289 GLU302 O -29.141 16.178 -4.318
2290 GLU302 CB -31.98 16.355 -4.363
2291 GLU302 CG -32.053 15.344 -5.497
2292 GLU302 CD -32.662 15.959 -6.75
2293 GLU302 OE1 -33.484 16.852 -6.606
2294 GLU302 OE2 -32.169 15.628 -7.82
-3.222
2295 ILE303 N -29.365 14.227
2296 ILE303 CA -28.014 13.766 -3.539
2297 ILE303 C -28.053 12.812 -4.726
2298 ILE303 O -28.452 11.647 -4.6
2299 ILE303 CB -27.438 13.076 -2.307
2300 ILE303 CG1 -27.329 14.056 -1.148
2301 ILE303 CG2 -26.066 12.49 -2.608
2302 ILE303 CD1 -26.305 15.146 -1.441
2303 GLY304 N -27.715 13.356 -5.885
2304 GLY304 CA -27.705 12.592 -7.139
2305 GLY304 C -29.056 11.935 -7.402
2306 GLY304 O -29.187 10.708 -7.311
2307 GLY305 N -30.079 12.757 -7.573
2308 GLY305 CA -31.432 12.229 -7.805
2309 GLY305 C -32.226 11.982 -6.517
2310 GLY305 O -33.289 12.584 -6.314
2311 THR306 N -31.694 11.132 -5.653
2312 THR306 CA -32.399 10.717 -4.431
2313 THR306 C -32.569 11.859 -3.43
2314 THR306 O -31.597 12.497 -3.015
2315 THR306 CB -31.591 9.598 -3.782
2316 THR306 OG1 -31.461 8.534 -4.716
2317 THR306 CG2 -32.278 9.051 -2.537
2318 LEU307 N -33.811 12.127 -3.066
2319 LEU307 CA -34.093 13.162 -2.068
2320 LEU307 C -33.971 12.6 -0.652 2321 LEU307 0 -34.803 11.799 -0.209
2322 LEU307 CB -35.513 13.67 -2.295
2323 LEU307 CG -35.845 14.852 -1.391
2324 LEU307 CD1 -34.946 16.039 -1.71
2325 LEU307 CD2 -37.31 15.248 -1.534
2326 ILE308 N -32.93 13.021 0.045
2327 ILE308 CA -32.738 12.616 1.439
2328 ILE308 C -33.586 13.486 2.362
2329 ILE308 0 -33.481 14.719 2.356
2330 ILE308 CB -31.253 12.742 1.764
2331 ILE308 CG1 -30.456 1 1.77 0.901
2332 ILE308 CG2 -30.976 12.507 3.245
2333 ILE308 CD1 -28.974 11.794 1.246
2334 ARG309 N -34.466 12.834 3.101
2335 ARG309 CA -35.386 13.543 3.993
2336 ARG309 C -34.674 14.125 5.209
2337 ARG309 O -33.807 13.486 5.824
2338 ARG309 CB -36.447 12.563 4.474
2339 ARG309 CG -37.117 11.841 3.312
2340 ARG309 CD -38.079 10.778 3.83
2341 ARG309 NE -38.721 10.055 2.721
2342 ARG309 CZ -40.046 9.951 2.594
2343 ARG309 NH1 -40.85 10.528 3.49
2344 ARG309 NH2 -40.566 9.278 1.566
2345 ALA310 N -35.099 15.325 5.566
2346 ALA310 CA -34.597 15.999 6.763
2347 ALA310 C -34.952 15.189 8.003
2348 ALA310 0 -36.005 14.542 8.07
2349 ALA310 CB -35.223 17.386 6.853
2350 GLY311 N -34 15.115 8.913
2351 GLY311 CA -34.172 14.325 10.13
2352 GLY311 C -33.475 12.968 10.042
2353 GLY311 0 -33.472 12.217 1 1.023
2354 GLU312 N -32.982 12.611 8.866
2355 GLU312 CA -32.294 11.322 8.719
2356 GLU312 C -30.776 11.471 8.737
2357 GLU312 0 -30.236 12.577 8.599
2358 GLU312 CB -32.743 10.651 7.429
2359 GLU312 CG -34.243 10.386 7.453
2360 GLU312 CD -34.639 9.537 6.252
2361 GLU312 OE1 -34.686 10.083 5.156
2362 GLU312 OE2 -34.723 8.33 6.419
2363 GLY313 N -30.107 10.356 8.981
2364 GLY313 CA -28.64 10.335 8.994
2365 GLY313 C -28.079 9.813 7.673
2366 GLY313 0 -28.674 8.944 7.02
2367 VAL314 N -26.996 10.429 7.237
2368 VAL314 CA -26.33 10.028 5.994
2369 VAL314 C -24.93 9.467 6.267
2370 VAL314 0 -24.127 10.02 7.033
2371 VAL314 CB -26.28 1 1.246 5.073
2372 VAL314 CG1 -25.639 10.942 3.724
2373 VAL314 CG2 -27.681 1 1.804 4.861
2374 VAL315 N -24.674 8.328 5.649 2375 VAL315 CA -23.386 7.646 5.773
2376 VAL315 C -22.647 7.666 4.435
2377 VAL315 0 -23.025 6.975 3.479
2378 VAL315 CB -23.634 6.207 6.213
2379 VAL315 CG1 -22.325 5.437 6.347
2380 VAL315 CG2 -24.404 6.163 7.528
2381 GLY316 N -21.6 8.467 4.374
2382 GLY316 CA -20.789 8.539 3.152
2383 GLY316 C -19.797 7.382 3.096
2384 GLY316 0 -18.903 7.28 3.946
2385 LEU317 N -19.978 6.508 2.121
2386 LEU317 CA -19.102 5.343 1.978
2387 LEU317 C -17.841 5.722 1.218
2388 LEU317 0 -17.758 5.485 0.009
2389 LEU317 CB -19.835 4.256 1.199
2390 LEU317 CG -20.312 3.094 2.064
2391 LEU317 CD1 -19.129 2.374 2.697
2392 LEU317 CD2 -21.328 3.519 3.121
2393 SER318 N -16.794 6.056 1.951
2394 SER318 CA -15.563 6.559 1.34
2395 SER318 C -14.789 5.483 0.588
2396 SER318 0 -14.286 5.777 -0.503
2397 SER318 CB -14.689 7.158 2.434
2398 SER318 OG -13.375 7.32 1.915
2399 ASN319 N -14.954 4.222 0.954
2400 ASN319 CA -14.267 3.196 0.162
2401 ASN319 C -15.089 2.774 -1.058
2402 ASN319 O -14.498 2.343 -2.052
2403 ASN319 CB -13.899 1.982 1.004
2404 ASN319 CG -12.531 1.507 0.516
2405 ASN319 OD1 -11.628 2.333 0.321
2406 ASN319 ND2 -12.378 0.209 0.332
2407 ALA320 N -16.362 3.139 -1.091
2408 ALA320 CA -17.181 2.889 -2.283
2409 ALA320 C -17.001 4.055 -3.248
2410 ALA320 0 -16.897 3.856 -4.464
2411 ALA320 CB -18.642 2.78 -1.875
2412 GLY321 N -16.68 5.197 -2.666
2413 GLY321 CA -16.233 6.36 -3.426
2414 GLY321 C -14.942 6.045 -4.17
2415 GLY321 0 -14.924 6.106 -5.404
2416 ASN322 N -13.958 5.508 -3.466
2417 ASN322 CA -12.683 5.172 -4.113
2418 ASN322 C -12.765 3.924 -5.006
2419 ASN322 0 -11.954 3.769 -5.927
2420 ASN322 CB -11.651 4.902 -3.035
2421 ASN322 CG -11.54 6.013 -1.994
2422 ASN322 OD1 -11.701 7.21 1 -2.278
2423 ASN322 ND2 -11.095 5.595 -0.824
2424 HIS323 N -13.785 3.103 -4.807
2425 HIS323 CA -14.068 1.985 -5.716
2426 HIS323 C -15.037 2.337 -6.846
2427 HIS323 0 -15.541 1.435 -7.525
2428 HIS323 CB -14.625 0.804 -4.939 2429 HIS323 CG -13.581 0.008 -4.19
2430 HIS323 ND1 -13.802 ■0.807 -3.144
2431 HIS323 CD2 -12.233 -0.04 -4.46
2432 HIS323 CE1 -12.634 ■1.351 -2.748
2433 HIS323 NE2 -1 1.664 ■0.875 -3.563
2434 ASP324 N -15.353 3.608 -7.007
2435 ASP324 CA -16.209 4.041 -8.109
2436 ASP324 C -15.409 4.076 -9.411
2437 ASP324 0 -14.628 5.012 -9.642
2438 ASP324 CB -16.72 5.431 -7.737
2439 ASP324 CG -17.71 1 6.002 -8.74
2440 ASP324 0D1 -18.738 6.476 -8.275
2441 ASP324 0D2 -17.28 6.257 -9.859
2442 PR0325 N -15.831 3.237 -10.349
2443 PR0325 CA -15.082 2.989 -11.595
2444 PR0325 C -15.201 4.099 -12.648
2445 PR0325 0 -14.504 4.065 -13.667
2446 PR0325 CB -15.653 1.713 -12.134
2447 PR0325 CG -16.9 1.346 -11.345
2448 PR0325 CD -17.01 2.374 -10.232
2449 ASP326 N -16.008 5.11 -12.361
2450 ASP326 CA -16.206 6.248 -13.259
2451 ASP326 C -15.146 7.312 -12.983
2452 ASP326 0 -14.924 8.216 -13.797
2453 ASP326 CB -17.597 6.826 -12.994
2454 ASP326 CG -18.675 5.753 -13.155
2455 ASP326 0D1 -19.125 5.571 -14.277
2456 ASP326 0D2 -18.963 5.068 -12.179
2457 GLY327 N -14.468 7.162 -11.857
2458 GLY327 CA -13.318 8.005 -11.542
2459 GLY327 C -12.061 7.145 -11.594
2460 GLY327 0 -11.166 7.366 -12.418
2461 PHE328 N -12.046 6.12 -10.76
2462 PHE328 CA -10.893 5.218 -10.705
2463 PHE328 C -11.1 19 4.009 -11.602
2464 PHE328 0 -11.92 3.114 -11.3
2465 PHE328 CB -10.653 4.81 -9.257
2466 PHE328 CG -10.261 5.995 -8.376
2467 PHE328 CD1 -9.098 6.702 -8.651
2468 PHE328 CD2 -11.07 6.379 -7.314
2469 PHE328 CE1 -8.737 7.784 -7.858
2470 PHE328 CE2 -10.709 7.459 -6.519
2471 PHE328 CZ -9.542 8.161 -6.791
2472 GLU329 N -10.377 4.006 -12.696
2473 GLU329 CA -10.51 1 2.993 -13.752
2474 GLU329 C -10.048 1.63 -13.253
2475 GLU329 0 -8.847 1.399 -13.092
2476 GLU329 CB -9.673 3.409 -14.962
2477 GLU329 CG -10.104 4.752 -15.557
2478 GLU329 CD -9.106 5.864 -15.215
2479 GLU329 0E1 -8.54 5.804 -14.132
2480 GLU329 0E2 -8.904 6.724 -16.059
2481 ASN330 N -10.987 0.698 -13.249
2482 ASN330 CA -10.826 -0.597 -12.566 2483 ASN330 C -10.252 -0.375 -11.171
2484 ASN330 O -9.065 -0.629 -10.929
2485 ASN330 CB -9.925 -1.547 -13.355
2486 ASN330 CG -9.943 -2.959 -12.75
2487 ASN330 OD1 -9.958 -3.151 -11.523
2488 ASN330 ND2 -9.893 -3.939 -13.632
2489 PR0331 N -11.157 -0.201 -10.224
2490 PR0331 CA -10.787 0.129 -8.843
2491 PR0331 C -10.287 -1.061 -8.012
2492 PR0331 0 -9.994 -0.904 -6.822
2493 PR0331 CB -12.044 0.673 -8.25
2494 PR0331 CG -13.21 0.356 -9.172
2495 PR0331 CD -12.608 -0.26 -10.416
2496 ASP332 N -10.198 -2.236 -8.615
2497 ASP332 CA -9.742 -3.417 -7.889
2498 ASP332 C -8.267 -3.667 -8.179
2499 ASP332 O -7.609 -4.447 -7.478
2500 ASP332 CB -10.557 -4.617 -8.358
2501 ASP332 CG -12.048 -4.356 -8.173
2502 ASP332 OD1 -12.43 -3.961 -7.08
2503 ASP332 OD2 -12.784 -4.566 -9.127
2504 THR333 N -7.744 -2.97 -9.173
2505 THR333 CA -6.339 -3.153 -9.535
2506 THR333 C -5.433 -2.224 -8.735
2507 THR333 O -5.283 -1.042 -9.06
2508 THR333 CB -6.189 -2.877 -11.026
2509 THR333 OG1 -7.072 -3.748 -1 1.718
2510 THR333 CG2 -4.769 -3.147 -1 1.514
2511 PHE334 N -4.84 -2.772 -7.688
2512 PHE334 CA -3.868 -2.017 -6.89
2513 PHE334 C -2.589 -1.762 -7.684
2514 PHE334 O -1.817 -2.686 -7.979
2515 PHE334 CB -3.543 -2.812 -5.63
2516 PHE334 CG -2.485 -2.162 -4.744
2517 PHE334 CD1 -2.784 -1 -4.047
2518 PHE334 CD2 -1.221 -2.728 -4.638
2519 PHE334 CE1 -1.82 -0.404 -3.246
2520 PHE334 CE2 -0.256 -2.132 -3.837
2521 PHE334 CZ -0.556 -0.969 -3.142
2522 ASP335 N -2.407 -0.509 -8.064
2523 ASP335 CA -1.206 -0.106 -8.794
2524 ASP335 C -0.697 1.24 -8.283
2525 ASP335 O -1.322 2.277 -8.525
2526 ASP335 CB -1.55 -0.019 -10.277
2527 ASP335 CG -0.276 0.2 -11.084
2528 ASP335 OD1 0.34 -0.792 -11.448
2529 ASP335 OD2 0.15 1.347 -11.159
2530 ILE336 N 0.532 1.249 -7.794
2531 ILE336 CA 1.1 18 2.426 -7.127
2532 ILE336 C 1.596 3.552 -8.058
2533 ILE336 O 2.207 4.512 -7.579
2534 ILE336 CB 2.303 1.948 -6.301
2535 I E336 CG1 3.437 1.48 -7.203
2536 ILE336 CG2 1.873 0.817 -5.375 2537 ILE336 CD1 4.676 1.131 -6.396
2538 GLU337 N 1.41 3.407 -9.361
2539 GLU337 CA 1.712 4.496 -10.291
2540 GLU337 C 0.434 5.236 -10.681
2541 GLU337 0 0.487 6.246 -11.393
2542 GLU337 CB 2.393 3.936 -11.533
2543 GLU337 CG 3.788 3.412 -11.213
2544 GLU337 CD 4.442 2.871 -12.481
2545 GLU337 0E1 3.934 3.167 -13.552
2546 GLU337 0E2 5.372 2.089 -12.348
2547 ARG338 N -0.697 4.719 -10.229
2548 ARG338 CA -1.982 5.376 -10.464
2549 ARG338 C -2.095 6.636 -9.615
2550 ARG338 0 -1.809 6.625 -8.412
2551 ARG338 CB -3.085 4.393 -10.082
2552 ARG338 CG -4.484 4.977 -10.234
2553 ARG338 CD -5.532 3.961 -9.809
2554 ARG338 NE -5.375 2.729 -10.591
2555 ARG338 CZ -6.357 1.847 -10.77
2556 ARG338 NH1 -7.549 2.056 -10.207
2557 ARG338 NH2 -6.143 0.757 -11.509
2558 GLY339 N -2.423 7.735 -10.271
2559 GLY339 CA -2.685 8.98 -9.55
2560 GLY339 C -4.038 8.895 -8.852
2561 GLY339 0 -5.086 9.045 -9.489
2562 ALA340 N -3.994 8.767 -7.534
2563 ALA340 CA -5.202 8.646 -6.691
2564 ALA340 C -5.871 9.982 -6.335
2565 ALA340 O -6.419 10.145 -5.237
2566 ALA340 CB -4.817 7.907 -5.414
2567 ARG341 N -5.844 10.917 -7.27
2568 ARG341 CA -6.395 12.25 -7.043
2569 ARG341 C -7.904 12.179 -6.87
2570 ARG341 0 -8.571 11.307 -7.436
2571 ARG341 CB -6.045 13.131 -8.235
2572 ARG341 CG -4.535 13.264 -8.387
2573 ARG341 CD -4.175 14.135 -9.583
2574 ARG341 NE -2.718 14.303 -9.691
2575 ARG341 CZ -2.142 15.463 -10.016
2576 ARG341 NH1 -2.898 16.534 -10.271
2577 ARG341 NH2 -0.813 15.551 -10.092
2578 HIS342 N -8.378 13.009 -5.954
2579 HIS342 CA -9.801 13.12 -5.603
2580 HIS342 C -10.342 11.888 -4.88
2581 HIS342 0 -11.547 11.621 -4.961
2582 HIS342 CB -10.644 13.367 -6.855
2583 HIS342 CG -10.32 14.641 -7.606
2584 HIS342 ND1 -10.757 15.877 -7.303
2585 HIS342 CD2 -9.536 14.758 -8.731
2586 HIS342 CE1 -10.259 16.758 -8.195
2587 HIS342 NE2 -9.504 16.064 -9.078
2588 HIS343 N -9.49 11.15 -4.184
2589 HIS343 CA -10.02 10.075 -3.346
2590 HIS343 C -10.572 10.661 -2.053 2591 HIS343 0 -9.984 1 1.572 -1.455
2592 HIS343 CB -8.988 8.965 -3.085
2593 HIS343 CG -7.691 9.253 -2.333
2594 HIS343 ND1 -7.374 10.313 -1.562
2595 HIS343 CD2 -6.597 8.421 -2.319
2596 HIS343 CE1 -6.125 10.166 -1.079
2597 HIS343 NE2 -5.643 8.993 -1.549
2598 VAL344 N -11.634 10.052 -1.563
2599 VAL344 CA -12.278 10.521 -0.331
2600 VAL344 C -11.732 9.82 0.915
2601 VAL344 O -12.271 9.998 2.015
2602 VAL344 CB -13.787 10.343 -0.45
2603 VAL344 CG1 -14.412 11.457 -1.282
2604 VAL344 CG2 -14.141 8.977 -1.019
2605 ALA345 N -10.581 9.178 0.768
2606 ALA345 CA -9.947 8.41 1 1.849
2607 ALA345 C -9.419 9.24 3.02
2608 ALA345 0 -9.242 8.703 4.12
2609 ALA345 CB -8.757 7.686 1.237
2610 PHE346 N -9.169 10.518 2.787
2611 PHE346 CA -8.763 11.424 3.867
2612 PHE346 C -9.885 12.363 4.291
2613 PHE346 O -9.652 13.29 5.083
2614 PHE346 CB -7.571 12.253 3.409
2615 PHE346 CG -6.223 1 1.583 3.635
2616 PHE346 CD1 -5.295 1 1.513 2.605
2617 PHE346 CD2 -5.921 1 1.048 4.881
2618 PHE346 CE1 -4.061 10.916 2.825
2619 PHE346 CE2 -4.687 10.451 5.101
2620 PHE346 CZ -3.756 10.388 4.073
2621 GLY347 N -11.068 12.169 3.731
2622 GLY347 CA -12.177 13.091 3.979
2623 GLY347 C -12.007 14.367 3.158
2624 GLY347 O -10.882 14.764 2.825
2625 PHE348 N -13.123 14.988 2.822
2626 PHE348 CA -13.084 16.264 2.097
2627 PHE348 C -13.98 17.307 2.752
2628 PHE348 O -14.185 17.307 3.976
2629 PHE348 CB -13.497 16.085 0.64
2630 PHE348 CG -12.375 15.613 -0.285
2631 PHE348 CD1 -12.654 14.749 -1.333
2632 PHE348 CD2 -11.075 16.06 -0.081
2633 PHE348 CE1 -11.633 14.322 -2.172
2634 PHE348 CE2 -10.054 15.633 -0.918
2635 PHE348 CZ -10.332 14.763 -1.963
2636 GLY349 N -14.438 18.227 1.918
2637 GLY349 CA -15.269 19.339 2.376
2638 GLY349 C -14.484 20.194 3.353
2639 GLY349 O -13.286 20.433 3.165
2640 VAL350 N -15.121 20.525 4.458
2641 VAL350 CA -14.426 21.29 5.493
2642 VAL350 C -13.865 20.408 6.613
2643 VAL350 O -12.964 20.854 7.327
2644 VAL350 CB -15.384 22.334 6.062 2645 VAL350 CG1 -15.675 23.433 5.047
2646 VAL350 CG2 -16.682 21.709 6.561
2647 HIS351 N -14.217 19.133 6.631
2648 HIS351 CA -13.875 18.287 7.784
2649 HIS351 C -12.75 17.284 7.532
2650 HIS351 0 -12.711 16.259 8.223
2651 HIS351 CB -15.113 17.514 8.23
2652 HIS351 CG -16.205 18.349 8.87
2653 HIS351 ND1 -16.137 18.987 10.054
2654 HIS351 CD2 -17.46 18.588 8.36
2655 HIS351 CE1 -17.304 19.619 10.29
2656 HIS351 NE2 -18.122 19.372 9.242
2657 GLN352 N -11.876 17.53 6.568
2658 GLN352 CA -10.852 16.518 6.26
2659 GLN352 C -9.793 16.385 7.357
2660 GLN352 0 -9.716 17.193 8.291
2661 GLN352 CB -10.178 16.785 4.923
2662 GLN352 CG -9.244 17.98 4.902
2663 GLN352 CD -8.308 17.803 3.712
2664 GLN352 0E1 -7.316 18.528 3.568
2665 GLN352 NE2 -8.572 16.766 2.934
2666 CYS353 N -9.049 15.296 7.271
2667 CYS353 CA -8.044 14.964 8.287
2668 CYS353 C -6.883 15.962 8.319
2669 CYS353 O -6.101 16.072 7.366
2670 CYS353 CB -7.524 13.567 7.961
2671 CYS353 SG -6.412 12.816 9.17
2672 LEU354 N -6.724 16.61 9.464
2673 LEU354 CA -5.607 17.549 9.666
2674 LEU354 C -4.308 16.852 10.059
2675 LEU354 0 -3.224 17.358 9.747
2676 LEU354 CB -5.967 18.561 10.748
2677 LEU354 CG -6.805 19.7 10.188
2678 LEU354 CD1 -7.148 20.701 11.284
2679 LEU354 CD2 -6.054 20.396 9.057
2680 GLY355 N -4.414 15.6 10.478
2681 GLY355 CA -3.223 14.791 10.772
2682 GLY355 C -2.835 13.936 9.566
2683 GLY355 O -2.119 12.936 9.702
2684 GLN356 N -3.078 14.499 8.393
2685 GLN356 CA -2.896 13.81 7.119
2686 GLN356 C -1.414 13.677 6.799
2687 GLN356 0 -0.939 12.562 6.544
2688 GLN356 CB -3.598 14.696 6.094
2689 GLN356 CG -3.657 14.117 4.691
2690 GLN356 CD -4.524 15.024 3.818
2691 GLN356 OE1 -4.609 14.834 2.599
2692 GLN356 NE2 -5.231 15.939 4.463
2693 ASN357 N -0.67 14.7 7.191
2694 ASN357 CA 0.781 14.7 7.005
2695 ASN357 C 1.476 13.761 7.989
2696 ASN357 0 2.328 12.977 7.554
2697 ASN357 CB 1.258 16.137 7.203
2698 ASN357 CG 2.78 16.244 7.261 2699 ASN357 OD1 3.324 16.808 8.217
2700 ASN357 ND2 3.444 15.745 6.233
2701 LEU358 N 0.896 13.592 9.166
2702 LEU358 CA 1.515 12.727 10.168
2703 LEU358 C 1.271 11.264 9.826
2704 LEU358 0 2.234 10.487 9.791
2705 LEU358 CB 0.908 13.034 1 1.53
2706 LEU358 CG 1.612 12.261 12.639
2707 LEU358 CD1 3.089 12.639 12.712
2708 LEU358 CD2 0.931 12.493 13.982
2709 ALA359 N 0.102 10.986 9.272
2710 ALA359 CA -0.235 9.616 8.887
2711 ALA359 C 0.571 9.151 7.679
2712 ALA359 0 1.204 8.089 7.756
2713 ALA359 CB -1.723 9.558 8.566
2714 ARG360 N 0.794 10.045 6.728
2715 ARG360 CA 1.585 9.681 5.546
2716 ARG360 C 3.078 9.603 5.853
2717 ARG360 0 3.747 8.677 5.374
2718 ARG360 CB 1.354 10.721 4.459
2719 ARG360 CG -0.081 10.681 3.954
2720 ARG360 CD -0.325 11.752 2.898
2721 ARG360 NE -0.144 13.097 3.463
2722 ARG360 CZ 0.509 14.076 2.833
2723 ARG360 NH1 0.602 15.283 3.393
2724 ARG360 NH2 1.045 13.853 1.631
2725 LEU361 N 3.518 10.379 6.83
2726 LEU361 CA 4.921 10.356 7.239
2727 LEU361 C 5.238 9.078 8.005
2728 LEU361 0 6.174 8.36 7.628
2729 LEU361 CB 5.159 11.566 8.133
2730 LEU361 CG 6.612 1 1.69 8.572
2731 LEU361 CD1 7.537 11.811 7.365
2732 LEU361 CD2 6.778 12.888 9.498
2733 GLU362 N 4.306 8.658 8.846
2734 GLU362 CA 4.499 7.431 9.622
2735 GLU362 C 4.413 6.2 8.73
2736 GLU362 0 5.31 5.352 8.793
2737 GLU362 CB 3.418 7.347 10.694
2738 GLU362 CG 3.519 8.493 1 1.693
2739 GLU362 CD 2.341 8.447 12.662
2740 GLU362 OE1 1.268 8.901 12.284
2741 GLU362 OE2 2.517 7.891 13.736
2742 LEU363 N 3.541 6.253 7.736
2743 LEU363 CA 3.389 5.125 6.814
2744 LEU363 C 4.61 4.946 5.927
2745 LEU363 0 5.174 3.844 5.889
2746 LEU363 CB 2.184 5.364 5.914
2747 LEU363 CG 0.977 4.517 6.298
2748 LEU363 CD1 0.35 4.995 7.601
2749 LEU363 CD2 -0.056 4.54 5.179
2750 GLN364 N 5.151 6.047 5.432
2751 GLN364 CA 6.296 5.955 4.529
2752 GLN364 C 7.559 5.544 5.276 2753 GLN364 0 8.219 4.588 4.843
2754 GLN364 CB 6.505 7.308 3.86
2755 GLN364 CG 7.624 7.232 2.83
2756 GLN364 CD 7.846 8.592 2.181
2757 GLN364 0E1 7.741 9.637 2.835
2758 GLN364 NE2 8.108 8.565 0.886
2759 ILE365 N 7.707 6.019 6.503
2760 ILE365 CA 8.879 5.644 7.298
2761 ILE365 C 8.835 4.171 7.691
2762 ILE365 0 9.772 3.438 7.339
2763 ILE365 CB 8.94 6.511 8.554
2764 ILE365 CG1 9.202 7.973 8.208
2765 ILE365 CG2 10.012 5.996 9.506
2766 ILE365 CD1 10.539 8.151 7.497
2767 VAL366 N 7.667 3.695 8.099
2768 VAL366 CA 7.555 2.301 8.53
2769 VAL366 C 7.703 1.335 7.361
2770 VAL366 0 8.611 0.497 7.417
2771 VAL366 CB 6.21 2.076 9.217
2772 VAL366 CG1 6.011 0.606 9.565
2773 VAL366 CG2 6.085 2.923 10.477
2774 PHE367 N 7.094 1.641 6.225
2775 PHE367 CA 7.145 0.701 5.097
2776 PHE367 C 8.524 0.663 4.453
2777 PHE367 0 9.066 -0.434 4.254
2778 PHE367 CB 6.125 1.099 4.034
2779 PHE367 CG 4.662 1.012 4.458
2780 PHE367 CD1 3.726 1.83 3.841
2781 PHE367 CD2 4.258 0.112 5.435
2782 PHE367 CE1 2.391 1.767 4.216
2783 PHE367 CE2 2.924 0.052 5.813
2784 PHE367 CZ 1.99 0.88 5.206
2785 ASP368 N 9.187 1.808 4.423
2786 ASP368 CA 10.522 1.869 3.83
2787 ASP368 C 11.52 1.102 4.686
2788 ASP368 0 12.115 0.138 4.185
2789 ASP368 CB 10.964 3.326 3.707
2790 ASP368 CG 10.101 4.09 2.701
2791 ASP368 OD1 10.208 5.31 2.678
2792 ASP368 OD2 9.508 3.443 1.847
2793 THR369 N 11.438 1.285 5.995
2794 THR369 CA 12.381 0.606 6.892
2795 THR369 C 12.07 -0.88 7.076
2796 THR369 0 13.004 -1.658 7.287
2797 THR369 CB 12.376 1.294 8.252
2798 THR369 OG1 11.058 1.242 8.778
2799 THR369 CG2 12.797 2.756 8.149
2800 LEU370 N 10.848 -1.302 6.793
2801 LEU370 CA 10.523 -2.729 6.862
2802 LEU370 C 11.145 -3.486 5.703
2803 LEU370 O 12.038 -4.319 5.916
2804 LEU370 CB 9.012 -2.919 6.78
2805 LEU370 CG 8.302 -2.463 8.044
2806 LEU370 CD1 6.792 -2.589 7.882 2807 LEU370 CD2 8.79 -3.256 9.248
2808 PHE371 N 10.872 -3.006 4.502
2809 PHE371 CA 1 1.266 -3.75 3.303
2810 PHE371 C 12.728 -3.529 2.918
2811 PHE371 0 13.332 -4.398 2.278
2812 PHE371 CB 10.333 -3.34 2.169
2813 PHE371 CG 8.861 -3.634 2.463
2814 PHE371 CD1 7.935 -2.599 2.503
2815 PHE371 CD2 8.447 -4.94 2.692
2816 PHE371 CE1 6.601 -2.867 2.784
2817 PHE371 CE2 7.112 -5.209 2.971
2818 PHE371 CZ 6.19 -4.172 3.019
2819 ARG372 N 13.335 -2.472 3.436
2820 ARG372 CA 14.773 -2.281 3.231
2821 ARG372 C 15.606 -2.901 4.353
2822 ARG372 0 16.834 -2.982 4.229
2823 ARG372 CB 15.084 -0.795 3.116
2824 ARG372 CG 14.397 -0.176 1.904
2825 ARG372 CD 14.777 1.291 1.76
2826 ARG372 NE 14.497 2.015 3.008
2827 ARG372 CZ 14.919 3.257 3.251
2828 ARG372 NH1 14.646 3.835 4.423
2829 ARG372 NH2 15.631 3.91 1 2.331
2830 ARG373 N 14.958 -3.347 5.418
2831 ARG373 CA 15.671 -4.087 6.457
2832 ARG373 C 15.659 -5.559 6.09
2833 ARG373 0 16.694 -6.238 6.097
2834 ARG373 CB 14.937 -3.926 7.783
2835 ARG373 CG 15.657 -4.637 8.922
2836 ARG373 CD 16.912 -3.879 9.335
2837 ARG373 NE 16.548 -2.554 9.862
2838 ARG373 CZ 16.405 -2.304 11.165
2839 ARG373 NH1 16.663 -3.261 12.059
2840 ARG373 NH2 16.046 -1.087 11.576
2841 VAL374 N 14.474 -6.032 5.749
2842 VAL374 CA 14.314 -7.425 5.338
2843 VAL374 C 13.644 -7.499 3.971
2844 VAL374 0 12.43 -7.307 3.841
2845 VAL374 CB 13.473 -8.164 6.376
2846 VAL374 CG1 13.297 -9.625 5.984
2847 VAL374 CG2 14.086 -8.075 7.77
2848 PR0375 N 14.432 -7.873 2.976
2849 PR0375 CA 13.929 -8.036 1.606
2850 PR0375 C 13.088 -9.304 1.369
2851 PR0375 O 12.539 -9.472 0.275
2852 PR0375 CB 15.165 -8.072 0.76
2853 PR0375 CG 16.384 -8.221 1.658
2854 PR0375 CD 15.865 -8.159 3.084
2855 GLY376 N 12.945 -10.158 2.371
2856 GLY376 CA 12.162 -11.386 2.21
2857 GLY376 C 11.071 -11.52 3.271
2858 GLY376 0 11.012 -12.523 3.992
2859 ILE377 N 10.225 -10.508 3.367
2860 ILE377 CA 9.092 -10.568 4.299 2861 ILE377 C 7.921 -1 1.295 3.645
2862 ILE377 0 7.217 -10.731 2.801
2863 ILE377 CB 8.663 -9.148 4.656
2864 ILE377 CG1 9.836 -8.352 5.203
2865 ILE377 CG2 7.529 -9.169 5.674
2866 ILE377 CD1 9.433 -6.919 5.526
2867 ARG378 N 7.743 -12.55 4.009
2868 ARG378 CA 6.648 -13.342 3.451
2869 ARG378 C 5.468 -13.417 4.409
2870 ARG378 0 5.629 -13.304 5.627
2871 ARG378 CB 7.186 -14.734 3.163
2872 ARG378 CG 8.265 -14.671 2.089
2873 ARG378 CD 8.975 -16.01 1.929
2874 ARG378 NE 9.756 -16.33 3.134
2875 ARG378 CZ 9.57 -17.431 3.864
2876 ARG378 NH1 8.587 -18.28 3.556
2877 ARG378 NH2 10.338 -17.659 4.931
2878 ILE379 N 4.277 -13.531 3.854
2879 ILE379 CA 3.096 -13.713 4.703
2880 ILE379 C 3.14 -15.13 5.272
2881 ILE379 0 3.519 -16.07 4.563
2882 ILE379 CB 1.841 -13.536 3.855
2883 ILE379 CG1 2.108 -12.589 2.692
2884 ILE379 CG2 0.702 -12.984 4.709
2885 ILE379 CD1 0.882 -12.447 1.798
2886 ALA380 N 2.872 -15.267 6.56
2887 ALA380 CA 2.895 -16.598 7.174
2888 ALA380 C 1.533 -17.277 7.07
2889 ALA380 0 1.435 -18.51 7.097
2890 ALA380 CB 3.306 -16.471 8.635
2891 VAL381 N 0.498 -16.47 6.917
2892 VAL381 CA -0.839 -17.005 6.651
2893 VAL381 C -1.231 -16.745 5.2
2894 VAL381 0 -0.782 -15.768 4.59
2895 VAL381 CB -1.847 -16.359 7.599
2896 VAL381 CG1 -1.705 -16.897 9.018
2897 VAL381 CG2 -1.747 -14.839 7.57
2898 PR0382 N -1.999 -17.662 4.635
2899 PR0382 CA -2.615 -17.424 3.329
2900 PR0382 C -3.477 -16.166 3.352
2901 PR0382 O -4.045 -15.802 4.391
2902 PR0382 CB -3.422 -18.651 3.039
2903 PR0382 CG -3.29 -19.627 4.198
2904 PR0382 CD -2.414 -18.938 5.231
2905 VAL383 N -3.721 -15.621 2.172
2906 VAL383 CA -4.415 -14.327 2.051
2907 VAL383 C -5.892 -14.388 2.452
2908 VAL383 0 -6.376 -13.473 3.126
2909 VAL383 CB -4.302 -13.886 0.593
2910 VAL383 CG1 -5.05 -12.578 0.343
2911 VAL383 CG2 -2.838 -13.751 0.177
2912 ASP384 N -6.478 -15.572 2.355
2913 ASP384 CA -7.876 -15.767 2.759
2914 ASP384 C -8.031 -15.962 4.271 2915 ASP384 0 -9.156 16.094 4.761
2916 ASP384 CB -8.42 17.003 2.048
2917 ASP384 CG -8.293 16.849 0.534
2918 ASP384 0D1 -9.1 16.128 -0.032
2919 ASP384 0D2 -7.312 17.346 -0.002
2920 GLU385 N -6.926 15.995 5
2921 GLU385 CA -6.994 16.177 6.448
2922 GLU385 C -6.674 14.884 7.194
2923 GLU385 0 -6.638 14.896 8.429
2924 GLU385 CB -6.01 17.259 6.874
2925 GLU385 CG -6.219 18.561 6.11 1
2926 GLU385 CD -7.651 19.079 6.248
2927 GLU385 0E1 -8.017 19.462 7.349
2928 GLU385 0E2 -8.266 19.256 5.205
2929 LEU386 N -6.406 -13.81 6.463
2930 LEU386 CA -6.082 12.519 7.093
2931 LEU386 C -7.266 11.953 7.874
2932 LEU386 0 -8.342 -11.71 7.315
2933 LEU386 CB -5.676 11.542 5.996
2934 LEU386 CG -4.348 11.943 5.365
2935 LEU386 CD1 -4.081 11.153 4.091
2936 LEU386 CD2 -3.204 11.773 6.357
2937 PR0387 N -7.063 11.798 9.173
2938 PR0387 CA -8.132 -1 1.39 10.091
2939 PR0387 C -8.419 -9.89 10.047
2940 PR0387 0 -7.84 -9.095 10.805
2941 PR0387 CB -7.647 11.801 11.445
2942 PR0387 CG -6.191 12.224 11.339
2943 PR0387 CD -5.817 12.105 9.873
2944 PHE388 N -9.314 -9.528 9.143
2945 PHE388 CA -9.775 -8.145 9.012
2946 PHE388 C -10.688 -7.79 10.176
2947 PHE388 0 -11.522 -8.597 10.603
2948 PHE388 CB -10.558 -7.999 7.709
2949 PHE388 CG -9.785 -8.343 6.437
2950 PHE388 CD1 -8.78 -7.498 5.987
2951 PHE388 CD2 -10.097 -9.492 5.721
2952 PHE388 CE1 -8.076 -7.809 4.831
2953 PHE388 CE2 -9.393 -9.804 4.565
2954 PHE388 CZ -8.381 -8.963 4.121
2955 LYS389 N -10.5 -6.599 10.707
2956 LYS389 CA -11.364 -6.141 11.792
2957 LYS389 C -12.626 -5.52 11.203
2958 LYS389 0 -12.542 -4.581 10.4
2959 LYS389 CB -10.61 1 -5.115 12.633
2960 LYS389 CG -11.439 -4.708 13.847
2961 LYS389 CD -10.677 -3.763 14.767
2962 LYS389 CE -11.487 -3.466 16.023
2963 LYS389 NZ -10.719 -2.637 16.96
2964 HIS390 N -13.775 -6.068 11.571
2965 HIS390 CA -15.055 -5.523 11 .102
2966 HIS390 C -15.385 -4.226 1 1.836
2967 HIS390 0 -15.845 -4.213 12.983
2968 HIS390 CB -16.162 -6.548 1 1.316 2969 HIS390 CG -17.525 -6.094 10.826
2970 HIS390 ND1 -17.895 -5.893 9.545
2971 HIS390 CD2 -18.62 -5.81 11.607
2972 HIS390 CE1 -19.181 -5.487 9.51 1
2973 HIS390 NE2 -19.629 -5.437 10.786
2974 ASP391 N -15.053 -3.138 11.167
2975 ASP391 CA -15.269 -1.789 11.683
2976 ASP391 C -15.392 -0.871 10.48
2977 ASP391 0 -14.395 -0.539 9.835
2978 ASP391 CB -14.068 -1.414 12.553
2979 ASP391 CG -14.172 -0.02 13.18
2980 ASP391 OD1 -14.984 0.771 12.707
2981 ASP391 OD2 -13.241 0.324 13.884
2982 SER392 N -16.582 -0.335 10.283
2983 SER392 CA -16.835 0.448 9.075
2984 SER392 C -16.261 1.863 9.129
2985 SER392 O -15.99 2.431 8.07
2986 SER392 CB -18.342 0.537 8.868
2987 SER392 OG -18.876 1.383 9.878
2988 THR393 N -15.944 2.392 10.297
2989 THR393 CA -15.451 3.768 10.313
2990 THR393 C -13.931 3.822 10.468
2991 THR393 0 -13.294 4.722 9.909
2992 THR393 CB -16.183 4.53 11.411
2993 THR393 OG1 -17.557 4.561 1 1.04
2994 THR393 CG2 -15.703 5.972 11.528
2995 ILE394 N -13.365 2.816 11.1 18
2996 ILE394 CA -11.899 2.665 11.203
2997 ILE394 C -1 1.525 1 .204 10.92
2998 ILE394 0 -11.205 0.419 1 1.824
2999 ILE394 CB -11.37 3.095 12.577
3000 ILE394 CG1 -11.744 4.533 12.921
3001 ILE394 CG2 -9.847 2.978 12.624
3002 ILE394 CD1 -10.977 5.529 12.055
3003 TYR395 N -11.59 0.854 9.649
3004 TYR395 CA -11.29 -0.503 9.179
3005 TYR395 C -9.792 -0.786 9.302
3006 TYR395 0 -8.997 0.149 9.447
3007 TYR395 CB -11.747 -0.572 7.721
3008 TYR395 CG -11.784 -1.967 7.101
3009 TYR395 CD1 -10.958 -2.272 6.026
3010 TYR395 CD2 -12.648 -2.927 7.612
3011 TYR395 CE1 -10.991 -3.543 5.465
3012 TYR395 CE2 -12.682 -4.199 7.052
3013 TYR395 CZ -11.852 -4.502 5.982
3014 TYR395 OH -11.882 -5.763 5.427
3015 GLY396 N -9.433 -2.053 9.421
3016 GLY396 CA -8.007 -2.401 9.468
3017 GLY396 C -7.732 -3.871 9.759
3018 GLY396 O -8.601 -4.74 9.609
3019 LEU397 N -6.493 -4.132 10.134
3020 LEU397 CA -6.031 -5.497 10.406
3021 LEU397 C -5.334 -5.577 1 1.751
3022 LEU397 O -4.297 -4.938 11.961 3023 LEU397 CB -5.051 -5.894 9.311
3024 LEU397 CG -5.773 -6.502 8.12
3025 LEU397 CD1 -5.037 -6.225 6.822
3026 LEU397 CD2 -5.979 -7.996 8.325
3027 HIS398 N -5.87 -6.402 12.634
3028 HIS398 CA -5.274 -6.514 13.967
3029 HIS398 C -4.348 -7.718 14.107
3030 HIS398 0 -3.651 -7.848 15.12
3031 HIS398 CB -6.363 -6.528 15.033
3032 HIS398 CG -6.737 -5.14 15.525
3033 HIS398 ND1 -7.052 -4.804 16.79
3034 HIS398 CD2 -6.795 -3.984 14.781
3035 HIS398 CE1 -7.311 -3.482 16.851
3036 HIS398 NE2 -7.152 -2.975 15.607
3037 ALA399 N -4.306 -8.567 13.094
3038 ALA399 CA -3.343 -9.671 13.12
3039 ALA399 C -2.7 -9.903 1 1.756
3040 ALA399 O -3.373 -10.014 10.724
3041 ALA399 CB -4.014 -10.936 13.633
3042 LEU400 N -1.383 -10.004 11.794
3043 LEU400 CA -0.567 -10.204 10.589
3044 LEU400 C 0.772 •10.856 10.935
3045 LEU400 0 1.712 -10.165 1 1.35
3046 LEU400 CB -0.307 -8.845 9.946
3047 LEU400 CG 0.615 -8.952 8.736
3048 LEU400 CD1 0.005 -9.826 7.644
3049 LEU400 CD2 0.973 -7.572 8.197
3050 PRO401 N 0.815 -12.178 10.881
3051 PRO401 CA 2.084 -12.9 10.974
3052 PRO401 C 2.88 ■12.822 9.671
3053 PRO401 0 2.413 -13.242 8.602
3054 PRO401 CB 1.686 ■14.312 1 1.269
3055 PRO401 CG 0.197 ■14.466 10.993
3056 PRO401 CD -0.308 -13.08 10.625
3057 VAL402 N 4.074 12.267 9.78
3058 VAL402 CA 5.008 12.183 8.653
3059 VAL402 C 6.358 12.814 8.998
3060 VAL402 0 7.008 12.485 9.998
3061 VAL402 CB 5.194 10.723 8.25
3062 VAL402 CG1 3.968 10.185 7.523
3063 VAL402 CG2 5.553 -9.84 9.44
3064 THR403 N 6.772 13.729 8.146
3065 THR403 CA 8.039 14.428 8.342
3066 THR403 C 9.135 13.709 7.571
3067 THR403 0 9.102 -13.66 6.335
3068 THR403 CB 7.888 15.853 7.827
3069 THR403 OG1 6.715 16.403 8.406
3070 THR403 CG2 9.077 16.723 8.22
3071 TRP404 N 10.089 13.156 8.298
3072 TRP404 CA 11.177 12.406 7.66
3073 TRP404 C 12.136 13.344 6.931
3074 TRP404 0 12.984 12.835 6.21
3075 TRP404 CB 11.969 1 1.654 8.719
3076 TRP404 CG 11.163 10.949 9.79 3077 TRP404 CD1 10.886 -11.444 11.043
3078 TRP404 CD2 10.559 -9.637 9.729
3079 TRP404 NE1 10.155 -10.524 11.721
3080 TRP404 CE2 9.943 -9.428 10.972
3081 TRP404 CE3 10.506 -8.656 8.749
3082 TRP404 CZ2 9.278 -8.237 11.225
3083 TRP404 CZ3 9.838 -7.468 9.009
3084 TRP404 CH2 9.226 -7.257 10.239
3085 TRP404 OXT 12.117 -14.53 7.239
3086 HEM1 FE -8.08 12.05 10.226
3087 HEM1 NA -9.653 12.085 9.078
3088 HEM1 C1A -10.7 13.004 9.077
3089 HEM1 C2A -1 1.687 12.681 8.118
3090 HEM1 C3A -1 1.292 11.525 7.568
3091 HEM1 C4A -10.019 11.174 8.129
3092 HEM1 CHB -9.224 10.1 15 7.699
3093 HEM1 C1 B -7.931 9.83 8.181
3094 HEM1 NB -7.308 10.582 9.182
3095 HEM1 C4B -6.086 9.964 9.364
3096 HEM1 C3B -5.946 8.85 8.506
3097 HEM1 C2B -7.068 8.771 7.746
3098 HEM1 CMB -7.416 7.755 6.682
3099 HEM1 CAB -4.833 8.031 8.591
3100 HEM1 CBB -4.44 7.051 7.74
3101 HEM1 CHC -5.212 10.298 10.374
3102 HEM1 C1 C -5.439 11.223 11.336
3103 HEM1 NC -6.519 12.039 11.384
3104 HEM1 C4C -6.227 12.887 12.426
3105 HEM1 C3C -4.926 12.636 13.002
3106 HEM1 C2C -4.491 11.556 12.313
3107 HEM1 CMC -3.265 10.712 12.532
3108 HEM1 CAC -4.462 13.435 14.055
3109 HEM1 CBC -3.452 13.231 14.936
3110 HEM1 CHD -7.061 13.855 12.91
3111 HEM1 C1 D -8.237 14.203 12.292
3112 HEM1 ND -8.777 13.572 11.18
3113 HEM1 C4D -9.915 14.313 10.916
3114 HEM1 C3D -10.045 15.413 11.808
3115 HEM1 C2D -9.006 15.334 12.673
3116 HEM1 CMD -8.71 16.241 13.844
3117 HEM1 CAD -11.178 16.421 11.802
3118 HEM1 CBD -10.91 17.624 10.918
3119 HEM1 CGD -12.079 18.574 10.862
3120 HEM1 01 D -13.198 18.167 11.204
3121 HEM1 02D -1 1.889 19.736 10.477
3122 HEM1 CHA -10.849 14.026 9.961
3123 HEM1 CMA -12.005 10.703 6.498
3124 HEM1 CAA -12.907 13.51 7.748
3125 HEM1 CBA -14.087 13.1 12 8.645
3126 HEM1 CGA -15.442 13.596 8.14
3127 HEM1 01A -15.522 14.131 7.009
3128 HEM1 02A -16.439 13.4 8.866

Claims

What is Claimed is:
1. An isolated nucleic acid sequence encoding epothilone B hydroxylase or a mutant or variant thereof.
2. The isolated nucleic acid sequence of claim 1 comprising SEQ ID NO:
1, 30, 32, 34, 36, 37, 38, 39, 40, 41, 42, 60, 62, 64, 66, 68, 72 or 74.
3. The isolated nucleic acid sequence of claim 1 comprising SEQ ID NO:l.
4. The isolated nucleic acid sequence of claim 1 encoding a mutant with at least one amino acid substitution in an active site of the epothilone B hydroxylase enzyme.
5. The isolated nucleic acid sequence of claim 1 encoding a mutant with at least one amino acid substitution at amino acid GLU31, ARG67, ARG88, ILE92, ALA93, VAL106, ILE130, ALA140, MET176, PHE190, GLU 231, SER294, PHE237, or ILE365 of SEQ ID NO:2.
6. The isolated nucleic acid sequence of claim 1 encoding a mutant with at least one amino acid substitution at amino acid LEU39, GLN43, ALA45, MET57, LEU58, HIS62, PHE63, SER64, SER65, ASP66, ARG67, GLN68, SER69, LEU74, MET75, VAL76, ALA77, ARG78, GLN79, ILE80, ASP84, LYS85, PRO86, PHE87, ARG88, PRO89, SER90, LEU91, ILE92, ALA93, MET94, ASP95, HIS99, ARG103, PHE110, ILE155, PHE169, GLN170, CYS 172, SER173, SER174, ARG175, MET176, LEU177, SER178, ARG179, ARG186, PHE190, LEU193, VAL233, GLY234, LEU235, ALA236, PHE237, LEU238, LEU239, LEU240, ILE241, ALA242, GLY243, HIS244, GLU245, THR246, THR247, ALA248, ASN249, MET250, LEU283, THR287, ILE288, ALA289, GLU290, THR291, ALA292, THR293, SER294, ARG295, PHE296, ALA297, THR298, GLU312, GLY313, VAL314, VAL315, GLY316, VAL344, ALA345, PHE346, GLY347, PHE348, VAL350, HIS351, GLN352, CYS353, LEU354, GLY355, GLN356, LEU358, ALA359, GLU362, LYS389, ASP391, SER392, THR393, ILE394, or TYR395 of SEQ ID NO:2.
7. The isolated nucleic acid sequence of claim 1 encoding a variant comprising SEQ ID NO:43, 44, 45, 46, 47, 48 or 49.
8. A polypeptide encoded by the isolated nucleic acid sequence of claim 1.
9. An isolated nucleic acid molecule that is capable of hybridizing to a nucleic acid sequence of claim 2, or to the complementary sequence of said nucleic acid sequence, under hybridization conditions of 3X SSC at 65°C for 16 hours, said isolated nucleic acid molecule being capable of remaining hybridized to said nucleic acid sequence, or to the complementary sequence of said nucleic acid sequence, under wash conditions of 0.5X SSC, 55°C for 30 minutes.
10. An isolated polypeptide comprising SEQ ID NO:2.
11. An isolated mutant polypeptide of epothilone B hydroxylase of SEQ ID NO: 2 comprising an amino acid sequence with at least one amino acid substitution in an active site of epothilone B hydroxylase enzyme of SEQ ID NO:2.
12. An isolated mutant polypeptide of epothilone B hydroxylase of SEQ ID NO: 2 comprising an amino acid sequence with at least one amino acid substitution at amino acid GLU31, ARG67, ARG88, ILE92, ALA93, VAL106, ILE130,
ALA140, MET176, PHE190, GLU 231, SER294, PHE237, or ILE365 of SEQ ID NO:2.
13. An isolated mutant polypeptide of epothilone B hydroxylase of SEQ ID NO: 2 comprising an amino acid sequence with at least one amino acid substitution at amino acid LEU39, GLN43, ALA45, MET57, LEU58, HIS62, PHE63, SER64, SER65, ASP66, ARG67, GLN68, SER69, LEU74, MET75, VAL76, ALA77, ARG78, GLN79, ILE80, ASP84, LYS85, PRO86, PHE87, ARG88, PRO89, SER90, LEU91, ILE92, ALA93, MET94, ASP95, HIS99, ARG103, PHE110, ILE155, PHE169, GLN170, CYS 172, SER173, SER174, ARG175, MET176, LEU177, SER178, ARG179, ARG186, PHE190, LEU193, VAL233, GLY234, LEU235, ALA236, PHE237, LEU238, LEU239, LEU240, ILE241, ALA242, GLY243, HIS244, GLU245, THR246, THR247, ALA248, ASN249, MET250, LEU283, THR287, ILE288, ALA289, GLU290, THR291, ALA292, THR293, SER294, ARG295, PHE296, ALA297, THR298, GLU312, GLY313, VAL314, VAL315, GLY316, VAL344, ALA345, PHE346, GLY347, PHE348, VAL350, HIS351, GLN352, CYS353, LEU354, GLY355, GLN356, LEU358, ALA359, GLU362, LYS389, ASP391, SER392, THR393, ILE394, or TYR395 of SEQ ID NO:2.
14. An isolated mutant polypeptide of epothilone B hydroxylase comprising SEQ ID NO: 31, 33, 35, 61, 63, 65, 67, 69, 71, 73 or 75.
15. An isolated variant polypeptide of epothilone B hydroxylase comprising SEQ ID NO: 43, 44, 45, 46, 47, 48 or 49.
16. An isolated nucleic acid sequence encoding a ferredoxin.
17. The isolated nucleic acid sequence of claim 16 comprising SEQ ID NO:3.
18. A polypeptide encoded by the isolated nucleic acid sequence of claim 16.
19. An isolated nucleic acid molecule that is capable of hybridizing to the nucleic acid sequence set forth in SEQ ID NO: 3, or to the complementary sequence of the nucleic acid sequence set forth in SEQ ID NO:3, under hybridization conditions of 3X SSC at 65°C for 16 hours, said isolated nucleic acid molecule being capable of remaining hybridized to the nucleic acid sequence set forth in SEQ ID NO: 3, or to the complementary sequence of the nucleic acid sequence set forth in SEQ ID NO: 3, under wash conditions of 0.5X SSC, 55°C for 30 minutes.
20. A vector comprising the isolated nucleic acid sequence of claim 1.
21. The vector of claim 20 further comprising an isolated nucleic acid sequence encoding a ferredoxin.
22. A host cell comprising the vector of claim 20.
23. A host cell comprising the vector of claim 21.
24. A method for producing recombinant microorganisms which hydroxylate epothilones having a terminal alkyl group to produce epothilones having a terminal hydroxyalkyl group, said method comprising transfecting a microorganism with the vector of claim 20 or 21.
25. A recombinantly produced microorganism that hydroxylates epothilones having a terminal alkyl group to produce epothilones having a terminal hydroxyalkyl group.
26. The recombinantly produced microorganism of claim 25 wherein said microorganism expresses a nucleic acid sequence of SEQ ID NO: 1, 30, 32, 34, 36,
37, 38, 39, 40, 41, 42, 60, 62, 64, 66, 68, 72 or 74.
27. A method for the preparation of at least one epothilone of the following formula I HO-CH2-(A1)n-(Q)m-(A2)0-E (I) where
A\ and A2 are independently selected from the group of optionally substituted CpC3 alkyl and alkenyl;
Q is an optionally substituted ring system containing one to three rings and at least one carbon to carbon double bond in at least one ring; n, m, and o are integers selected from the group consisting of zero and 1, where at least one of m or n or o is 1 ; and
E is an epothilone core; comprising the steps of contacting at least one epothilone of the following formula II CH3-(A,)»-(Q)m-(A2)0-E (H) where Ai, Q, A2, E, n, m, and o are defined as above; with a recombinantly produced microorganism, or an enzyme derived therefrom, which is capable of selectively catalyzing the hydroxylation of Formula π, and effecting said hydroxylation.
28. A method for the preparation of an epothilone analog of Formula A
Figure imgf000118_0001
said method comprising biotransforming epothilone B to the epothilone analog of Formula A by incubation with a mutant epothilone B hydroxylase enzyme comprising SEQ ID NO:31.
29. A compound of Formula A
Figure imgf000118_0002
or a pharmaceutically acceptable salt thereof.
30. A homology model of epothilone B hydroxylase having a root mean square deviation of conserved residue backbone atoms of less than about 4.0 A when superimposed on a corresponding backbone atoms described by structure coordinates listed in Appendix 1.
31. A method for producing a mutant with altered biological properties, function, yield of a desired product, rate of reaction, substrate specificity, or activity as compared to epothilone B hydroxylase, said method comprising the steps of: identifying an amino acid of SEQ ID NO:2 to mutate; and mutating the identified amino acid to create a mutant protein.
32. The method of claim 31 wherein a homology model of epothilone B hydroxylase having a root mean square deviation of conserved residue backbone atoms of less than about 4.0 A when superimposed on a corresponding backbone atoms described by structure coordinates listed in Appendix 1 is used to identify an amino acid of SEQ ID NO: 2 to mutate.
33. The method of claim 31 wherein the identified amino acid is LEU39, GLN43, ALA45, MET57, LEU58, HIS62, PHE63, SER64, SER65, ASP66, ARG67, GLN68, SER69, LEU74, MET75, VAL76, ALA77, ARG78, GLN79, ILE80, ASP84, LYS85, PRO86, PHE87, ARG88, PRO89, SER90, LEU91, ILE92, ALA93, MET94, ASP95, HIS99, ARG103, PHE110, ILE155, PHE169, GLN170, CYS172, SER173, SER174, ARG175, MET176, LEU177, SER178, ARG179, ARG186, PHE190, LEU193, VAL233, GLY234, LEU235, ALA236, PHE237, LEU238, LEU239, LEU240, ILE241, ALA242, GLY243, HIS244, GLU245, THR246, THR247, ALA248, ASN249, MET250, LEU283, THR287, ILE288, ALA289, GLU290, THR291, ALA292, THR293, SER294, ARG295, PHE296, ALA297, THR298, GLU312, GLY313, VAL314, VAL315, GLY316, VAL344, ALA345, PHE346, GLY347, PHE348, VAL350, HIS351, GLN352, CYS353, LEU354, GLY355, GLN356, LEU358, ALA359, GLU362, LYS389, ASP391, SER392, THR393, ILE394, or TYR395 of SEQ ID NO:2.
34. The method of claim 31 wherein the identified amino acid is GLU31, ARG67, ARG88, ILE92, ALA93, VAL106, ILE130, ALA140, MET176, PHE190, GLU 231, SER294, PHE237, or ILE365 of SEQ ID NO:2.
35. The method of claim 31 wherein the mutant protein improves yield of a desired product as compared to the yield of a desired product obtained using epothilone B hydroxylase.
36. The method of claim 35 wherein the desired product is epothilone F.
37. The method of claim 31 wherein the mutant improves the rate of reaction as compared to the rate of reaction using epothilone B hydroxylase.
38. The method of claim 31 wherein the mutant exhibits altered substrate specificity as compared to substrate specificity of epothilone B hydroxylase.
39. The method of claim 38 wherein amino acid SER294 is mutated.
40. The method of claim 31 wherein the mutant exhibits essentially similar biological activity or function to epothilone B hydroxylase.
41. A machine-readable data storage medium comprising a data storage material encoded with structure coordinates set forth in Appendix 1.
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EP1500704A1 (en) * 2002-04-12 2005-01-26 Mercian Corporation Expression system of actinomycete-origin cytochrome p-450 in escherichia coli
EP1500704A4 (en) * 2002-04-12 2006-04-05 Mercian Corp Expression system of actinomycete-origin cytochrome p-450 in escherichia coli
EP1572991A2 (en) * 2002-12-17 2005-09-14 Bristol-Myers Squibb Company Compositions and methods for hydroxilating epothilones
EP1572991A4 (en) * 2002-12-17 2007-07-25 Bristol Myers Squibb Co Compositions and methods for hydroxilating epothilones
US11384371B2 (en) 2016-11-15 2022-07-12 Hypha Discovery Limited Hydroxylation of branched aliphatic or aromatic substrates employing the amycolatopsis lurida cytochrome P450
US11618906B2 (en) 2018-05-14 2023-04-04 Hypha Discovery Ltd. Hydroxylation techniques
US11891642B2 (en) 2018-11-26 2024-02-06 Hypha Discovery Limited Biocatalytic techniques

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