WO2006012902A3 - Creation of diversity in polypeptides - Google Patents
Creation of diversity in polypeptides Download PDFInfo
- Publication number
- WO2006012902A3 WO2006012902A3 PCT/DK2005/000515 DK2005000515W WO2006012902A3 WO 2006012902 A3 WO2006012902 A3 WO 2006012902A3 DK 2005000515 W DK2005000515 W DK 2005000515W WO 2006012902 A3 WO2006012902 A3 WO 2006012902A3
- Authority
- WO
- WIPO (PCT)
- Prior art keywords
- steric hindrance
- residues
- amino acid
- resulting polypeptides
- polypeptides
- Prior art date
Links
- 229920001184 polypeptide Polymers 0.000 title abstract 4
- 102000004196 processed proteins & peptides Human genes 0.000 title abstract 4
- 108090000765 processed proteins & peptides Proteins 0.000 title abstract 4
- 125000003275 alpha amino acid group Chemical group 0.000 abstract 2
- 125000000539 amino acid group Chemical group 0.000 abstract 2
- 238000000034 method Methods 0.000 abstract 2
- 238000007796 conventional method Methods 0.000 abstract 1
- 238000005215 recombination Methods 0.000 abstract 1
- 230000006798 recombination Effects 0.000 abstract 1
- 239000002904 solvent Substances 0.000 abstract 1
Classifications
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- A—HUMAN NECESSITIES
- A21—BAKING; EDIBLE DOUGHS
- A21D—TREATMENT, e.g. PRESERVATION, OF FLOUR OR DOUGH, e.g. BY ADDITION OF MATERIALS; BAKING; BAKERY PRODUCTS; PRESERVATION THEREOF
- A21D8/00—Methods for preparing or baking dough
- A21D8/02—Methods for preparing dough; Treating dough prior to baking
- A21D8/04—Methods for preparing dough; Treating dough prior to baking treating dough with microorganisms or enzymes
- A21D8/042—Methods for preparing dough; Treating dough prior to baking treating dough with microorganisms or enzymes with enzymes
-
- 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
- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
- C12N15/102—Mutagenizing nucleic acids
- C12N15/1027—Mutagenizing nucleic acids by DNA shuffling, e.g. RSR, STEP, RPR
-
- 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
- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
- C12N15/1034—Isolating an individual clone by screening libraries
- C12N15/1058—Directional evolution of libraries, e.g. evolution of libraries is achieved by mutagenesis and screening or selection of mixed population of organisms
-
- 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
- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
- C12N15/1034—Isolating an individual clone by screening libraries
- C12N15/1089—Design, preparation, screening or analysis of libraries using computer algorithms
-
- 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
- C12N9/10—Transferases (2.)
- C12N9/1048—Glycosyltransferases (2.4)
-
- 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
- C12N9/14—Hydrolases (3)
- C12N9/24—Hydrolases (3) acting on glycosyl compounds (3.2)
- C12N9/2402—Hydrolases (3) acting on glycosyl compounds (3.2) hydrolysing O- and S- glycosyl compounds (3.2.1)
- C12N9/2405—Glucanases
- C12N9/2408—Glucanases acting on alpha -1,4-glucosidic bonds
- C12N9/2411—Amylases
- C12N9/2414—Alpha-amylase (3.2.1.1.)
- C12N9/2417—Alpha-amylase (3.2.1.1.) from microbiological source
Landscapes
- Life Sciences & Earth Sciences (AREA)
- Health & Medical Sciences (AREA)
- Chemical & Material Sciences (AREA)
- Engineering & Computer Science (AREA)
- Genetics & Genomics (AREA)
- Bioinformatics & Cheminformatics (AREA)
- Organic Chemistry (AREA)
- Wood Science & Technology (AREA)
- Zoology (AREA)
- Biomedical Technology (AREA)
- Biotechnology (AREA)
- General Engineering & Computer Science (AREA)
- Molecular Biology (AREA)
- Microbiology (AREA)
- General Health & Medical Sciences (AREA)
- Biochemistry (AREA)
- Crystallography & Structural Chemistry (AREA)
- Physics & Mathematics (AREA)
- Biophysics (AREA)
- Plant Pathology (AREA)
- Medicinal Chemistry (AREA)
- Bioinformatics & Computational Biology (AREA)
- Food Science & Technology (AREA)
- Ecology (AREA)
- Analytical Chemistry (AREA)
- Micro-Organisms Or Cultivation Processes Thereof (AREA)
- Peptides Or Proteins (AREA)
Abstract
The inventors realized that the diversity generated by conventional methods may be limited by steric hindrance between amino acid residues in the three-dimensional structures of the resulting polypeptides. The steric hindrance may occur between amino acid residues at widely different positions in the amino acid sequences, e.g. between residues in two different domains of the 3D structure, and resulting polypeptides which include such steric hindrance may never be observed in the conventional recombination methods because they may be expressed in poor yields or may have poor activity or stability. The inventors developed a method to identify and alleviate such steric hindrance in the resulting polypeptides. In an alignment of the three-dimensional structures, steric hindrance is indicated when residues from two different structures are located within a certain distance. Pairs of residues at corresponding positions in the amino acid sequences are not considered, and residues close to the surface (high solvent accessibility) are considered to be less prone to steric hindrance.
Priority Applications (5)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| EP05763284A EP1781779A2 (en) | 2004-08-02 | 2005-08-02 | Creation of diversity in polypeptides |
| CA002575878A CA2575878A1 (en) | 2004-08-02 | 2005-08-02 | Creation of diversity in polypeptides |
| US11/624,750 US20080003642A1 (en) | 2004-08-02 | 2007-01-19 | Creation of diversity in polypeptides |
| US12/703,986 US8017371B2 (en) | 2004-08-02 | 2010-02-11 | Hybrid polypeptide of a maltogenic alpha-amylase and a cyclodextrin glucanotransferase |
| US13/197,167 US8309337B2 (en) | 2004-08-02 | 2011-08-03 | Hybrid polypeptide of a maltogenic alpha-amylase and a cyclodextrin glucanotransferase |
Applications Claiming Priority (2)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US59815004P | 2004-08-02 | 2004-08-02 | |
| US60/598,150 | 2004-08-02 |
Related Child Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| US11/624,750 Continuation-In-Part US20080003642A1 (en) | 2004-08-02 | 2007-01-19 | Creation of diversity in polypeptides |
Publications (2)
| Publication Number | Publication Date |
|---|---|
| WO2006012902A2 WO2006012902A2 (en) | 2006-02-09 |
| WO2006012902A3 true WO2006012902A3 (en) | 2006-05-18 |
Family
ID=35058926
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| PCT/DK2005/000515 WO2006012902A2 (en) | 2004-08-02 | 2005-08-02 | Creation of diversity in polypeptides |
Country Status (5)
| Country | Link |
|---|---|
| US (3) | US20080003642A1 (en) |
| EP (1) | EP1781779A2 (en) |
| AU (1) | AU2005269082A1 (en) |
| CA (1) | CA2575878A1 (en) |
| WO (1) | WO2006012902A2 (en) |
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| US9532994B2 (en) | 2003-08-29 | 2017-01-03 | The Regents Of The University Of California | Agents and methods for enhancing bone formation by oxysterols in combination with bone morphogenic proteins |
| CA2575878A1 (en) * | 2004-08-02 | 2006-02-09 | Novozymes A/S | Creation of diversity in polypeptides |
| WO2007098281A2 (en) | 2006-02-27 | 2007-08-30 | Regents Of The University Of California | Oxysterol compounds and the hedgehog pathway |
| JP4989922B2 (en) * | 2006-06-08 | 2012-08-01 | 日本食品化工株式会社 | Mutant and gene encoding the same |
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| EP2231164A1 (en) | 2007-12-03 | 2010-09-29 | The Regents of the University of California | Oxysterols for activation of hedgehog signaling, osteoinduction, antiadipogenesis, and wnt signaling |
| WO2013087027A1 (en) * | 2011-12-16 | 2013-06-20 | Novozymes, Inc. | Polypeptides having laccase activity and polynucleotides encoding same |
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| WO1999043793A1 (en) * | 1998-02-27 | 1999-09-02 | Novo Nordisk A/S | Amylolytic enzyme variants |
| WO2001016349A1 (en) * | 1999-09-01 | 2001-03-08 | Novozymes A/S | Method for production of maltose and/or enzymatically modified starch |
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-
2005
- 2005-08-02 CA CA002575878A patent/CA2575878A1/en not_active Abandoned
- 2005-08-02 AU AU2005269082A patent/AU2005269082A1/en not_active Abandoned
- 2005-08-02 EP EP05763284A patent/EP1781779A2/en not_active Withdrawn
- 2005-08-02 WO PCT/DK2005/000515 patent/WO2006012902A2/en active Application Filing
-
2007
- 2007-01-19 US US11/624,750 patent/US20080003642A1/en not_active Abandoned
-
2010
- 2010-02-11 US US12/703,986 patent/US8017371B2/en not_active Expired - Fee Related
-
2011
- 2011-08-03 US US13/197,167 patent/US8309337B2/en not_active Expired - Fee Related
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| WO1999043793A1 (en) * | 1998-02-27 | 1999-09-02 | Novo Nordisk A/S | Amylolytic enzyme variants |
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Also Published As
| Publication number | Publication date |
|---|---|
| AU2005269082A1 (en) | 2006-02-09 |
| US20110287142A1 (en) | 2011-11-24 |
| WO2006012902A2 (en) | 2006-02-09 |
| US8017371B2 (en) | 2011-09-13 |
| CA2575878A1 (en) | 2006-02-09 |
| US20080003642A1 (en) | 2008-01-03 |
| EP1781779A2 (en) | 2007-05-09 |
| US8309337B2 (en) | 2012-11-13 |
| US20100136653A1 (en) | 2010-06-03 |
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