EP1766402A2 - Dispositif et procede pour analyser des interactions entre des biomolecules - Google Patents

Dispositif et procede pour analyser des interactions entre des biomolecules

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Publication number
EP1766402A2
EP1766402A2 EP05857270A EP05857270A EP1766402A2 EP 1766402 A2 EP1766402 A2 EP 1766402A2 EP 05857270 A EP05857270 A EP 05857270A EP 05857270 A EP05857270 A EP 05857270A EP 1766402 A2 EP1766402 A2 EP 1766402A2
Authority
EP
European Patent Office
Prior art keywords
immobilized
peptide
biopolymers
amino acid
interaction
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Withdrawn
Application number
EP05857270A
Other languages
German (de)
English (en)
Inventor
Gunter Fischer
Cordelia Schiene-Fischer
Miroslav Malesevic
Mike Schutkowski
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Max Planck Gesellschaft zur Foerderung der Wissenschaften eV
Original Assignee
Max Planck Gesellschaft zur Foerderung der Wissenschaften eV
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Application filed by Max Planck Gesellschaft zur Foerderung der Wissenschaften eV filed Critical Max Planck Gesellschaft zur Foerderung der Wissenschaften eV
Publication of EP1766402A2 publication Critical patent/EP1766402A2/fr
Withdrawn legal-status Critical Current

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B30/00—Methods of screening libraries
    • C40B30/04—Methods of screening libraries by measuring the ability to specifically bind a target molecule, e.g. antibody-antigen binding, receptor-ligand binding
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/543—Immunoassay; Biospecific binding assay; Materials therefor with an insoluble carrier for immobilising immunochemicals
    • G01N33/54353—Immunoassay; Biospecific binding assay; Materials therefor with an insoluble carrier for immobilising immunochemicals with ligand attached to the carrier via a chemical coupling agent

Definitions

  • the present invention relates to a device comprising a plurality of biomolecules, which are arranged on the surface of a substrate, wherein the biomolecules are immobilized in pairs spaced from each other via a linker on the surface. Furthermore, the present invention relates to a method for producing a device according to the invention and to a method for detecting interactions between biomolecules.
  • biomolecules the skilled worker understands, for example, compounds from the classes of nucleic acids and their derivatives, proteins, peptides and carbohydrates. These classes of compounds may also be referred to as “biopolymers”.
  • nucleic acids In addition to nucleic acids, natural products or libraries thereof, but also arrangements of oligopeptides and proteins have been applied to such chips.
  • cellulose, glass, polypropylene, polyethylene nitrocellulose, PTFE membranes and special agar were used as support materials for these arrangements.
  • mRNA messenger RNA
  • DNA copies of that mRNA the available one Information for a number of reasons is insufficient to understand the processes of both intracellular and extracellular processes and to make use of them in various biotechnological applications.
  • One reason for this is that the amount of mRNA in a cell often does not match the corresponding one produced in the cell Protein amount correlates.
  • proteins can be significantly influenced by minor chemical modifications in the cell (post-translational modifications) in their biological function.
  • nucleic acids for example, nucleic acids, peptides or
  • the present invention is therefore based on the object, means for the parallel detection of interactions between at least two different biopolymers, such as peptides, nucleic acids (DNA, RNA, PLA etc), and their derivatives, provide, which is suitable for a be used in a system with high throughput, and on the other hand only a small sample volume needed.
  • biopolymers such as peptides, nucleic acids (DNA, RNA, PLA etc), and their derivatives
  • a further object of the present invention is a method for detecting an interaction between an immobilized biomolecule, in particular a biopolymer with at least one other, different from the first, immobilized biomolecule, or biopolymer and further a method for determining the effectiveness and selectivity of an active ingredient to provide.
  • the object underlying the invention is achieved by a device for analyzing interactions between biomolecules comprising a carrier on which a plurality of biomolecules in a regular or irregular
  • the linker has a substantially fork-shaped structure.
  • the advantage of this bifurcated structure is the ability to position biomolecules targeted in the immediate vicinity and directed on the surface, and depending on the specific design of the fork-shaped structure (the so-called “molecular fork”) to arrange at a defined distance from each other.
  • the linker contains three reactive groups and is covalently bonded to the carrier surface via one of these reactive groups.
  • the biomolecules are biopolymers which very particularly preferably consist of regular or irregular sequences of monomer building blocks.
  • the advantage of this embodiment is the ability to synthesize the biopolymers fixed in situ directly from the monomer building blocks on the surface.
  • the biopolymers are selected from terpenes, nucleic acid sequences, sugar sequences, amino acid sequences and peptide glycoconjugate sequences.
  • biopolymer sequences bound to a linker are replaced by a spacer in are arranged at a defined distance from each other.
  • the advantage of this embodiment is the possibility of positioning biopolymer sequences at different distances, also shifted from one another, since interactions often depend on the correct distances of the chemical groups involved.
  • the material of the carrier is preferably selected from glass, ceramics, metals and their alloys, cellulose, chitin and synthetic polymers.
  • the advantage of such support materials is i) to provide a mechanically strong planar surface and ii) to provide the possibility of chemical modifiability.
  • the object of the present invention is achieved by a method for detecting interactions between biopolymers immobilized on a surface, comprising the steps:
  • the result is a measurable signal when at least two different immobilized biomolecules come very close to each other through interactions.
  • the detection of the interaction takes place at amino acid sequences.
  • the amino acid sequence with fluorescent radicals such as. B. the o-aminobenzoic acid or a Fluoresceinrest is modified.
  • the interaction is detected by bringing the device into contact with another molecule that is capable of distinguishing between interacting, immobilized biopolymers and non-interacting, immobilized biopolymers.
  • the interaction of the immobilized biopolymers is detected by a method which indicates the presence of the added molecule and which is selected from the group comprising autoradiography, plasmon resonance spectroscopy, immunology and fluorescence spectroscopy.
  • a method which indicates the presence of the added molecule and which is selected from the group comprising autoradiography, plasmon resonance spectroscopy, immunology and fluorescence spectroscopy.
  • the detection of the interaction is carried out directly using a detection method that is able to interact with each other, immobilized biopolymers, such. G., Peptides, and non-interacting, immobilized biopolymers, such as. As peptides to distinguish.
  • immobilized biopolymers such as. G., Peptides, and non-interacting, immobilized biopolymers, such as. As peptides to distinguish.
  • the advantage of direct detection of the interaction is the independence of other detection reagents that can interfere with an interaction.
  • the detection of the interaction is carried out using a detection method that gives different signals for different distances between mutually interacting, immobilized biopolymers, and non-interacting, immobilized biopolymers.
  • Indicating distance change and selected from the group comprising nuclear magnetic resonance spectroscopy, electron spin resonance spectroscopy, CD spectroscopy, mass spectrometry, FT infrared spectroscopy and fluorescence spectroscopy.
  • the detection of the interaction is carried out using a detection method that after addition of excipients preferably gives deuterated different signals for interacting, immobilized biopolymers and non-interacting, immobilized biopolymers.
  • the interaction of the immobilized biopolymers is detected by a process that the Indicating change in the rate of exchange of amide deuterons and selected from the group comprising MALDI mass spectrometry, ESI mass spectrometry and NMR spectroscopy.
  • the interaction of the immobilized biopolymers is detected by a method which, after irradiation of the amino acid sequence groups with light of suitable frequency and intensity, leads selectively to a covalent bond between the interacting amino acid sequences and the reading out of the corresponding measurement signal is selected group comprising MALDI mass spectrometry, ESI mass spectrometry and NMR spectroscopy.
  • a method which, after irradiation of the amino acid sequence groups with light of suitable frequency and intensity, leads selectively to a covalent bond between the interacting amino acid sequences and the reading out of the corresponding measurement signal is selected group comprising MALDI mass spectrometry, ESI mass spectrometry and NMR spectroscopy.
  • the device is contacted with a reagent before the interaction of the immobilized biopolymers is detected by one of the abovementioned detection methods.
  • the device will be contacted with a reagent selected from the group consisting of drugs, potential agents, organic molecules and natural products.
  • a reagent selected from the group consisting of drugs, potential agents, organic molecules and natural products.
  • the advantage of this embodiment is the targeted high-throughput search for inhibitors of interactions between biopolymers even in the absence of both substances in substance.
  • the present invention will now be described in more detail by way of nonlimiting example of a device having amino acid sequence groups immobilized on a surface, preferably amino acid sequence quartet and gan2 particularly preferred amino acid sequence pairs.
  • biopolymers eg. a nucleic acid sequence and an amino acid sequence, or a sugar and a nucleic acid sequence or an amino acid sequence are bound.
  • the amino acid sequences are immobilized on the surface via a molecular fork according to the invention (compare FIG.
  • the surface is a planar surface.
  • interactions or binding events between two or more of the immobilized amino acid sequences can be detected.
  • the arrangement according to the invention surprisingly allows a protein-protein interaction to be broken down into a multiplicity of peptide-peptide interactions. It is particularly advantageous that, in the case of direct detection of the interaction between amino acid sequences immobilized on the molecular fork, in a particularly preferred case only the sequence information of two proteins, but not the proteins in substance, is necessary in order to obtain the To map interaction surfaces or binding sites of the two proteins.
  • the two interacting proteins A and B are broken down into peptides, preferably so-called overlapping peptides. Subsequently, all combinations, preferably binary combinations, of the peptides derived from the proteins A and B are applied either step-by-step directly or by directed immobilization onto a correspondingly designed molecular fork.
  • the surface is the substrate on which the plurality of amino acid sequence groups are immobilized.
  • the immobilization can be carried out in such a way that it takes place via a covalent bond.
  • other forms of immobilization in particular adsorptive immobilization or immobilization via specific interaction systems are possible.
  • immobilization is particularly preferred via a covalent bond, in which case a chemoselective binding of the amino acid sequence to the surface of the carrier material takes place.
  • a number of reactions known to those skilled in the art Lemieux, GA & Bertozzi, CR., 1998, TIBTECH 1 16, 506-513, see FIG. 3 can be used for this purpose.
  • Suitable reactions are the formation of thioethers from halo-carboxylic acids and thiols, thioethers from thiols and maleimides, amide bonds from thioesters and 1,2-aminothiols, thioamide bonds from dithioesters and 1,2-aminothiols, from thiazolidines from aldehydes and 1,2-aminothiols, of oxazolidines of aldehydes / ketones and 1,2-aminoalcohols, of imidazoles of aldehydes / ketones and 1,2-diamines, (see also Fig. 3) of thiazoles of thioamides and alpha-halo Ketones, of aminothiazoles from amino-oxy-compounds and alpha-
  • Isothiocyanato ketones of oximes of amino-oxy compounds and aldehydes, of oximes of amino-oxy compounds and ketones, of hydrazones of hydrazines and aldehydes, of hydrazones of hydrazides and ketones.
  • the radicals R1-R5 shown in FIG. 3 or the radicals in the abovementioned chemoselective reactions can be alkyl, alkenyl, alkynyl, cycloalkyl or aryl radicals, or heterocycles be, wherein alkyl is branched and unbranched C 1-20 -alkyl] CyI, C 3 _ 20 cycloalkyl, preferably 1.
  • Alkenyl is branched and unbranched C 2-20 alkenyl, branched and unbranched C 1-20 alkyl-OC 2-20 alkenyl, C 1-20 (-O / SC 2-20 ) 2-2 o al ke nyl, aryl-C 2 _ 2O alkenyl, heterocyclyl and unbranched C 2 _ 20 branched alkenyl, C 3-20 - cycloalkenyl, preferably represents branched and unbranched C 2-12 - alkenyl, branched and unbranched C 1-12 ( -0 / SC 2-12) 2- 12 alkenyl, particularly preferably branched and unbranched C 2-6 alkenyl, branched and unbranched C 1-6 (- 0 / SC 2-12) 2- 12 alkenyl, particularly preferably branched and unbranched C 2-6 alkenyl, branched and unbranched C 1-6 (- 0 / SC 2-12) 2- 12 alkenyl, particularly
  • alkynyl preferably branched and unbranched C 2-12 alkynyl, branched and unbranched C 1-12 (- 0 / SC 2-12 ) 2-12 alkynyl, particularly preferably branched and unbranched C 2-6 alkynyl, branched and unbranched C 1-6 (-O / SC 2-8 ) 2-8 alkynyl radicals;
  • Cycloalkyl represents bridged and unbridged C 3-40 -cycloalkyl, preferably bridged and unbridged C 3-26 -cycloalkyl, more preferably bridged and unbridged C 3 .
  • aryl represents substituted and unsubstituted mono-or multi-linked phenyl, pentalenyl, azulenyl, anthracenyl, Indacenyl-, acenaphthyl, fluorenyl, phenalenyl, phenanthrenyl, preferably for substituted and unsubstituted mono-or multi- linked phenyl, pentalenyl, azulenyl, anthracenyl, indenyl, indacenyl, acenaphthyl, fluorenyl, particularly preferably substituted and unsubstituted mono- or multi-linked phenyl, pentalenyl, anthracenyl radicals, and their partially hydrogenated derivatives
  • Heterocycles may be unsaturated and saturated 3-15-membered mono- and tricyclic rings having 1-7 heteroatoms, preferably 3-7.
  • chemoselective immobilization is meant herein in particular that each biopolymer sequence, in particular an amino acid sequence of the amino acid sequence group, is bound to the molecular fork via a defined reactive group or cluster of reactive groups.
  • binding specificity it is achieved that, within the usual reaction conditions, the individual amino acid sequences will be immobilized in a defined ratio on the molecular fork.
  • array of amino acid sequence groups is understood to mean, in particular, that each amino acid sequence group is immobilized at a particular location on a surface via a molecular fork, and preferably, each of these locations can be identified thus to distinct places, where each substantially a group of amino acid sequence is immobilized.
  • the single amino acid sequence group may represent a variety of molecules, however, in terms of their amino acid sequence composition, i. The nature and sequence of the amino acids constituting them are substantially identical.
  • the identity of the amino acid sequences is determined essentially by the method of preparation of the individual amino acid sequences. It is within the scope of the present invention that the amino acid sequences are synthesized in situ on the surface of the device, all possible shapes being conceivable here, i. H. sequential addition of the individual amino acids constituting the amino acid sequence, as well as the use of block synthesis techniques in which groupings of amino acids are assembled and then the individual blocks are sequenced and the blocks or sequences thereof are then immobilized or attached to already immobilized amino acid sequences ,
  • the array comprises a certain number of different amino acid sequence groups. It can be provided that the same
  • Amino acid sequence group at several distinct locations on the surface or the carrier material is present.
  • an internal standard can be realized
  • edge effects can be represented and recorded.
  • biocompatible, functionalized or functionalizable materials can be used as materials for the surface or as support materials. These materials may be present, for example, as solid support plates (monolithic blocks), membranes, films or laminates. Suitable materials are polyolefins, such as z. As polyethylene, polypropylene, halogenated polyolefins (PVDF, PVC, etc.) and polytetrafluoroethylene. On the inorganic material side, for example, ceramics, silicates, silicon and glass can be used. Although non-metallic carrier plates are preferred, it is also within the scope of the present invention to use metallic carrier materials despite their tendency to form potentially nonspecific adsorption effects. Examples of such materials are gold or metal oxides, such as titanium oxide.
  • the surface structure can vary. It is in principle possible that the surface on which molecular forks are attached, on which again the directed immobilization of the amino acid sequences takes place, simultaneously represents the carrier material. However, it is also possible that the surface carrying the molecular forks is different from the carrier material. Such a configuration is given, for example, when the (preferably planar) surface forming material is in the form of a film, which is then, not least for stabilization purposes, applied to a further base support material.
  • the surface of the support plate may be functionalized.
  • functionalization may also be omitted.
  • a first functionalization which is already suitable for effecting covalent attachment of the molecular forks to the surface, can be achieved by providing amino and / or carboxyl groups as reactive groups.
  • a Such functionalization regardless of the chemical nature of the reactive groups applied, is also referred to herein as the first functionalization.
  • carboxyl groups can be carried out, for example, starting from polyolefins, as the surface-providing material, by oxidation with chromic acid. Alternatively, this can be accomplished, for example, by high pressure reaction with oxalyl chloride as well as plasma oxidation, free radical or light induced addition of acrylic acid, and the like.
  • halogenated polyolefins can lead to base-double bonds by base-catalyzed elimination processes, leading both to the generation of amino- and carboxy-reactive groups, with subsequent functionalization of the reactive double bonds carboxy- or amino-functionalized.
  • Ceramics, glasses, silicon dioxide and titanium oxide can be easily mixed with the in a variety of commercially available substituted silanes such.
  • Support plates with hydroxyl groups on the surface are to be modified by a variety of reactions. Reactions with bis-electrophiles, such as, for example, direct carboxymethylation with bromoacetic acid; Acylation with a corresponding amino acid derivative, such as. B. the
  • a particularly advantageous method is the reaction with carbonyldiimidazole or phosgene or triphosgene or p-nitrophenyl chloroformate or thiocarbonyldiimidazole, followed by the reaction with Diamines or monoprotected diamines to attach amino functions via a stable urethane bond on the surface to the support materials.
  • Molecular forks can be any chemical compounds and structures which on the one hand permit covalent bonding to the surface of the support material and on the other hand have at least two further chemical functions which allow either the stepwise synthesis or the chemoselective immobilization of biopolymer sequences to form further covalent bonds ( see Fig. 1).
  • alkyl represents branched and unbranched C 1 _ 20 alkyl, C 3-20 - cycloalkyl, preferably branched and unbranched C 1-12 - alkyl, C 3 _ 12 cycloalkyl, and particularly preferably represents branched and unbranched C 1-6 -alkyl, C 3-6 -cycloalkyl represents radicals.
  • Alkenyl is branched and unbranched C 2 _ 20 alkenyl, branched and unbranched C 1-20 -alkyl-OC 2 _ 20 -alkenyl, C 1-20 (- O / SC 2 _ 20 ) 2 _ 20 alkenyl, aryl C 2 _ 20 alkenyl branched and unbranched heterocyclyl C 2 _ 20 alkenyl, C 3 _ 20 cycloalkenyl, preferably represents branched and unbranched C 2 _ 12 alkenyl, branched and unbranched C 1-12 (-0 / SC 2-12) 2 _ 12 alkenyl, particularly preferably branched and unbranched C 2-6 - alkenyl, branched and unbranched C 1-6 (-0 / SC 2-8) 2-8 alkenyl groups; Alkynyl represents branched and unbranched C 2-20 - alkynyl, branched and unbranched C 1-20 (-0 / SC
  • Heterocycles may be unsaturated and saturated 3-15-membered monobibo- and tricyclic rings having 1-7 heteroatoms, preferably 3-10-membered mono-bi and tricyclic rings having 1-5
  • Heteroatoms and particularly preferred 5-, 6- and 10-membered mono-, bi- and tricyclic rings having 1-3 heteroatoms.
  • alkyl alkenyl, alkynyl, cycloalkyl, aryl, heteroatoms, heterocycles, biomolecule or natural product 0 to 30 (preferably 0 to 10, particularly preferably 0 to 5)
  • substituent may occur singly or in combination: fluorine, chlorine, bromine , Iodine, hydroxyl, amide, ester, acid, amine, acetal, ketal, thiol, ether, phosphate, sulfate, sulfoxide, peroxide, sulfonic acid, thioether, nitrile, ureas, carbamate, with the following being preferred: fluorine, chlorine, bromine, Hydroxyl, amide, ester, acid, amine, ether, phosphate, sulfate, sulfoxide, thioether, nitrile, ureas, carbamate, and most preferably: chlorine, hydroxyl, amide, ester, acid, ether
  • the molecular fork contains a first chemically reactive group for immobilization on one macromolecular surface.
  • this first reactive group is selected from the group consisting of alcohols, amines, carboxylic acids, carbonyl compounds, hydroxylamines, aldehydes, ketones, acetals, ketals, amino-oxy compounds, azides, hydrazides, thiols, thiocarbonyl, thioketals and Thioacetals, sulfides, sulfonates, alkenes, alkynes, halogen compounds and cyano compounds, so that in preferred embodiments the compound to the functionalized surface via -CONH-, -O-, -S-, -COO-, -CH.dbd.N-, -NHCONH, -NHCSNH, -CC or -NHNH- groupings.
  • the molecular fork contains at least a second and a third chemically reactive group for the immobilization or stepwise synthesis of biopolymer sequences.
  • This group includes, but is not limited to, alcohols, amines, carboxylic acids, carbonyl compounds, hydroxylamines, aldehydes, ketones, acetals, ketals, aminooxy compounds, azides, hydrazides, thiols, thiocarbonyl compounds, thioketals and thioacetals, sulfides, sulfonates, alkenes, Alkynes, halogen compounds and cyano compounds include These may be masked by protecting groups.
  • these molecular forks allow the number of biopolymer sequence Molecules covalently fixed on one side of the molecular fork are very similar to the number of biopolymer sequence molecules covalently fixed on one side of the molecular fork.
  • the amino acid sequences immobilized on the molecular fork have a spacer.
  • spacers also referred to herein as “spacers”
  • the amino acid sequences gain more efficiency within additional degrees of freedom
  • a spacer may be essentially any molecule, particularly any biocompatible molecule containing at least two functional groups.
  • the spacer when used, is incorporated as an element between the surface-mounted molecular fork and the amino acid sequence.
  • Suitable spacers are the following compound classes:
  • Alkanes branched or unbranched, in particular those having a chain length of C2 to C30, in particular C4 to C8;
  • Polyether d. H. Polymers of polyethylene oxide or polypropylene oxide, wherein the polyether preferably consist of 1 to 5 polyethylene oxide units or Polypropylenöxidein whatsoever; Polyalcohols, branched or unbranched, such as
  • Polyglycol and derivatives thereof such as O, O'-bis (2-aminopropyl) polyethylene glycol 500 and 2,2 '- (ethylene dioxide) diethylamine; Polyurethanes, polyhydroxy acids, polycarbonates, polyimides, polyamides, polyesters, polysulfones, especially those consisting of 1-100 monomer units, most preferably consisting of 1-10 monomer units; Combinations of the aforementioned alkanes with those mentioned above polyethers; Polyurethanes, polyhydroxy acid, polycarbonates, polyimides, polyamides, polyamino acids, polyesters and polysulfones; Diaminoalkanes, branched or unbranched, preferably those having a chain length of C2 to C30, most preferably those having a chain length of C2 to C8; Examples which may be mentioned here 1,3-diaminopropane, 1, 6-diaminohexane and 1, 8-diaminooctane, and their combinations with poly
  • the spacer has two functional ends, it is possible to select these functionalities so that the amino acid sequences to be immobilized on the surface either through their C-terminus or their N-terminus or via another functional moiety within the immobilized amino acid sequence can be immobilized. If immobilization is to occur via the C-terminus, the functional group of the spacer which acts on the C-terminus will preferably be an amino group. Should the amino acid sequences by means of the N-terminus to the Surface are immobilized, the corresponding functional group of the spacer is a carboxyl group.
  • the spacer is a branched spacer.
  • branched spacers are also referred to as dendrimeric structures or dendrimers for short, and are known to those skilled in the art.
  • Dendrimeric structures for the immobilization of nucleic acids are described, for example, in Beier, M. & Hoheisel, J.D., 1999, Versatile Derivatization of Solid Support Media for Covalent Bonding on DNA Microchips, 9, 1970-1977.
  • the function of such dendrimeric structures is to increase the number of reactive groups per unit area of the surface and thus the signal intensity.
  • Dendrimeric structures can be provided with almost all functional or functionalizable groups, which then allow immobilization of the amino acid sequences.
  • the number of reactive groups per unit area of the planar surface can be increased by a factor of 2 to 100, preferably by a factor of 2 to 20, and more preferably by a factor of 2 to 10.
  • a further functionalization can take place.
  • the remaining reactive group of the spacer is further functionalized by additional measures.
  • This second functionalization can be carried out directly at the molecular fork, at the provided with a spacer molecule fork or at a dendrimeric structure.
  • One reason for the second functionalization is that due to the amino and carboxyl groups present in the amino acid sequences, thiol functions, imidazole functions and guanido functions, no uniform immobilization with respect to the orientation of the
  • Amino acid sequence can be achieved on the molecular fork.
  • a second functionalization provides access to further chemoselective reactions to achieve directional immobilization.
  • Suitable for this second functionalization are all those compounds which are distinguished by the presence of non-proteinogenic functional groups.
  • the following compounds may be mentioned without limitation: maleimido compounds such as maleimido-amines or maleimido-carboxylic acids; alpha-halo ketones such as bromopyruvic acid or 4-carboxy-alpha-bromo-acetophenone, alpha-isothiocyanato-ketones such as 4-carboxy-alpha-isothiocyanato-acetophenone, aldehydes such as carboxybenzaldehyde, ketones such as levulinic acid, thiosemicarbazides, thioamides such as succinic monothioamide, alpha- Bromocarboxylic acids such as bromoacetic acid, hydrazines such as 4-hydrazinobenzoic acid, O-alkylhydroxylamines such as amino-oxy-acetic acid, and hydrazides such as glutaric acid
  • Blocking ensures that during or after the chemoselective reaction of the amino acid sequences with the functionalized molecular forks, unreacted but still reactive groups or groups on the molecular fork or surface are inactivated become.
  • This blocking reaction is necessary because otherwise the added proteins or other components of the biological sample used nonspecifically react with these, not yet blocked, reactive groups and thus may possibly provide a large background signal.
  • Such nonspecific reactions with surfaces are a common cause of unfavorable signal-to-noise ratios in biochemical analyzes.
  • For this blocking are those compounds that are not sterically demanding, react very well with the groups to be blocked and generate the most favorable surface properties. The choice of these compounds will depend on the nature of the sample or interacting partner which interacts with one of the amino acid sequence groups.
  • the compound is preferably made hydrophilic if the proteins used preferably bind non-specifically to hydrophobic surfaces and hydrophobic if the samples used preferably binds non-specifically to hydrophilic surfaces.
  • a biomolecule such as a protein
  • hydrophilic solvent tends to hide all, or rather, as many hydrophobic moieties as possible.
  • hydrophobic surface If such a protein enters a more hydrophobic environment (hydrophobic surface), the protein may fold over and unfold, leading to inactivation.
  • proteins are known that exist in their natural occurrence within (hydrophobic) biomembranes. Such proteins would fold upon contact with a hydrophilic surface and thereby denature or inactivated. In such a case, a hydrophobic surface is desirable.
  • the constituents of the amino acid sequences of the device of the invention are amino acids which are preferably selected from the group comprising L and D amino acids. Furthermore, the amino acids are selected from the group that includes natural and non-natural amino acids. A preferred group within each of the above groups of amino acids are the corresponding alpha-amino acids.
  • the amino acid sequences consist, for example, of a sequence of amino acids from any of the above groups. Thus, for example, a combination of D and L amino acids within the scope of the invention as well as amino acid sequences consisting either exclusively of D or L amino acids.
  • the constituents of the amino acid sequences may moreover comprise molecules other than amino acids.
  • PNAs peptide nucleic acids
  • the density of the amino acid sequence groups is 1 / cm 2 to 1000 / cm 2 , the density being preferably 1 / cm 2 to 500 / cm 2 and most preferably 1 / cm 2 to 200 / cm 2 .
  • Such densities of distinct sites on a surface, each containing an amino acid sequence group can be achieved using various techniques, such as piezoelectric pipetting robots, with fine needles of various materials such as polypropylene, stainless steel or tungsten or alloys thereof so-called "pin tools" that either slotted needles represent or are composed of a ring containing the substance mixture to be applied, and a needle which passes through the substance mixture contained in this ring through this on the corresponding surface. But also with a motor-driven
  • Syringe connected capillaries are suitable (spotter). Another possibility is to apply the amino acid sequences to be immobilized by means of suitable punches.
  • Amino acid sequences by means of suitable pipettes or so-called Multipetten by hand is possible. Furthermore, it is possible to generate the densities of distinct locations indicated above by direct in situ synthesis of the amino acid sequences on the molecular forks of the surface. (M.
  • the different amino acid sequence groups consist of two different sequences and that one of these sequences is identical in the different amino acid sequence groups (FIG. 7). Or else, there are two chemically different sequences before, such as a nucleic acid sequence and an amino acid sequence, etc.
  • Amino acid sequences are overlapping peptides that cover the entire primary structure of a protein.
  • FRET fluorescence energy resonance transfer
  • NMR magnetic core spin resonance
  • auxiliary structures may be attached to the amino acid sequences such that only in the event of an interaction between the
  • Amino acid sequences of an amino acid sequence group is a new structure from those on the
  • Amino acid sequence interactions in contacted auxiliary structures forms, which in turn is selectively detectable.
  • Such a structure may be a structure known to those skilled in the art as a discontinuous epitope, which can be detected selectively by binding suitable antibodies.
  • these auxiliary structures may be elements that, under certain conditions, tend to dimerize or oligomerize only when there is an interaction between the amino acid sequences of an amino acid sequence group.
  • Examples of such auxiliary structures are complementary DNA or RNA, or PNA strands.
  • Further examples of such auxiliary structures are short oligo-proline sequences, which are known to those skilled in the art that they form a so-called polyproline or triple helix in a corresponding pre-orientation, which in turn each generate a specific CD signal.
  • the present invention also provides a method to search for substances that can inhibit the interaction of the immobilized biopolymers. For this purpose, after contacting the device with a reagent which is selected from the group of active ingredients, potential active substances, organic molecules and natural substances, the change of a signal that results from one of the detection methods described above, read out.
  • Fig.l shows the schematic structure of a molecular fork, which is immobilized on the one hand on a support surface and on the other hand carries two different biopolymer sequences
  • Fig. 2 shows schematically the possibilities for interactions of two different biopolymers immobilized on a surface via a binary molecular fork
  • Fig. 4 shows schematically the procedure for loading a binary molecular fork with two different amino acid sequences by sequential chemoselective
  • Fig. 6 shows the chemical structure of the example molecular fork MG2,
  • Fig. 9 shows the analysis of streptavidin / Strep-tag II
  • Figure 12 shows the analysis of streptavidin / strep-tag II interaction using inhibition with natural biotin.
  • Figure 13 shows the mapping of the interaction site of the Raf peptide (RQRSTpSTPNV) on the 14-3-3 protein.
  • Figure 14 shows the mapping of the interaction site of the mT peptide (ARSHpSYPA) on the 14-3-3 protein.
  • Figure 15 shows the mapping of the interaction site of the FKBP12 / FAP48 interaction.
  • Figure 16 shows the mapping of the interaction site of FKBP12 / EGF receptor interaction.
  • FIG. 17 shows the inhibition of streptavidin-peptide / streptag II interactions using the natural product biotin and its derivatives.
  • FIG. 1 shows the schematic structure of a device 100 according to the invention, in which two different biopolymer sequences 101 and 102 are immobilized on a suitable carrier surface 104 via a binary molecular fork 103.
  • FIG. 2 shows the schematic structure of an arrangement 200 according to the invention, wherein in FIG. 2A two non-interacting biopolymer sequences 201 and 202 are immobilized on a suitable carrier surface 204 via a binary molecular fork 203.
  • FIG. 2 B is the possible interaction of identical biopolymer sequences 208, 209, which are immobilized on different, spatially adjacent molecular forks 205, 206, shown schematically.
  • Figure 2C2 the interaction of various biopolymer sequences 213, 214, 215, 216 immobilized on different, spatially adjacent molecular forks 218, 219 is shown schematically.
  • Figure 2C1 also shows the interaction of two different biopolymer sequences 211, 212 immobilized on a molecular fork. It will be apparent to those skilled in the art that the proportion of cases B and C2 is highly dependent on the density of loaded molecular forks on the support surface.
  • the radical R 1 in this case represents alkyl, alkenyl, alkynyl, cycloalkyl or aryl radicals, or heterocycles or surfaces
  • the radicals R 4 -R 5 represent alkyl, alkenyl, alkynyl, cycloalkyl or Aryl radicals, or heterocycles or surfaces or H, D, or T, where alkyl is branched and unbranched C 1-10 -alkyl, C 3-20 -
  • Cycloalkyl preferably for branched and unbranched C 1-12 - alkyl, C 3 _ 12 cycloalkyl and particularly preferably branched and unbranched C 1-6 alkyl, C 3 _ 6 cycloalkyl radicals.
  • Alkenyl represents branched and unbranched C 2 _ 20 alkenyl, branched and unbranched C 1-20 alkyl-OC 2 _ 20 alkenyl, C 1-20 (- 0 / SC 2-20) 2 _ 20 alkenyl, aryl C 2 _ 20 alkenyl, branched and unbranched C heterocyclyl.
  • 2 20 alkenyl, C 3 _ 20 cycloalkenyl preferably represents branched and unbranched C 2 _ 12 alkenyl, branched and unbranched C 1-12 (-O / SC. 2 12) 2 _ 12 alkenyl, particularly preferably branched and unbranched C 2-6 -
  • Alkynyl represents branched and unbranched C 2-20 - alkynyl, branched and unbranched C 1-20 (-0 / SC 2-20) 2 _ 20 alkynyl, preferably represents branched and unbranched C 2-12 - alkynyl, branched and unbranched C 1-12 (-0 / SC 2-12 J 2, 12 alkynyl, more preferably branched and unbranched C 2-6 alkynyl, branched and unbranched C 1-6 (- 0 / SC 2-8) 2 _ 8 alkynyl radicals;
  • cycloalkyl is bridged and non-bridged 3 C 40 -cycloalkyl, preferably bridged and non-bridged C 3-26 cycloalkyl, more preferably bridged and non-bridged C 3-15 cycloalkyl radicals,
  • Heterocycles may be unsaturated and saturated 3-15-membered monobibo- and tricyclic rings having 1-7 heteroatoms, preferably 3-10-membered mono-bi and tricyclic rings having 1-5
  • Heteroatoms and particularly preferred 5,6 and 10-membered mono-bi and tricyclic rings with 1-3 heteroatoms.
  • alkyl alkenyl, alkynyl, cycloalkyl, aryl, heteroatoms, heterocycles, biomolecule or natural product 0 to 30 (preferably 0 to 10, particularly preferably 0 to 5)
  • substituents may be used singly or in combination with each other; Fluorine, chlorine, bromine, iodine, hydroxyl, amide, ester, acid, amine, acetal, ketal, thiol, ether, phosphate, sulfate, sulfoxide, peroxide, sulfonic acid, thioether, nitrile, ureas, carbamate, with the following being preferred: fluorine , Chlorine, bromine, hydroxyl, amide, ester, acid, amine, ether, phosphate, sulfate, sulfoxide, thioether, nitrile, ureas, carbamate, and most preferably: chlorine, hydroxyl, amide
  • FIG. 4 shows the schematic structure of a device 400 according to the invention, in which two different biopolymer sequences 403, 404 are immobilized by a person skilled in the art via a binary molecular fork 401 on a suitable carrier surface 405 and chemoselective reactions are explained in FIG ,
  • the first biopolymer sequence 403 is formed by a chemoselective immobilization reaction under formation anchored to a chemical bond on the molecular fork (reaction step A).
  • reaction step A the second biopolymer sequence 404 is subjected to a chemoselective immobilization reaction / which preferably differs from the first immobilization reaction
  • FIG. 5 shows the structure of the molecular fork MG1, which is connected to the surface of the carrier via two ⁇ -alanine molecules as spacers.
  • Fmoc and Dde are protective groups known to those skilled in the art which, after selective removal, allow the loading of the molecular fork with corresponding biomolecules.
  • FIG. 6 shows the structure of the molecular fork MG2, which is connected via two ⁇ -alanine molecules as spacers to the surface of the carrier.
  • Fmoc and Dde which are known to the person skilled in the art, represent protective groups which, after selective removal, allow the loading of the molecular fork with corresponding biomolecules.
  • FIG. 7 shows a particular embodiment 700 of the invention utilizing binary molecular forks.
  • the same biopolymer sequence 704 is either immobilized or synthesized stepwise (black spheres correspond to the biomonomers, the left-hand biopolymer sequence being identical in this example).
  • biopolymer subsequences 705, 706, 707 e.g. As peptides, either immobilized or synthesized stepwise, the sequence of a naturally occurring biopolymer, eg. As a protein, as represent overlapping Biopolymerteilquoe.
  • the complete sequence or just one or more subregions of the sequence can be imaged by the entirety of the subsequence pieces.
  • the desired biopolymer sequence 705, 706, 707 is represented by overlapping trimeric partial sequences with two overlapping biomonomers.
  • proteins are represented as biopolymer sequences by means of overlapping partial sequences, the entirety of the partial sequences is known to the person skilled in the art as a peptide scan.
  • the present Figure 7 is thus the peculiarity that on the one hand all binary molecular forks 701, 702, 703 same in a molecule, but form a biopolymer scan with the second half 705, 706, 707.
  • Figure 8 shows the interactions of 50 peptide pairs corresponding to the embodiment shown in Figure 7 with overlapping dodecapeptides representing the streptavidin sequence and the strep-tag II peptide.
  • the cellulose modified via molecular forks of the MGl form with peptide pairs was analyzed using 100 nM streptavidin followed by Western blot analysis and immunodetection.
  • the constant peptide block Strep-tag II was synthesized at the Dde site. At the Fmoc side, overlapping 12m peptides with an overlap of 9 amino acids were synthesized, spanning the entire streptavidin sequence. The densitometric analysis was performed using a GS-700 Imaging Densitometer (Bio-Rad). The ordinate represents the difference from the reciprocal of the Intensity of each spot analyzed and the reciprocal of the average spot intensities. Large positive values correspond to a weak signal in the blot and show potential interaction in the peptide pair.
  • streptavidin sequences corresponding to the interacting peptides are tabulated.
  • FIG. 9 shows the interactions in 75 peptide pairs according to the embodiment shown in FIG. 7 with overlapping overlapping dodecapeptides comprising the
  • the constant peptide block Strep-tag II was synthesized at the Dde side. At the Fmoc side, overlapping 12m peptides spanning the entire streptavidin sequence with a 2 amino acid shift were synthesized. The densitometric analysis was performed using a GS-700 Imaging Densitometer (Bio-Rad). The ordinate represents the difference from the reciprocal of the Intensity of each spot analyzed and the reciprocal of the average spot intensities. Large positive values correspond to a weak signal in the blot and show potential interaction in the peptide pair. The streptavidin sequences corresponding to the interacting peptides are tabulated.
  • Figure 10 shows the interactions in 75 peptide pairs according to the embodiment shown in Figure 7 with overlapping dodecapeptides representing the streptavidin sequence and Strep-Tag II peptide.
  • the APEG-amino-polypropylene surface modified via molecular forks MG2 with peptide pairs was analyzed using 100 nM streptavidin followed by Western blot analysis and immunodetection.
  • the constant peptide block streptag II was synthesized on the Dde side.
  • overlapping 12m peptides that span the entire streptavidin sequence with a 2-amino acid shift were synthesized.
  • the densitometric analysis was performed using a GS-700 Imaging Densitometer (Bio-Rad).
  • the ordinate represents the difference between the reciprocal of the intensity of each spot analyzed and the reciprocal of the average spot intensities. Large positive values correspond to a weak signal in the blot and show potential interaction in the peptide pair.
  • the streptavidin sequences corresponding to the interacting peptides are tabulated.
  • FIG. 11 shows the interactions in peptide pairs of peptide pairs according to the embodiment shown in FIG. 7 with overlapping length-varied peptides which the
  • Streptavidin sequence Arg59-AlalOO and Strep-Tag II peptide The constant peptide block Strep-tag II was synthesized on the Dde side. At the Fmoc side, overlapping 12mers to ⁇ mers peptides spanning the streptavidin sequence Arg59-Alal00 with a 2-amino acid shift were synthesized. The cellulose modified via molecular forks MG2 with peptide pairs was analyzed using 50 nM streptavidin followed by Western blot analysis and immunodetection.
  • streptavidin sequences which correspond to the interacting peptides and thus represent the minimal binding motif, are tabulated.
  • Figure 12 shows the biotin-blocked binding of streptavidin to Strep-Tag II peptide.
  • the cellulose modified via molecular forks of the MGl form according to the embodiment shown in Fig. 7 was analyzed using a preformed biotin / streptavidin complex (60 ⁇ g streptavidin / 6 ⁇ g biotin, Ih preincubation) followed by Western blot analysis and immunodetection.
  • Peptide pairs modified cellulose was prepared using 150 nM 14-3-3 protein followed by Western blot analysis and immunodetection.
  • the constant peptide block Raf peptide was synthesized at the Dde site. At the Fmoc side, overlapping 12m peptides that span the entire 14-3-3 protein sequence with a 2 amino acid shift were synthesized.
  • the densitometric analysis was performed using a GS-700 Imaging Densitometer (Bio-Rad). The ordinate represents the difference between the reciprocal of the intensity of each spot analyzed and the reciprocal of the average spot intensities. Large positive values correspond to a weak signal in the blot and show potential interaction in the peptide pair.
  • the 14-3-3 protein sequences corresponding to the interacting peptides are tabulated.
  • the cellulose modified via molecular forks of the MG2 form with peptide pairs was analyzed using 200 nM 14-3-3 protein followed by Western blot analysis and immunodetection.
  • the constant peptide block mT peptide was synthesized at the Dde site. At the Fmoc side, overlapping lOmere peptides spanning the entire 14-3-3 sequence with a 2 amino acid shift were synthesized. The densitometric analysis was performed using a GS-700 Imaging Densitometer (Bio-Rad). The ordinate represents the difference between the reciprocal of the intensity of each spot analyzed and the reciprocal of the average spot intensities. Large positive values correspond with a weak signal in the blot and show potential interaction in the peptide pair. The 14-3-3 protein sequences corresponding to the interacting peptides are tabulated.
  • Figure 15 shows the detection of interactions in 48 peptide pairs according to the embodiment shown in Figure 7 with overlapping dodecapeptides representing the FKBP12 sequence and FAP48-derived peptides interacting with FKBP12.
  • Figure 16 shows the detection of interactions in 48 peptide pairs according to the embodiment shown in Figure 7 with overlapping dodecapeptides representing the FKBP12 sequence and peptides derived from the cytoplasmic domain of the EGF receptor, - which interact with FKBP12.
  • the cellulose modified via molecular forks MG2 with peptide pairs was analyzed using 200 nM FKBP12 followed by Western blot analysis and immunodetection.
  • the constant peptide block acetyl-PHVCRLLGICLTS from the EGF receptor (Pro748-Ser760) was synthesized at the Dde site.
  • overlapping 13m peptides that span the entire FKBP12 sequence with a 2 amino acid shift were synthesized.
  • the densitometric analysis was performed using a GS-700 Imaging Densitometer (Bio-Rad). The ordinate represents the difference between the reciprocal of the intensity of each spot analyzed and the reciprocal of the average spot intensities.
  • Figure 17 shows the mapping of the streptavidin / strep-tag II interaction by means of 75 pairs of peptides consisting of overlapping dodecapeptides representing the streptavidin sequence and the strep-tag II peptide. Shown is the reading of the signal via fluorescence and the inhibition of streptavidin-peptide / Strep-tag II interactions using the natural product biotin and its derivatives.
  • the peptide on the Fmoc side was labeled with a dansyl residue and the peptide on the aloe side was labeled with fluorescein.
  • the analysis was carried out by detecting the emission light at 510-530 nm after excitation with light of wavelength 366 nm by means of the Raytest DIANA Chemiluminescence detection system.
  • C) The modified membrane as described under B) was incubated for 30 minutes in a solution containing 0.5 mM biotin, 1 mM 2-iminobiotin (Ka 8.0 ⁇ 10 6 M -1 ) or diaminobiotin (GO Reznik, S. Vajda, T. Sano, CR., Cantor; 1998, A streptavidin mutant with altered ligand binding speeificity, Proc. Natl. Acad., USA, 95, 13525-13530).
  • Example 1 Immobilization of Peptide Pairs via a Molecular Fork (MGI, FIG. 5) to Amino-Functionalized Cellulose Surfaces
  • Fmoc-Lys (Dde) -OH and Boc-Lys (Fmoc) -OH were dissolved in DMF in 0.3 M and added by addition of a Equivalent PyBOP activated in the presence of DIEA (10%, v / v).
  • Fmoc-Lys (Dde) -OH was coupled to the ( ⁇ -Ala) 2 spacer of the amino-functionalized cellulose surface in DMF.
  • the cleavage of the N ⁇ -Fmoc protective group was carried out using 20% piperidines in DMF twice for 5 min or 15 min at RT. Subsequently, Boc-Lys (Fmoc) -OH was coupled in DMF.
  • the cleavage of the N ⁇ -Fmoc protective group was carried out using 20% piperidines in DMF twice for 5 min or 15 min at RT. It was then washed with DMF (3 ⁇ 10 min) and methanol (2 ⁇ 5 min) and the cellulose was dried.
  • the first peptide chain was carried out automatically using the standard SPOT synthesis method with the device Autospot ASP 222 (Abimed, Langenfeld, Germany).
  • the free N-terminal amino groups were acetylated using 5% acetic anhydride / 2% DIEA in DMF for 30 min. Subsequently, the Dde-protecting group on the molecular fork was removed using 2% hydrazine in DMF for 3 x 3 min.
  • the synthesis of the second peptide chain was performed automatically by the standard SPOT synthesis method, and after completion of the second peptide chain synthesis, the free N-terminal amino groups were acetylated using 5% acetic anhydride / 2% DIEA in DMF for 30 min.
  • Example 2 Immobilization of peptide pairs via a molecular fork (MG2, Figure 6) to amino-functionalized cellulose surfaces.
  • the cleavage of the N ⁇ -Fmoc protective group was carried out using 20% piperidines in DMF twice for 5 min or 15 min at RT. It was then washed with DMF (3 ⁇ 10 min) and methanol (2 ⁇ 5 min) and the cellulose was dried. This was followed by the two-fold coupling of 0.3 M PyBOP-activated Boc-Lys (Fmoc) -OH (0.3 M) in DMF with DIEA (10% v / v).
  • the cleavage of the N ⁇ -Fmoc protective group was carried out using 20% piperidines in DMF twice for 5 min or 15 min at RT.
  • the first peptide chain was carried out automatically using the standard SPOT synthesis method with the device Autospot ASP 222 (Abimed, Langenfeld, Germany).
  • the free N-terminal amino groups were prepared using 5% acetic anhydride / 2% DIEA in DMF for 30 min acetylated. Subsequently, the Dde-protecting group on the molecular fork was removed using 2% hydrazine in DMF for 3 x 3 min.
  • the synthesis of the second peptide chain was performed automatically by the standard SPOT synthesis method, and after completion of the second peptide chain synthesis, the free N-terminal amino groups were acetylated using 5% acetic anhydride / 2% DIEA in DMF for 30 min.
  • the deprotection was done using 50% TFA / DCM with 2% triisopropylsilane and 3% water for 3 h at RT with gentle shaking. The cellulose was then washed twice each with DCM for 5 minutes, with DMF three times for 15 minutes and twice with MeOH for 10 minutes, dried and stored at -20 ° C. for further use.
  • Example 3 Immobilization of peptide pairs via a molecular fork to amino-functionalized APEG- ⁇ mino- polypropylene surfaces.
  • Fmoc-Glu-Lys (Dde) -CONH 2 was prepared as described in Example 2 and activated by PyBOP. The coupling then takes place to the ( ⁇ -Ala) 2 spacer of the APEG-amino-polypropylene surfaces (AMIS Scientific Products GmbH, Germany). The further synthesis was carried out as described in Example 2.
  • Example 4 Analysis of streptavidin / strep-tag II interaction using molecular fork MGI.
  • peptide pairs were synthesized on MG1, whereby the constant peptide block Strep-tag II was synthesized at the Dde side.
  • MG1 constant peptide block Strep-tag II
  • Figure 8A overlapping 12m peptides spanning the entire streptavidin sequence with a 3-amino acid shift
  • peptide pairs were synthesized on MGl, whereby the constant peptide block Strep-tag II was synthesized on the Fmoc side.
  • overlapping 12m peptides spanning the entire streptavidin sequence with a 3 amino acid shift were synthesized (Figure 8B). There were 50 individual spots each.
  • the dry cellulose peptide-modified molecular fork was washed for 10 min with MeOH and 3 x 20 min TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • streptavidin as a detection molecule, which can not interact with interacting peptides, but with strep-tag II, which is not involved in a peptide-peptide interaction, can interact.
  • peptide pairs were synthesized on MG2 to synthesize the constant peptide block Strep-tag II at the Dde side.
  • overlapping 12m peptides spanning the entire streptavidin sequence with a 2 amino acid shift were synthesized. This resulted in 75 individual spots.
  • the dry cellulose peptide-modified molecular fork was washed for 10 min with MeOH and 3 x 20 min TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • streptavidin as a detection molecule, which can not interact with interacting peptides, but with streptag II, which is not involved in a peptide-peptide interaction, can interact.
  • the detection of strepatvidin was carried out by immunodetection and visualization by the ECL system (Amersham Pharmacia).
  • Example 6 Mapping the length of the streptavidin / strep-tag II interaction regions using the molecular fork MG2
  • peptide pairs were synthesized on MG2, the constant peptide block Strep-tag II was synthesized at the Dde site.
  • the constant peptide block Strep-tag II was synthesized at the Dde site.
  • 6mers to 12mers peptides that span the sequence of the streptavidin fragment Arg 59 -Ala 100 with a 2 amino acid shift were synthesized.
  • the dry cellulose peptide-modified molecular fork was washed for 10 min with MeOH and 3 x 20 min TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • the detection of an interaction between the peptides of a pair of peptides immobilized at the molecular fork is made by streptavidin as a detection molecule, which can not interact with interacting peptides, but with streptag II, which is not involved in a peptide-peptide interaction. can interact.
  • peptide pairs were synthesized on MG2, whereby the constant peptide block Strep-tag Il was synthesized on the Dde side.
  • Strep-tag Il was synthesized on the Dde side.
  • overlapping 12m peptides that span the entire streptavidin sequence with a 2 amino acid shift were synthesized.
  • ⁇ O ⁇ g streptavidin was incubated with 6 ⁇ g biotin in MP buffer (30 mM Tris-HCl, pH 7.6, 170 mM NaCl,
  • Example 8 Mapping of the interaction site of the Raf peptide RQRSTpSTPNV on the 14-3-3 protein
  • peptide pairs were synthesized on MG2 to synthesize the constant peptide block RQRSTpSTPNV (Raf peptide) at the Dde side.
  • RQRSTpSTPNV Raf peptide
  • overlapping 12m peptides spanning the entire 14-3-3 sequence with a 3 amino acid shift were synthesized. This resulted in 80 individual spots.
  • the dry cellulose peptide-modified molecular fork was washed for 10 min with MeOH and 3 x 20 min TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • the detection of an interaction between the peptides of a peptide pair immobilized on the molecular fork is carried out by 14-3-3 ⁇ / ⁇ as a detection molecule, which can interact with interacting peptides, but with Raf peptide, which is not in a peptide peptide Interaction is involved.
  • peptide pairs were synthesized on MG2 to synthesize the constant peptide block ARSHpSYPA (mT peptide) at the Dde site.
  • ARSHpSYPA mT peptide
  • overlapping loops with a 2 amino acid shift spanning the entire 14-3-3 sequence were synthesized. This resulted in 120 individual spots.
  • the dry cellulose peptide-modified molecular fork was washed for 10 min with MeOH and 3 x 20 min TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • the detection of an interaction between the peptides of a peptide pair immobilized on the molecular fork is carried out by 14-3-3 ⁇ / ⁇ as a detection molecule, which can interact with interacting peptides, but with mT peptide, which not involved in a peptide-peptide interaction.
  • FAP48 binding sites in FAP48 Two sequence regions were found in FAP48 that mediate interaction with FKBPl2, FAP48 Lys217-Ser229 (KCPLLTAQFFEQS) and FAP48 Leu307-His319 (LSPLYLLQFNMGH).
  • the dry cellulose peptide-modified molecular fork was washed for 10 min with MeOH and 3 x 20 min TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • FKBP12 as a detection molecule which can not interact with interacting peptides, but with the corresponding FAP48 peptide which is not involved in a peptide-peptide interaction , can interact.
  • Nitrocellulose membranes (0.45 ⁇ M, PALL Gelman, Germany) using a semi-dry blotter (Biometra, Germany) electrotransferiert.
  • two nitrocellulose membranes were placed on both sides of the cellulosic peptide-modified molecular fork and this array was placed between blotting paper coated with transfer buffer (25 mM Tris-HCl, pH 8.3, 150 ⁇ l of glycine, 10% methanol).
  • transfer buffer 25 mM Tris-HCl, pH 8.3, 150 ⁇ l of glycine, 10% methanol.
  • the electrotransfer was carried out at 0.8 mA / cm 2 for various times (first electrotransfer step 45 min, second electrotransfer step 90 min).
  • the detection of FKBP12 was carried out by immunodetection and visualization by the ECL system (Amersham Pharmacia).
  • FKBP12 binding sites in the cytosolic domain of the EGF receptor were mapped using classical SPOT technology and protein interaction analysis. Five sequence regions were found in EGFR that mediate interaction with FKBP12. Among these sequences, the sequence of a particularly highly interacting peptide was selected with PHVCRLLGICLTS (EGFR Pro 748 -Ser 760 ).
  • peptide pairs were synthesized on MG2 to synthesize the constant peptide block Ac-PHVCRLLGICLTS at the Dde side.
  • overlapping 13mers peptides with a 2 amino acid shift were used to shift the entire FKBP12 sequence span, synthesized. There were 48 individual spots each.
  • the dry cellulose peptide-modified molecular fork was washed for 10 min with MeOH and 3 x 20 min TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • TBS (30 mM Tris-HCl, pH 7.6, 170 mM NaCl, 6.4 mM KCl).
  • FKBP12 FKBP12 as a detection molecule, which can not interact with interacting peptides, but with the corresponding
  • EGFR peptide which is not involved in peptide-peptide interaction, can interact.
  • Nitrocellulose membranes (0.45 ⁇ M, PALL Gelman, Germany) using a semi-dry blotter (Biometra, Germany) electrotransferiert. To do this, two nitrocellulose membranes were placed on both sides of the cellulosic peptide-modified molecular fork and this array was placed between blotting paper soaked in transfer buffer (25mM Tris-HCl, pH 8.3, 150mM Glycine, 10% methanol) Electrotransfer was carried out at 0.8 mA / cm 2 for various times (first electrotransfer step 45 min, second electrotransfer step 90 min). The detection of FKBP12 was carried out by immunodetection and visualization by the ECL system (Amersham Pharmacia).
  • Example 12 Inhibition of streptavidin-peptide / strep-tag II interactions using biotin and / or its derivatives.
  • the analysis was carried out by detecting the emission light at 510-530 nm after excitation with light of wavelength 366 nm by means of the Raytest DIANA Chemiluminescence detection system.
  • FIG. 17B Differences in the fluorescence behavior of the spots with different peptide pairs were found; in the case of interacting peptide pairs, increased fluorescence emission was detected.
  • the modified membrane was treated prior to analysis with high affinity, low affinity and non-affine drug having similar chemical properties.
  • the cellulose was regenerated by treatment with Buffer A (Urea 48 g, SDS 1 g, mercaptoethanol 100 ⁇ l, making up water to 100 ml) and buffer B (water 40 ml, EtOH 50 ml, acetic acid 10 ml).
  • Buffer A Urea 48 g, SDS 1 g, mercaptoethanol 100 ⁇ l, making up water to 100 ml
  • buffer B water 40 ml, EtOH 50 ml, acetic acid 10 ml.
  • the analysis of the fluorescence properties of the spots was carried out.
  • the fluorescence emission of the spots was reduced, all spots showed very similar fluorescence behavior.
  • the low-affinity diaminobiotin the fluorescence behavior was very similar to the original fluorescence behavior completely without active substance. This shows that in the presence of a high-affinity agent, but not in the presence of a low-affinity agent, inhibition of the interaction takes place (see FIG.

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Abstract

La présente invention concerne un dispositif permettant d'analyser des interactions entre des biomolécules, lequel dispositif comprend un support sur lequel une pluralité de biomolécules sont immobilisées sur la surface du matériau support selon un agencement régulier ou irrégulier au moyen de lieurs, deux biomolécules étant liées à chaque lieur. Cette invention concerne également un procédé pour déceler des interactions entre des biopolymères immobilisés sur une surface, lequel procédé consiste à réaliser un dispositif selon une des revendications formulées, à régler une distance définie entre deux biopolymères immobilisés sur la surface et à mesurer un signal engendré par l'interaction entre ces deux biopolymères.
EP05857270A 2004-07-08 2005-07-07 Dispositif et procede pour analyser des interactions entre des biomolecules Withdrawn EP1766402A2 (fr)

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DE102004033122A1 (de) 2006-02-09
CA2579414A1 (fr) 2006-01-19
AU2005261870A1 (en) 2006-01-19
WO2006005519A2 (fr) 2006-01-19
WO2006005519A3 (fr) 2006-08-17
US20100009860A1 (en) 2010-01-14

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