1v7p

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(New page: 200px<br /> <applet load="1v7p" size="450" color="white" frame="true" align="right" spinBox="true" caption="1v7p, resolution 1.90&Aring;" /> '''Structure of EMS16-...)
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[[Image:1v7p.gif|left|200px]]<br />
 
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<applet load="1v7p" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1v7p, resolution 1.90&Aring;" />
 
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'''Structure of EMS16-alpha2-I domain complex'''<br />
 
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==Overview==
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==Structure of EMS16-alpha2-I domain complex==
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Snake venoms contain a number of heterodimeric C-type lectin-like proteins, (CLPs) that interact specifically with components of the haemostatic, system. EMS16 from the venom of Echis multisquamatus binds to the collagen, receptor, integrin alpha2beta1, also known as glycoprotein (GP) Ia/IIa, and specifically inhibits collagen binding. Here we report the crystal, structure of EMS16 in complex with recombinant integrin alpha2-I domain, that plays a central role in collagen binding. The structure of the, complex at 1.9 Angstrom resolution reveals that the collagen-binding site, of the alpha2-I domain is covered completely by the bound EMS16. This, blockage by EMS16 appears to spatially inhibit collagen binding to the, alpha2-I domain. The bound alpha2-I domain adopts a closed conformation, which is seen in the absence of ligand, suggesting that EMS16 stabilizes a, closed conformation corresponding to the less active structure of the, alpha2-I domain. EMS16 does not directly bind to the manganese ion and, residues of the metal ion-dependent adhesion site (MIDAS) of the alpha2-I, domain, suggesting that EMS16 may have the potential to bind specifically, to the alpha2-I domain in a metal ion-independent fashion.
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<StructureSection load='1v7p' size='340' side='right'caption='[[1v7p]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1v7p]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Echis_multisquamatus Echis multisquamatus] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. The February 2011 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Integrin'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2011_2 10.2210/rcsb_pdb/mom_2011_2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V7P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V7P FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1v7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v7p OCA], [https://pdbe.org/1v7p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v7p RCSB], [https://www.ebi.ac.uk/pdbsum/1v7p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v7p ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SLA_ECHML SLA_ECHML] EMS16 is a potent and selective inhibitor of alpha-2/beta-1 (ITGA2/ITGB1) integrin and acts as a potent antagonist of platelet aggregation and cell migration. Binds specifically to the I domain of the alpha-2 subunit, in a metal ion-independent fashion.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v7/1v7p_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1v7p ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Snake venoms contain a number of heterodimeric C-type lectin-like proteins (CLPs) that interact specifically with components of the haemostatic system. EMS16 from the venom of Echis multisquamatus binds to the collagen receptor, integrin alpha2beta1, also known as glycoprotein (GP) Ia/IIa, and specifically inhibits collagen binding. Here we report the crystal structure of EMS16 in complex with recombinant integrin alpha2-I domain that plays a central role in collagen binding. The structure of the complex at 1.9 Angstrom resolution reveals that the collagen-binding site of the alpha2-I domain is covered completely by the bound EMS16. This blockage by EMS16 appears to spatially inhibit collagen binding to the alpha2-I domain. The bound alpha2-I domain adopts a closed conformation, which is seen in the absence of ligand, suggesting that EMS16 stabilizes a closed conformation corresponding to the less active structure of the alpha2-I domain. EMS16 does not directly bind to the manganese ion and residues of the metal ion-dependent adhesion site (MIDAS) of the alpha2-I domain, suggesting that EMS16 may have the potential to bind specifically to the alpha2-I domain in a metal ion-independent fashion.
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==Disease==
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Crystal structure of EMS16 in complex with the integrin alpha2-I domain.,Horii K, Okuda D, Morita T, Mizuno H J Mol Biol. 2004 Aug 6;341(2):519-27. PMID:15276841<ref>PMID:15276841</ref>
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Known diseases associated with this structure: Glycoprotein Ia deficiency (1) OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=192974 192974]], Neonatal alloimmune thrombocytopenia OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=192974 192974]]
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==About this Structure==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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1V7P is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Echis_multisquamatus Echis multisquamatus] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with NAG, PO4, MN and CL as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1V7P OCA].
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</div>
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<div class="pdbe-citations 1v7p" style="background-color:#fffaf0;"></div>
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==Reference==
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==See Also==
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Crystal structure of EMS16 in complex with the integrin alpha2-I domain., Horii K, Okuda D, Morita T, Mizuno H, J Mol Biol. 2004 Aug 6;341(2):519-27. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15276841 15276841]
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*[[Integrin 3D structures|Integrin 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Echis multisquamatus]]
[[Category: Echis multisquamatus]]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Protein complex]]
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[[Category: Integrin]]
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[[Category: Horii, K.]]
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[[Category: Large Structures]]
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[[Category: Mizuno, H.]]
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[[Category: RCSB PDB Molecule of the Month]]
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[[Category: Morita, T.]]
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[[Category: Horii K]]
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[[Category: Okuda, D.]]
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[[Category: Mizuno H]]
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[[Category: CL]]
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[[Category: Morita T]]
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[[Category: MN]]
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[[Category: Okuda D]]
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[[Category: NAG]]
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[[Category: PO4]]
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[[Category: antagonist]]
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[[Category: c-type lectin]]
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[[Category: cell adhesion]]
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[[Category: glycoprotein]]
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[[Category: integrin]]
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[[Category: snake venom]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 19:42:00 2007''
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Current revision

Structure of EMS16-alpha2-I domain complex

PDB ID 1v7p

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