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| | <StructureSection load='3dsl' size='340' side='right'caption='[[3dsl]], [[Resolution|resolution]] 2.70Å' scene=''> | | <StructureSection load='3dsl' size='340' side='right'caption='[[3dsl]], [[Resolution|resolution]] 2.70Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3dsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bothrops_jararaca Bothrops jararaca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DSL OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3DSL FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3dsl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bothrops_jararaca Bothrops jararaca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DSL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DSL FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=FLE:FUROYL-LEUCINE'>FLE</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7Å</td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Bothropasin Bothropasin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.49 3.4.24.49] </span></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=FLE:FUROYL-LEUCINE'>FLE</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3dsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dsl OCA], [http://pdbe.org/3dsl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dsl RCSB], [http://www.ebi.ac.uk/pdbsum/3dsl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3dsl ProSAT]</span></td></tr> | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dsl OCA], [https://pdbe.org/3dsl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dsl RCSB], [https://www.ebi.ac.uk/pdbsum/3dsl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dsl ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/VM3BP_BOTJA VM3BP_BOTJA]] Zinc metalloproteinase-disintegrin-like bothropasin: has caseinolytic activity. Causes hemorrhage on rabbit skin and causes myonecrosis in mouse tibialis anterior muscle. Disintegrin-like bothropasin: inhibits platelet aggregation. | + | [https://www.uniprot.org/uniprot/VM3BP_BOTJA VM3BP_BOTJA] Zinc metalloproteinase-disintegrin-like bothropasin: has caseinolytic activity. Causes hemorrhage on rabbit skin and causes myonecrosis in mouse tibialis anterior muscle. Disintegrin-like bothropasin: inhibits platelet aggregation. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | <jmolCheckbox> | | <jmolCheckbox> |
| | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ds/3dsl_consurf.spt"</scriptWhenChecked> | | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ds/3dsl_consurf.spt"</scriptWhenChecked> |
| - | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> |
| | <text>to colour the structure by Evolutionary Conservation</text> | | <text>to colour the structure by Evolutionary Conservation</text> |
| | </jmolCheckbox> | | </jmolCheckbox> |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bothropasin]] | |
| | [[Category: Bothrops jararaca]] | | [[Category: Bothrops jararaca]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Ambrosio, A]] | + | [[Category: Ambrosio A]] |
| - | [[Category: Garratt, R C]] | + | [[Category: Garratt RC]] |
| - | [[Category: Muniz, J R.C]] | + | [[Category: Muniz JRC]] |
| - | [[Category: Oliva, G]] | + | [[Category: Oliva G]] |
| - | [[Category: Selistre-de-Araujo, H S]] | + | [[Category: Selistre-de-Araujo HS]] |
| - | [[Category: Souza, D H.F]] | + | [[Category: Souza DHF]] |
| - | [[Category: Blood coagulation]]
| + | |
| - | [[Category: Cell adhesion]]
| + | |
| - | [[Category: Disintegrin]]
| + | |
| - | [[Category: Glycoprotein]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Metal-binding]]
| + | |
| - | [[Category: Metalloprotease]]
| + | |
| - | [[Category: Protease]]
| + | |
| - | [[Category: Secreted]]
| + | |
| - | [[Category: Snake venom]]
| + | |
| - | [[Category: Toxin]]
| + | |
| - | [[Category: Zymogen]]
| + | |
| Structural highlights
3dsl is a 2 chain structure with sequence from Bothrops jararaca. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Method: | X-ray diffraction, Resolution 2.7Å |
| Ligands: | , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
VM3BP_BOTJA Zinc metalloproteinase-disintegrin-like bothropasin: has caseinolytic activity. Causes hemorrhage on rabbit skin and causes myonecrosis in mouse tibialis anterior muscle. Disintegrin-like bothropasin: inhibits platelet aggregation.
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Bothropasin is a 48kDa hemorrhagic PIII snake venom metalloprotease (SVMP) isolated from Bothrops jararaca, containing disintegrin/cysteine-rich adhesive domains. Here we present the crystal structure of bothropasin complexed with the inhibitor POL647. The catalytic domain consists of a scaffold of two subdomains organized similarly to those described for other SVMPs, including the zinc and calcium-binding sites. The free cysteine residue Cys189 is located within a hydrophobic core and it is not available for disulfide bonding or other interactions. There is no identifiable secondary structure for the disintegrin domain, but instead it is composed mostly of loops stabilized by seven disulfide bonds and by two calcium ions. The ECD region is in a loop and is structurally related to the RGD region of RGD disintegrins, which are derived from PII SVMPs. The ECD motif is stabilized by the Cys277-Cys310 disulfide bond (between the disintegrin and cysteine-rich domains) and by one calcium ion. The side chain of Glu276 of the ECD motif is exposed to solvent and free to make interactions. In bothropasin, the HVR (hyper-variable region) described for other PIII SVMPs in the cysteine-rich domain, presents a well-conserved sequence with respect to several other PIII members from different species. We propose that this subset be referred to as PIII-HCR (highly conserved region) SVMPs. The differences in the disintegrin-like, cysteine-rich or disintegrin-like cysteine-rich domains may be involved in selecting target binding, which in turn could generate substrate diversity or specificity for the catalytic domain.
The three-dimensional structure of bothropasin, the main hemorrhagic factor from Bothrops jararaca venom: insights for a new classification of snake venom metalloprotease subgroups.,Muniz JR, Ambrosio AL, Selistre-de-Araujo HS, Cominetti MR, Moura-da-Silva AM, Oliva G, Garratt RC, Souza DH Toxicon. 2008 Dec 1;52(7):807-16. Epub 2008 Sep 27. PMID:18831982[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Muniz JR, Ambrosio AL, Selistre-de-Araujo HS, Cominetti MR, Moura-da-Silva AM, Oliva G, Garratt RC, Souza DH. The three-dimensional structure of bothropasin, the main hemorrhagic factor from Bothrops jararaca venom: insights for a new classification of snake venom metalloprotease subgroups. Toxicon. 2008 Dec 1;52(7):807-16. Epub 2008 Sep 27. PMID:18831982 doi:10.1016/j.toxicon.2008.08.021
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