3s9c: Difference between revisions

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-[[Image:3s9c.jpg|left|200px]]
-<!--
+==Russell's viper venom serine proteinase, RVV-V in complex with the fragment (residues 1533-1546) of human factor V==
-The line below this paragraph, containing "STRUCTURE_3s9c", creates the "Structure Box" on the page.
+<StructureSection load='3s9c' size='340' side='right'caption='[[3s9c]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3s9c]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Daboia_siamensis Daboia siamensis] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S9C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3S9C FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_3s9c|  PDB=3s9c  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3s9c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s9c OCA], [https://pdbe.org/3s9c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3s9c RCSB], [https://www.ebi.ac.uk/pdbsum/3s9c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3s9c ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/VSPG_DABSI VSPG_DABSI] Venom serine protease that selectively activates factor V (F5) in a calcium-independent manner. It cleaves the Arg(1545)-Ser(1546) linkage in the human factor V molecule. Induces the coagulation of mammalian plasma.<ref>PMID:3053712</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Russell's viper venom factor V (FV) activator (RVV-V) is a thrombin-like proteinase that specifically cleaves the Arg1545-Ser1546 bond of FV. Here we present the crystal structure of RVV-V in complex with the FV14 peptide (residues 1533-1546 of human FV) determined at 1.8A resolution. The structure reveals multiple interactions between RVV-V and the seven residues, Ile1539 (P(7))-Arg1545 (P(1)), of the cleaved substrate. Comparison with substrate-free structures reveals conformational changes of the RVV-V loops upon substrate binding, suggesting that the multiple interactions are mediated by an induced-fit mechanism. The results provide an explanation for the narrow specificity of RVV-V.
-===Russell's viper venom serine proteinase, RVV-V in complex with the fragment (residues 1533-1546) of human factor V===
+Structural basis of coagulation factor V recognition for cleavage by RVV-V.,Nakayama D, Ben Ammar Y, Miyata T, Takeda S FEBS Lett. 2011 Aug 23. PMID:21871889<ref>PMID:21871889</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3s9c" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_21871889}}, adds the Publication Abstract to the page
+*[[Proteinase 3D structures|Proteinase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 21871889 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_21871889}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Daboia siamensis]]
-[[3s9c]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Daboia_russellii_siamensis Daboia russellii siamensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S9C OCA].
+[[Category: Homo sapiens]]
+[[Category: Large Structures]]
-==Reference==
+[[Category: Ben Ammar Y]]
-<ref group="xtra">PMID:021871889</ref><ref group="xtra">PMID:020054136</ref><references group="xtra"/>
+[[Category: Nakayama D]]
-[[Category: Daboia russellii siamensis]]
+[[Category: Takeda S]]
-[[Category: Snake venom factor V activator]]
-[[Category: Ammar, Y Ben.]]
-[[Category: Nakayama, D.]]
-[[Category: Takeda, S.]]
-[[Category: Double six-stranded beta-barrel]]
-[[Category: Glycosylation]]
-[[Category: Hydrolase]]
-[[Category: Serine proteinase]]