1op2: Difference between revisions

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-{{Seed}}
-[[Image:1op2.png|left|200px]]
-<!--
+==Crystal Structure of AaV-SP-II, a Glycosylated Snake Venom Serine Proteinase from Agkistrodon acutus==
-The line below this paragraph, containing "STRUCTURE_1op2", creates the "Structure Box" on the page.
+<StructureSection load='1op2' size='340' side='right'caption='[[1op2]], [[Resolution|resolution]] 2.10&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'>[[1op2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinagkistrodon_acutus Deinagkistrodon acutus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OP2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OP2 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]] 2.1&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_1op2|  PDB=1op2  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1op2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1op2 OCA], [https://pdbe.org/1op2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1op2 RCSB], [https://www.ebi.ac.uk/pdbsum/1op2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1op2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/VSPP_DEIAC VSPP_DEIAC] Snake venom serine protease that has fibrinogenolytic activities. Also possess esterolysis and amidolytic activities.<ref>PMID:12595722</ref> <ref>PMID:15632114</ref>
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/op/1op2_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=1op2 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+We deduced that Agkistrodon actus venom serine proteinases I and II, previously isolated from the venom of A. acutus (Zhu, Z., Gong, P., Teng, M., and Niu, L. (2003) Acta Crystallogr. Sect. D Biol. Crystallogr. 59, 547-550), are encoded by two almost identical genes, with only the single substitution Asp for Asn at residue 62. Amidolytic assays indicated that they possess slightly different enzymatic properties. Crystal structures of A. actus venom serine proteinases I and II were determined at resolution of 2.0 and 2.1 A with the identification of trisaccharide (NAG(301)-FUC(302)-NAG(303)) and monosaccharide (NAG(301)) residues in them, respectively. The substrate binding sites S3 of the two proteinases appear much shallower than that of Trimeresurus stejnegeri venom plasminogen activator despite the overall structural similarity. Based on structural analysis, we showed that these Asn(35)-linked oligosaccharides collide spatially with some inhibitors, such as soybean trypsin inhibitor, and would therefore hinder their inhibitory binding. Difference of the carbohydrates in both the proteinases might also lead to their altered catalytic activities.
-===Crystal Structure of AaV-SP-II, a Glycosylated Snake Venom Serine Proteinase from Agkistrodon acutus===
+Crystal structures and amidolytic activities of two glycosylated snake venom serine proteinases.,Zhu Z, Liang Z, Zhang T, Zhu Z, Xu W, Teng M, Niu L J Biol Chem. 2005 Mar 18;280(11):10524-9. Epub 2005 Jan 4. PMID:15632114<ref>PMID:15632114</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1op2" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15632114}}, adds the Publication Abstract to the page
+*[[Proteinase 3D structures|Proteinase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15632114 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15632114}}
+__TOC__
+</StructureSection>
-==About this Structure==
-OP2 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Deinagkistrodon_acutus Deinagkistrodon acutus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OP2 OCA].
-==Reference==
-<ref group="xtra">PMID:15632114</ref><ref group="xtra">PMID:12595722</ref><references group="xtra"/>
 [[Category: Deinagkistrodon acutus]]
-[[Category: Niu, L.]]
+[[Category: Large Structures]]
-[[Category: Teng, M.]]
+[[Category: Niu L]]
-[[Category: Zhu, Z.]]
+[[Category: Teng M]]
-[[Category: Agkistrodon acutus]]
+[[Category: Zhu Z]]
-[[Category: Glycoprotein]]
-[[Category: Serine proteinase]]
-[[Category: Snake venom]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 08:24:46 2009''