2vwm: Difference between revisions

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OCA

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-{{Seed}}
-[[Image:2vwm.jpg|left|200px]]
-<!--
+==Aminopyrrolidine Factor Xa inhibitor==
-The line below this paragraph, containing "STRUCTURE_2vwm", creates the "Structure Box" on the page.
+<StructureSection load='2vwm' size='340' side='right'caption='[[2vwm]], [[Resolution|resolution]] 1.96&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'>[[2vwm]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VWM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VWM 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]] 1.96&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LZI:(4R)-4-{[(5-CHLOROTHIOPHEN-2-YL)CARBONYL]AMINO}-N-(CYCLOPROPYLMETHYL)-1-(2-{[2-FLUORO-4-(2-OXOPYRIDIN-1(2H)-YL)PHENYL]AMINO}-2-OXOETHYL)-L-PROLINAMIDE'>LZI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-{{STRUCTURE_2vwm|  PDB=2vwm  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2vwm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vwm OCA], [https://pdbe.org/2vwm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vwm RCSB], [https://www.ebi.ac.uk/pdbsum/2vwm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vwm ProSAT]</span></td></tr>
+</table>
+== Disease ==
+[https://www.uniprot.org/uniprot/FA10_HUMAN FA10_HUMAN] Defects in F10 are the cause of factor X deficiency (FA10D) [MIM:[https://omim.org/entry/227600 227600]. A hemorrhagic disease with variable presentation. Affected individuals can manifest prolonged nasal and mucosal hemorrhage, menorrhagia, hematuria, and occasionally hemarthrosis. Some patients do not have clinical bleeding diathesis.<ref>PMID:2790181</ref> <ref>PMID:1973167</ref> <ref>PMID:1985698</ref> <ref>PMID:7669671</ref> <ref>PMID:8529633</ref> <ref>PMID:7860069</ref> <ref>PMID:8845463</ref> <ref>PMID:8910490</ref> <ref>PMID:10468877</ref> <ref>PMID:10746568</ref> <ref>PMID:10739379</ref> <ref>PMID:11248282</ref> <ref>PMID:11728527</ref> <ref>PMID:12945883</ref> <ref>PMID:15650540</ref> <ref>PMID:17393015</ref> <ref>PMID:19135706</ref>
+== Function ==
+[https://www.uniprot.org/uniprot/FA10_HUMAN FA10_HUMAN] Factor Xa is a vitamin K-dependent glycoprotein that converts prothrombin to thrombin in the presence of factor Va, calcium and phospholipid during blood clotting.
+== 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/vw/2vwm_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=2vwm ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Starting from a hit identified by focused screening, 3-aminopyrrolidine factor Xa inhibitors were designed. The binding mode as determined by X-ray structural analysis as well as the pharmacokinetic behaviour of selected compounds is discussed.
-===AMINOPYRROLIDINE FACTOR XA INHIBITOR===
+Design of novel aminopyrrolidine factor Xa inhibitors from a screening hit.,Zbinden KG, Anselm L, Banner DW, Benz J, Blasco F, Decoret G, Himber J, Kuhn B, Panday N, Ricklin F, Risch P, Schlatter D, Stahl M, Thomi S, Unger R, Haap W Eur J Med Chem. 2009 Jul;44(7):2787-95. Epub 2009 Jan 3. PMID:19200624<ref>PMID:19200624</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2vwm" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_19200624}}, adds the Publication Abstract to the page
+*[[Factor Xa|Factor Xa]]
-(as it appears on PubMed at http://www.pubmed.gov), where 19200624 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19200624}}
+__TOC__
+</StructureSection>
-==About this Structure==
-VWM is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VWM OCA].
-==Reference==
-<ref group="xtra">PMID:19200624</ref><references group="xtra"/>
-[[Category: Coagulation factor Xa]]
 [[Category: Homo sapiens]]
-[[Category: Banner, D W.]]
+[[Category: Large Structures]]
-[[Category: Benz, J M.]]
+[[Category: Banner DW]]
-[[Category: Blasco, F.]]
+[[Category: Benz JM]]
-[[Category: Decoret, G.]]
+[[Category: Blasco F]]
-[[Category: Groebke-Zbinden, K.]]
+[[Category: Decoret G]]
-[[Category: Haap, W.]]
+[[Category: Groebke-Zbinden K]]
-[[Category: Himber, J.]]
+[[Category: Haap W]]
-[[Category: Kuhn, B.]]
+[[Category: Himber J]]
-[[Category: Panday, N.]]
+[[Category: Kuhn B]]
-[[Category: Ricklin, F.]]
+[[Category: Panday N]]
-[[Category: Risch, P.]]
+[[Category: Ricklin F]]
-[[Category: Schlatter, D.]]
+[[Category: Risch P]]
-[[Category: Stahl, M.]]
+[[Category: Schlatter D]]
-[[Category: Unger, R.]]
+[[Category: Stahl M]]
-[[Category: Blood clotting]]
+[[Category: Unger R]]
-[[Category: Calcium]]
-[[Category: Cation]]
-[[Category: Cleavage on pair of basic residue]]
-[[Category: Coagulation factor]]
-[[Category: Egf-like domain]]
-[[Category: Gamma-carboxyglutamic acid]]
-[[Category: Glycoprotein]]
-[[Category: Hydrolase]]
-[[Category: Hydroxylation]]
-[[Category: Inhibitor]]
-[[Category: Plasma]]
-[[Category: Polymorphism]]
-[[Category: Protease]]
-[[Category: Serine protease]]
-[[Category: Zymogen]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul  8 09:35:22 2009''