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2gd4

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{{Seed}}
 
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[[Image:2gd4.png|left|200px]]
 
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==Crystal Structure of the Antithrombin-S195A Factor Xa-Pentasaccharide Complex==
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The line below this paragraph, containing "STRUCTURE_2gd4", creates the "Structure Box" on the page.
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<StructureSection load='2gd4' size='340' side='right'caption='[[2gd4]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2gd4]] is a 6 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=2GD4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GD4 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 3.3&#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=BDP:BETA-D-GLUCOPYRANURONIC+ACID'>BDP</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=IDS:2-O-SULFO-ALPHA-L-IDOPYRANURONIC+ACID'>IDS</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900028:fondaparinux'>PRD_900028</scene>, <scene name='pdbligand=SGN:N,O6-DISULFO-GLUCOSAMINE'>SGN</scene>, <scene name='pdbligand=SUS:2-DEOXY-3,6-DI-O-SULFO-2-(SULFOAMINO)-ALPHA-D-GLUCOPYRANOSE'>SUS</scene>, <scene name='pdbligand=ZDO:methyl+2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranoside'>ZDO</scene></td></tr>
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{{STRUCTURE_2gd4| PDB=2gd4 | SCENE= }}
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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=2gd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gd4 OCA], [https://pdbe.org/2gd4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gd4 RCSB], [https://www.ebi.ac.uk/pdbsum/2gd4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gd4 ProSAT]</span></td></tr>
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</table>
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== Disease ==
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[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>
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== Function ==
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[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.
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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/gd/2gd4_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=2gd4 ConSurf].
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<div style="clear:both"></div>
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===Crystal Structure of the Antithrombin-S195A Factor Xa-Pentasaccharide Complex===
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==See Also==
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*[[Antithrombin 3D structures|Antithrombin 3D structures]]
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*[[Factor Xa|Factor Xa]]
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== References ==
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The line below this paragraph, {{ABSTRACT_PUBMED_16619025}}, adds the Publication Abstract to the page
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<references/>
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(as it appears on PubMed at http://www.pubmed.gov), where 16619025 is the PubMed ID number.
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__TOC__
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</StructureSection>
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{{ABSTRACT_PUBMED_16619025}}
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==Disease==
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Known disease associated with this structure: Factor X deficiency OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=227600 227600]]
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==About this Structure==
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2GD4 is a [[Protein complex]] 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=2GD4 OCA].
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==Reference==
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Antithrombin-S195A factor Xa-heparin structure reveals the allosteric mechanism of antithrombin activation., Johnson DJ, Li W, Adams TE, Huntington JA, EMBO J. 2006 May 3;25(9):2029-37. Epub 2006 Apr 13. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16619025 16619025]
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[[Category: Coagulation factor Xa]]
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[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Protein complex]]
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[[Category: Large Structures]]
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[[Category: Adams, T E.]]
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[[Category: Adams TE]]
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[[Category: Huntington, J A.]]
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[[Category: Huntington JA]]
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[[Category: Johnson, D J.]]
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[[Category: Johnson DJ]]
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[[Category: Li, W.]]
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[[Category: Li W]]
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[[Category: Michaelis complex]]
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[[Category: Serpin]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 21:02:24 2008''
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Current revision

Crystal Structure of the Antithrombin-S195A Factor Xa-Pentasaccharide Complex

PDB ID 2gd4

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