1iod: Difference between revisions

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{{Seed}}
[[Image:1iod.png|left|200px]]


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==CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE COAGULATION FACTOR X BINDING PROTEIN FROM SNAKE VENOM AND THE GLA DOMAIN OF FACTOR X==
The line below this paragraph, containing "STRUCTURE_1iod", creates the "Structure Box" on the page.
<StructureSection load='1iod' size='340' side='right'caption='[[1iod]], [[Resolution|resolution]] 2.30&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'>[[1iod]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [https://en.wikipedia.org/wiki/Deinagkistrodon_acutus Deinagkistrodon acutus]. The March 2006 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Tissue Factor''  by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2006_3 10.2210/rcsb_pdb/mom_2006_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IOD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IOD 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]] 2.3&#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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CGU:GAMMA-CARBOXY-GLUTAMIC+ACID'>CGU</scene></td></tr>
{{STRUCTURE_1iod| PDB=1iod |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1iod FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iod OCA], [https://pdbe.org/1iod PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iod RCSB], [https://www.ebi.ac.uk/pdbsum/1iod PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iod ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/SLUA_DEIAC SLUA_DEIAC] Anticoagulant protein which binds to the gamma-carboxyglutamic acid-domain regions of factors IX (F9) and factor X (F10) in the presence of calcium with a 1 to 1 stoichiometry. Also inhibits platelet aggregation by binding to platelet glycoprotein Ibalpha (GP1BA) and functioning as a blocker of von Willebrand factor (VWF). Is devoid of hemorrhagic and lethal activities. Possesses antithrombotic and thrombolytic activities. Also hydrolyzes the Aalpha-chain of fibrinogen (FGA). Does not affect the Bbeta-chain (FGB) and the gamma chain (FGG).<ref>PMID:10558903</ref> <ref>PMID:12058182</ref> <ref>PMID:15925567</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/io/1iod_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1iod ConSurf].
<div style="clear:both"></div>


===CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE COAGULATION FACTOR X BINDING PROTEIN FROM SNAKE VENOM AND THE GLA DOMAIN OF FACTOR X===
==See Also==
 
*[[Factor Xa|Factor Xa]]
 
== References ==
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{{ABSTRACT_PUBMED_11404471}}
 
==About this Structure==
1IOD is a 3 chains structure with sequences from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [http://en.wikipedia.org/wiki/Deinagkistrodon_acutus Deinagkistrodon acutus]. The March 2006 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Tissue Factor''  by David S. Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2006_3 10.2210/rcsb_pdb/mom_2006_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IOD OCA].
 
==Reference==
<ref group="xtra">PMID:11404471</ref><references group="xtra"/>
[[Category: Bos taurus]]
[[Category: Bos taurus]]
[[Category: Coagulation factor Xa]]
[[Category: Deinagkistrodon acutus]]
[[Category: Deinagkistrodon acutus]]
[[Category: Large Structures]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: Tissue Factor]]
[[Category: Tissue Factor]]
[[Category: Atoda, H.]]
[[Category: Atoda H]]
[[Category: Fujimoto, Z.]]
[[Category: Fujimoto Z]]
[[Category: Mizuno, H.]]
[[Category: Mizuno H]]
[[Category: Morita, T.]]
[[Category: Morita T]]
[[Category: Calcium bridging]]
[[Category: Domain swapping]]
[[Category: Hydrolase/hydrolase inhibitor complex]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jan 21 09:44:23 2010''

Latest revision as of 09:02, 3 April 2024

CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE COAGULATION FACTOR X BINDING PROTEIN FROM SNAKE VENOM AND THE GLA DOMAIN OF FACTOR XCRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE COAGULATION FACTOR X BINDING PROTEIN FROM SNAKE VENOM AND THE GLA DOMAIN OF FACTOR X

Structural highlights

1iod is a 3 chain structure with sequence from Bos taurus and Deinagkistrodon acutus. The March 2006 RCSB PDB Molecule of the Month feature on Tissue Factor by David S. Goodsell is 10.2210/rcsb_pdb/mom_2006_3. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.3Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SLUA_DEIAC Anticoagulant protein which binds to the gamma-carboxyglutamic acid-domain regions of factors IX (F9) and factor X (F10) in the presence of calcium with a 1 to 1 stoichiometry. Also inhibits platelet aggregation by binding to platelet glycoprotein Ibalpha (GP1BA) and functioning as a blocker of von Willebrand factor (VWF). Is devoid of hemorrhagic and lethal activities. Possesses antithrombotic and thrombolytic activities. Also hydrolyzes the Aalpha-chain of fibrinogen (FGA). Does not affect the Bbeta-chain (FGB) and the gamma chain (FGG).[1] [2] [3]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

References

  1. ↑ Cheng X, Qian Y, Liu Q, Li BX, Zhang M, Liu J. Purification, characterization, and cDNA cloning of a new fibrinogenlytic venom protein, Agkisacutacin, from Agkistrodon acutus venom. Biochem Biophys Res Commun. 1999 Nov 19;265(2):530-5. PMID:10558903 doi:10.1006/bbrc.1999.1685
  2. ↑ Cheng X, Xu ZY, Liu QD, Li XM, Li XY, Liu J. Purification and Characterization of a Platelet Agglutinating Inhibiting Protein (Agkisacutacin) from Agkistrodon acutus Venom. Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao (Shanghai). 2000;32(6):653-656 PMID:12058182
  3. ↑ Li WF, Chen L, Li XM, Liu J. A C-type lectin-like protein from Agkistrodon acutus venom binds to both platelet glycoprotein Ib and coagulation factor IX/factor X. Biochem Biophys Res Commun. 2005 Jul 8;332(3):904-12. PMID:15925567 doi:10.1016/j.bbrc.2005.05.033

1iod, resolution 2.30Å

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