1w0y: Difference between revisions

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[[Image:1w0y.png|left|200px]]


<!--
==tf7a_3771 complex==
The line below this paragraph, containing "STRUCTURE_1w0y", creates the "Structure Box" on the page.
<StructureSection load='1w0y' size='340' side='right'caption='[[1w0y]], [[Resolution|resolution]] 2.50&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'>[[1w0y]] is a 3 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=1W0Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W0Y 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]] 2.5&#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=771:4-(4-BENZYLOXY-2-METHANESULFONYLAMINO-5-METHOXY-BENZYLAMINO)-BENZAMIDINE'>771</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=CGU:GAMMA-CARBOXY-GLUTAMIC+ACID'>CGU</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene></td></tr>
{{STRUCTURE_1w0y|  PDB=1w0y  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1w0y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w0y OCA], [https://pdbe.org/1w0y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w0y RCSB], [https://www.ebi.ac.uk/pdbsum/1w0y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w0y ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/TF_HUMAN TF_HUMAN] Initiates blood coagulation by forming a complex with circulating factor VII or VIIa. The [TF:VIIa] complex activates factors IX or X by specific limited protolysis. TF plays a role in normal hemostasis by initiating the cell-surface assembly and propagation of the coagulation protease cascade.<ref>PMID:12652293</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/w0/1w0y_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=1w0y ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Proof of concept experiments have shown that tissue factor/factor VIIa inhibitors have antithrombotic activity without enhancing bleeding propensity. Starting from lead compounds generated by a biased combinatorial approach, phenylglycine amide tissue factor/factor VIIa inhibitors with low nanomolar affinity and good selectivity against other serine proteases of the coagulation cascade were designed, using the guidance of X-ray structural analysis and molecular modelling.


===TF7A_3771 COMPLEX===
Design of selective phenylglycine amide tissue factor/factor VIIa inhibitors.,Groebke Zbinden K, Banner DW, Ackermann J, D'Arcy A, Kirchhofer D, Ji YH, Tschopp TB, Wallbaum S, Weber L Bioorg Med Chem Lett. 2005 Feb 1;15(3):817-22. PMID:15664864<ref>PMID:15664864</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1w0y" style="background-color:#fffaf0;"></div>


<!--
==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_15664864}}, adds the Publication Abstract to the page
*[[Factor VIIa 3D structures|Factor VIIa 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 15664864 is the PubMed ID number.
*[[Tissue factor|Tissue factor]]
-->
== References ==
{{ABSTRACT_PUBMED_15664864}}
<references/>
 
__TOC__
==About this Structure==
</StructureSection>
[[1w0y]] is a 3 chain structure with sequence 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=1W0Y OCA].
 
==Reference==
<ref group="xtra">PMID:15664864</ref><ref group="xtra">PMID:8598903</ref><references group="xtra"/>
[[Category: Coagulation factor VIIa]]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Ackermann, J.]]
[[Category: Large Structures]]
[[Category: Arcy, A D.]]
[[Category: Ackermann J]]
[[Category: Banner, D W.]]
[[Category: Banner DW]]
[[Category: Groebke-Zbinden, K.]]
[[Category: D'Arcy A]]
[[Category: Ji, Y H.]]
[[Category: Groebke-Zbinden K]]
[[Category: Kirchhofer, D.]]
[[Category: Ji Y-H]]
[[Category: Tschopp, T B.]]
[[Category: Kirchhofer D]]
[[Category: Wallbaum, S.]]
[[Category: Tschopp TB]]
[[Category: Weber, L.]]
[[Category: Wallbaum S]]
[[Category: Blood coagulation]]
[[Category: Weber L]]
[[Category: Calcium-binding]]
[[Category: Co-factor]]
[[Category: Coagulation]]
[[Category: Enzyme complex]]
[[Category: Gamma-carboxyglutamic acid]]
[[Category: Glycoprotein]]
[[Category: Hydrolase]]
[[Category: Plasma]]
[[Category: Serine protease]]
[[Category: Vitamin k]]

Latest revision as of 16:11, 13 December 2023

tf7a_3771 complextf7a_3771 complex

Structural highlights

1w0y is a 3 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.5Å
Ligands:, , , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

TF_HUMAN Initiates blood coagulation by forming a complex with circulating factor VII or VIIa. The [TF:VIIa] complex activates factors IX or X by specific limited protolysis. TF plays a role in normal hemostasis by initiating the cell-surface assembly and propagation of the coagulation protease cascade.[1]

Evolutionary Conservation

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

Publication Abstract from PubMed

Proof of concept experiments have shown that tissue factor/factor VIIa inhibitors have antithrombotic activity without enhancing bleeding propensity. Starting from lead compounds generated by a biased combinatorial approach, phenylglycine amide tissue factor/factor VIIa inhibitors with low nanomolar affinity and good selectivity against other serine proteases of the coagulation cascade were designed, using the guidance of X-ray structural analysis and molecular modelling.

Design of selective phenylglycine amide tissue factor/factor VIIa inhibitors.,Groebke Zbinden K, Banner DW, Ackermann J, D'Arcy A, Kirchhofer D, Ji YH, Tschopp TB, Wallbaum S, Weber L Bioorg Med Chem Lett. 2005 Feb 1;15(3):817-22. PMID:15664864[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

See Also

References

  1. ↑ Bogdanov VY, Balasubramanian V, Hathcock J, Vele O, Lieb M, Nemerson Y. Alternatively spliced human tissue factor: a circulating, soluble, thrombogenic protein. Nat Med. 2003 Apr;9(4):458-62. Epub 2003 Mar 24. PMID:12652293 doi:10.1038/nm841
  2. ↑ Groebke Zbinden K, Banner DW, Ackermann J, D'Arcy A, Kirchhofer D, Ji YH, Tschopp TB, Wallbaum S, Weber L. Design of selective phenylglycine amide tissue factor/factor VIIa inhibitors. Bioorg Med Chem Lett. 2005 Feb 1;15(3):817-22. PMID:15664864 doi:10.1016/j.bmcl.2004.10.092

1w0y, resolution 2.50Å

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