6y02 - Revision history

OCA at 13:16, 24 January 2024

OCA — Wed, 24 Jan 2024 13:16:17 GMT

←Older revision		Revision as of 13:16, 24 January 2024
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-	====	+	==Thrombin in complex with 13k==
-	<StructureSection load='6y02' size='340' side='right'caption='[[6y02]]' scene=''>	+	<StructureSection load='6y02' size='340' side='right'caption='[[6y02]], [[Resolution\|resolution]] 1.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6y02]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Hirudo_medicinalis Hirudo medicinalis] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Y02 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Y02 FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6y02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y02 OCA], [https://pdbe.org/6y02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6y02 RCSB], [https://www.ebi.ac.uk/pdbsum/6y02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6y02 ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.48Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=O5Z:(2~{S})-1-[(2~{R})-2-azanyl-3-phenyl-propanoyl]-~{N}-[(5-bromanylfuran-2-yl)methyl]pyrrolidine-2-carboxamide'>O5Z</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=TYS:O-SULFO-L-TYROSINE'>TYS</scene></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6y02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y02 OCA], [https://pdbe.org/6y02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6y02 RCSB], [https://www.ebi.ac.uk/pdbsum/6y02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6y02 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Disease ==
		+	[https://www.uniprot.org/uniprot/THRB_HUMAN THRB_HUMAN] Defects in F2 are the cause of factor II deficiency (FA2D) [MIM:[https://omim.org/entry/613679 613679]. It is a very rare blood coagulation disorder characterized by mucocutaneous bleeding symptoms. The severity of the bleeding manifestations correlates with blood factor II levels.<ref>PMID:14962227</ref> <ref>PMID:6405779</ref> <ref>PMID:3771562</ref> <ref>PMID:3567158</ref> <ref>PMID:3801671</ref> <ref>PMID:3242619</ref> <ref>PMID:2719946</ref> <ref>PMID:1354985</ref> <ref>PMID:1421398</ref> <ref>PMID:1349838</ref> <ref>PMID:7865694</ref> <ref>PMID:7792730</ref> Genetic variations in F2 may be a cause of susceptibility to ischemic stroke (ISCHSTR) [MIM:[https://omim.org/entry/601367 601367]; also known as cerebrovascular accident or cerebral infarction. A stroke is an acute neurologic event leading to death of neural tissue of the brain and resulting in loss of motor, sensory and/or cognitive function. Ischemic strokes, resulting from vascular occlusion, is considered to be a highly complex disease consisting of a group of heterogeneous disorders with multiple genetic and environmental risk factors.<ref>PMID:15534175</ref> Defects in F2 are the cause of thrombophilia due to thrombin defect (THPH1) [MIM:[https://omim.org/entry/188050 188050]. It is a multifactorial disorder of hemostasis characterized by abnormal platelet aggregation in response to various agents and recurrent thrombi formation. Note=A common genetic variation in the 3-prime untranslated region of the prothrombin gene is associated with elevated plasma prothrombin levels and an increased risk of venous thrombosis. Defects in F2 are associated with susceptibility to pregnancy loss, recurrent, type 2 (RPRGL2) [MIM:[https://omim.org/entry/614390 614390]. A common complication of pregnancy, resulting in spontaneous abortion before the fetus has reached viability. The term includes all miscarriages from the time of conception until 24 weeks of gestation. Recurrent pregnancy loss is defined as 3 or more consecutive spontaneous abortions.<ref>PMID:11506076</ref>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/THRB_HUMAN THRB_HUMAN] Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C. Functions in blood homeostasis, inflammation and wound healing.<ref>PMID:2856554</ref>
		+
		+	==See Also==
		+	*[[Hirudin 3D structures\|Hirudin 3D structures]]
		+	*[[Thrombin 3D Structures\|Thrombin 3D Structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Hirudo medicinalis]]
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Abazi N]]
		+	[[Category: Heine A]]
		+	[[Category: Klebe G]]
		+	[[Category: Sandner A]]

OCA at 09:57, 17 February 2021

OCA — Wed, 17 Feb 2021 09:57:19 GMT

←Older revision		Revision as of 09:57, 17 February 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 6y02 ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6y02' size='340' side='right'caption='[[6y02]]' scene=''>
-	~~Authors~~: ~~Sandner, A~~.~~, Heine, A~~.~~, Klebe, G~~.~~, Abazi, N~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~Thrombin in complex with 13k~~	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6y02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y02 OCA], [https://pdbe.org/6y02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6y02 RCSB], [https://www.ebi.ac.uk/pdbsum/6y02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6y02 ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[~~[Category~~: ~~Abazi~~, N]]	+	__TOC__
-	[~~[Category~~: ~~Heine, A~~]]	+	</StructureSection>
-	[[Category: ~~Sandner, A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Klebe, G~~]]	+	[[Category: Z-disk]]

OCA at 07:07, 22 July 2020

OCA — Wed, 22 Jul 2020 07:07:53 GMT

←Older revision		Revision as of 07:07, 22 July 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6y02 is ON HOLD	+	The entry 6y02 is ON HOLD until Paper Publication

	Authors: Sandner, A., Heine, A., Klebe, G., Abazi, N.		Authors: Sandner, A., Heine, A., Klebe, G., Abazi, N.

OCA at 05:24, 19 February 2020

OCA — Wed, 19 Feb 2020 05:24:31 GMT

←Older revision		Revision as of 05:24, 19 February 2020
Line 3:		Line 3:
	The entry 6y02 is ON HOLD		The entry 6y02 is ON HOLD

-	Authors: Sandner, A., Heine, A., Klebe, G.	+	Authors: Sandner, A., Heine, A., Klebe, G., Abazi, N.

-	Description: Thrombin in complex with ~~MI2105~~	+	Description: Thrombin in complex with 13k
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Abazi, N]]
	[[Category: Heine, A]]		[[Category: Heine, A]]
	[[Category: Sandner, A]]		[[Category: Sandner, A]]
	[[Category: Klebe, G]]		[[Category: Klebe, G]]

OCA: Protected "6y02" [edit=sysop:move=sysop]

OCA — Thu, 13 Feb 2020 02:55:41 GMT

Protected "6y02" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:55, 13 February 2020

OCA: New page: '''Unreleased structure''' The entry 6y02 is ON HOLD Authors: Sandner, A., Heine, A., Klebe, G. Description: Thrombin in complex with MI2105 Category: Unreleased Structures [[Categ...

OCA — Thu, 13 Feb 2020 02:55:39 GMT

New page: '''Unreleased structure''' The entry 6y02 is ON HOLD Authors: Sandner, A., Heine, A., Klebe, G. Description: Thrombin in complex with MI2105 Category: Unreleased Structures [[Categ...

New page

'''Unreleased structure'''

The entry 6y02 is ON HOLD

Authors: Sandner, A., Heine, A., Klebe, G.

Description: Thrombin in complex with MI2105
[[Category: Unreleased Structures]]
[[Category: Heine, A]]
[[Category: Sandner, A]]
[[Category: Klebe, G]]