3rfe - Revision history

OCA at 06:01, 15 June 2022

2022-06-15T06:01:09Z

←Older revision		Revision as of 06:01, 15 June 2022
Line 1:		Line 1:

	==Crystal structure of glycoprotein GPIb ectodomain==		==Crystal structure of glycoprotein GPIb ectodomain==
-	<StructureSection load='3rfe' size='340' side='right' caption='[[3rfe]], [[Resolution\|resolution]] 1.25Å' scene=''>	+	<StructureSection load='3rfe' size='340' side='right'caption='[[3rfe]], [[Resolution\|resolution]] 1.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3rfe]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RFE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3RFE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3rfe]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RFE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RFE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rez\|3rez]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3rez\|3rez]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GP1BB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GP1BB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3rfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rfe OCA], [~~http~~://pdbe.org/3rfe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3rfe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3rfe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3rfe ProSAT]</span></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=3rfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rfe OCA], [https://pdbe.org/3rfe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rfe RCSB], [https://www.ebi.ac.uk/pdbsum/3rfe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rfe ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[~~http~~://www.uniprot.org/uniprot/GP1BB_HUMAN GP1BB_HUMAN]] Bernard-Soulier syndrome;22q11.2 deletion syndrome;Fetal and neonatal alloimmune thrombocytopenia. The disease is caused by mutations affecting the gene represented in this entry.	+	[[https://www.uniprot.org/uniprot/GP1BB_HUMAN GP1BB_HUMAN]] Bernard-Soulier syndrome;22q11.2 deletion syndrome;Fetal and neonatal alloimmune thrombocytopenia. The disease is caused by mutations affecting the gene represented in this entry.
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/GP1BB_HUMAN GP1BB_HUMAN]] Gp-Ib, a surface membrane protein of platelets, participates in the formation of platelet plugs by binding to von Willebrand factor, which is already bound to the subendothelium.	+	[[https://www.uniprot.org/uniprot/GP1BB_HUMAN GP1BB_HUMAN]] Gp-Ib, a surface membrane protein of platelets, participates in the formation of platelet plugs by binding to von Willebrand factor, which is already bound to the subendothelium.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Carr, K H]]		[[Category: Carr, K H]]
	[[Category: Emsley, J]]		[[Category: Emsley, J]]

OCA at 13:23, 11 August 2016

2016-08-11T13:23:37Z

←Older revision		Revision as of 13:23, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of glycoprotein GPIb ectodomain==		==Crystal structure of glycoprotein GPIb ectodomain==
	<StructureSection load='3rfe' size='340' side='right' caption='[[3rfe]], [[Resolution\|resolution]] 1.25Å' scene=''>		<StructureSection load='3rfe' size='340' side='right' caption='[[3rfe]], [[Resolution\|resolution]] 1.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3rfe]] is a 2 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=3RFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RFE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3rfe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RFE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rez\|3rez]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rez\|3rez]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GP1BB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GP1BB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3rfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rfe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rfe RCSB], [http://www.ebi.ac.uk/pdbsum/3rfe PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3rfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rfe OCA], [http://pdbe.org/3rfe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3rfe RCSB], [http://www.ebi.ac.uk/pdbsum/3rfe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3rfe ProSAT]</span></td></tr>
	</table>		</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/GP1BB_HUMAN GP1BB_HUMAN]] Bernard-Soulier syndrome;22q11.2 deletion syndrome;Fetal and neonatal alloimmune thrombocytopenia. The disease is caused by mutations affecting the gene represented in this entry.
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GP1BB_HUMAN GP1BB_HUMAN]] Gp-Ib, a surface membrane protein of platelets, participates in the formation of platelet plugs by binding to von Willebrand factor, which is already bound to the subendothelium.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 16:		Line 21:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3rfe" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Carr, K H]]		[[Category: Carr, K H]]
	[[Category: Emsley, J]]		[[Category: Emsley, J]]

OCA at 10:21, 4 January 2015

2015-01-04T10:21:07Z

←Older revision		Revision as of 10:21, 4 January 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_3rfe\| PDB~~=3rfe \| ~~SCENE~~= }}	+	==Crystal structure of glycoprotein GPIb ectodomain==
-	===~~Crystal~~ structure ~~of glycoprotein GPIb ectodomain~~===	+	<StructureSection load='3rfe' size='340' side='right' caption='[[3rfe]], [[Resolution\|resolution]] 1.25Å' scene=''>
-	~~{{ABSTRACT_PUBMED_21908432}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3rfe]] is a 2 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=3RFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RFE FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3rez\|3rez]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GP1BB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3rfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rfe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rfe RCSB], [http://www.ebi.ac.uk/pdbsum/3rfe PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Platelet GPIb-IX receptor complex has 3 subunits GPIbalpha, GPIbbeta, and GPIX, which assemble with a ratio of 1:2:1. Dysfunction in surface expression of the complex leads to Bernard-Soulier syndrome. We have crystallized the GPIbbeta ectodomain (GPIbbeta(E)) and determined the structure to show a single leucine-rich repeat with N- and C-terminal disulphide-bonded capping regions. The structure of a chimera of GPIbbeta(E) and 3 loops (a,b,c) taken from the GPIX ectodomain sequence was also determined. The chimera (GPIbbeta(Eabc)), but not GPIbbeta(E), forms a tetramer in the crystal, showing a quaternary interface between GPIbbeta and GPIX. Central to this interface is residue Tyr106 from GPIbbeta, which inserts into a pocket generated by 2 loops (b,c) from GPIX. Mutagenesis studies confirmed this interface as a valid representation of interactions between GPIbbeta and GPIX in the full-length complex. Eight GPIbbeta missense mutations identified from patients with Bernard-Soulier syndrome were examined for changes to GPIb-IX complex surface expression. Two mutations, A108P and P74R, were found to maintain normal secretion/folding of GPIbbeta(E) but were unable to support GPIX surface expression. The close structural proximity of these mutations to Tyr106 and the GPIbbeta(E) interface with GPIX indicates they disrupt the quaternary organization of the GPIb-IX complex.

-	~~==About this Structure==~~	+	Quaternary organization of GPIb-IX complex and insights into Bernard-Soulier syndrome revealed by the structures of GPIbbeta and a GPIbbeta/GPIX chimera.,McEwan PA, Yang W, Carr KH, Mo X, Zheng X, Li R, Emsley J Blood. 2011 Nov 10;118(19):5292-301. Epub 2011 Sep 8. PMID:21908432<ref>PMID:21908432</ref>
-	~~[[3rfe]] is~~ a ~~2 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=3RFE OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:021908432</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Carr, K H.]]	+	[[Category: Carr, K H]]
-	[[Category: Emsley, J.]]	+	[[Category: Emsley, J]]
-	[[Category: Li, R.]]	+	[[Category: Li, R]]
-	[[Category: McEwan, P A.]]	+	[[Category: McEwan, P A]]
-	[[Category: Mo, X.]]	+	[[Category: Mo, X]]
-	[[Category: Yang, W.]]	+	[[Category: Yang, W]]
-	[[Category: Zheng, X.]]	+	[[Category: Zheng, X]]
	[[Category: Cell adhesion]]		[[Category: Cell adhesion]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
	[[Category: Gpix]]		[[Category: Gpix]]
	[[Category: Platelet surface receptor]]		[[Category: Platelet surface receptor]]

OCA at 07:51, 16 May 2013

2013-05-16T07:51:41Z

←Older revision		Revision as of 07:51, 16 May 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_3rfe\| PDB=3rfe \| SCENE= }}
		+	===Crystal structure of glycoprotein GPIb ectodomain===
		+	{{ABSTRACT_PUBMED_21908432}}

-	~~The entry~~ 3rfe is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[3rfe]] is a 2 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=3RFE OCA].

-	~~Authors~~: ~~McEwan~~, P.~~A., Yang~~, W., ~~Carr, K.H~~., Mo, X., Zheng, X.~~, Li, R., Emsley, J.~~	+	==Reference==
-		+	<ref group="xtra">PMID:021908432</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of glycoprotein GPIb ectodomain~~	+	[[Category: Homo sapiens]]
		+	[[Category: Carr, K H.]]
		+	[[Category: Emsley, J.]]
		+	[[Category: Li, R.]]
		+	[[Category: McEwan, P A.]]
		+	[[Category: Mo, X.]]
		+	[[Category: Yang, W.]]
		+	[[Category: Zheng, X.]]
		+	[[Category: Cell adhesion]]
		+	[[Category: Glycoprotein]]
		+	[[Category: Gpix]]
		+	[[Category: Platelet surface receptor]]

OCA at 04:48, 8 June 2011

2011-06-08T04:48:52Z

←Older revision		Revision as of 04:48, 8 June 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3rfe is ON HOLD	+	The entry 3rfe is ON HOLD until Paper Publication

	Authors: McEwan, P.A., Yang, W., Carr, K.H., Mo, X., Zheng, X., Li, R., Emsley, J.		Authors: McEwan, P.A., Yang, W., Carr, K.H., Mo, X., Zheng, X., Li, R., Emsley, J.

	Description: Crystal structure of glycoprotein GPIb ectodomain		Description: Crystal structure of glycoprotein GPIb ectodomain

OCA at 06:55, 27 April 2011

2011-04-27T06:55:12Z

←Older revision		Revision as of 06:55, 27 April 2011
Line 5:		Line 5:
	Authors: McEwan, P.A., Yang, W., Carr, K.H., Mo, X., Zheng, X., Li, R., Emsley, J.		Authors: McEwan, P.A., Yang, W., Carr, K.H., Mo, X., Zheng, X., Li, R., Emsley, J.

-	Description: ~~crystal~~ structure of glycoprotein GPIb ectodomain	+	Description: Crystal structure of glycoprotein GPIb ectodomain

OCA: Protected "3rfe" [edit=sysop:move=sysop]

2011-04-13T05:00:43Z

Protected "3rfe" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:00, 13 April 2011

OCA: New page: '''Unreleased structure''' The entry 3rfe is ON HOLD Authors: McEwan, P.A., Yang, W., Carr, K.H., Mo, X., Zheng, X., Li, R., Emsley, J. Description: crystal structure of glycoprotein G...

2011-04-13T05:00:42Z

New page: '''Unreleased structure''' The entry 3rfe is ON HOLD Authors: McEwan, P.A., Yang, W., Carr, K.H., Mo, X., Zheng, X., Li, R., Emsley, J. Description: crystal structure of glycoprotein G...

New page

'''Unreleased structure'''

The entry 3rfe is ON HOLD

Authors: McEwan, P.A., Yang, W., Carr, K.H., Mo, X., Zheng, X., Li, R., Emsley, J.

Description: crystal structure of glycoprotein GPIb ectodomain