2ezr - Revision history

OCA at 06:40, 1 May 2024

OCA — Wed, 01 May 2024 06:40:06 GMT

←Older revision		Revision as of 06:40, 1 May 2024
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	==SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES==		==SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES==
-	<StructureSection load='2ezr' size='340' side='right'caption='[[2ezr~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='2ezr' size='340' side='right'caption='[[2ezr]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EZR FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EZR FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'>[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</div~~></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [https://pdbe.org/2ezr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [https://www.ebi.ac.uk/pdbsum/2ezr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ezr 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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [https://pdbe.org/2ezr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [https://www.ebi.ac.uk/pdbsum/2ezr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ezr ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q88033_SIV Q88033_SIV]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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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=2ezr ConSurf].		</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=2ezr ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The solution structure of the ectodomain of simian immunodeficiency virus (SIV) gp41 (e-gp41), consisting of residues 27-149, has been determined by multidimensional heteronuclear NMR spectroscopy. SIV e-gp41 is a symmetric 44 kDa trimer with each subunit consisting of antiparallel N-terminal (residues 30-80) and C-terminal (residues 107-147) helices connected by a 26 residue loop (residues 81-106). The N-terminal helices of each subunit form a parallel coiled-coil structure in the interior of the complex which is surrounded by the C-terminal helices located on the exterior of the complex. The loop region is ordered and displays numerous intermolecular and non-sequential intramolecular contacts. The helical core of SIV e-gp41 is similar to recent X-ray structures of truncated constructs of the helical core of HIV-1 e-gp41. The present structure establishes unambiguously the connectivity of the N- and C-terminal helices in the trimer, and characterizes the conformation of the intervening loop, which has been implicated by mutagenesis and antibody epitope mapping to play a key role in gp120 association. In conjunction with previous studies, the solution structure of the SIV e-gp41 ectodomain provides insight into the binding site of gp120 and the mechanism of cell fusion. The present structure of SIV e-gp41 represents one of the largest protein structures determined by NMR to date.
-
-	Three-dimensional solution structure of the 44 kDa ectodomain of SIV gp41.,Caffrey M, Cai M, Kaufman J, Stahl SJ, Wingfield PT, Covell DG, Gronenborn AM, Clore GM EMBO J. 1998 Aug 17;17(16):4572-84. PMID:9707417<ref>PMID:9707417</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2ezr" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Gp41 3D Structures\|Gp41 3D Structures]]		*[[Gp41 3D Structures\|Gp41 3D Structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Simian immunodeficiency virus]]		[[Category: Simian immunodeficiency virus]]
-	[[Category: Caffrey, M]]	+	[[Category: Caffrey M]]
-	[[Category: Clore~~, G M~~]]	+	[[Category: Clore GM]]
-	[[Category: Gronenborn~~, A M]]~~	+	[[Category: Gronenborn AM]]
-	~~[[Category: Siv gp41 ectodomain]]~~	+
-	~~[[Category: Viral protein]]~~	+
-	~~[[Category: Virus envelope protein~~]]	+

OCA at 15:59, 22 December 2021

OCA — Wed, 22 Dec 2021 15:59:39 GMT

←Older revision		Revision as of 15:59, 22 December 2021
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	<StructureSection load='2ezr' size='340' side='right'caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ezr' size='340' side='right'caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2EZR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EZR FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</div></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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [~~http~~://pdbe.org/2ezr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ezr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ezr 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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [https://pdbe.org/2ezr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [https://www.ebi.ac.uk/pdbsum/2ezr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ezr ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 10:43, 18 March 2020

OCA — Wed, 18 Mar 2020 10:43:55 GMT

←Older revision		Revision as of 10:43, 18 March 2020
Line 1:		Line 1:

	==SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES==		==SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES==
-	<StructureSection load='2ezr' size='340' side='right' caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>	+	<StructureSection load='2ezr' size='340' side='right'caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>
Line 28:		Line 28:

	==See Also==		==See Also==
-	*[[Gp41\|Gp41]]	+	*[[Gp41 3D Structures\|Gp41 3D Structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Simian immunodeficiency virus]]		[[Category: Simian immunodeficiency virus]]
	[[Category: Caffrey, M]]		[[Category: Caffrey, M]]

OCA at 09:20, 14 June 2018

OCA — Thu, 14 Jun 2018 09:20:46 GMT

←Older revision		Revision as of 09:20, 14 June 2018
Line 1:		Line 1:
		+
	==SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES==		==SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES==
	<StructureSection load='2ezr' size='340' side='right' caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ezr' size='340' side='right' caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Civ Civ~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [http://pdbe.org/2ezr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [http://www.ebi.ac.uk/pdbsum/2ezr 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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [http://pdbe.org/2ezr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [http://www.ebi.ac.uk/pdbsum/2ezr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ezr ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ez/2ezr_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ez/2ezr_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Civ~~]]	+	[[Category: Simian immunodeficiency virus]]
	[[Category: Caffrey, M]]		[[Category: Caffrey, M]]
	[[Category: Clore, G M]]		[[Category: Clore, G M]]

OCA at 11:54, 7 February 2016

OCA — Sun, 07 Feb 2016 11:54:21 GMT

←Older revision		Revision as of 11:54, 7 February 2016
Line 14:		Line 14:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</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/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</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=2ezr ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:15, 10 September 2015

OCA — Thu, 10 Sep 2015 01:15:16 GMT

←Older revision		Revision as of 01:15, 10 September 2015
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	<StructureSection load='2ezr' size='340' side='right' caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ezr' size='340' side='right' caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Simian_immunodeficiency_virus Simian immunodeficiency virus~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Civ Civ]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [http://www.ebi.ac.uk/pdbsum/2ezr 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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [http://pdbe.org/2ezr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [http://www.ebi.ac.uk/pdbsum/2ezr PDBsum]</span></td></tr>
	</table>		</table>
-	== Function ==
-	[[http://www.uniprot.org/uniprot/Q88033_SIVCZ Q88033_SIVCZ]] The envelope glyprotein gp160 precursor down-modulates cell surface CD4 antigen by interacting with it in the endoplasmic reticulum and blocking its transport to the cell surface (By similarity).[SAAS:SAAS000328_004_020447] The gp120-gp41 heterodimer allows rapid transcytosis of the virus through CD4 negative cells such as simple epithelial monolayers of the intestinal, rectal and endocervical epithelial barriers. Both gp120 and gp41 specifically recognize glycosphingolipids galactosyl-ceramide (GalCer) or 3' sulfo-galactosyl-ceramide (GalS) present in the lipid rafts structures of epithelial cells. Binding to these alternative receptors allows the rapid transcytosis of the virus through the epithelial cells. This transcytotic vesicle-mediated transport of virions from the apical side to the basolateral side of the epithelial cells does not involve infection of the cells themselves (By similarity).[SAAS:SAAS000328_004_240990]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	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 2ezr" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Simian immunodeficiency virus~~]]	+	[[Category: Civ]]
	[[Category: Caffrey, M]]		[[Category: Caffrey, M]]
	[[Category: Clore, G M]]		[[Category: Clore, G M]]

OCA at 14:53, 24 December 2014

OCA — Wed, 24 Dec 2014 14:53:13 GMT

←Older revision		Revision as of 14:53, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [http://www.ebi.ac.uk/pdbsum/2ezr 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=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [http://www.ebi.ac.uk/pdbsum/2ezr PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q88033_SIVCZ Q88033_SIVCZ]] The envelope glyprotein gp160 precursor down-modulates cell surface CD4 antigen by interacting with it in the endoplasmic reticulum and blocking its transport to the cell surface (By similarity).[SAAS:SAAS000328_004_020447] The gp120-gp41 heterodimer allows rapid transcytosis of the virus through CD4 negative cells such as simple epithelial monolayers of the intestinal, rectal and endocervical epithelial barriers. Both gp120 and gp41 specifically recognize glycosphingolipids galactosyl-ceramide (GalCer) or 3' sulfo-galactosyl-ceramide (GalS) present in the lipid rafts structures of epithelial cells. Binding to these alternative receptors allows the rapid transcytosis of the virus through the epithelial cells. This transcytotic vesicle-mediated transport of virions from the apical side to the basolateral side of the epithelial cells does not involve infection of the cells themselves (By similarity).[SAAS:SAAS000328_004_240990]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Simian immunodeficiency virus]]		[[Category: Simian immunodeficiency virus]]
-	[[Category: Caffrey, M.]]	+	[[Category: Caffrey, M]]
-	[[Category: Clore, G M.]]	+	[[Category: Clore, G M]]
-	[[Category: Gronenborn, A M.]]	+	[[Category: Gronenborn, A M]]
	[[Category: Siv gp41 ectodomain]]		[[Category: Siv gp41 ectodomain]]
	[[Category: Viral protein]]		[[Category: Viral protein]]
	[[Category: Virus envelope protein]]		[[Category: Virus envelope protein]]

OCA at 00:33, 30 September 2014

OCA — Tue, 30 Sep 2014 00:33:00 GMT

←Older revision		Revision as of 00:33, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2ezr.~~png~~\|~~left~~\|200px]]	+	==SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES==
		+	<StructureSection load='2ezr' size='340' side='right' caption='[[2ezr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EZR FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ezo\|2ezo]], [[2ezp\|2ezp]], [[2ezq\|2ezq]], [[2ezs\|2ezs]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ezr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ezr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ezr RCSB], [http://www.ebi.ac.uk/pdbsum/2ezr PDBsum]</span></td></tr>
		+	<table>
		+	== 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/ez/2ezr_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/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The solution structure of the ectodomain of simian immunodeficiency virus (SIV) gp41 (e-gp41), consisting of residues 27-149, has been determined by multidimensional heteronuclear NMR spectroscopy. SIV e-gp41 is a symmetric 44 kDa trimer with each subunit consisting of antiparallel N-terminal (residues 30-80) and C-terminal (residues 107-147) helices connected by a 26 residue loop (residues 81-106). The N-terminal helices of each subunit form a parallel coiled-coil structure in the interior of the complex which is surrounded by the C-terminal helices located on the exterior of the complex. The loop region is ordered and displays numerous intermolecular and non-sequential intramolecular contacts. The helical core of SIV e-gp41 is similar to recent X-ray structures of truncated constructs of the helical core of HIV-1 e-gp41. The present structure establishes unambiguously the connectivity of the N- and C-terminal helices in the trimer, and characterizes the conformation of the intervening loop, which has been implicated by mutagenesis and antibody epitope mapping to play a key role in gp120 association. In conjunction with previous studies, the solution structure of the SIV e-gp41 ectodomain provides insight into the binding site of gp120 and the mechanism of cell fusion. The present structure of SIV e-gp41 represents one of the largest protein structures determined by NMR to date.

-	~~{{STRUCTURE_2ezr\| PDB=2ezr \| SCENE= }}~~	+	Three-dimensional solution structure of the 44 kDa ectodomain of SIV gp41.,Caffrey M, Cai M, Kaufman J, Stahl SJ, Wingfield PT, Covell DG, Gronenborn AM, Clore GM EMBO J. 1998 Aug 17;17(16):4572-84. PMID:9707417<ref>PMID:9707417</ref>

-	~~===SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41~~, ~~MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_9707417}}~~	+	==See Also==
-		+	*[[Gp41\|Gp41]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2ezr~~]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:009707417<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Simian immunodeficiency virus]]		[[Category: Simian immunodeficiency virus]]
	[[Category: Caffrey, M.]]		[[Category: Caffrey, M.]]

OCA: Protected "2ezr" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 13:21:39 GMT

Protected "2ezr" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:21, 7 January 2013

OCA at 13:21, 7 January 2013

OCA — Mon, 07 Jan 2013 13:21:35 GMT

←Older revision		Revision as of 13:21, 7 January 2013
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-	{{Seed}}
	[[Image:2ezr.png\|left\|200px]]		[[Image:2ezr.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2ezr", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2ezr\| PDB=2ezr \| SCENE= }}		{{STRUCTURE_2ezr\| PDB=2ezr \| SCENE= }}

	===SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES===		===SOLUTION NMR STRUCTURE OF ECTODOMAIN OF SIV GP41, MODELS 21-30 OF AN ENSEMBLE OF 40 SIMULATED ANNEALING STRUCTURES===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_9707417}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 9707417 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_9707417}}		{{ABSTRACT_PUBMED_9707417}}

	==About this Structure==		==About this Structure==
-	~~2EZR~~ is a 3 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA].	+	[[2ezr]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Simian_immunodeficiency_virus Simian immunodeficiency virus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EZR OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~9707417~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:009707417</ref><references group="xtra"/>
	[[Category: Simian immunodeficiency virus]]		[[Category: Simian immunodeficiency virus]]
	[[Category: Caffrey, M.]]		[[Category: Caffrey, M.]]
Line 31:		Line 19:
	[[Category: Viral protein]]		[[Category: Viral protein]]
	[[Category: Virus envelope protein]]		[[Category: Virus envelope protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 24 13:30:57 2010''