3ghe - Revision history

OCA at 06:38, 3 April 2024

2024-04-03T06:38:07Z

←Older revision		Revision as of 06:38, 3 April 2024
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	<StructureSection load='3ghe' size='340' side='right'caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3ghe' size='340' side='right'caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GHE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ghe]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GHE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GHE 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;'>[[1q1j\|1q1j]]~~, [[~~3c2a~~\|~~3c2a~~]]~~, [[3ghb\|3ghb]]</div>~~</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]] 2.4Å</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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [https://pdbe.org/3ghe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [https://www.ebi.ac.uk/pdbsum/3ghe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ghe 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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [https://pdbe.org/3ghe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [https://www.ebi.ac.uk/pdbsum/3ghe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ghe ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/P88403_9HIV1 P88403_9HIV1]
	== 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=3ghe 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=3ghe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Human monoclonal antibodies 447-52D and 537-10D, both coded by the VH3 gene and specific for the third variable region (V3) of the HIV-1 gp120, were found to share antigen-binding structural elements including an elongated CDR H3 forming main-chain interactions with the N terminus of the V3 crown. However, water-mediated hydrogen bonds and a unique cation-pi sandwich stacking allow 447-52D to be broadly reactive with V3 containing both the GPGR and GPGQ crown motifs, while the deeper binding pocket and a buried Glu in the binding site of 537-10D limit its reactivity to only V3 containing the GPGR motif. Our results suggest that the design of immunogens for anti-V3 antibodies should avoid the Arg at the V3 crown, as GPGR-containing epitopes appear to select for B cells making antibodies of narrower specificity than V3 that carry Gln at this position.
-
-	Structural basis of the cross-reactivity of genetically related human anti-HIV-1 mAbs: implications for design of V3-based immunogens.,Burke V, Williams C, Sukumaran M, Kim SS, Li H, Wang XH, Gorny MK, Zolla-Pazner S, Kong XP Structure. 2009 Nov 11;17(11):1538-46. PMID:19913488<ref>PMID:19913488</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3ghe" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
	*[[3D structures of human antibody\|3D structures of human antibody]]		*[[3D structures of human antibody\|3D structures of human antibody]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Burke~~, V J~~]]	+	[[Category: Burke VJ]]
-	[[Category: Kong~~, X P]]~~	+	[[Category: Kong XP]]
-	~~[[Category: Antibody-antigen interaction]]~~	+
-	~~[[Category: Envelope protein]]~~	+
-	~~[[Category: Hiv]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: V3 loop~~]]	+

OCA at 08:05, 9 March 2022

2022-03-09T08:05:28Z

←Older revision		Revision as of 08:05, 9 March 2022
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	<StructureSection load='3ghe' size='340' side='right'caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3ghe' size='340' side='right'caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3GHE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GHE FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</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;'>[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [~~http~~://pdbe.org/3ghe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3ghe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3ghe 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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [https://pdbe.org/3ghe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [https://www.ebi.ac.uk/pdbsum/3ghe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ghe ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[3D structures of human antibody\|3D structures of human antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:36, 7 August 2019

2019-08-07T06:36:41Z

←Older revision		Revision as of 06:36, 7 August 2019
Line 1:		Line 1:

	==Crystal structure of anti-HIV-1 Fab 537-10D in complex with V3 peptide MN==		==Crystal structure of anti-HIV-1 Fab 537-10D in complex with V3 peptide MN==
-	<StructureSection load='3ghe' size='340' side='right' caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='3ghe' size='340' side='right'caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>
Line 11:		Line 11:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gh/3ghe_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gh/3ghe_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>
Line 28:		Line 28:

	==See Also==		==See Also==
-	*[[3D structures ~~of antibody~~\|3D structures ~~of antibody~~]]	+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
	[[Category: Burke, V J]]		[[Category: Burke, V J]]
	[[Category: Kong, X P]]		[[Category: Kong, X P]]

OCA at 07:05, 1 November 2017

2017-11-01T07:05:24Z

←Older revision		Revision as of 07:05, 1 November 2017
Line 1:		Line 1:
		+
	==Crystal structure of anti-HIV-1 Fab 537-10D in complex with V3 peptide MN==		==Crystal structure of anti-HIV-1 Fab 537-10D in complex with V3 peptide MN==
	<StructureSection load='3ghe' size='340' side='right' caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3ghe' size='340' side='right' caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [http://pdbe.org/3ghe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [http://www.ebi.ac.uk/pdbsum/3ghe 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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [http://pdbe.org/3ghe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [http://www.ebi.ac.uk/pdbsum/3ghe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ghe ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	==See Also==		==See Also==
-	*[[~~Antibody~~\|~~Antibody~~]]	+	*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:16, 9 February 2016

2016-02-09T16:16:22Z

←Older revision		Revision as of 16:16, 9 February 2016
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [http://www.ebi.ac.uk/pdbsum/3ghe 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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [http://pdbe.org/3ghe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [http://www.ebi.ac.uk/pdbsum/3ghe PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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=3ghe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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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 3ghe" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 09:58, 20 January 2015

2015-01-20T09:58:35Z

←Older revision		Revision as of 09:58, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [http://www.ebi.ac.uk/pdbsum/3ghe 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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [http://www.ebi.ac.uk/pdbsum/3ghe PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Burke, V J.]]	+	[[Category: Burke, V J]]
-	[[Category: Kong, X P.]]	+	[[Category: Kong, X P]]
	[[Category: Antibody-antigen interaction]]		[[Category: Antibody-antigen interaction]]
	[[Category: Envelope protein]]		[[Category: Envelope protein]]

OCA at 12:10, 29 September 2014

2014-09-29T12:10:16Z

←Older revision		Revision as of 12:10, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3ghe.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of anti-HIV-1 Fab 537-10D in complex with V3 peptide MN==
		+	<StructureSection load='3ghe' size='340' side='right' caption='[[3ghe]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ghe]] 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=3GHE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GHE FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1q1j\|1q1j]], [[3c2a\|3c2a]], [[3ghb\|3ghb]]</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=3ghe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ghe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ghe RCSB], [http://www.ebi.ac.uk/pdbsum/3ghe 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/gh/3ghe_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 ==
		+	Human monoclonal antibodies 447-52D and 537-10D, both coded by the VH3 gene and specific for the third variable region (V3) of the HIV-1 gp120, were found to share antigen-binding structural elements including an elongated CDR H3 forming main-chain interactions with the N terminus of the V3 crown. However, water-mediated hydrogen bonds and a unique cation-pi sandwich stacking allow 447-52D to be broadly reactive with V3 containing both the GPGR and GPGQ crown motifs, while the deeper binding pocket and a buried Glu in the binding site of 537-10D limit its reactivity to only V3 containing the GPGR motif. Our results suggest that the design of immunogens for anti-V3 antibodies should avoid the Arg at the V3 crown, as GPGR-containing epitopes appear to select for B cells making antibodies of narrower specificity than V3 that carry Gln at this position.

-	~~{{STRUCTURE_3ghe\| PDB=3ghe \| SCENE= }}~~	+	Structural basis of the cross-reactivity of genetically related human anti-HIV-1 mAbs: implications for design of V3-based immunogens.,Burke V, Williams C, Sukumaran M, Kim SS, Li H, Wang XH, Gorny MK, Zolla-Pazner S, Kong XP Structure. 2009 Nov 11;17(11):1538-46. PMID:19913488<ref>PMID:19913488</ref>

-	~~===Crystal structure~~ of ~~anti-HIV-1 Fab 537-10D in complex with V3 peptide MN===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19913488}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3ghe]] 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=3GHE OCA].~~	+

	==See Also==		==See Also==
	*[[Antibody\|Antibody]]		*[[Antibody\|Antibody]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019913488<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Burke, V J.]]		[[Category: Burke, V J.]]

OCA at 14:25, 20 October 2012

2012-10-20T14:25:21Z

←Older revision		Revision as of 14:25, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3ghe]] is a 3 chain structure ~~of [[Antibody]]~~ 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=3GHE OCA].	+	[[3ghe]] 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=3GHE OCA].

	==See Also==		==See Also==

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

2012-07-26T15:05:04Z

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

←Older revision

Revision as of 15:05, 26 July 2012

OCA at 15:05, 26 July 2012

2012-07-26T15:05:03Z

←Older revision		Revision as of 15:05, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3ghe.png\|left\|200px]]		[[Image:3ghe.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ghe", 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_3ghe\| PDB=3ghe \| SCENE= }}		{{STRUCTURE_3ghe\| PDB=3ghe \| SCENE= }}

	===Crystal structure of anti-HIV-1 Fab 537-10D in complex with V3 peptide MN===		===Crystal structure of anti-HIV-1 Fab 537-10D in complex with V3 peptide MN===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19913488}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19913488 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19913488}}		{{ABSTRACT_PUBMED_19913488}}

	==About this Structure==		==About this Structure==
-	~~3GHE~~ is a 3 ~~chains~~ structure with ~~sequences~~ 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=3GHE OCA].	+	[[3ghe]] is a 3 chain structure of [[Antibody]] 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=3GHE OCA].
		+
		+	==See Also==
		+	*[[Antibody\|Antibody]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19913488~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019913488</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Burke, V J.]]		[[Category: Burke, V J.]]
Line 32:		Line 23:
	[[Category: Immune system]]		[[Category: Immune system]]
	[[Category: V3 loop]]		[[Category: V3 loop]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jan 28 14:29:34 2010''