3lmj - Revision history

OCA at 07:07, 7 October 2020

2020-10-07T07:07:45Z

←Older revision		Revision as of 07:07, 7 October 2020
Line 1:		Line 1:

	==Structure of human anti HIV 21c Fab==		==Structure of human anti HIV 21c Fab==
-	<StructureSection load='3lmj' size='340' side='right' caption='[[3lmj]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='3lmj' size='340' side='right'caption='[[3lmj]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3lmj]] 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=3LMJ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3LMJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3lmj]] 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=3LMJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3LMJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3lqa\|3lqa]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3lqa\|3lqa]]</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=3lmj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmj OCA], [http://pdbe.org/3lmj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3lmj RCSB], [http://www.ebi.ac.uk/pdbsum/3lmj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3lmj ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3lmj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmj OCA], [http://pdbe.org/3lmj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3lmj RCSB], [http://www.ebi.ac.uk/pdbsum/3lmj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3lmj ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Bjorkman, P J]]		[[Category: Bjorkman, P J]]
	[[Category: Diskin, R]]		[[Category: Diskin, R]]

OCA at 07:10, 2 January 2019

2019-01-02T07:10:37Z

←Older revision		Revision as of 07:10, 2 January 2019
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/lm/3lmj_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/lm/3lmj_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>

OCA at 20:27, 9 December 2016

2016-12-09T20:27:23Z

←Older revision		Revision as of 20:27, 9 December 2016
Line 1:		Line 1:
		+
	==Structure of human anti HIV 21c Fab==		==Structure of human anti HIV 21c Fab==
	<StructureSection load='3lmj' size='340' side='right' caption='[[3lmj]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3lmj' size='340' side='right' caption='[[3lmj]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3lmj]] 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=3LMJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LMJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3lmj]] 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=3LMJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LMJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3lqa\|3lqa]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3lqa\|3lqa]]</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=3lmj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lmj RCSB], [http://www.ebi.ac.uk/pdbsum/3lmj 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=3lmj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmj OCA], [http://pdbe.org/3lmj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3lmj RCSB], [http://www.ebi.ac.uk/pdbsum/3lmj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3lmj ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 16:
	<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=3lmj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 26:
	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 3lmj" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Bjorkman, P J]]		[[Category: Bjorkman, P J]]
	[[Category: Diskin, R]]		[[Category: Diskin, R]]

OCA at 09:46, 9 December 2014

2014-12-09T09:46:19Z

←Older revision		Revision as of 09:46, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3lmj.~~png~~\|~~left~~\|200px]]	+	==Structure of human anti HIV 21c Fab==
		+	<StructureSection load='3lmj' size='340' side='right' caption='[[3lmj]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3lmj]] 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=3LMJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LMJ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3lqa\|3lqa]]</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=3lmj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lmj RCSB], [http://www.ebi.ac.uk/pdbsum/3lmj 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/lm/3lmj_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 ==
		+	Strategies to combat HIV-1 require structural knowledge of envelope proteins from viruses in HIV-1 clade C, the most rapidly spreading subtype in the world. We present a crystal structure containing a clade C gp120 envelope. The structure, a complex between gp120, the host receptor CD4 and the CD4-induced antibody 21c, reveals that the 21c epitope involves contacts with gp120, a nonself antigen, and with CD4, an autoantigen. Binding studies using wild-type and mutant CD4 show that 21c Fab binds CD4 in the absence of gp120, and that binding of 21c to clade C and HIV-2 gp120s requires the crystallographically observed 21c-CD4 interaction. Additional binding data suggest a role for the gp120 V1V2 loop in creating a high-affinity, but slow-forming, epitope for 21c after CD4 binds. These results contribute to a molecular understanding of CD4-induced antibodies and provide the first visualization to our knowledge of a potentially autoreactive antibody Fab complexed with both self and nonself antigens.

-	~~{{STRUCTURE_3lmj\| PDB=3lmj \| SCENE= }}~~	+	Structure of a clade C HIV-1 gp120 bound to CD4 and CD4-induced antibody reveals anti-CD4 polyreactivity.,Diskin R, Marcovecchio PM, Bjorkman PJ Nat Struct Mol Biol. 2010 May;17(5):608-13. Epub 2010 Mar 31. PMID:20357769<ref>PMID:20357769</ref>

-	~~===Structure~~ of ~~human anti HIV 21c Fab===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20357769}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3lmj]] 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=3LMJ OCA].~~	+	</StructureSection>
-		+
-	==~~See Also==~~	+
-	*[[Antibody\|Antibody]]	+
-		+
-	~~==Reference~~==	+
-	<~~ref group="xtra">PMID:020357769<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Bjorkman, P J.]]	+	[[Category: Bjorkman, P J]]
-	[[Category: Diskin, R.]]	+	[[Category: Diskin, R]]
-	[[Category: Marcovecchio, P M.]]	+	[[Category: Marcovecchio, P M]]
	[[Category: Immune system]]		[[Category: Immune system]]
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]

OCA at 21:43, 20 October 2012

2012-10-20T21:43:34Z

←Older revision		Revision as of 21:43, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3lmj]] is a 2 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=3LMJ OCA].	+	[[3lmj]] 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=3LMJ OCA].

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

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

2012-07-27T14:05:48Z

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

←Older revision

Revision as of 14:05, 27 July 2012

OCA at 14:05, 27 July 2012

2012-07-27T14:05:47Z

←Older revision		Revision as of 14:05, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3lmj.png\|left\|200px]]		[[Image:3lmj.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3lmj", 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_3lmj\| PDB=3lmj \| SCENE= }}		{{STRUCTURE_3lmj\| PDB=3lmj \| SCENE= }}

	===Structure of human anti HIV 21c Fab===		===Structure of human anti HIV 21c Fab===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20357769}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20357769 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20357769}}		{{ABSTRACT_PUBMED_20357769}}

	==About this Structure==		==About this Structure==
-	~~3LMJ~~ is a 2 ~~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=3LMJ OCA].	+	[[3lmj]] is a 2 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=3LMJ OCA].
		+
		+	==See Also==
		+	*[[Antibody\|Antibody]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20357769~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020357769</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Bjorkman, P J.]]		[[Category: Bjorkman, P J.]]
Line 30:		Line 21:
	[[Category: Immune system]]		[[Category: Immune system]]
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 26 08:40:38 2010''

OCA at 04:36, 26 May 2010

2010-05-26T04:36:28Z

←Older revision		Revision as of 04:36, 26 May 2010
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3lmj.~~jpg~~\|left\|200px]]	+	[[Image:3lmj.png\|left\|200px]]

	<!--		<!--
Line 12:		Line 12:
	===Structure of human anti HIV 21c Fab===		===Structure of human anti HIV 21c Fab===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20357769}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20357769 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20357769}}

	==About this Structure==		==About this Structure==
	3LMJ is a 2 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=3LMJ OCA].		3LMJ is a 2 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=3LMJ OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20357769</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Bjorkman, P J.]]		[[Category: Bjorkman, P J.]]
Line 22:		Line 31:
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Apr 7 10~~:51:03 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 26 08:40:38 2010''

OCA at 07:51, 7 April 2010

2010-04-07T07:51:04Z

←Older revision		Revision as of 07:51, 7 April 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3lmj.jpg\|left\|200px]]

-	The ~~entry 3lmj~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3lmj", 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_3lmj\| PDB=3lmj \| SCENE= }}

-	~~Authors: Diskin, R., Marcovecchio, P.M., Bjorkman, P.J.~~	+	===Structure of human anti HIV 21c Fab===

-	Description: Structure of human anti HIV 21c Fab

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 31 13~~:21:25 2010''	+	==About this Structure==
		+	3LMJ is a 2 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=3LMJ OCA].
		+	[[Category: Homo sapiens]]
		+	[[Category: Bjorkman, P J.]]
		+	[[Category: Diskin, R.]]
		+	[[Category: Marcovecchio, P M.]]
		+	[[Category: Immune system]]
		+	[[Category: Immunoglobulin]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 7 10:51:03 2010''

OCA at 10:21, 31 March 2010

2010-03-31T10:21:25Z

←Older revision		Revision as of 10:21, 31 March 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Diskin, R., Marcovecchio, P.M., Bjorkman, P.J.		Authors: Diskin, R., Marcovecchio, P.M., Bjorkman, P.J.

-	Description: Structure of ~~a clade C HIV gp120 complexed with CD4 and a CD4-induced antibody reveals~~ anti~~-CD4 polyreactivity~~	+	Description: Structure of human anti HIV 21c Fab

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Feb 10 16~~:59:40 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 31 13:21:25 2010''