4rfn - Revision history

OCA at 17:49, 20 September 2023

OCA — Wed, 20 Sep 2023 17:49:31 GMT

←Older revision		Revision as of 17:49, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1], [https://en.wikipedia.org/wiki/Macaca_mulatta Macaca mulatta] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RFN FirstGlance]. <br>		<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1], [https://en.wikipedia.org/wiki/Macaca_mulatta Macaca mulatta] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RFN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></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]] 3.21Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [https://pdbe.org/4rfn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [https://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn 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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [https://pdbe.org/4rfn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [https://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:20, 8 March 2023

OCA — Wed, 08 Mar 2023 08:20:14 GMT

←Older revision		Revision as of 08:20, 8 March 2023
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	<StructureSection load='4rfn' size='340' side='right'caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>		<StructureSection load='4rfn' size='340' side='right'caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~9hiv1 9hiv1~~] and [https://en.wikipedia.org/wiki/~~Macmu Macmu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RFN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1], [https://en.wikipedia.org/wiki/Macaca_mulatta Macaca mulatta] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RFN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=~~NAG~~:~~N-ACETYL-~~D-~~GLUCOSAMINE~~'>~~NAG~~</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~DPR~~:D-~~PROLINE~~'>~~DPR~~</scene>, <scene name='pdbligand=~~MPT~~:~~BETA~~-~~MERCAPTOPROPIONIC+ACID~~'>~~MPT~~</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>~~</td></tr>~~	+
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</div></td></tr>	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HIV-1 env ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1]), Fab heavy chain of ADCC-potent anti-HIV-1 antibody JR4 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU]), Fab light chain of ADCC-potent anti-HIV-1 antibody JR4 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])</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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [https://pdbe.org/4rfn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [https://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn 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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [https://pdbe.org/4rfn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [https://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q0ED31_9HIV1 Q0ED31_9HIV1] 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).[RuleBase:RU004292][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).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Macmu~~]]	+	[[Category: Macaca mulatta]]
-	[[Category: ~~Gohain, N~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Pazgier, M~~]]	+	[[Category: Gohain N]]
-	[[Category: ~~Tolbert, W D~~]]	+	[[Category: Pazgier M]]
-	[[Category: ~~Hiv-1 gp120]]~~	+	[[Category: Tolbert WD]]
-	~~[[Category: Viral protein]]~~	+
-	~~[[Category: Viral protein-immune system complex~~]]	+

OCA at 14:40, 2 June 2021

OCA — Wed, 02 Jun 2021 14:40:27 GMT

←Older revision		Revision as of 14:40, 2 June 2021
Line 3:		Line 3:
	<StructureSection load='4rfn' size='340' side='right'caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>		<StructureSection load='4rfn' size='340' side='right'caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/9hiv1 9hiv1] and [~~http~~://en.wikipedia.org/wiki/Macmu Macmu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4RFN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/9hiv1 9hiv1] and [https://en.wikipedia.org/wiki/Macmu Macmu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RFN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HIV-1 env ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1]), Fab heavy chain of ADCC-potent anti-HIV-1 antibody JR4 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU]), Fab light chain of ADCC-potent anti-HIV-1 antibody JR4 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HIV-1 env ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1]), Fab heavy chain of ADCC-potent anti-HIV-1 antibody JR4 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU]), Fab light chain of ADCC-potent anti-HIV-1 antibody JR4 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])</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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [~~http~~://pdbe.org/4rfn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn 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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [https://pdbe.org/4rfn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [https://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
-	*[[Gp120\|Gp120]]	+	*[[Gp120 3D structures\|Gp120 3D structures]]
		+	*[[3D structures of human antibody\|3D structures of human antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:35, 1 May 2019

OCA — Wed, 01 May 2019 10:35:35 GMT

←Older revision		Revision as of 10:35, 1 May 2019
Line 1:		Line 1:

	==Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48==		==Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48==
-	<StructureSection load='4rfn' size='340' side='right' caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>	+	<StructureSection load='4rfn' size='340' side='right'caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RFN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1] and [http://en.wikipedia.org/wiki/Macmu Macmu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RFN FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HIV-1 env ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1]), Fab heavy chain of ADCC-potent anti-HIV-1 antibody JR4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU]), Fab light chain of ADCC-potent anti-HIV-1 antibody JR4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])</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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [http://pdbe.org/4rfn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [http://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn ProSAT]</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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [http://pdbe.org/4rfn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [http://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:

	==See Also==		==See Also==
-	*[[3D structures ~~of antibody~~\|3D structures ~~of antibody~~]]	+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Gp120\|Gp120]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Macmu]]
	[[Category: Gohain, N]]		[[Category: Gohain, N]]
	[[Category: Pazgier, M]]		[[Category: Pazgier, M]]

OCA at 14:14, 24 May 2017

OCA — Wed, 24 May 2017 14:14:39 GMT

←Older revision		Revision as of 14:14, 24 May 2017
Line 1:		Line 1:
		+
	==Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48==		==Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48==
	<StructureSection load='4rfn' size='340' side='right' caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>		<StructureSection load='4rfn' size='340' side='right' caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [http://www.ebi.ac.uk/pdbsum/4rfn 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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [http://pdbe.org/4rfn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [http://www.ebi.ac.uk/pdbsum/4rfn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rfn ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	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 4rfn" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:24, 15 July 2015

OCA — Wed, 15 Jul 2015 13:24:35 GMT

←Older revision		Revision as of 13:24, 15 July 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48==
		+	<StructureSection load='4rfn' size='340' side='right' caption='[[4rfn]], [[Resolution\|resolution]] 3.21Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4rfn]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RFN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RFN FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPR:D-PROLINE'>DPR</scene>, <scene name='pdbligand=MPT:BETA-MERCAPTOPROPIONIC+ACID'>MPT</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4h8w\|4h8w]], [[4rfe\|4rfe]], [[4jzw\|4jzw]], [[4rfo\|4rfo]]</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=4rfn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rfn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rfn RCSB], [http://www.ebi.ac.uk/pdbsum/4rfn PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Accumulating evidence indicates a role for Fc receptor (FcR)-mediated effector functions of antibodies, including antibody-dependent cell-mediated cytotoxicity (ADCC), in prevention of HIV-1 acquisition and in post-infection control of viremia. Consequently, an understanding of the molecular basis for Env epitopes that constitute effective ADCC targets is of fundamental interest for humoral anti-HIV-1 immunity and for HIV-1 vaccine design. A substantial portion of FcR-effector function of potentially protective anti-HIV-1 antibodies is directed toward non-neutralizing, transitional, CD4-induceable (CD4i) epitopes associated with the gp41 reactive region of gp120 (Cluster A epitopes). Our previous studies defined the A32-like epitope within the Cluster A region and mapped it to the highly conserved and mobile layers 1 and 2 of the gp120 inner domain within C1-C2 regions of gp120. Here we elucidate additional Cluster A epitope structures, including an A32-like epitope, recognized by human mAb N60-i3 and a hybrid A32-C11-like epitope, recognized by rhesus macaque mAb JR4. These studies define for the first time a hybrid A32-C11-like epitope and map it to elements of both the A32-like sub-region and the 7 layered beta-sheet of the gp41-interactive region of gp120. These studies provide additional evidence that effective antibody-dependent effector function to the Cluster A region depends on precise epitope targeting - a combination of epitope footprint and mode of antibody attachment. All together these findings help in understanding how Cluster A epitopes are targeted by humoral responses IMPORTANCE: HIV/AIDS has claimed the lives of over 30 million people. Although antiretroviral drugs can control viral replication no vaccine has yet been developed to prevent the spread of the disease. Studies of natural HIV-1 infection, SIV or SHIV infected non-human primates (NHPs) and HIV-1-infected humanized mice models, passive transfer studies in infants born to HIV-infected mothers and the RV144 clinical trial have linked FcR-mediated effector functions of anti-HIV-1 antibodies with post-infection control of viremia and/or blocking viral acquisition. With this report we provide additional definition of the molecular determinants for Env antigen engagement which lead to effective antibody-dependent effector function directed to the non-neutralizing CD4-dependent epitopes in the gp41 reactive region of gp120. These findings have important implications for the development of an effective HIV-1 vaccine.

-	~~The entry 4rfn is ON HOLD until Paper Publication~~	+	Co-crystal structures of antibody N60-i3 and antibody JR4 in complex with gp120 define more Cluster A epitopes involved in effective antibody-dependent effector function against HIV-1.,Gohain N, Tolbert WD, Acharya P, Yu L, Liu T, Zhao P, Orlandi C, Visciano ML, Kamin-Lewis R, Sajadi MM, Martin L, Robinson JE, Kwong PD, DeVico AL, Ray K, Lewis GK, Pazgier M J Virol. 2015 Jun 17. pii: JVI.01232-15. PMID:26085162<ref>PMID:26085162</ref>

-	~~Authors: Gohain~~, N.~~, Tolbert, W~~.~~D., Pazgier, M~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A~~/~~E GP120 and M48~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gohain, N]]
	[[Category: Pazgier, M]]		[[Category: Pazgier, M]]
-	[[Category: Tolbert, W.D]]	+	[[Category: Tolbert, W D]]
-	[[Category: ~~Gohain, N~~]]	+	[[Category: Hiv-1 gp120]]
		+	[[Category: Viral protein]]
		+	[[Category: Viral protein-immune system complex]]

OCA at 16:49, 24 December 2014

OCA — Wed, 24 Dec 2014 16:49:33 GMT

←Older revision		Revision as of 16:49, 24 December 2014
Line 6:		Line 6:

	Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48		Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48
		+	[[Category: Unreleased Structures]]
		+	[[Category: Pazgier, M]]
		+	[[Category: Tolbert, W.D]]
		+	[[Category: Gohain, N]]

OCA at 09:27, 20 October 2014

OCA — Mon, 20 Oct 2014 09:27:33 GMT

←Older revision		Revision as of 09:27, 20 October 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4rfn is ON HOLD	+	The entry 4rfn is ON HOLD until Paper Publication

	Authors: Gohain, N., Tolbert, W.D., Pazgier, M.		Authors: Gohain, N., Tolbert, W.D., Pazgier, M.

	Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48		Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48

OCA: Protected "4rfn" [edit=sysop:move=sysop]

OCA — Wed, 08 Oct 2014 06:32:57 GMT

Protected "4rfn" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:32, 8 October 2014

OCA: New page: '''Unreleased structure''' The entry 4rfn is ON HOLD Authors: Gohain, N., Tolbert, W.D., Pazgier, M. Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in comple...

OCA — Wed, 08 Oct 2014 06:32:56 GMT

New page: '''Unreleased structure''' The entry 4rfn is ON HOLD Authors: Gohain, N., Tolbert, W.D., Pazgier, M. Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in comple...

New page

'''Unreleased structure'''

The entry 4rfn is ON HOLD

Authors: Gohain, N., Tolbert, W.D., Pazgier, M.

Description: Crystal structure of ADCC-potent Rhesus macaque ANTIBODY JR4 in complex with HIV-1 CLADE A/E GP120 and M48