5w4p - Revision history

OCA at 14:07, 4 October 2023

OCA — Wed, 04 Oct 2023 14:07:09 GMT

←Older revision		Revision as of 14:07, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5w4p' size='340' side='right'caption='[[5w4p]], [[Resolution\|resolution]] 2.19Å' scene=''>		<StructureSection load='5w4p' size='340' side='right'caption='[[5w4p]], [[Resolution\|resolution]] 2.19Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5w4p]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~9hiv1 9hiv1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W4P OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5W4P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5w4p]] is a 1 chain structure with sequence from [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=5W4P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5W4P FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CL:CHLORIDE+ION'>CL</scene~~>, ~~<scene name='pdbligand=IOD:IODIDE+ION'>IOD</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]] 2.19Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[4xfx\|4xfx]], [[5w4o\|5w4o]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">gag ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])~~</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=5w4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w4p OCA], [https://pdbe.org/5w4p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5w4p RCSB], [https://www.ebi.ac.uk/pdbsum/5w4p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5w4p 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=5w4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w4p OCA], [~~http~~://pdbe.org/5w4p PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5w4p RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5w4p PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5w4p ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/GAG_HV1N5 GAG_HV1N5] Matrix protein p17 targets Gag and Gag-Pol polyproteins to the plasma membrane via a multipartite membrane binding signal, that includes its myristoylated N-terminus. Also mediates nuclear localization of the preintegration complex. Implicated in the release from host cell mediated by Vpu. Capsid protein p24 forms the conical core of the virus that encapsulates the genomic RNA-nucleocapsid complex. Nucleocapsid protein p7 encapsulates and protects viral dimeric unspliced (genomic) RNA. Binds these RNAs through its zinc fingers. p6-gag plays a role in budding of the assembled particle by interacting with the host class E VPS proteins TSG101 and PDCD6IP/AIP1 (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5w4p" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5w4p" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Virus coat proteins 3D structures\|Virus coat proteins 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gres~~, A T~~]]	+	[[Category: Gres AT]]
-	[[Category: Kirby~~, K A~~]]	+	[[Category: Kirby KA]]
-	[[Category: Sarafianos~~, S G]]~~	+	[[Category: Sarafianos SG]]
-	~~[[Category: Capsid protein]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 06:55, 27 March 2019

OCA — Wed, 27 Mar 2019 06:55:04 GMT

←Older revision		Revision as of 06:55, 27 March 2019
Line 1:		Line 1:

	==Structure of the E28A mutant of the HIV-1 capsid protein==		==Structure of the E28A mutant of the HIV-1 capsid protein==
-	<StructureSection load='5w4p' size='340' side='right' caption='[[5w4p]], [[Resolution\|resolution]] 2.19Å' scene=''>	+	<StructureSection load='5w4p' size='340' side='right'caption='[[5w4p]], [[Resolution\|resolution]] 2.19Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5w4p]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W4P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W4P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5w4p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W4P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W4P FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xfx\|4xfx]], [[5w4o\|5w4o]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xfx\|4xfx]], [[5w4o\|5w4o]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gag ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11676 9HIV1])</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=5w4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w4p OCA], [http://pdbe.org/5w4p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5w4p RCSB], [http://www.ebi.ac.uk/pdbsum/5w4p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5w4p 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=5w4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w4p OCA], [http://pdbe.org/5w4p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5w4p RCSB], [http://www.ebi.ac.uk/pdbsum/5w4p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5w4p ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	HIV-1 capsid protein (CA) plays critical roles in both early and late stages of the viral replication cycle. Mutagenesis and structural experiments have revealed that capsid core stability significantly affects uncoating and initiation of reverse transcription in host cells. This has led to efforts in developing antivirals targeting CA and its assembly, although none of the currently identified compounds are used in the clinic for treatment of HIV infection. A specific interaction that is primarily present in pentameric interfaces in the HIV-1 capsid core was identified and is reported to be important for CA assembly. This is shown by multidisciplinary characterization of CA site-directed mutants using biochemical analysis of virus-like particle formation, transmission electron microscopy of in vitro assembly, crystallographic studies, and molecular dynamic simulations. The data are consistent with a model where a hydrogen bond between CA residues E28 and K30' from neighboring N-terminal domains (CANTDs) is important for CA pentamer interactions during core assembly. This pentamer-preferred interaction forms part of an N-terminal domain interface (NDI) pocket that is amenable to antiviral targeting.IMPORTANCE Precise assembly and disassembly of the HIV-1 capsid core are key to the success of viral replication. The forces that govern capsid core formation and dissociation involve intricate interactions between pentamers and hexamers formed by HIV-1 CA. We identified one particular interaction between E28 of one CA and K30' of the adjacent CA that appears more frequently in pentamers than in hexamers and that is important for capsid assembly. Targeting the corresponding site could lead to the development of antivirals which disrupt this interaction and affect capsid assembly.
		+
		+	Novel Intersubunit Interaction Critical for HIV-1 Core Assembly Defines a Potentially Targetable Inhibitor Binding Pocket.,Craveur P, Gres AT, Kirby KA, Liu D, Hammond JA, Deng Y, Forli S, Goodsell DS, Williamson JR, Sarafianos SG, Olson AJ MBio. 2019 Mar 12;10(2). pii: mBio.02858-18. doi: 10.1128/mBio.02858-18. PMID:30862755<ref>PMID:30862755</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5w4p" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Gres, A T]]		[[Category: Gres, A T]]
	[[Category: Kirby, K A]]		[[Category: Kirby, K A]]

OCA at 05:39, 20 June 2018

OCA — Wed, 20 Jun 2018 05:39:32 GMT

←Older revision		Revision as of 05:39, 20 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5w4p is ~~ON HOLD until Paper Publication~~	+	==Structure of the E28A mutant of the HIV-1 capsid protein==
-		+	<StructureSection load='5w4p' size='340' side='right' caption='[[5w4p]], [[Resolution\|resolution]] 2.19Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5w4p]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5W4P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5W4P FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xfx\|4xfx]], [[5w4o\|5w4o]]</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=5w4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5w4p OCA], [http://pdbe.org/5w4p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5w4p RCSB], [http://www.ebi.ac.uk/pdbsum/5w4p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5w4p ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gres, A T]]
		+	[[Category: Kirby, K A]]
		+	[[Category: Sarafianos, S G]]
		+	[[Category: Capsid protein]]
		+	[[Category: Viral protein]]

OCA: Protected "5w4p" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 14:26:25 GMT

Protected "5w4p" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:26, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5w4p is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 14:26:24 GMT

New page: '''Unreleased structure''' The entry 5w4p is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5w4p is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]