5dhz - Revision history

OCA at 21:42, 28 June 2023

2023-06-28T21:42:30Z

←Older revision		Revision as of 21:42, 28 June 2023
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	==HIV-1 Rev NTD dimers with variable crossing angles==		==HIV-1 Rev NTD dimers with variable crossing angles==
-	<StructureSection load='5dhz' size='340' side='right' caption='[[5dhz]], [[Resolution\|resolution]] 4.30Å' scene=''>	+	<StructureSection load='5dhz' size='340' side='right'caption='[[5dhz]], [[Resolution\|resolution]] 4.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5dhz]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~9hiv1 9hiv1~~] and [~~http~~://en.wikipedia.org/wiki/~~European_rabbit European rabbit~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DHZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5DHZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5dhz]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1] and [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DHZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DHZ FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5dhv\|5dhv]], [[5dhx\|5dhx]], [[5dhy\|5dhy]]</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]] 4.3Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">rev ([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=5dhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dhz OCA], [https://pdbe.org/5dhz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5dhz RCSB], [https://www.ebi.ac.uk/pdbsum/5dhz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5dhz 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=5dhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dhz OCA], [~~http~~://pdbe.org/5dhz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5dhz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5dhz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5dhz ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/REV_HV1B1 REV_HV1B1] Escorts unspliced or incompletely spliced viral pre-mRNAs (late transcripts) out of the nucleus of infected cells. These pre-mRNAs carry a recognition sequence called Rev responsive element (RRE) located in the env gene, that is not present in fully spliced viral mRNAs (early transcripts). This function is essential since most viral proteins are translated from unspliced or partially spliced pre-mRNAs which cannot exit the nucleus by the pathway used by fully processed cellular mRNAs. Rev itself is translated from a fully spliced mRNA that readily exits the nucleus. Rev's nuclear localization signal (NLS) binds directly to KPNB1/Importin beta-1 without previous binding to KPNA1/Importin alpha-1. KPNB1 binds to the GDP bound form of RAN (Ran-GDP) and targets Rev to the nucleus. In the nucleus, the conversion from Ran-GDP to Ran-GTP dissociates Rev from KPNB1 and allows Rev's binding to the RRE in viral pre-mRNAs. Rev multimerization on the RRE via cooperative assembly exposes its nuclear export signal (NES) to the surface. Rev can then form a complex with XPO1/CRM1 and Ran-GTP, leading to nuclear export of the complex. Conversion from Ran-GTP to Ran-GDP mediates dissociation of the Rev/RRE/XPO1/RAN complex, so that Rev can return to the nucleus for a subsequent round of export. Beside KPNB1, also seems to interact with TNPO1/Transportin-1, RANBP5/IPO5 and IPO7/RANBP7 for nuclear import. The nucleoporin-like HRB/RIP is an essential cofactor that probably indirectly interacts with Rev to release HIV RNAs from the perinuclear region to the cytoplasm (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
-	*[[3D structures of antibody\|3D structures of antibody]]	+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Protein Rev\|Protein Rev]]
		+	*[[3D structures of human antibody\|3D structures of human antibody]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~European rabbit~~]]	+	[[Category: Human immunodeficiency virus 1]]
-	[[Category: ~~DiMattia, M A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Grimes, J M~~]]	+	[[Category: Oryctolagus cuniculus]]
-	[[Category: ~~Steven, A C~~]]	+	[[Category: DiMattia MA]]
-	[[Category: ~~Stuart, D I~~]]	+	[[Category: Grimes JM]]
-	[[Category: ~~Watts, N R~~]]	+	[[Category: Steven AC]]
-	[[Category: ~~Wingfield, P T~~]]	+	[[Category: Stuart DI]]
-	[[Category: ~~Helical hairpin~~]]	+	[[Category: Watts NR]]
-	[[Category: ~~Hiv]]~~	+	[[Category: Wingfield PT]]
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Nuclear export]]~~	+
-	~~[[Category: Rna-binding~~]]	+

OCA at 03:12, 16 November 2017

2017-11-16T03:12:56Z

←Older revision		Revision as of 03:12, 16 November 2017
Line 3:		Line 3:
	<StructureSection load='5dhz' size='340' side='right' caption='[[5dhz]], [[Resolution\|resolution]] 4.30Å' scene=''>		<StructureSection load='5dhz' size='340' side='right' caption='[[5dhz]], [[Resolution\|resolution]] 4.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5dhz]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DHZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DHZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5dhz]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/9hiv1 9hiv1] and [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DHZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DHZ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5dhv\|5dhv]], [[5dhx\|5dhx]], [[5dhy\|5dhy]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5dhv\|5dhv]], [[5dhx\|5dhx]], [[5dhy\|5dhy]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rev ([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=5dhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dhz OCA], [http://pdbe.org/5dhz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dhz RCSB], [http://www.ebi.ac.uk/pdbsum/5dhz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5dhz 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=5dhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dhz OCA], [http://pdbe.org/5dhz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dhz RCSB], [http://www.ebi.ac.uk/pdbsum/5dhz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5dhz ProSAT]</span></td></tr>
	</table>		</table>
Line 18:		Line 19:

	==See Also==		==See Also==
-	*[[Protein Rev\|Protein Rev]]
	*[[3D structures of antibody\|3D structures of antibody]]		*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: European rabbit]]
	[[Category: DiMattia, M A]]		[[Category: DiMattia, M A]]
	[[Category: Grimes, J M]]		[[Category: Grimes, J M]]

OCA at 07:57, 3 August 2017

2017-08-03T07:57:07Z

←Older revision		Revision as of 07:57, 3 August 2017
Line 16:		Line 16:
	</div>		</div>
	<div class="pdbe-citations 5dhz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5dhz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Protein Rev\|Protein Rev]]
		+	*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:21, 13 July 2016

2016-07-13T10:21:23Z

←Older revision		Revision as of 10:21, 13 July 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5dhz is ~~ON HOLD~~	+	==HIV-1 Rev NTD dimers with variable crossing angles==
		+	<StructureSection load='5dhz' size='340' side='right' caption='[[5dhz]], [[Resolution\|resolution]] 4.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5dhz]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DHZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DHZ FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5dhv\|5dhv]], [[5dhx\|5dhx]], [[5dhy\|5dhy]]</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=5dhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dhz OCA], [http://pdbe.org/5dhz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dhz RCSB], [http://www.ebi.ac.uk/pdbsum/5dhz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5dhz ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	HIV-1 Rev protein mediates the nuclear export of viral RNA genomes. To do so, Rev oligomerizes cooperatively onto an RNA motif, the Rev response element (RRE), forming a complex that engages with the host nuclear export machinery. To better understand Rev oligomerization, we determined four crystal structures of Rev N-terminal domain dimers, which show that they can pivot about their dyad axis, giving crossing angles of 90 degrees to 140 degrees . In parallel, we performed cryoelectron microscopy of helical Rev filaments. Filaments vary from 11 to 15 nm in width, reflecting variations in dimer crossing angle. These structures contain additional density, indicating that C-terminal domains become partially ordered in the context of filaments. This conformational variability may be exploited in the assembly of RRE/Rev complexes. Our data also revealed a third interface between Revs, which offers an explanation for how the arrangement of Rev subunits adapts to the "A"-shaped architecture of the RRE in export-active complexes.

-	~~Authors: DiMattia, M.A~~., Watts, N.R., ~~Wingfield, P.T.~~, Grimes, ~~J.M.~~, Stuart, D.I., ~~Steven, A~~.C.	+	The Structure of HIV-1 Rev Filaments Suggests a Bilateral Model for Rev-RRE Assembly.,DiMattia MA, Watts NR, Cheng N, Huang R, Heymann JB, Grimes JM, Wingfield PT, Stuart DI, Steven AC Structure. 2016 May 31. pii: S0969-2126(16)30076-4. doi:, 10.1016/j.str.2016.04.015. PMID:27265851<ref>PMID:27265851</ref>

-	~~Description: HIV~~-~~1 Rev NTD dimers with variable crossing angles~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Grimes, J.M]]	+	<div class="pdbe-citations 5dhz" style="background-color:#fffaf0;"></div>
-	[[Category: Steven, A.C]]	+	== References ==
-	[[Category: Watts, N.R]]	+	<references/>
-	[[Category: ~~Dimattia~~, ~~M.A~~]]	+	__TOC__
-	[[Category: ~~Stuart, D.I~~]]	+	</StructureSection>
-	[[Category: ~~Wingfield, P.T~~]]	+	[[Category: DiMattia, M A]]
		+	[[Category: Grimes, J M]]
		+	[[Category: Steven, A C]]
		+	[[Category: Stuart, D I]]
		+	[[Category: Watts, N R]]
		+	[[Category: Wingfield, P T]]
		+	[[Category: Helical hairpin]]
		+	[[Category: Hiv]]
		+	[[Category: Immune system]]
		+	[[Category: Nuclear export]]
		+	[[Category: Rna-binding]]

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

2015-09-09T10:14:00Z

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

←Older revision

Revision as of 10:14, 9 September 2015

OCA: New page: '''Unreleased structure''' The entry 5dhz is ON HOLD Authors: DiMattia, M.A., Watts, N.R., Wingfield, P.T., Grimes, J.M., Stuart, D.I., Steven, A.C. Description: HIV-1 Rev NTD dimers w...

2015-09-09T10:13:59Z

New page: '''Unreleased structure''' The entry 5dhz is ON HOLD Authors: DiMattia, M.A., Watts, N.R., Wingfield, P.T., Grimes, J.M., Stuart, D.I., Steven, A.C. Description: HIV-1 Rev NTD dimers w...

New page

'''Unreleased structure'''

The entry 5dhz is ON HOLD

Authors: DiMattia, M.A., Watts, N.R., Wingfield, P.T., Grimes, J.M., Stuart, D.I., Steven, A.C.

Description: HIV-1 Rev NTD dimers with variable crossing angles
[[Category: Unreleased Structures]]
[[Category: Grimes, J.M]]
[[Category: Steven, A.C]]
[[Category: Watts, N.R]]
[[Category: Dimattia, M.A]]
[[Category: Stuart, D.I]]
[[Category: Wingfield, P.T]]