5doc - Revision history

OCA at 12:25, 6 March 2024

OCA — Wed, 06 Mar 2024 12:25:44 GMT

←Older revision		Revision as of 12:25, 6 March 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/NEC1_HCMVA NEC1_HCMVA] Plays an essential role in virion nuclear egress, the first step of virion release from infected cell. Within the host nucleus, NEC1 interacts with the newly formed capsid through the vertexes and directs it to the inner nuclear membrane by associating with NEC2. Induces the budding of the capsid at the inner nuclear membrane as well as its envelopment into the perinuclear space. There, the NEC1/NEC2 complex promotes the fusion of the enveloped capsid with the outer nuclear membrane and the subsequent release of the viral capsid into the cytoplasm where it will reach the secondary budding sites in the host Golgi or trans-Golgi network.[HAMAP-Rule:MF_04023]<ref>PMID:25339763</ref>		[https://www.uniprot.org/uniprot/NEC1_HCMVA NEC1_HCMVA] Plays an essential role in virion nuclear egress, the first step of virion release from infected cell. Within the host nucleus, NEC1 interacts with the newly formed capsid through the vertexes and directs it to the inner nuclear membrane by associating with NEC2. Induces the budding of the capsid at the inner nuclear membrane as well as its envelopment into the perinuclear space. There, the NEC1/NEC2 complex promotes the fusion of the enveloped capsid with the outer nuclear membrane and the subsequent release of the viral capsid into the cytoplasm where it will reach the secondary budding sites in the host Golgi or trans-Golgi network.[HAMAP-Rule:MF_04023]<ref>PMID:25339763</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Herpesvirus nucleocapsids escape from the nucleus in a process orchestrated by a highly conserved, viral nuclear egress complex. In human cytomegalovirus, the complex consists of two proteins, UL50 and UL53. We solved structures of versions of UL53 and the complex by X-ray crystallography. The UL53 structures, determined at 1.93 and 3.0 A resolution, contained unexpected features including a Bergerat fold resembling that found in certain nucleotide-binding proteins, and a Cys3His zinc finger. Substitutions of zinc-coordinating residues decreased UL50-UL53 co-localization in transfected cells, and, when incorporated into the HCMV genome, ablated viral replication. The structure of the complex, determined at 2.47 A resolution, revealed a mechanism of heterodimerization in which UL50 clamps onto helices of UL53 like a vise. Substitutions of particular residues on the interaction interface disrupted UL50-UL53 co-localization in transfected cells and abolished virus production. The structures and the identification of contacts can be harnessed toward the rational design of novel and highly specific antiviral drugs and will aid in the detailed understanding of nuclear egress.
-
-	Unexpected features and mechanism of heterodimer formation of a herpesvirus nuclear egress complex.,Lye MF, Sharma M, El Omari K, Filman DJ, Schuermann JP, Hogle JM, Coen DM EMBO J. 2015 Oct 28. pii: e201592651. PMID:26511021<ref>PMID:26511021</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5doc" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:52, 28 June 2023

OCA — Wed, 28 Jun 2023 21:52:21 GMT

←Older revision		Revision as of 21:52, 28 June 2023
Line 3:		Line 3:
	<StructureSection load='5doc' size='340' side='right'caption='[[5doc]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='5doc' size='340' side='right'caption='[[5doc]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5doc]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Hcmva Hcmva~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5DOC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5doc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_herpesvirus_5_strain_AD169 Human herpesvirus 5 strain AD169]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DOC FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=GOL:GLYCEROL'>GOL</scene~~>, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.94Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5dob\|5dob]], [[5doe\|5doe]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">UL53 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10360 HCMVA])~~</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=5doc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5doc OCA], [https://pdbe.org/5doc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5doc RCSB], [https://www.ebi.ac.uk/pdbsum/5doc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5doc 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=5doc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5doc OCA], [~~http~~://pdbe.org/5doc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5doc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5doc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5doc ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~UL53_HCMVA UL53_HCMVA]~~] Plays ~~a major~~ role in virion nuclear egress, the first step of virion release from infected cell. ~~Viral capsids are initially assembled within~~ the nucleus, ~~UL53/UL50 complex induces capsids budding~~ and envelopment into the perinuclear space. ~~Then UL53~~/~~UL50~~ complex promotes fusion of ~~perinuclear virion envelope~~ with the outer nuclear membrane~~, releasing~~ viral capsid into the cytoplasm where it will ~~engages~~ budding sites in the Golgi or trans-Golgi network ~~(By similarity)~~.	+	[https://www.uniprot.org/uniprot/NEC1_HCMVA NEC1_HCMVA] Plays an essential role in virion nuclear egress, the first step of virion release from infected cell. Within the host nucleus, NEC1 interacts with the newly formed capsid through the vertexes and directs it to the inner nuclear membrane by associating with NEC2. Induces the budding of the capsid at the inner nuclear membrane as well as its envelopment into the perinuclear space. There, the NEC1/NEC2 complex promotes the fusion of the enveloped capsid with the outer nuclear membrane and the subsequent release of the viral capsid into the cytoplasm where it will reach the secondary budding sites in the host Golgi or trans-Golgi network.[HAMAP-Rule:MF_04023]<ref>PMID:25339763</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hcmva~~]]	+	[[Category: Human herpesvirus 5 strain AD169]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Filman, D J]]~~	+	[[Category: El Omari K]]
-	~~[[Category: Hogle, J M]]~~	+	[[Category: Filman DJ]]
-	~~[[Category: Lye, M F]]~~	+	[[Category: Hogle JM]]
-	~~[[Category:~~ Omari, K El]]	+	[[Category: Lye MF]]
-	[[Category: ~~Bergerat fold~~]]	+
-	[[Category: ~~Conserved region~~]]	+
-	[[Category: ~~Dna binding protein]]~~	+
-	~~[[Category: Zinc finger~~]]	+

OCA at 16:04, 11 December 2019

OCA — Wed, 11 Dec 2019 16:04:22 GMT

←Older revision		Revision as of 16:04, 11 December 2019
Line 1:		Line 1:

	==Crystal structure of the Human Cytomegalovirus UL53 subunit of the NEC==		==Crystal structure of the Human Cytomegalovirus UL53 subunit of the NEC==
-	<StructureSection load='5doc' size='340' side='right' caption='[[5doc]], [[Resolution\|resolution]] 1.94Å' scene=''>	+	<StructureSection load='5doc' size='340' side='right'caption='[[5doc]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5doc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Hcmva Hcmva]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DOC FirstGlance]. <br>		<table><tr><td colspan='2'>[[5doc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Hcmva Hcmva]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DOC FirstGlance]. <br>
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Hcmva]]		[[Category: Hcmva]]
		+	[[Category: Large Structures]]
	[[Category: Filman, D J]]		[[Category: Filman, D J]]
	[[Category: Hogle, J M]]		[[Category: Hogle, J M]]

OCA at 16:55, 15 November 2017

OCA — Wed, 15 Nov 2017 16:55:29 GMT

←Older revision		Revision as of 16:55, 15 November 2017
Line 1:		Line 1:
		+
	==Crystal structure of the Human Cytomegalovirus UL53 subunit of the NEC==		==Crystal structure of the Human Cytomegalovirus UL53 subunit of the NEC==
	<StructureSection load='5doc' size='340' side='right' caption='[[5doc]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='5doc' size='340' side='right' caption='[[5doc]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5doc]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DOC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5doc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Hcmva Hcmva]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DOC FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5dob\|5dob]], [[5doe\|5doe]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5dob\|5dob]], [[5doe\|5doe]]</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=5doc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5doc OCA], [http://pdbe.org/5doc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5doc RCSB], [http://www.ebi.ac.uk/pdbsum/5doc PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">UL53 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10360 HCMVA])</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=5doc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5doc OCA], [http://pdbe.org/5doc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5doc RCSB], [http://www.ebi.ac.uk/pdbsum/5doc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5doc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Hcmva]]
	[[Category: Filman, D J]]		[[Category: Filman, D J]]
	[[Category: Hogle, J M]]		[[Category: Hogle, J M]]

OCA at 04:38, 1 December 2015

OCA — Tue, 01 Dec 2015 04:38:27 GMT

←Older revision		Revision as of 04:38, 1 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of the Human Cytomegalovirus UL53 subunit of the NEC==
		+	<StructureSection load='5doc' size='340' side='right' caption='[[5doc]], [[Resolution\|resolution]] 1.94Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5doc]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DOC FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5dob\|5dob]], [[5doe\|5doe]]</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=5doc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5doc OCA], [http://pdbe.org/5doc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5doc RCSB], [http://www.ebi.ac.uk/pdbsum/5doc PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/UL53_HCMVA UL53_HCMVA]] Plays a major role in virion nuclear egress, the first step of virion release from infected cell. Viral capsids are initially assembled within the nucleus, UL53/UL50 complex induces capsids budding and envelopment into the perinuclear space. Then UL53/UL50 complex promotes fusion of perinuclear virion envelope with the outer nuclear membrane, releasing viral capsid into the cytoplasm where it will engages budding sites in the Golgi or trans-Golgi network (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Herpesvirus nucleocapsids escape from the nucleus in a process orchestrated by a highly conserved, viral nuclear egress complex. In human cytomegalovirus, the complex consists of two proteins, UL50 and UL53. We solved structures of versions of UL53 and the complex by X-ray crystallography. The UL53 structures, determined at 1.93 and 3.0 A resolution, contained unexpected features including a Bergerat fold resembling that found in certain nucleotide-binding proteins, and a Cys3His zinc finger. Substitutions of zinc-coordinating residues decreased UL50-UL53 co-localization in transfected cells, and, when incorporated into the HCMV genome, ablated viral replication. The structure of the complex, determined at 2.47 A resolution, revealed a mechanism of heterodimerization in which UL50 clamps onto helices of UL53 like a vise. Substitutions of particular residues on the interaction interface disrupted UL50-UL53 co-localization in transfected cells and abolished virus production. The structures and the identification of contacts can be harnessed toward the rational design of novel and highly specific antiviral drugs and will aid in the detailed understanding of nuclear egress.

-	~~The entry 5doc is ON HOLD until Paper Publication~~	+	Unexpected features and mechanism of heterodimer formation of a herpesvirus nuclear egress complex.,Lye MF, Sharma M, El Omari K, Filman DJ, Schuermann JP, Hogle JM, Coen DM EMBO J. 2015 Oct 28. pii: e201592651. PMID:26511021<ref>PMID:26511021</ref>

-	~~Authors: Lye~~, M.F.~~, El Omari, K., Filman, D.J., Hogle, J.M~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~:	+	<div class="pdbe-citations 5doc" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Hogle, J.M]]	+	<references/>
-	[[Category: ~~Filman~~, ~~D.J~~]]	+	__TOC__
-	[[Category: El Omari, K]]	+	</StructureSection>
-	[[Category: ~~Lye, M.F~~]]	+	[[Category: Filman, D J]]
		+	[[Category: Hogle, J M]]
		+	[[Category: Lye, M F]]
		+	[[Category: Omari, K El]]
		+	[[Category: Bergerat fold]]
		+	[[Category: Conserved region]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Zinc finger]]

OCA at 12:26, 7 October 2015

OCA — Wed, 07 Oct 2015 12:26:16 GMT

←Older revision		Revision as of 12:26, 7 October 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5doc is ON HOLD	+	The entry 5doc is ON HOLD until Paper Publication

	Authors: Lye, M.F., El Omari, K., Filman, D.J., Hogle, J.M.		Authors: Lye, M.F., El Omari, K., Filman, D.J., Hogle, J.M.

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

OCA — Wed, 30 Sep 2015 13:16:42 GMT

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

←Older revision

Revision as of 13:16, 30 September 2015

OCA: New page: '''Unreleased structure''' The entry 5doc is ON HOLD Authors: Lye, M.F., El Omari, K., Filman, D.J., Hogle, J.M. Description: Category: Unreleased Structures [[Category: Hogle, J....

OCA — Wed, 30 Sep 2015 13:16:40 GMT

New page: '''Unreleased structure''' The entry 5doc is ON HOLD Authors: Lye, M.F., El Omari, K., Filman, D.J., Hogle, J.M. Description: Category: Unreleased Structures [[Category: Hogle, J....

New page

'''Unreleased structure'''

The entry 5doc is ON HOLD

Authors: Lye, M.F., El Omari, K., Filman, D.J., Hogle, J.M.

Description:
[[Category: Unreleased Structures]]
[[Category: Hogle, J.M]]
[[Category: Filman, D.J]]
[[Category: El Omari, K]]
[[Category: Lye, M.F]]