3qid - Revision history

OCA at 17:13, 1 November 2023

2023-11-01T17:13:18Z

←Older revision		Revision as of 17:13, 1 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3qid]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Murine_norovirus_1 Murine norovirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QID OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QID FirstGlance]. <br>		<table><tr><td colspan='2'>[[3qid]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Murine_norovirus_1 Murine norovirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QID OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QID FirstGlance]. <br>
-	</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=MN3:MANGANESE+(III)+ION'>MN3</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.5Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2b43\|2b43]], [[1sho\|1sho]], [[3h5x\|3h5x]], [[3bso\|3bso]]~~</~~div~~><~~/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=MN3:MANGANESE+(III)+ION'>MN3</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">MNV RdRp ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=223997 Murine norovirus 1])~~</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=3qid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qid OCA], [https://pdbe.org/3qid PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qid RCSB], [https://www.ebi.ac.uk/pdbsum/3qid PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qid 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=3qid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qid OCA], [https://pdbe.org/3qid PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qid RCSB], [https://www.ebi.ac.uk/pdbsum/3qid PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qid ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q80J95_9CALI Q80J95_9CALI]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Murine norovirus 1]]		[[Category: Murine norovirus 1]]
-	[[Category: Intekhab, A]]	+	[[Category: Intekhab A]]
-	[[Category: Kim~~, K H~~]]	+	[[Category: Kim KH]]
-	[[Category: Lee~~, J H]]~~	+	[[Category: Lee JH]]
-	~~[[Category: Rna polymerase]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Viral replication enzyme~~]]	+

OCA at 06:10, 8 June 2022

2022-06-08T06:10:08Z

←Older revision		Revision as of 06:10, 8 June 2022
Line 1:		Line 1:

	==Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase==		==Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase==
-	<StructureSection load='3qid' size='340' side='right' caption='[[3qid]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='3qid' size='340' side='right'caption='[[3qid]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3qid]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Murine_norovirus_1 Murine norovirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QID OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3QID FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3qid]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Murine_norovirus_1 Murine norovirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QID OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QID 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=MN3:MANGANESE+(III)+ION'>MN3</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</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=MN3:MANGANESE+(III)+ION'>MN3</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b43\|2b43]], [[1sho\|1sho]], [[3h5x\|3h5x]], [[3bso\|3bso]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2b43\|2b43]], [[1sho\|1sho]], [[3h5x\|3h5x]], [[3bso\|3bso]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MNV RdRp ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=223997 Murine norovirus 1])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MNV RdRp ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=223997 Murine norovirus 1])</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=3qid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qid OCA], [~~http~~://pdbe.org/3qid PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3qid RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3qid PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3qid 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=3qid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qid OCA], [https://pdbe.org/3qid PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qid RCSB], [https://www.ebi.ac.uk/pdbsum/3qid PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qid ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 20:

	==See Also==		==See Also==
-	*[[RNA polymerase\|RNA polymerase]]	+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Murine norovirus 1]]		[[Category: Murine norovirus 1]]
	[[Category: Intekhab, A]]		[[Category: Intekhab, A]]

OCA at 07:37, 4 August 2016

2016-08-04T07:37:29Z

←Older revision		Revision as of 07:37, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase==		==Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase==
	<StructureSection load='3qid' size='340' side='right' caption='[[3qid]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3qid' size='340' side='right' caption='[[3qid]], [[Resolution\|resolution]] 2.50Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b43\|2b43]], [[1sho\|1sho]], [[3h5x\|3h5x]], [[3bso\|3bso]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b43\|2b43]], [[1sho\|1sho]], [[3h5x\|3h5x]], [[3bso\|3bso]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MNV RdRp ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=223997 Murine norovirus 1])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MNV RdRp ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=223997 Murine norovirus 1])</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=3qid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qid OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qid RCSB], [http://www.ebi.ac.uk/pdbsum/3qid 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=3qid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qid OCA], [http://pdbe.org/3qid PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3qid RCSB], [http://www.ebi.ac.uk/pdbsum/3qid PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3qid 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 3qid" style="background-color:#fffaf0;"></div>

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

OCA at 10:26, 19 December 2014

2014-12-19T10:26:56Z

←Older revision		Revision as of 10:26, 19 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3qid\| PDB=3qid \| SCENE= }}~~	+	==Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase==
-	===Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase===	+	<StructureSection load='3qid' size='340' side='right' caption='[[3qid]], [[Resolution\|resolution]] 2.50Å' scene=''>
-	~~{{ABSTRACT_PUBMED_21471315}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3qid]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Murine_norovirus_1 Murine norovirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QID OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QID 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=MN3:MANGANESE+(III)+ION'>MN3</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b43\|2b43]], [[1sho\|1sho]], [[3h5x\|3h5x]], [[3bso\|3bso]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MNV RdRp ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=223997 Murine norovirus 1])</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=3qid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qid OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3qid RCSB], [http://www.ebi.ac.uk/pdbsum/3qid PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Norovirus is one of the leading agents of gastroenteritis and is a major public health concern. In this study, the crystal structures of recombinant RNA-dependent RNA polymerase (RdRp) from murine norovirus-1 (MNV-1) and its complex with 5-fluorouracil (5FU) were determined at 2.5 A resolution. Crystals with C2 symmetry revealed a dimer with half a dimer in the asymmetrical unit, and the protein exists predominantly as a monomer in solution, in equilibrium with a smaller population of dimers, trimers and hexamers. MNV-1 RdRp exhibited polymerization activity with a right-hand fold typical of polynucleotide polymerases. The metal ion modelled in close proximity to the active site was found to be coordinated tetrahedrally to the carboxyl groups of aspartate clusters. The orientation of 5FU observed in three molecules in the asymmetrical unit was found to be slightly different, but it was stabilized by a network of favourable interactions with the conserved active-site residues Arg185, Asp245, Asp346, Asp347 and Arg395. The information gained on the structural and functional features of MNV-1 RdRp will be helpful in understanding replication of norovirus and in designing novel therapeutic agents against this important pathogen.

-	~~==About this Structure==~~	+	Crystal structures of murine norovirus-1 RNA-dependent RNA polymerase.,Lee JH, Alam I, Han KR, Cho S, Shin S, Kang S, Yang JM, Kim KH J Gen Virol. 2011 Jul;92(Pt 7):1607-16. Epub 2011 Apr 6. PMID:21471315<ref>PMID:21471315</ref>
-	~~[[3qid]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Murine_norovirus_1 Murine~~ norovirus 1]. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id~~=~~3QID OCA~~].	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+
		+	==See Also==
		+	*[[RNA polymerase\|RNA polymerase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Murine norovirus 1]]		[[Category: Murine norovirus 1]]
-	[[Category: Intekhab, A.]]	+	[[Category: Intekhab, A]]
-	[[Category: Kim, K H.]]	+	[[Category: Kim, K H]]
-	[[Category: Lee, J H.]]	+	[[Category: Lee, J H]]
	[[Category: Rna polymerase]]		[[Category: Rna polymerase]]
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Viral replication enzyme]]		[[Category: Viral replication enzyme]]

OCA at 08:24, 8 May 2013

2013-05-08T08:24:40Z

←Older revision		Revision as of 08:24, 8 May 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_3qid\| PDB=3qid \| SCENE= }}
		+	===Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase===
		+	{{ABSTRACT_PUBMED_21471315}}

-	~~The entry~~ 3qid is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[3qid]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Murine_norovirus_1 Murine norovirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QID OCA].
-	~~Authors~~: ~~Kim, K~~.H., Intekhab, A., Lee, J.H.	+	[[Category: Murine norovirus 1]]
-		+	[[Category: Intekhab, A.]]
-	~~Description~~: ~~Crystal structures and functional analysis of murine norovirus RNA-dependent RNA~~ polymerase	+	[[Category: Kim, K H.]]
		+	[[Category: Lee, J H.]]
		+	[[Category: Rna polymerase]]
		+	[[Category: Transferase]]
		+	[[Category: Viral replication enzyme]]

OCA at 06:39, 2 March 2011

2011-03-02T06:39:27Z

←Older revision		Revision as of 06:39, 2 March 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Kim, K.H., Intekhab, A., Lee, J.H.		Authors: Kim, K.H., Intekhab, A., Lee, J.H.

	Description: Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase		Description: Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase

OCA at 05:21, 16 February 2011

2011-02-16T05:21:27Z

←Older revision		Revision as of 05:21, 16 February 2011
Line 3:		Line 3:
	The entry 3qid is ON HOLD		The entry 3qid is ON HOLD

-	Authors: Kim, K.H, Intekhab ~~Alam~~, ~~Ji Hye~~ Lee	+	Authors: Kim, K.H., Intekhab, A., Lee, J.H.

	Description: Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase		Description: Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase

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

2011-02-02T06:13:26Z

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

←Older revision

Revision as of 06:13, 2 February 2011

OCA: New page: '''Unreleased structure''' The entry 3qid is ON HOLD Authors: Kim, K.H, Intekhab Alam, Ji Hye Lee Description: Crystal structures and functional analysis of murine norovirus RNA-depend...

2011-02-02T06:13:26Z

New page: '''Unreleased structure''' The entry 3qid is ON HOLD Authors: Kim, K.H, Intekhab Alam, Ji Hye Lee Description: Crystal structures and functional analysis of murine norovirus RNA-depend...

New page

'''Unreleased structure'''

The entry 3qid is ON HOLD

Authors: Kim, K.H, Intekhab Alam, Ji Hye Lee

Description: Crystal structures and functional analysis of murine norovirus RNA-dependent RNA polymerase