5zrg - Revision history

OCA at 09:04, 22 November 2023

OCA — Wed, 22 Nov 2023 09:04:33 GMT

←Older revision		Revision as of 09:04, 22 November 2023
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	<StructureSection load='5zrg' size='340' side='right'caption='[[5zrg]], [[Resolution\|resolution]] 1.30Å' scene=''>		<StructureSection load='5zrg' size='340' side='right'caption='[[5zrg]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zrg]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Mycs2 Mycs2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZRG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZRG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zrg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycolicibacterium_smegmatis_MC2_155 Mycolicibacterium smegmatis MC2 155]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZRG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZRG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=DCM:2-DEOXYCYTIDINE-5-MONOPHOSPHATE'>DCM</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]] 1.3Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Related_structure~~\|~~Related:]]</b></td><td class="sblockDat">[[5zrc\|5zrc~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DCM:2-DEOXYCYTIDINE-5-MONOPHOSPHATE'>DCM</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~mutT2, MSMEI_5016 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=5~~&id=246196 MYCS2])~~</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=5zrg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zrg OCA], [https://pdbe.org/5zrg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zrg RCSB], [https://www.ebi.ac.uk/pdbsum/5zrg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zrg 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=5zrg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zrg OCA], [~~http~~://pdbe.org/5zrg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zrg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zrg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zrg ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0R2K6_MYCS2 A0R2K6_MYCS2]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Mycs2~~]]	+	[[Category: Mycolicibacterium smegmatis MC2 155]]
-	[[Category: Arif~~, S M~~]]	+	[[Category: Arif SM]]
-	[[Category: Sang~~, P B~~]]	+	[[Category: Sang PB]]
-	[[Category: Singh, A]]	+	[[Category: Singh A]]
-	[[Category: Varshney, U]]	+	[[Category: Varshney U]]
-	[[Category: Vijayan, M]]	+	[[Category: Vijayan M]]
-	~~[[Category: Antimutator]]~~	+
-	~~[[Category: Ctp pyrophosphorylase]]~~	+
-	~~[[Category: Dcmp]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Mutt]]~~	+
-	~~[[Category: Nudix hydrolase~~]]	+

OCA at 07:33, 6 November 2019

OCA — Wed, 06 Nov 2019 07:33:26 GMT

←Older revision		Revision as of 07:33, 6 November 2019
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	<StructureSection load='5zrg' size='340' side='right'caption='[[5zrg]], [[Resolution\|resolution]] 1.30Å' scene=''>		<StructureSection load='5zrg' size='340' side='right'caption='[[5zrg]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zrg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZRG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZRG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zrg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycs2 Mycs2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZRG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZRG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DCM:2-DEOXYCYTIDINE-5-MONOPHOSPHATE'>DCM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DCM:2-DEOXYCYTIDINE-5-MONOPHOSPHATE'>DCM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zrc\|5zrc]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zrc\|5zrc]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mutT2, MSMEI_5016 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=246196 MYCS2])</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=5zrg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zrg OCA], [http://pdbe.org/5zrg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zrg RCSB], [http://www.ebi.ac.uk/pdbsum/5zrg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zrg 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=5zrg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zrg OCA], [http://pdbe.org/5zrg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zrg RCSB], [http://www.ebi.ac.uk/pdbsum/5zrg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zrg ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mis-incorporation of modified nucleotides, such as 5-methyl-dCTP or 8-oxo-dGTP, in DNA can be detrimental to genomic integrity. MutT proteins are sanitization enzymes which function by hydrolyzing such nucleotides and regulating the pool of free nucleotides in the cytoplasm. Mycobacterial genomes have a set of four MutT homologs, namely, MutT1, MutT2, MutT3 and MutT4. Mycobacterial MutT2 hydrolyzes 5m-dCTP and 8-oxo-dGTP to their respective monophosphate products. Additionally, it can hydrolyze canonical nucleotides dCTP and CTP, with a suggested role in sustaining their optimal levels in the nucleotide pool. The structures of M. smegmatis MutT2 and its complexes with cytosine derivatives have been determined at resolutions ranging from 1.10A to 1.73A. The apo enzyme and its complexes with products (dCMP, CMP and 5m-dCMP) crystallize in space group P21212, while those involving substrates (dCTP, CTP and 5m-dCTP) crystallize in space group P21. The molecule takes an alpha/beta/alpha sandwich fold arrangement, as observed in other MutT homologs. The nucleoside moiety of the ligands is similarly located in all the complexes, while the location of the remaining tail exhibits variability. This is the first report of a MutT2-type protein in complex with ligands. A critical interaction involving Asp116 confers the specificity of the enzyme towards cytosine moieties. A conserved set of enzyme-ligand interactions along with concerted movements of important water molecules provide insights into the mechanism of action.
		+
		+	Structural insights into the specificity and catalytic mechanism of mycobacterial nucleotide pool sanitizing enzyme MutT2.,Singh A, Mohammad Arif S, Biak Sang P, Varshney U, Vijayan M J Struct Biol. 2018 Dec;204(3):449-456. doi: 10.1016/j.jsb.2018.10.002. Epub 2018, Oct 9. PMID:30312643<ref>PMID:30312643</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5zrg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Mycs2]]
	[[Category: Arif, S M]]		[[Category: Arif, S M]]
	[[Category: Sang, P B]]		[[Category: Sang, P B]]

OCA at 06:35, 24 April 2019

OCA — Wed, 24 Apr 2019 06:35:22 GMT

←Older revision		Revision as of 06:35, 24 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zrg ~~is ON HOLD until Paper Publication~~	+	==M. smegmatis antimutator protein MutT2 in complex with dCMP==
-		+	<StructureSection load='5zrg' size='340' side='right'caption='[[5zrg]], [[Resolution\|resolution]] 1.30Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5zrg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZRG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZRG FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DCM:2-DEOXYCYTIDINE-5-MONOPHOSPHATE'>DCM</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zrc\|5zrc]]</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=5zrg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zrg OCA], [http://pdbe.org/5zrg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zrg RCSB], [http://www.ebi.ac.uk/pdbsum/5zrg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zrg ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Arif, S M]]
		+	[[Category: Sang, P B]]
		+	[[Category: Singh, A]]
		+	[[Category: Varshney, U]]
		+	[[Category: Vijayan, M]]
		+	[[Category: Antimutator]]
		+	[[Category: Ctp pyrophosphorylase]]
		+	[[Category: Dcmp]]
		+	[[Category: Hydrolase]]
		+	[[Category: Mutt]]
		+	[[Category: Nudix hydrolase]]

OCA at 05:48, 23 May 2018

OCA — Wed, 23 May 2018 05:48:41 GMT

←Older revision		Revision as of 05:48, 23 May 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 02 May 2018 06:34:43 GMT

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

←Older revision

Revision as of 06:34, 2 May 2018

OCA: New page: '''Unreleased structure''' The entry 5zrg is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 May 2018 06:34:42 GMT

New page: '''Unreleased structure''' The entry 5zrg is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5zrg is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]