3o7u - Revision history

OCA at 09:30, 6 September 2023

2023-09-06T09:30:19Z

← Older revision		Revision as of 09:30, 6 September 2023
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	<StructureSection load='3o7u' size='340' side='right'caption='[[3o7u]], [[Resolution\|resolution]] 1.71Å' scene=''>		<StructureSection load='3o7u' size='340' side='right'caption='[[3o7u]], [[Resolution\|resolution]] 1.71Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3O7U FirstGlance]. <br>		<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3O7U 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=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</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]] 1.708Å</td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1k6w\|1k6w]]</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=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</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">codA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [https://pdbe.org/3o7u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [https://www.ebi.ac.uk/pdbsum/3o7u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7u 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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [https://pdbe.org/3o7u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [https://www.ebi.ac.uk/pdbsum/3o7u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7u ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/CODA_ECOLI CODA_ECOLI]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]		[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Almo~~, S C~~]]		[[Category: Almo SC]]
	[[Category: Fedorov~~, A A~~]]		[[Category: Fedorov AA]]
	[[Category: Fedorov~~, E V~~]]		[[Category: Fedorov EV]]
	[[Category: Hall~~, R S~~]]		[[Category: Hall RS]]
	[[Category: Raushel~~, F M]]~~		[[Category: Raushel FM]]
	~~[[Category: Hydrolase]]~~
	~~[[Category: Hydrolase-hydrolase inhibitor complex~~]]

OCA at 07:17, 12 May 2022

2022-05-12T07:17:56Z

← Older revision		Revision as of 07:17, 12 May 2022
Line 1:		Line 1:

	==Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine==		==Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine==
	<StructureSection load='3o7u' size='340' side='right' caption='[[3o7u]], [[Resolution\|resolution]] 1.71Å' scene=''>		<StructureSection load='3o7u' size='340' side='right'caption='[[3o7u]], [[Resolution\|resolution]] 1.71Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3O7U FirstGlance]. <br>		<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3O7U 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=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</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" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</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">[[1k6w\|1k6w]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1k6w\|1k6w]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">codA ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">codA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [~~http~~://pdbe.org/3o7u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3o7u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7u 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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [https://pdbe.org/3o7u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [https://www.ebi.ac.uk/pdbsum/3o7u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7u ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 20:

	==See Also==		==See Also==
	*[[Deaminase\|Deaminase]]		*[[Deaminase 3D structures\|Deaminase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 26:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
			[[Category: Large Structures]]
	[[Category: Almo, S C]]		[[Category: Almo, S C]]
	[[Category: Fedorov, A A]]		[[Category: Fedorov, A A]]

OCA at 10:39, 4 August 2016

2016-08-04T10:39:12Z

← Older revision		Revision as of 10:39, 4 August 2016
Line 1:		Line 1:

	==Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine==		==Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine==
	<StructureSection load='3o7u' size='340' side='right' caption='[[3o7u]], [[Resolution\|resolution]] 1.71Å' scene=''>		<StructureSection load='3o7u' size='340' side='right' caption='[[3o7u]], [[Resolution\|resolution]] 1.71Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia~~ coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7U FirstGlance]. <br>		<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7U 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=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</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=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</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">[[1k6w\|1k6w]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1k6w\|1k6w]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">codA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">codA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [http://www.ebi.ac.uk/pdbsum/3o7u 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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [http://pdbe.org/3o7u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [http://www.ebi.ac.uk/pdbsum/3o7u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7u 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 3o7u" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 23:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Escherichia~~ coli]]		[[Category: Bacillus coli migula 1895]]
	[[Category: Almo, S C]]		[[Category: Almo, S C]]
	[[Category: Fedorov, A A]]		[[Category: Fedorov, A A]]

OCA at 22:02, 3 January 2015

2015-01-03T22:02:55Z

← Older revision		Revision as of 22:02, 3 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7U FirstGlance]. <br>		<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7U FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><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=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1k6w\|1k6w]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1k6w\|1k6w]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">codA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">codA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [http://www.ebi.ac.uk/pdbsum/3o7u 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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [http://www.ebi.ac.uk/pdbsum/3o7u PDBsum]</span></td></tr>
	<table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 14:
	Three-dimensional structure and catalytic mechanism of Cytosine deaminase.,Hall RS, Fedorov AA, Xu C, Fedorov EV, Almo SC, Raushel FM Biochemistry. 2011 Jun 7;50(22):5077-85. Epub 2011 May 12. PMID:21545144<ref>PMID:21545144</ref>		Three-dimensional structure and catalytic mechanism of Cytosine deaminase.,Hall RS, Fedorov AA, Xu C, Fedorov EV, Almo SC, Raushel FM Biochemistry. 2011 Jun 7;50(22):5077-85. Epub 2011 May 12. PMID:21545144<ref>PMID:21545144</ref>

	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>

			==See Also==
			*[[Deaminase\|Deaminase]]
	== References ==		== References ==
	<references/>		<references/>
Line 21:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Almo, S C.]]		[[Category: Almo, S C]]
	[[Category: Fedorov, A A.]]		[[Category: Fedorov, A A]]
	[[Category: Fedorov, E V.]]		[[Category: Fedorov, E V]]
	[[Category: Hall, R S.]]		[[Category: Hall, R S]]
	[[Category: Raushel, F M.]]		[[Category: Raushel, F M]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Hydrolase-hydrolase inhibitor complex]]		[[Category: Hydrolase-hydrolase inhibitor complex]]

OCA at 10:36, 28 May 2014

2014-05-28T10:36:00Z

← Older revision		Revision as of 10:36, 28 May 2014
Line 1:		Line 1:
	[[~~Image~~:~~3o7u~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine==
			<StructureSection load='3o7u' size='340' side='right' caption='[[3o7u]], [[Resolution\|resolution]] 1.71Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3o7u]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7U FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1k6w\|1k6w]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">codA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
			<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [http://www.ebi.ac.uk/pdbsum/3o7u PDBsum]</span></td></tr>
			<table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Cytosine deaminase (CDA) from E. coli is a member of the amidohydrolase superfamily. The structure of the zinc-activated enzyme was determined in the presence of phosphonocytosine, a mimic of the tetrahedral reaction intermediate. This compound inhibits the deamination of cytosine with a K(i) of 52 nM. The zinc- and iron-containing enzymes were characterized to determine the effect of the divalent cations on activation of the hydrolytic water. Fe-CDA loses activity at low pH with a kinetic pK(a) of 6.0, and Zn-CDA has a kinetic pK(a) of 7.3. Mutation of Gln-156 decreased the catalytic activity by more than 5 orders of magnitude, supporting its role in substrate binding. Mutation of Glu-217, Asp-313, and His-246 significantly decreased catalytic activity supporting the role of these three residues in activation of the hydrolytic water molecule and facilitation of proton transfer reactions. A library of potential substrates was used to probe the structural determinants responsible for catalytic activity. CDA was able to catalyze the deamination of isocytosine and the hydrolysis of 3-oxauracil. Large inverse solvent isotope effects were obtained on k(cat) and k(cat)/K(m), consistent with the formation of a low-barrier hydrogen bond during the conversion of cytosine to uracil. A chemical mechanism for substrate deamination by CDA was proposed.

	<!--		Three-dimensional structure and catalytic mechanism of Cytosine deaminase.,Hall RS, Fedorov AA, Xu C, Fedorov EV, Almo SC, Raushel FM Biochemistry. 2011 Jun 7;50(22):5077-85. Epub 2011 May 12. PMID:21545144<ref>PMID:21545144</ref>
	~~The line below this paragraph~~, ~~containing "STRUCTURE_3o7u"~~, ~~creates the "Structure Box" on the page~~.
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	~~{{STRUCTURE_3o7u\| PDB=3o7u \| SCENE= }}~~

	~~===Crystal structure~~ of ~~Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine===~~		From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
			</div>
			== References ==
	~~<!--~~		<references/>
	~~The line below this paragraph, {{ABSTRACT_PUBMED_21545144}}, adds the Publication Abstract to~~ the ~~page~~		__TOC__
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	~~{{ABSTRACT_PUBMED_21545144}}~~

	~~==About this Structure==~~
	~~[[3o7u]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7U OCA].~~

	==~~Reference~~==
	<~~ref group="xtra">PMID:021545144<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Almo, S C.]]		[[Category: Almo, S C.]]

OCA at 04:52, 8 March 2012

2012-03-08T04:52:38Z

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	[[Category: Raushel, F M.]]		[[Category: Raushel, F M.]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
			[[Category: Hydrolase-hydrolase inhibitor complex]]

OCA at 11:10, 16 November 2011

2011-11-16T11:10:06Z

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	[[Image:3o7u.~~jpg~~\|left\|200px]]		[[Image:3o7u.png\|left\|200px]]

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OCA: Protected "3o7u" [edit=sysop:move=sysop]

2011-06-15T06:13:29Z

Protected "3o7u" [edit=sysop:move=sysop]

← Older revision	Revision as of 06:13, 15 June 2011
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OCA at 06:13, 15 June 2011

2011-06-15T06:13:24Z

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-'''Unreleased structure'''
+[[Image:3o7u.jpg|left|200px]]
-The entry 3o7u is ON HOLD  until Paper Publication
+<!--
-Authors: Fedorov, A.A., Fedorov, E.V., Hall, R.S., Raushel, F.M., Almo, S.C.
+===Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine===
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OCA at 04:46, 29 September 2010

2010-09-29T04:46:21Z

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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 3o7u is ON HOLD		The entry 3o7u is ON HOLD until Paper Publication

	Authors: Fedorov, A.A., Fedorov, E.V., Hall, R.S., Raushel, F.M., Almo, S.C.		Authors: Fedorov, A.A., Fedorov, E.V., Hall, R.S., Raushel, F.M., Almo, S.C.
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	Description: Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine		Description: Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine

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