2wym - Revision history

OCA at 10:19, 20 December 2023

OCA — Wed, 20 Dec 2023 10:19:50 GMT

←Older revision		Revision as of 10:19, 20 December 2023
Line 3:		Line 3:
	<StructureSection load='2wym' size='340' side='right'caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2wym' size='340' side='right'caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WYM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WYM FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 2.6Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td><~~td class~~=~~"sblockDat"><div style~~=~~'overflow~~: ~~auto; max-height: 3em;~~'>~~[[2wyl\|2wyl]]~~</~~div~~></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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [https://pdbe.org/2wym PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [https://www.ebi.ac.uk/pdbsum/2wym PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wym 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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [https://pdbe.org/2wym PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [https://www.ebi.ac.uk/pdbsum/2wym PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wym ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/ULAG_ECOLI ULAG_ECOLI]] Probably catalyzes the hydrolysis of L-ascorbate-6-P into 3-keto-L-gulonate-6-P. Is essential for L-ascorbate utilization under anaerobic conditions. Also shows phosphodiesterase activity, hydrolyzing phosphodiester bond in the artificial chromogenic substrate bis-p-nitrophenyl phosphate (bis-pNPP).<ref>PMID:12644495</ref> <ref>PMID:15808744</ref>	+	[https://www.uniprot.org/uniprot/ULAG_ECOLI ULAG_ECOLI] Probably catalyzes the hydrolysis of L-ascorbate-6-P into 3-keto-L-gulonate-6-P. Is essential for L-ascorbate utilization under anaerobic conditions. Also shows phosphodiesterase activity, hydrolyzing phosphodiester bond in the artificial chromogenic substrate bis-p-nitrophenyl phosphate (bis-pNPP).<ref>PMID:12644495</ref> <ref>PMID:15808744</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Aguilar, J]]	+	[[Category: Aguilar J]]
-	[[Category: Badia, J]]	+	[[Category: Badia J]]
-	[[Category: Baldoma, L]]	+	[[Category: Baldoma L]]
-	[[Category: Coll, M]]	+	[[Category: Coll M]]
-	[[Category: Fernandez~~, F J~~]]	+	[[Category: Fernandez FJ]]
-	[[Category: Garces, F]]	+	[[Category: Garces F]]
-	[[Category: Penya-Soler, E]]	+	[[Category: Penya-Soler E]]
-	[[Category: Vega~~, M C]]~~	+	[[Category: Vega MC]]
-	~~[[Category: Hydrolase~~]]	+

OCA at 10:42, 13 April 2022

OCA — Wed, 13 Apr 2022 10:42:43 GMT

←Older revision		Revision as of 10:42, 13 April 2022
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	<StructureSection load='2wym' size='340' side='right'caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2wym' size='340' side='right'caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2WYM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WYM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyl\|2wyl]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2wyl\|2wyl]]</div></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [~~http~~://pdbe.org/2wym PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2wym PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2wym 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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [https://pdbe.org/2wym PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [https://www.ebi.ac.uk/pdbsum/2wym PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wym ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ULAG_ECOLI ULAG_ECOLI]] Probably catalyzes the hydrolysis of L-ascorbate-6-P into 3-keto-L-gulonate-6-P. Is essential for L-ascorbate utilization under anaerobic conditions. Also shows phosphodiesterase activity, hydrolyzing phosphodiester bond in the artificial chromogenic substrate bis-p-nitrophenyl phosphate (bis-pNPP).<ref>PMID:12644495</ref> <ref>PMID:15808744</ref>	+	[[https://www.uniprot.org/uniprot/ULAG_ECOLI ULAG_ECOLI]] Probably catalyzes the hydrolysis of L-ascorbate-6-P into 3-keto-L-gulonate-6-P. Is essential for L-ascorbate utilization under anaerobic conditions. Also shows phosphodiesterase activity, hydrolyzing phosphodiester bond in the artificial chromogenic substrate bis-p-nitrophenyl phosphate (bis-pNPP).<ref>PMID:12644495</ref> <ref>PMID:15808744</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 15:00, 8 July 2020

OCA — Wed, 08 Jul 2020 15:00:42 GMT

←Older revision		Revision as of 15:00, 8 July 2020
Line 1:		Line 1:

	==Structure of a metallo-b-lactamase==		==Structure of a metallo-b-lactamase==
-	<StructureSection load='2wym' size='340' side='right' caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='2wym' size='340' side='right'caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2WYM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2WYM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyl\|2wyl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyl\|2wyl]]</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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [http://pdbe.org/2wym PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [http://www.ebi.ac.uk/pdbsum/2wym PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2wym ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [http://pdbe.org/2wym PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [http://www.ebi.ac.uk/pdbsum/2wym PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2wym ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Aguilar, J]]		[[Category: Aguilar, J]]
	[[Category: Badia, J]]		[[Category: Badia, J]]

OCA at 09:42, 3 October 2018

OCA — Wed, 03 Oct 2018 09:42:39 GMT

←Older revision		Revision as of 09:42, 3 October 2018
Line 1:		Line 1:

-	==~~STRUCTURE OF A METALLO~~-B-~~LACTAMASE~~==	+	==Structure of a metallo-b-lactamase==
	<StructureSection load='2wym' size='340' side='right' caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2wym' size='340' side='right' caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wy/2wym_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wy/2wym_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 20:39, 5 August 2016

OCA — Fri, 05 Aug 2016 20:39:14 GMT

←Older revision		Revision as of 20:39, 5 August 2016
Line 1:		Line 1:
		+
	==STRUCTURE OF A METALLO-B-LACTAMASE==		==STRUCTURE OF A METALLO-B-LACTAMASE==
	<StructureSection load='2wym' size='340' side='right' caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2wym' size='340' side='right' caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyl\|2wyl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyl\|2wyl]]</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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [http://www.ebi.ac.uk/pdbsum/2wym 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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [http://pdbe.org/2wym PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [http://www.ebi.ac.uk/pdbsum/2wym PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2wym ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2wym ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 29:
	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 2wym" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Aguilar, J]]		[[Category: Aguilar, J]]
	[[Category: Badia, J]]		[[Category: Badia, J]]

OCA at 21:43, 25 December 2014

OCA — Thu, 25 Dec 2014 21:43:40 GMT

←Older revision		Revision as of 21:43, 25 December 2014
Line 8:		Line 8:
	<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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [http://www.ebi.ac.uk/pdbsum/2wym 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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [http://www.ebi.ac.uk/pdbsum/2wym PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ULAG_ECOLI ULAG_ECOLI]] Probably catalyzes the hydrolysis of L-ascorbate-6-P into 3-keto-L-gulonate-6-P. Is essential for L-ascorbate utilization under anaerobic conditions. Also shows phosphodiesterase activity, hydrolyzing phosphodiester bond in the artificial chromogenic substrate bis-p-nitrophenyl phosphate (bis-pNPP).<ref>PMID:12644495</ref> <ref>PMID:15808744</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Aguilar, J.]]	+	[[Category: Aguilar, J]]
-	[[Category: Badia, J.]]	+	[[Category: Badia, J]]
-	[[Category: Baldoma, L.]]	+	[[Category: Baldoma, L]]
-	[[Category: Coll, M.]]	+	[[Category: Coll, M]]
-	[[Category: Fernandez, F J.]]	+	[[Category: Fernandez, F J]]
-	[[Category: Garces, F.]]	+	[[Category: Garces, F]]
-	[[Category: Penya-Soler, E.]]	+	[[Category: Penya-Soler, E]]
-	[[Category: Vega, M C.]]	+	[[Category: Vega, M C]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 09:26, 5 November 2014

OCA — Wed, 05 Nov 2014 09:26:27 GMT

←Older revision		Revision as of 09:26, 5 November 2014
Line 1:		Line 1:
-	[[~~Image:~~2wym.~~png~~\|~~left~~\|200px]]	+	==STRUCTURE OF A METALLO-B-LACTAMASE==
		+	<StructureSection load='2wym' size='340' side='right' caption='[[2wym]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2wym]] is a 6 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=2WYM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYM FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyl\|2wyl]]</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=2wym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wym OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wym RCSB], [http://www.ebi.ac.uk/pdbsum/2wym PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wy/2wym_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The ulaG gene, located in the ula regulon, is crucial for the catabolism of l-ascorbate under anaerobic conditions and it has been proposed to encode for the putative l-ascorbate-6-P lactonase. The ulaG gene is widespread among eubacteria, including human commensal and pathogenic genera such as Escherichia, Shigella, Klebsiella and Salmonella. Here, we report the three-dimensional structures of the apoenzyme and Mn(2+) holoenzyme of UlaG from E. coli to 2.6 A resolution, determined using single-wavelength anomalous diffraction phasing and molecular replacement, respectively. The structures reveal a highly specialized metallo-beta-lactamase-like fold derived from an ancient structural template that was involved in RNA maturation and DNA repair. This fold has a novel quaternary architecture consisting of a hexameric ring formed by a trimer of UlaG dimers. A mononuclear Mn(2)(+)-binding site resides at the core of the active site, which displays micromolar affinity for Mn(2+) and a distorted trigonal bipyramidal coordination. The active site Mn(2+) ion can be replaced by Co(2+) or Zn(2+), but not by Fe(3+). We further show that the Mn(2+) or Co(2)(+)-loaded enzyme exhibits lactonase activity towards l-ascorbate 6-P, thereby providing the first direct evidence of its catalytic role in the L-ascorbate catabolic pathway. Guided by the structural homology, we show that UlaG is able to cleave phosphodiester linkages in cyclic nucleotides, suggesting that the conservation of the fold and of the key catalytic residues allows for the evolutionary acquisition of substrate specificity for novel but related substrates.

-	~~{{STRUCTURE_2wym\| PDB=2wym \| SCENE= }}~~	+	Molecular architecture of the Mn2+-dependent lactonase UlaG reveals an RNase-like metallo-beta-lactamase fold and a novel quaternary structure.,Garces F, Fernandez FJ, Montella C, Penya-Soler E, Prohens R, Aguilar J, Baldoma L, Coll M, Badia J, Vega MC J Mol Biol. 2010 May 21;398(5):715-29. Epub 2010 Mar 30. PMID:20359483<ref>PMID:20359483</ref>

-	~~===STRUCTURE OF A METALLO-B-LACTAMASE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20359483}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2wym]] is~~ a ~~6 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=2WYM OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:020359483<~~/~~ref~~><~~ref group="xtra">PMID:018097099</ref><references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Aguilar, J.]]		[[Category: Aguilar, J.]]

OCA at 13:09, 30 January 2013

OCA — Wed, 30 Jan 2013 13:09:31 GMT

←Older revision		Revision as of 13:09, 30 January 2013
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	[[Image:2wym.png\|left\|200px]]		[[Image:2wym.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2wym", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2wym\| PDB=2wym \| SCENE= }}		{{STRUCTURE_2wym\| PDB=2wym \| SCENE= }}

	===STRUCTURE OF A METALLO-B-LACTAMASE===		===STRUCTURE OF A METALLO-B-LACTAMASE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20359483}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20359483 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20359483}}		{{ABSTRACT_PUBMED_20359483}}

Line 22:		Line 11:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20359483~~</ref><ref group="xtra">PMID:~~18097099~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020359483</ref><ref group="xtra">PMID:018097099</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Aguilar, J.]]		[[Category: Aguilar, J.]]

OCA: Protected "2wym" [edit=sysop:move=sysop]

OCA — Mon, 14 Mar 2011 20:49:30 GMT

Protected "2wym" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:49, 14 March 2011

OCA at 20:49, 14 March 2011

OCA — Mon, 14 Mar 2011 20:49:27 GMT

←Older revision		Revision as of 20:49, 14 March 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2wym.png\|left\|200px]]		[[Image:2wym.png\|left\|200px]]

Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~2WYM~~ is a 6 ~~chains~~ structure with ~~sequences~~ 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=2WYM OCA].	+	[[2wym]] is a 6 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=2WYM OCA].

	==Reference==		==Reference==
Line 34:		Line 33:
	[[Category: Vega, M C.]]		[[Category: Vega, M C.]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu May 20 09:11:09 2010''