2jff - Revision history

OCA at 14:46, 13 December 2023

2023-12-13T14:46:12Z

← Older revision		Revision as of 14:46, 13 December 2023
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	<StructureSection load='2jff' size='340' side='right'caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2jff' size='340' side='right'caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JFF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JFF FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=LK2:N~~-[~~(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL~~]~~-D-GLUTAMIC+ACID'>LK2</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]] 1.89Å</td></tr>
	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene><~~/td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene>, <scene name='pdbligand=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</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"><div style='overflow: auto; max~~-~~height: 3em;~~'>~~[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]~~</~~div~~><~~/td></tr>~~
	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[https://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </~~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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [https://pdbe.org/2jff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [https://www.ebi.ac.uk/pdbsum/2jff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jff 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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [https://pdbe.org/2jff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [https://www.ebi.ac.uk/pdbsum/2jff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jff ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/MURD_ECOLI MURD_ECOLI] Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA).[HAMAP-Rule:MF_00639]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]		[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	~~[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]~~		[[Category: Blanot D]]
	[[Category: Blanot, D]]		[[Category: Contreras-Martel C]]
	[[Category: Contreras-Martel, C]]		[[Category: Dessen A]]
	[[Category: Dessen, A]]		[[Category: Gobec S]]
	[[Category: Gobec, S]]		[[Category: Herve M]]
	[[Category: Herve, M]]		[[Category: Humljan J]]
	[[Category: Humljan, J]]		[[Category: Kotnik M]]
	[[Category: Kotnik, M]]		[[Category: Kristan K]]
	[[Category: Kristan, K]]		[[Category: Oblak M]]
	[[Category: Oblak, M]]		[[Category: Solmajer T]]
	[[Category: Solmajer, T]]		[[Category: Urleb U]]
	[[Category: Urleb, U]]
	~~[[Category: Atp-binding]]~~
	~~[[Category: Cell cycle]]~~
	~~[[Category: Cell division]]~~
	~~[[Category: Cell shape]]~~
	~~[[Category: Cell wall]]~~
	~~[[Category: Ligase]]~~
	~~[[Category: Murd ligase]]~~
	~~[[Category: Murd-inhibitor complex]]~~
	~~[[Category: Nucleotide-binding]]~~
	~~[[Category: Peptidoglycan synthesis]]~~
	~~[[Category: Sulfonamide inhibitor~~]]

OCA at 20:45, 20 October 2021

2021-10-20T20:45:07Z

← Older revision		Revision as of 20:45, 20 October 2021
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	<StructureSection load='2jff' size='340' side='right'caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2jff' size='340' side='right'caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2JFF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JFF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</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=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</div></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [~~http~~://pdbe.org/2jff PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2jff PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2jff 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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [https://pdbe.org/2jff PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [https://www.ebi.ac.uk/pdbsum/2jff PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jff ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 19:03, 11 December 2019

2019-12-11T19:03:45Z

← Older revision		Revision as of 19:03, 11 December 2019
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	==Crystal structure of MurD ligase in complex with D-Glu containing sulfonamide inhibitor==		==Crystal structure of MurD ligase in complex with D-Glu containing sulfonamide inhibitor==
	<StructureSection load='2jff' size='340' side='right' caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2jff' size='340' side='right'caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JFF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JFF FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 2jff" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2jff" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Mur ligase\|Mur ligase]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
			[[Category: Large Structures]]
	[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]		[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]
	[[Category: Blanot, D]]		[[Category: Blanot, D]]

OCA at 06:39, 31 January 2018

2018-01-31T06:39:13Z

← Older revision		Revision as of 06:39, 31 January 2018
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	==~~CRYSTAL STRUCTURE OF MURD LIGASE IN COMPLEX WITH~~ D-~~GLU CONTAINING SULFONAMIDE INHIBITOR~~==
			==Crystal structure of MurD ligase in complex with D-Glu containing sulfonamide inhibitor==
	<StructureSection load='2jff' size='340' side='right' caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2jff' size='340' side='right' caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [http://pdbe.org/2jff PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [http://www.ebi.ac.uk/pdbsum/2jff 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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [http://pdbe.org/2jff PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [http://www.ebi.ac.uk/pdbsum/2jff PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2jff ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jf/2jff_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jf/2jff_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>
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	</div>		</div>
	<div class="pdbe-citations 2jff" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2jff" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[MurD ligase\|MurD ligase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 19:51, 9 February 2016

2016-02-09T19:51:34Z

← Older revision		Revision as of 19:51, 9 February 2016
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	<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=2jff ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:30, 11 September 2015

2015-09-11T01:30:06Z

← Older revision		Revision as of 01:30, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2jff' size='340' side='right' caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='2jff' size='340' side='right' caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JFF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JFF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</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"><scene name='pdbligand=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [http://www.ebi.ac.uk/pdbsum/2jff 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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [http://pdbe.org/2jff PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [http://www.ebi.ac.uk/pdbsum/2jff PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 27:
	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 2jff" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Escherichia~~ coli]]		[[Category: Bacillus coli migula 1895]]
	[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]		[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]
	[[Category: Blanot, D]]		[[Category: Blanot, D]]

OCA at 13:12, 19 January 2015

2015-01-19T13:12:13Z

← Older revision		Revision as of 13:12, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JFF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JFF FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </span></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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [http://www.ebi.ac.uk/pdbsum/2jff 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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [http://www.ebi.ac.uk/pdbsum/2jff PDBsum]</span></td></tr>
	<table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]		[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]
	[[Category: Blanot, D.]]		[[Category: Blanot, D]]
	[[Category: Contreras-Martel, C.]]		[[Category: Contreras-Martel, C]]
	[[Category: Dessen, A.]]		[[Category: Dessen, A]]
	[[Category: Gobec, S.]]		[[Category: Gobec, S]]
	[[Category: Herve, M.]]		[[Category: Herve, M]]
	[[Category: Humljan, J.]]		[[Category: Humljan, J]]
	[[Category: Kotnik, M.]]		[[Category: Kotnik, M]]
	[[Category: Kristan, K.]]		[[Category: Kristan, K]]
	[[Category: Oblak, M.]]		[[Category: Oblak, M]]
	[[Category: Solmajer, T.]]		[[Category: Solmajer, T]]
	[[Category: Urleb, U.]]		[[Category: Urleb, U]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Cell cycle]]		[[Category: Cell cycle]]

OCA at 07:38, 30 September 2014

2014-09-30T07:38:54Z

← Older revision		Revision as of 07:38, 30 September 2014
Line 1:		Line 1:
	[[Image:~~2jff~~.~~png~~\|~~left~~\|~~200px~~]]		==CRYSTAL STRUCTURE OF MURD LIGASE IN COMPLEX WITH D-GLU CONTAINING SULFONAMIDE INHIBITOR==
			<StructureSection load='2jff' size='340' side='right' caption='[[2jff]], [[Resolution\|resolution]] 1.89Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2jff]] 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=2JFF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JFF FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LK2:N-[(6-BUTOXYNAPHTHALEN-2-YL)SULFONYL]-D-GLUTAMIC+ACID'>LK2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
			<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e0d\|1e0d]], [[1eeh\|1eeh]], [[1uag\|1uag]], [[2uag\|2uag]], [[3uag\|3uag]], [[4uag\|4uag]], [[2jfg\|2jfg]], [[2jfh\|2jfh]]</td></tr>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-N-acetylmuramoyl-L-alanine--D-glutamate_ligase UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.9 6.3.2.9] </span></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=2jff FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jff OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2jff RCSB], [http://www.ebi.ac.uk/pdbsum/2jff 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/jf/2jff_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 ==
			Mur ligases play an essential role in the intracellular biosynthesis of bacterial peptidoglycan, the main component of the bacterial cell wall, and represent attractive targets for the design of novel antibacterials. UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase (MurD) catalyses the addition of D-glutamic acid to the cytoplasmic intermediate UDP-N-acetylmuramoyl-L-alanine (UMA) and is the second in the series of Mur ligases. MurD ligase is highly stereospecific for its substrate, D-glutamic acid (D-Glu). Here, we report the high resolution crystal structures of MurD in complexes with two novel inhibitors designed to mimic the transition state of the reaction, which contain either the D-Glu or the L-Glu moiety. The binding modes of N-sulfonyl-D-Glu and N-sulfonyl-L-Glu derivatives were also characterised kinetically. The results of this study represent an excellent starting point for further development of novel inhibitors of this enzyme.

	~~{{STRUCTURE_2jff\| PDB=2jff \| SCENE= }}~~		Structural and functional characterization of enantiomeric glutamic acid derivatives as potential transition state analogue inhibitors of MurD ligase.,Kotnik M, Humljan J, Contreras-Martel C, Oblak M, Kristan K, Herve M, Blanot D, Urleb U, Gobec S, Dessen A, Solmajer T J Mol Biol. 2007 Jun 29;370(1):107-15. Epub 2007 May 4. PMID:17507028<ref>PMID:17507028</ref>

	~~===CRYSTAL STRUCTURE OF MURD LIGASE IN COMPLEX WITH D-GLU CONTAINING SULFONAMIDE INHIBITOR===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>

	~~{{ABSTRACT_PUBMED_17507028}}~~		==See Also==
			*[[MurD ligase\|MurD ligase]]
	==~~About this Structure~~==		== References ==
	[[~~2jff]] 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=2JFF OCA~~].		<references/>
			__TOC__
	==~~Reference~~==		</StructureSection>
	<~~ref group="xtra">PMID:017507028<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]		[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]

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

2013-01-07T12:48:52Z

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

← Older revision	Revision as of 12:48, 7 January 2013
(No difference)

OCA at 12:48, 7 January 2013

2013-01-07T12:48:49Z

← Older revision		Revision as of 12:48, 7 January 2013
Line 1:		Line 1:
	~~{{Seed}}~~
	[[Image:2jff.png\|left\|200px]]		[[Image:2jff.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2jff", 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_2jff\| PDB=2jff \| SCENE= }}		{{STRUCTURE_2jff\| PDB=2jff \| SCENE= }}

	===CRYSTAL STRUCTURE OF MURD LIGASE IN COMPLEX WITH D-GLU CONTAINING SULFONAMIDE INHIBITOR===		===CRYSTAL STRUCTURE OF MURD LIGASE IN COMPLEX WITH D-GLU CONTAINING SULFONAMIDE INHIBITOR===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_17507028}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 17507028 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_17507028}}		{{ABSTRACT_PUBMED_17507028}}

	==About this Structure==		==About this Structure==
	~~2JFF~~ is a 1 chain structure of 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=2JFF OCA].		[[2jff]] 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=2JFF OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~17507028~~</ref><references group="xtra"/>		<ref group="xtra">PMID:017507028</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]		[[Category: UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase]]
Line 48:		Line 36:
	[[Category: Peptidoglycan synthesis]]		[[Category: Peptidoglycan synthesis]]
	[[Category: Sulfonamide inhibitor]]		[[Category: Sulfonamide inhibitor]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 12:19:02 2009''~~