2bsl - Revision history

OCA at 13:54, 13 December 2023

2023-12-13T13:54:40Z

←Older revision		Revision as of 13:54, 13 December 2023
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	<StructureSection load='2bsl' size='340' side='right'caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2bsl' size='340' side='right'caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacterium_lactis"_lister_1873 "bacterium~~ lactis~~" lister 1873~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BSL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BSL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.3Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase_(quinone) Dihydroorotate dehydrogenase (quinone)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [https://pdbe.org/2bsl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [https://www.ebi.ac.uk/pdbsum/2bsl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bsl 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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [https://pdbe.org/2bsl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [https://www.ebi.ac.uk/pdbsum/2bsl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bsl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~PYRDA_LACLC PYRDA_LACLC]~~] Catalyzes the conversion of dihydroorotate to orotate with fumarate as the electron acceptor (~~By similarity~~).	+	[https://www.uniprot.org/uniprot/PYRDA_LACLM PYRDA_LACLM] Catalyzes the conversion of dihydroorotate to orotate with fumarate as the electron acceptor. Molecular oxygen can replace fumarate in vitro, but cannot use NAD(+) as an electron acceptor.<ref>PMID:8021180</ref>
	== 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: ~~Bacterium~~ lactis ~~lister 1873~~]]	+	[[Category: Lactococcus lactis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Arent, S]]	+	[[Category: Arent S]]
-	[[Category: Gattis~~, S G~~]]	+	[[Category: Gattis SG]]
-	[[Category: Hansen, M]]	+	[[Category: Hansen M]]
-	[[Category: Hu, Y C]]	+	[[Category: Hu Y-C]]
-	[[Category: Johansson, E]]	+	[[Category: Johansson E]]
-	[[Category: Larsen, S]]	+	[[Category: Larsen S]]
-	[[Category: Palfey~~, B A~~]]	+	[[Category: Palfey BA]]
-	[[Category: Wolfe~~, A E]]~~	+	[[Category: Wolfe AE]]
-	~~[[Category: Dihydroorotate dehydrogenase]]~~	+
-	~~[[Category: Flavoprotein]]~~	+
-	~~[[Category: Fmn]]~~	+
-	~~[[Category: Nucleotide metabolism]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Pyrimidine biosynthesis~~]]	+

OCA at 10:32, 17 February 2021

2021-02-17T10:32:03Z

←Older revision		Revision as of 10:32, 17 February 2021
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	<StructureSection load='2bsl' size='340' side='right'caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2bsl' size='340' side='right'caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2BSL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BSL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase_(quinone) Dihydroorotate dehydrogenase (quinone)], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase_(quinone) Dihydroorotate dehydrogenase (quinone)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [~~http~~://pdbe.org/2bsl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2bsl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2bsl 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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [https://pdbe.org/2bsl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [https://www.ebi.ac.uk/pdbsum/2bsl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bsl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PYRDA_LACLC PYRDA_LACLC]] Catalyzes the conversion of dihydroorotate to orotate with fumarate as the electron acceptor (By similarity).	+	[[https://www.uniprot.org/uniprot/PYRDA_LACLC PYRDA_LACLC]] Catalyzes the conversion of dihydroorotate to orotate with fumarate as the electron acceptor (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
-	*[[Dihydroorotate dehydrogenase\|Dihydroorotate dehydrogenase]]	+	*[[Dihydroorotate dehydrogenase 3D structures\|Dihydroorotate dehydrogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:52, 10 May 2019

2019-05-10T11:52:26Z

←Older revision		Revision as of 11:52, 10 May 2019
Line 1:		Line 1:

	==Crystal structure of L. lactis dihydroorotate dehydrogense A in complex with 3,4-dihydroxybenzoate==		==Crystal structure of L. lactis dihydroorotate dehydrogense A in complex with 3,4-dihydroxybenzoate==
-	<StructureSection load='2bsl' size='340' side='right' caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='2bsl' size='340' side='right'caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BSL FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BSL FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Bacterium lactis lister 1873]]		[[Category: Bacterium lactis lister 1873]]
		+	[[Category: Large Structures]]
	[[Category: Arent, S]]		[[Category: Arent, S]]
	[[Category: Gattis, S G]]		[[Category: Gattis, S G]]

OCA at 06:13, 16 May 2018

2018-05-16T06:13:43Z

←Older revision		Revision as of 06:13, 16 May 2018
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-	==~~CRYSTAL STRUCTURE OF~~ L. ~~LACTIS DIHYDROOROTATE DEHYDROGENSE~~ A ~~IN COMPLEX WITH~~ 3,4-~~DIHYDROXYBENZOATE~~==	+
		+	==Crystal structure of L. lactis dihydroorotate dehydrogense A in complex with 3,4-dihydroxybenzoate==
	<StructureSection load='2bsl' size='340' side='right' caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2bsl' size='340' side='right' caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase_(quinone) Dihydroorotate dehydrogenase (quinone)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase_(quinone) Dihydroorotate dehydrogenase (quinone)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [http://pdbe.org/2bsl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [http://www.ebi.ac.uk/pdbsum/2bsl 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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [http://pdbe.org/2bsl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [http://www.ebi.ac.uk/pdbsum/2bsl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2bsl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bs/2bsl_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bs/2bsl_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>
	</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=2bsl ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:42, 11 September 2015

2015-09-11T12:42:42Z

←Older revision		Revision as of 12:42, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2bsl' size='340' side='right' caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2bsl' size='340' side='right' caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Lactococcus_lactis Lactococcus~~ lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BSL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BSL FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/~~Dihydroorotate_dehydrogenase~~ Dihydroorotate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase_(quinone) Dihydroorotate dehydrogenase (quinone)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [http://www.ebi.ac.uk/pdbsum/2bsl 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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [http://pdbe.org/2bsl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [http://www.ebi.ac.uk/pdbsum/2bsl PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	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 2bsl" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dihydroorotate dehydrogenase]]~~	+	[[Category: Bacterium lactis lister 1873]]
-	~~[[Category: Lactococcus~~ lactis]]	+
	[[Category: Arent, S]]		[[Category: Arent, S]]
	[[Category: Gattis, S G]]		[[Category: Gattis, S G]]
Line 45:		Line 45:
	[[Category: Palfey, B A]]		[[Category: Palfey, B A]]
	[[Category: Wolfe, A E]]		[[Category: Wolfe, A E]]
		+	[[Category: Dihydroorotate dehydrogenase]]
	[[Category: Flavoprotein]]		[[Category: Flavoprotein]]
	[[Category: Fmn]]		[[Category: Fmn]]

OCA at 16:36, 25 December 2014

2014-12-25T16:36:15Z

←Older revision		Revision as of 16:36, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BSL FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BSL FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase Dihydroorotate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase Dihydroorotate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [http://www.ebi.ac.uk/pdbsum/2bsl 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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [http://www.ebi.ac.uk/pdbsum/2bsl PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PYRDA_LACLC PYRDA_LACLC]] Catalyzes the conversion of dihydroorotate to orotate with fumarate as the electron acceptor (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	[[Category: Dihydroorotate dehydrogenase]]		[[Category: Dihydroorotate dehydrogenase]]
	[[Category: Lactococcus lactis]]		[[Category: Lactococcus lactis]]
-	[[Category: Arent, S.]]	+	[[Category: Arent, S]]
-	[[Category: Gattis, S G.]]	+	[[Category: Gattis, S G]]
-	[[Category: Hansen, M.]]	+	[[Category: Hansen, M]]
-	[[Category: Hu, Y C.]]	+	[[Category: Hu, Y C]]
-	[[Category: Johansson, E.]]	+	[[Category: Johansson, E]]
-	[[Category: Larsen, S.]]	+	[[Category: Larsen, S]]
-	[[Category: Palfey, B A.]]	+	[[Category: Palfey, B A]]
-	[[Category: Wolfe, A E~~.]]~~	+	[[Category: Wolfe, A E]]
-	~~[[Category: Dihydroorotate dehydrogenase~~]]	+
	[[Category: Flavoprotein]]		[[Category: Flavoprotein]]
	[[Category: Fmn]]		[[Category: Fmn]]

OCA at 02:22, 30 September 2014

2014-09-30T02:22:55Z

←Older revision		Revision as of 02:22, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2bsl.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF L. LACTIS DIHYDROOROTATE DEHYDROGENSE A IN COMPLEX WITH 3,4-DIHYDROXYBENZOATE==
		+	<StructureSection load='2bsl' size='340' side='right' caption='[[2bsl]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BSL FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DHB:3,4-DIHYDROXYBENZOIC+ACID'>DHB</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dor\|1dor]], [[1jqv\|1jqv]], [[1jqx\|1jqx]], [[1jrb\|1jrb]], [[1jrc\|1jrc]], [[1jub\|1jub]], [[1jue\|1jue]], [[1nfc\|1nfc]], [[1ovd\|1ovd]], [[2dor\|2dor]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroorotate_dehydrogenase Dihydroorotate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.2 1.3.5.2] </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=2bsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bsl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bsl RCSB], [http://www.ebi.ac.uk/pdbsum/2bsl 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/bs/2bsl_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 ==
		+	Dihydroorotate dehydrogenases (DHODs) catalyze the oxidation of dihydroorotate to orotate in the only redox reaction in pyrimidine biosynthesis. The pyrimidine binding sites are very similar in all structurally characterized DHODs, suggesting that the prospects for identifying a class-specific inhibitor directed against this site are poor. Nonetheless, two compounds that bind specifically to the Class 1A DHOD from Lactococcus lactis, 3,4-dihydroxybenzoate (3,4-diOHB) and 3,5-dihydroxybenzoate (3,5-diOHB), have been identified [Palfey et al. (2001) J. Med. Chem. 44, 2861-2864]. The mechanism of inhibitor binding to the Class 1A DHOD from L. lactis has now been studied in detail and is reported here. Titrations showed that 3,4-diOHB binds more tightly at higher pH, whereas the opposite is true for 3,5-diOHB. Isothermal titration calorimetry and absorbance spectroscopy showed that 3,4-diOHB ionizes to the phenolate upon binding to the enzyme, but 3,5-diOHB does not. The charge-transfer band that forms in the 3,4-diOHB complex allowed the kinetics of binding to be observed in stopped-flow experiments. Binding was slow enough to observe from pH 6 to pH 8 and was (minimally) a two-step process consisting of the rapid formation of a complex that isomerized to the final charge-transfer complex. Orotate and 3,5-diOHB bind too quickly to follow directly, but their dissociation kinetics were studied by competition and described adequately with a single step. Crystal structures of both inhibitor complexes were determined, showing that 3,5-diOHB binds in the same orientation as orotate. In contrast, 3,4-diOHB binds in a twisted orientation, enabling one of its phenolic oxygens to form a very strong hydrogen bond to an asparagine, thus stabilizing the phenolate and causing charge-transfer interactions with the pi-system of the flavin, resulting in a green color.

-	~~{{STRUCTURE_2bsl\| PDB=2bsl \| SCENE= }}~~	+	Interaction of benzoate pyrimidine analogues with class 1A dihydroorotate dehydrogenase from Lactococcus lactis.,Wolfe AE, Thymark M, Gattis SG, Fagan RL, Hu YC, Johansson E, Arent S, Larsen S, Palfey BA Biochemistry. 2007 May 15;46(19):5741-53. Epub 2007 Apr 20. PMID:17444658<ref>PMID:17444658</ref>

-	~~===CRYSTAL STRUCTURE OF L. LACTIS DIHYDROOROTATE DEHYDROGENSE A IN COMPLEX WITH 3~~,~~4-DIHYDROXYBENZOATE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_17444658}}~~	+	==See Also==
-		+	*[[Dihydroorotate dehydrogenase\|Dihydroorotate dehydrogenase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2bsl~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:017444658<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Dihydroorotate dehydrogenase]]		[[Category: Dihydroorotate dehydrogenase]]
	[[Category: Lactococcus lactis]]		[[Category: Lactococcus lactis]]

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

2013-01-06T11:35:39Z

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

←Older revision

Revision as of 11:35, 6 January 2013

OCA at 11:35, 6 January 2013

2013-01-06T11:35:37Z

←Older revision		Revision as of 11:35, 6 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2bsl.png\|left\|200px]]		[[Image:2bsl.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2bsl", 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_2bsl\| PDB=2bsl \| SCENE= }}		{{STRUCTURE_2bsl\| PDB=2bsl \| SCENE= }}

	===CRYSTAL STRUCTURE OF L. LACTIS DIHYDROOROTATE DEHYDROGENSE A IN COMPLEX WITH 3,4-DIHYDROXYBENZOATE===		===CRYSTAL STRUCTURE OF L. LACTIS DIHYDROOROTATE DEHYDROGENSE A IN COMPLEX WITH 3,4-DIHYDROXYBENZOATE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17444658}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17444658 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17444658}}		{{ABSTRACT_PUBMED_17444658}}

	==About this Structure==		==About this Structure==
-	~~2BSL~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA].	+	[[2bsl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17444658~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017444658</ref><references group="xtra"/>
	[[Category: Dihydroorotate dehydrogenase]]		[[Category: Dihydroorotate dehydrogenase]]
	[[Category: Lactococcus lactis]]		[[Category: Lactococcus lactis]]
Line 40:		Line 28:
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Pyrimidine biosynthesis]]		[[Category: Pyrimidine biosynthesis]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 22 10:37:35 2009''

OCA at 08:37, 22 March 2009

2009-03-22T08:37:36Z

←Older revision		Revision as of 08:37, 22 March 2009
Line 12:		Line 12:
	===CRYSTAL STRUCTURE OF L. LACTIS DIHYDROOROTATE DEHYDROGENSE A IN COMPLEX WITH 3,4-DIHYDROXYBENZOATE===		===CRYSTAL STRUCTURE OF L. LACTIS DIHYDROOROTATE DEHYDROGENSE A IN COMPLEX WITH 3,4-DIHYDROXYBENZOATE===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_17444658}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 17444658 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_17444658}}

	==About this Structure==		==About this Structure==
	2BSL is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA].		2BSL is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BSL OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:17444658</ref><references group="xtra"/>
	[[Category: Dihydroorotate dehydrogenase]]		[[Category: Dihydroorotate dehydrogenase]]
	[[Category: Lactococcus lactis]]		[[Category: Lactococcus lactis]]
Line 20:		Line 29:
	[[Category: Gattis, S G.]]		[[Category: Gattis, S G.]]
	[[Category: Hansen, M.]]		[[Category: Hansen, M.]]
-	[[Category: Hu, Y.]]	+	[[Category: Hu, Y C.]]
	[[Category: Johansson, E.]]		[[Category: Johansson, E.]]
	[[Category: Larsen, S.]]		[[Category: Larsen, S.]]
Line 32:		Line 41:
	[[Category: Pyrimidine biosynthesis]]		[[Category: Pyrimidine biosynthesis]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Feb 17 21~~:56:00 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 22 10:37:35 2009''