2zz4 - Revision history

OCA at 14:03, 1 November 2023

2023-11-01T14:03:49Z

←Older revision		Revision as of 14:03, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2zz4' size='340' side='right'caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>		<StructureSection load='2zz4' size='340' side='right'caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=6CN:6~~-~~CYANOURIDINE+5-PHOSPHATE'>6CN</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.67Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23]~~ </~~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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [https://pdbe.org/2zz4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [https://www.ebi.ac.uk/pdbsum/2zz4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zz4 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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [https://pdbe.org/2zz4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [https://www.ebi.ac.uk/pdbsum/2zz4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zz4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PYRF_METTH PYRF_METTH]] Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).[HAMAP-Rule:MF_01200_A]	+	[https://www.uniprot.org/uniprot/PYRF_METTH PYRF_METTH] Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).[HAMAP-Rule:MF_01200_A]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 38:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Orotidine-5'-phosphate decarboxylase~~]]	+	[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: Fujihashi, M]]	+	[[Category: Fujihashi M]]
-	[[Category: Pai~~, E F]]~~	+	[[Category: Pai EF]]
-	~~[[Category: Decarboxylase]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Odcase]]~~	+
-	~~[[Category: Ompdc]]~~	+
-	~~[[Category: Ompdcase]]~~	+
-	~~[[Category: Pyrimidine biosynthesis~~]]	+

OCA at 07:21, 10 November 2021

2021-11-10T07:21:16Z

←Older revision		Revision as of 07:21, 10 November 2021
Line 3:		Line 3:
	<StructureSection load='2zz4' size='340' side='right'caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>		<StructureSection load='2zz4' size='340' side='right'caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [~~http~~://pdbe.org/2zz4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zz4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zz4 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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [https://pdbe.org/2zz4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [https://www.ebi.ac.uk/pdbsum/2zz4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zz4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PYRF_METTH PYRF_METTH]] Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).[HAMAP-Rule:MF_01200_A]	+	[[https://www.uniprot.org/uniprot/PYRF_METTH PYRF_METTH]] Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).[HAMAP-Rule:MF_01200_A]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 12:12, 29 July 2020

2020-07-29T12:12:14Z

←Older revision		Revision as of 12:12, 29 July 2020
Line 1:		Line 1:

	==Covalent complex of orotidine monophosphate decarboxylase D75N mutant from M. thermoautotrophicum with 6-cyano-UMP==		==Covalent complex of orotidine monophosphate decarboxylase D75N mutant from M. thermoautotrophicum with 6-cyano-UMP==
-	<StructureSection load='2zz4' size='340' side='right' caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>	+	<StructureSection load='2zz4' size='340' side='right'caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [http://pdbe.org/2zz4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [http://www.ebi.ac.uk/pdbsum/2zz4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zz4 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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [http://pdbe.org/2zz4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [http://www.ebi.ac.uk/pdbsum/2zz4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zz4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Uridine 5'-monophosphate synthase\|Uridine 5'-monophosphate synthase]]	+	*[[Uridine 5'-monophosphate synthase 3D structures\|Uridine 5'-monophosphate synthase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Orotidine-5'-phosphate decarboxylase]]		[[Category: Orotidine-5'-phosphate decarboxylase]]
	[[Category: Fujihashi, M]]		[[Category: Fujihashi, M]]

OCA at 07:00, 18 October 2018

2018-10-18T07:00:51Z

←Older revision		Revision as of 07:00, 18 October 2018
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/zz/2zz4_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zz/2zz4_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>
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 2zz4" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2zz4" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Uridine 5'-monophosphate synthase\|Uridine 5'-monophosphate synthase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:16, 5 August 2016

2016-08-05T13:16:27Z

←Older revision		Revision as of 13:16, 5 August 2016
Line 1:		Line 1:
		+
	==Covalent complex of orotidine monophosphate decarboxylase D75N mutant from M. thermoautotrophicum with 6-cyano-UMP==		==Covalent complex of orotidine monophosphate decarboxylase D75N mutant from M. thermoautotrophicum with 6-cyano-UMP==
	<StructureSection load='2zz4' size='340' side='right' caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>		<StructureSection load='2zz4' size='340' side='right' caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [http://www.ebi.ac.uk/pdbsum/2zz4 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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [http://pdbe.org/2zz4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [http://www.ebi.ac.uk/pdbsum/2zz4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zz4 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=2zz4 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 2zz4" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Orotidine-5'-phosphate decarboxylase]]		[[Category: Orotidine-5'-phosphate decarboxylase]]
	[[Category: Fujihashi, M]]		[[Category: Fujihashi, M]]

OCA at 19:08, 25 December 2014

2014-12-25T19:08:13Z

←Older revision		Revision as of 19:08, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [http://www.ebi.ac.uk/pdbsum/2zz4 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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [http://www.ebi.ac.uk/pdbsum/2zz4 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PYRF_METTH PYRF_METTH]] Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).[HAMAP-Rule:MF_01200_A]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Orotidine-5'-phosphate decarboxylase]]		[[Category: Orotidine-5'-phosphate decarboxylase]]
-	[[Category: Fujihashi, M.]]	+	[[Category: Fujihashi, M]]
-	[[Category: Pai, E F.]]	+	[[Category: Pai, E F]]
	[[Category: Decarboxylase]]		[[Category: Decarboxylase]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 04:52, 2 October 2014

2014-10-02T04:52:19Z

←Older revision		Revision as of 04:52, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2zz4.~~png~~\|~~left~~\|200px]]	+	==Covalent complex of orotidine monophosphate decarboxylase D75N mutant from M. thermoautotrophicum with 6-cyano-UMP==
		+	<StructureSection load='2zz4' size='340' side='right' caption='[[2zz4]], [[Resolution\|resolution]] 1.67Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZZ4 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6CN:6-CYANOURIDINE+5-PHOSPHATE'>6CN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2e6y\|2e6y]], [[1x1z\|1x1z]], [[1lp6\|1lp6]], [[1los\|1los]], [[1lor\|1lor]], [[1dv7\|1dv7]], [[2zz1\|2zz1]], [[2zz2\|2zz2]], [[2zz3\|2zz3]], [[2zz5\|2zz5]], [[2zz6\|2zz6]], [[2zz7\|2zz7]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Orotidine-5'-phosphate_decarboxylase Orotidine-5'-phosphate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.23 4.1.1.23] </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=2zz4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zz4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zz4 RCSB], [http://www.ebi.ac.uk/pdbsum/2zz4 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/zz/2zz4_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 ==
		+	Crystal structures of substrate-product complexes of Methanobacterium thermoautotrophicum orotidine 5'-monophosphate decarboxylase, obtained at various steps in its catalysis of the unusual transformation of 6-cyano-uridine 5'-monophosphate (UMP) into barbituric acid ribosyl monophosphate, show that the cyano substituent of the substrate, when bound to the active site, is first bent significantly from the plane of the pyrimidine ring and then replaced by an oxygen atom. Although the K72A and D70A/K72A mutants are either catalytically impaired or even completely inactive, they still display bending of the C6 substituent. Interestingly, high-resolution structures of the D70A and D75N mutants revealed a covalent bond between C6 of UMP and the Lys72 side chain after the -CN moiety's release. The same covalent bond was observed when the native enzyme was incubated with 6-azido-UMP and 6-iodo-UMP; in contrast, the K72A mutant transformed 6-iodo-UMP to barbituric acid ribosyl 5'-monophosphate. These results demonstrate that, given a suitable environment, native orotidine 5'-monophosphate decarboxylase and several of its mutants are not restricted to the physiologically relevant decarboxylation; they are able to catalyze even nucleophilic substitution reactions but consistently maintain distortion on the C6 substituent as an important feature of catalysis.

-	~~{{STRUCTURE_2zz4\| PDB=2zz4 \| SCENE= }}~~	+	Structural characterization of the molecular events during a slow substrate-product transition in orotidine 5'-monophosphate decarboxylase.,Fujihashi M, Wei L, Kotra LP, Pai EF J Mol Biol. 2009 Apr 17;387(5):1199-210. Epub 2009 Feb 21. PMID:19236876<ref>PMID:19236876</ref>

-	~~===Covalent complex~~ of ~~orotidine monophosphate decarboxylase D75N mutant from M~~. ~~thermoautotrophicum with 6-cyano-UMP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19236876}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2zz4]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019236876<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Orotidine-5'-phosphate decarboxylase]]		[[Category: Orotidine-5'-phosphate decarboxylase]]

OCA: Protected "2zz4" [edit=sysop:move=sysop]

2013-01-07T17:54:33Z

Protected "2zz4" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:54, 7 January 2013

OCA at 17:54, 7 January 2013

2013-01-07T17:54:30Z

←Older revision		Revision as of 17:54, 7 January 2013
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-	{{Seed}}
	[[Image:2zz4.png\|left\|200px]]		[[Image:2zz4.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zz4", 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_2zz4\| PDB=2zz4 \| SCENE= }}		{{STRUCTURE_2zz4\| PDB=2zz4 \| SCENE= }}

	===Covalent complex of orotidine monophosphate decarboxylase D75N mutant from M. thermoautotrophicum with 6-cyano-UMP===		===Covalent complex of orotidine monophosphate decarboxylase D75N mutant from M. thermoautotrophicum with 6-cyano-UMP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19236876}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19236876 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19236876}}		{{ABSTRACT_PUBMED_19236876}}

	==About this Structure==		==About this Structure==
-	~~2ZZ4~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA].	+	[[2zz4]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZZ4 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19236876~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019236876</ref><references group="xtra"/>
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Orotidine-5'-phosphate decarboxylase]]		[[Category: Orotidine-5'-phosphate decarboxylase]]
Line 34:		Line 22:
	[[Category: Ompdcase]]		[[Category: Ompdcase]]
	[[Category: Pyrimidine biosynthesis]]		[[Category: Pyrimidine biosynthesis]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 16 08:24:18 2009''

OCA at 05:24, 16 September 2009

2009-09-16T05:24:19Z

←Older revision		Revision as of 05:24, 16 September 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:2zz4.~~jpg~~\|left\|200px]]	+	[[Image:2zz4.png\|left\|200px]]

	<!--		<!--
Line 35:		Line 35:
	[[Category: Pyrimidine biosynthesis]]		[[Category: Pyrimidine biosynthesis]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 25 12~~:21:28 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 16 08:24:18 2009''