2vvq - Revision history

OCA at 15:34, 13 December 2023

OCA — Wed, 13 Dec 2023 15:34:16 GMT

←Older revision		Revision as of 15:34, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='2vvq' size='340' side='right'caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='2vvq' size='340' side='right'caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Myctu Myctu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=R10:5~~-~~O-PHOSPHONO-D-RIBONIC+ACID'>R10</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]] 2Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6]~~ </~~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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [https://pdbe.org/2vvq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [https://www.ebi.ac.uk/pdbsum/2vvq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vvq 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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [https://pdbe.org/2vvq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [https://www.ebi.ac.uk/pdbsum/2vvq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vvq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RPIB_MYCTU RPIB_MYCTU]] Has isomerase activity towards D-ribose 5-phosphate, but not towards D-allose 6-phosphate.	+	[https://www.uniprot.org/uniprot/RPIB_MYCTU RPIB_MYCTU] Has isomerase activity towards D-ribose 5-phosphate, but not towards D-allose 6-phosphate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Myctu]]~~	+	[[Category: Mycobacterium tuberculosis H37Rv]]
-	~~[[Category: Ribose-5-phosphate isomerase~~]]	+	[[Category: Kowalinski E]]
-	[[Category: Kowalinski, E]]	+	[[Category: Mariano S]]
-	[[Category: Mariano, S]]	+	[[Category: Mowbray SL]]
-	[[Category: Mowbray~~, S L~~]]	+	[[Category: Roos AK]]
-	[[Category: Roos~~, A K~~]]	+	[[Category: Salmon L]]
-	[[Category: Salmon, L]]	+
-	~~[[Category: Carbohydrate metabolism]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Pentose phosphate pathway]]~~	+
-	~~[[Category: Rpib]]~~	+
-	~~[[Category: Rv2465c~~]]	+

OCA at 11:47, 30 March 2022

OCA — Wed, 30 Mar 2022 11:47:12 GMT

←Older revision		Revision as of 11:47, 30 March 2022
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	<StructureSection load='2vvq' size='340' side='right'caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='2vvq' size='340' side='right'caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</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=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</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">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [~~http~~://pdbe.org/2vvq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2vvq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2vvq 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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [https://pdbe.org/2vvq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [https://www.ebi.ac.uk/pdbsum/2vvq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vvq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RPIB_MYCTU RPIB_MYCTU]] Has isomerase activity towards D-ribose 5-phosphate, but not towards D-allose 6-phosphate.	+	[[https://www.uniprot.org/uniprot/RPIB_MYCTU RPIB_MYCTU]] Has isomerase activity towards D-ribose 5-phosphate, but not towards D-allose 6-phosphate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:35, 25 June 2020

OCA — Thu, 25 Jun 2020 08:35:06 GMT

←Older revision		Revision as of 08:35, 25 June 2020
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	==Crystal structure of Mycobacterium tuberculosis ribose-5-phosphate isomerase B in complex with the inhibitor 5-deoxy-5-phospho-D- ribonate==		==Crystal structure of Mycobacterium tuberculosis ribose-5-phosphate isomerase B in complex with the inhibitor 5-deoxy-5-phospho-D- ribonate==
-	<StructureSection load='2vvq' size='340' side='right' caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='2vvq' size='340' side='right'caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</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=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</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">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://pdbe.org/2vvq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vvq 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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://pdbe.org/2vvq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vvq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Ribose-5-phosphate isomerase\|Ribose-5-phosphate isomerase]]	+	*[[Ribose-5-phosphate isomerase 3D structures\|Ribose-5-phosphate isomerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Myctu]]		[[Category: Myctu]]
	[[Category: Ribose-5-phosphate isomerase]]		[[Category: Ribose-5-phosphate isomerase]]

OCA at 20:37, 19 September 2018

OCA — Wed, 19 Sep 2018 20:37:40 GMT

←Older revision		Revision as of 20:37, 19 September 2018
Line 1:		Line 1:
-	==~~CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS RIBOSE~~-5-~~PHOSPHATE ISOMERASE~~ B ~~IN COMPLEX WITH THE INHIBITOR~~ 5-~~DEOXY~~-5-~~PHOSPHO~~-D-~~RIBONATE~~==	+
		+	==Crystal structure of Mycobacterium tuberculosis ribose-5-phosphate isomerase B in complex with the inhibitor 5-deoxy-5-phospho-D- ribonate==
	<StructureSection load='2vvq' size='340' side='right' caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='2vvq' size='340' side='right' caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://pdbe.org/2vvq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq 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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://pdbe.org/2vvq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vvq 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/vv/2vvq_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vv/2vvq_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 06:18, 7 February 2016

OCA — Sun, 07 Feb 2016 06:18:38 GMT

←Older revision		Revision as of 06:18, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='2vvq' size='340' side='right' caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='2vvq' size='340' side='right' caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mycobacterium_tuberculosis Mycobacterium tuberculosis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctu Myctu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</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=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</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">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq 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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://pdbe.org/2vvq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	<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=2vvq ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 2vvq" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mycobacterium tuberculosis~~]]	+	[[Category: Myctu]]
	[[Category: Ribose-5-phosphate isomerase]]		[[Category: Ribose-5-phosphate isomerase]]
	[[Category: Kowalinski, E]]		[[Category: Kowalinski, E]]

OCA at 08:34, 24 December 2014

OCA — Wed, 24 Dec 2014 08:34:24 GMT

←Older revision		Revision as of 08:34, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</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=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq 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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RPIB_MYCTU RPIB_MYCTU]] Has isomerase activity towards D-ribose 5-phosphate, but not towards D-allose 6-phosphate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
	[[Category: Ribose-5-phosphate isomerase]]		[[Category: Ribose-5-phosphate isomerase]]
-	[[Category: Kowalinski, E.]]	+	[[Category: Kowalinski, E]]
-	[[Category: Mariano, S.]]	+	[[Category: Mariano, S]]
-	[[Category: Mowbray, S L.]]	+	[[Category: Mowbray, S L]]
-	[[Category: Roos, A K.]]	+	[[Category: Roos, A K]]
-	[[Category: Salmon, L.]]	+	[[Category: Salmon, L]]
	[[Category: Carbohydrate metabolism]]		[[Category: Carbohydrate metabolism]]
	[[Category: Isomerase]]		[[Category: Isomerase]]

OCA at 08:27, 29 September 2014

OCA — Mon, 29 Sep 2014 08:27:55 GMT

←Older revision		Revision as of 08:27, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2vvq.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS RIBOSE-5-PHOSPHATE ISOMERASE B IN COMPLEX WITH THE INHIBITOR 5-DEOXY-5-PHOSPHO-D-RIBONATE==
		+	<StructureSection load='2vvq' size='340' side='right' caption='[[2vvq]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VVQ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R10:5-O-PHOSPHONO-D-RIBONIC+ACID'>R10</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2bes\|2bes]], [[1usl\|1usl]], [[2bet\|2bet]], [[2vvo\|2vvo]], [[2vvp\|2vvp]], [[2vvr\|2vvr]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </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=2vvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vvq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vvq RCSB], [http://www.ebi.ac.uk/pdbsum/2vvq 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/vv/2vvq_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 ==
		+	Interconversion of D-ribose-5-phosphate (R5P) and D-ribulose-5-phosphate is an important step in the pentose phosphate pathway. Two unrelated enzymes with R5P isomerase activity were first identified in Escherichia coli, RpiA and RpiB. In this organism, the essential 5-carbon sugars were thought to be processed by RpiA, while the primary role of RpiB was suggested to instead be interconversion of the rare 6-carbon sugars D-allose-6-phosphate (All6P) and D-allulose-6-phosphate. In Mycobacterium tuberculosis, where only an RpiB is found, the 5-carbon sugars are believed to be the enzyme's primary substrates. Here, we present kinetic studies examining the All6P isomerase activity of the RpiBs from these two organisms and show that only the E. coli enzyme can catalyze the reaction efficiently. All6P instead acts as an inhibitor of the M. tuberculosis enzyme in its action on R5P. X-ray studies of the M. tuberculosis enzyme co-crystallized with All6P and 5-deoxy-5-phospho-D-ribonohydroxamate (an inhibitor designed to mimic the 6-carbon sugar) and comparison with the E. coli enzyme's structure allowed us to identify differences in the active sites that explain the kinetic results. Two other structures, that of a mutant E. coli RpiB in which histidine 99 was changed to asparagine and that of wild-type M. tuberculosis enzyme, both co-crystallized with the substrate ribose-5-phosphate, shed additional light on the reaction mechanism of RpiBs generally.

-	~~{{STRUCTURE_2vvq\| PDB=2vvq \| SCENE= }}~~	+	D-ribose-5-phosphate isomerase B from Escherichia coli is also a functional D-allose-6-phosphate isomerase, while the Mycobacterium tuberculosis enzyme is not.,Roos AK, Mariano S, Kowalinski E, Salmon L, Mowbray SL J Mol Biol. 2008 Oct 10;382(3):667-79. Epub 2008 Jul 9. PMID:18640127<ref>PMID:18640127</ref>

-	~~===CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS RIBOSE-5-PHOSPHATE ISOMERASE B IN COMPLEX WITH THE INHIBITOR 5-DEOXY-5-PHOSPHO-D-RIBONATE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18640127}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2vvq]] is~~ a ~~5 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA].~~	+

	==See Also==		==See Also==
	*[[Ribose-5-phosphate isomerase\|Ribose-5-phosphate isomerase]]		*[[Ribose-5-phosphate isomerase\|Ribose-5-phosphate isomerase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018640127<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
	[[Category: Ribose-5-phosphate isomerase]]		[[Category: Ribose-5-phosphate isomerase]]

OCA at 05:49, 20 October 2012

OCA — Sat, 20 Oct 2012 05:49:48 GMT

←Older revision		Revision as of 05:49, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2vvq]] is a 5 chain structure ~~of [[Ribose-5-phosphate isomerase]]~~ with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA].	+	[[2vvq]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA].

	==See Also==		==See Also==

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

OCA — Wed, 25 Jul 2012 11:15:48 GMT

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

←Older revision

Revision as of 11:15, 25 July 2012

OCA at 11:15, 25 July 2012

OCA — Wed, 25 Jul 2012 11:15:47 GMT

←Older revision		Revision as of 11:15, 25 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2vvq.png\|left\|200px]]		[[Image:2vvq.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2vvq", 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_2vvq\| PDB=2vvq \| SCENE= }}		{{STRUCTURE_2vvq\| PDB=2vvq \| SCENE= }}

	===CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS RIBOSE-5-PHOSPHATE ISOMERASE B IN COMPLEX WITH THE INHIBITOR 5-DEOXY-5-PHOSPHO-D-RIBONATE===		===CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS RIBOSE-5-PHOSPHATE ISOMERASE B IN COMPLEX WITH THE INHIBITOR 5-DEOXY-5-PHOSPHO-D-RIBONATE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18640127}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18640127 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18640127}}		{{ABSTRACT_PUBMED_18640127}}

	==About this Structure==		==About this Structure==
-	~~2VVQ~~ is a 5 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA].	+	[[2vvq]] is a 5 chain structure of [[Ribose-5-phosphate isomerase]] with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VVQ OCA].
		+
		+	==See Also==
		+	*[[Ribose-5-phosphate isomerase\|Ribose-5-phosphate isomerase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18640127~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018640127</ref><references group="xtra"/>
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
	[[Category: Ribose-5-phosphate isomerase]]		[[Category: Ribose-5-phosphate isomerase]]
Line 36:		Line 27:
	[[Category: Rpib]]		[[Category: Rpib]]
	[[Category: Rv2465c]]		[[Category: Rv2465c]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 11:54:33 2009''