4hgo - Revision history

OCA at 15:05, 20 September 2023

2023-09-20T15:05:22Z

←Older revision		Revision as of 15:05, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron_VPI-5482 Bacteroides thetaiotaomicron VPI-5482]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HGO FirstGlance]. <br>		<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron_VPI-5482 Bacteroides thetaiotaomicron VPI-5482]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HGO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</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]] 2.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene></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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [https://pdbe.org/4hgo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [https://www.ebi.ac.uk/pdbsum/4hgo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hgo 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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [https://pdbe.org/4hgo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [https://www.ebi.ac.uk/pdbsum/4hgo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hgo ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:15, 3 November 2022

2022-11-03T08:15:40Z

←Older revision		Revision as of 08:15, 3 November 2022
Line 1:		Line 1:

	==2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic==		==2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic==
-	<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='4hgo' size='340' side='right'caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bactn Bactn~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4HGO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron_VPI-5482 Bacteroides thetaiotaomicron VPI-5482]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HGO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [https://pdbe.org/4hgo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [https://www.ebi.ac.uk/pdbsum/4hgo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hgo ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BT_1713 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=226186 BACTN])~~</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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [~~http~~://pdbe.org/4hgo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4hgo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4hgo ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/KDGGP_BACTN KDGGP_BACTN] Involved in the biosynthesis of 2-keto-3-deoxy-D-glycero-D-galacto-nononic acid used in cell-wall polysaccharides (PubMed:18804026). Catalyzes the hydrolysis of 2-keto-3-deoxy-D-glycero-D-galacto-9-phosphonononic acid (KDN-9-P) to yield 2-keto-3-deoxy-D-glycero-D-galacto-nononic acid (KDN) (PubMed:18804026, PubMed:18986982, PubMed:23848398). Also able to hydrolyze N-acetylneuraminate-9-phosphate (Neu5NAc-9-P), 2-keto-3-deoxy-D-manno-octulosonate-8-phosphate (KDO-8-P), phosphoenolpyruvate (PEP), gluconate 6-phosphate, tyrosine phosphate ester and glucose-6-P as substrate (PubMed:18804026, PubMed:18986982, PubMed:23848398).<ref>PMID:18804026</ref> <ref>PMID:18986982</ref> <ref>PMID:23848398</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bactn~~]]	+	[[Category: Bacteroides thetaiotaomicron VPI-5482]]
-	[[Category: ~~Allen, K N~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Daughtry, K D~~]]	+	[[Category: Allen KN]]
-	[[Category: ~~Hydrolase]]~~	+	[[Category: Daughtry KD]]
-	~~[[Category: Phosphohydroylase]]~~	+
-	~~[[Category: Rossmann fold]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 11:09, 11 August 2016

2016-08-11T11:09:07Z

←Older revision		Revision as of 11:09, 11 August 2016
Line 1:		Line 1:
		+
	==2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic==		==2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic==
	<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BT_1713 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=226186 BACTN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BT_1713 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=226186 BACTN])</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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [http://www.ebi.ac.uk/pdbsum/4hgo 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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [http://pdbe.org/4hgo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [http://www.ebi.ac.uk/pdbsum/4hgo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hgo ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	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 4hgo" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 09:13, 25 January 2015

2015-01-25T09:13:43Z

←Older revision		Revision as of 09:13, 25 January 2015
Line 2:		Line 2:
	<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HGO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bactn Bactn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HGO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BT_1713 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=226186 BACTN])</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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [http://www.ebi.ac.uk/pdbsum/4hgo 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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [http://www.ebi.ac.uk/pdbsum/4hgo PDBsum]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bactn]]
	[[Category: Allen, K N]]		[[Category: Allen, K N]]
	[[Category: Daughtry, K D]]		[[Category: Daughtry, K D]]

OCA at 07:35, 12 November 2014

2014-11-12T07:35:24Z

←Older revision		Revision as of 07:35, 12 November 2014
Line 2:		Line 2:
	<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron_vpi-5482 Bacteroides thetaiotaomicron vpi-5482]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HGO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HGO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BT_1713 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=226186 Bacteroides thetaiotaomicron VPI-5482])</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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [http://www.ebi.ac.uk/pdbsum/4hgo 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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [http://www.ebi.ac.uk/pdbsum/4hgo PDBsum]</span></td></tr>
	</table>		</table>
Line 20:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	~~[[Category: Bacteroides thetaiotaomicron vpi-5482]]~~	+	[[Category: Allen, K N]]
-	[[Category: Allen, K N.]]	+	[[Category: Daughtry, K D]]
-	[[Category: Daughtry, K D.]]	+
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Phosphohydroylase]]		[[Category: Phosphohydroylase]]
	[[Category: Rossmann fold]]		[[Category: Rossmann fold]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 13:57, 3 November 2014

2014-11-03T13:57:43Z

←Older revision		Revision as of 13:57, 3 November 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4hgo\| PDB=4hgo \| SCENE= }}~~	+	==2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic==
-	===2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic===	+	<StructureSection load='4hgo' size='340' side='right' caption='[[4hgo]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23848398}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4hgo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron_vpi-5482 Bacteroides thetaiotaomicron vpi-5482]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HGO FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KDN:3-DEOXY-D-GLYCERO-BETA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>KDN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=VN4:OXIDO(DIOXO)VANADIUM'>VN4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e8m\|3e8m]], [[4hgn\|4hgn]], [[4hgp\|4hgp]], [[4hgq\|4hgq]], [[4hgr\|4hgr]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BT_1713 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=226186 Bacteroides thetaiotaomicron VPI-5482])</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=4hgo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hgo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hgo RCSB], [http://www.ebi.ac.uk/pdbsum/4hgo PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The haloacid dehalogenase enzyme superfamily (HADSF) is largely composed of phosphatases that have been particularly successful at adaptating to novel biological functions relative to members of other phosphatase families. Herein, we examine the structural basis for the divergence of function in two bacterial homologues: 2-keto-3-deoxy-d-manno-octulosonate 8-phosphate phosphohydrolase (KDO8P phosphatase, KDO8PP) and 2-keto-3-deoxy-9-O-phosphonononic acid phosphohydrolase (KDN9P phosphatase, KDN9PP). KDO8PP and KDN9PP catalyze the final step in KDO and KDN synthesis, respectively, prior to transfer to CMP to form the activated sugar nucleotide. KDO8PP and KDN9PP orthologs derived from an evolutionarily diverse collection of bacterial species were subjected to steady-state kinetic analysis to determine their specificities toward catalyzed KDO8P and KDN9P hydrolysis. Although each enzyme was more active with its biological substrate, the degree of selectivity (as defined by the ratio of kcat/Km for KDO8P vs KDN9P) varied significantly. High-resolution X-ray structure determination of Haemophilus influenzae KDO8PP bound to KDO/VO3(-) and Bacteriodes thetaiotaomicron KDN9PP bound to KDN/VO3(-) revealed the substrate-binding residues. The structures of the KDO8PP and KDN9PP orthologs were also determined to reveal the differences in their active-site structures that underlie the variation in substrate preference. Bioinformatic analysis was carried out to define the sequence divergence among KDN9PP and KDO8PP orthologs. The KDN9PP orthologs were found to exist as single-domain proteins or fused with the pathway nucleotidyl transferases; the fusion of KDO8PP with the transferase is rare. The KDO8PP and KDN9PP orthologs share a stringently conserved Arg residue that forms a salt bridge with the substrate carboxylate group. The split of the KDN9PP lineage from the KDO8PP orthologs is easily tracked by the acquisition of a Glu/Lys pair that supports KDN9P binding. Moreover, independently evolved lineages of KDO8PP orthologs exist, and are separated by diffuse active-site sequence boundaries. We infer a high tolerance of the KDO8PP catalytic platform to amino acid replacements that in turn influence substrate specificity changes and thereby facilitate the divergence in biological function.

-	~~==About this Structure==~~	+	Structural Basis for the Divergence of Substrate Specificity and Biological Function within HAD Phosphatases in Lipopolysaccharide and Sialic Acid Biosynthesis.,Daughtry KD, Huang H, Malashkevich V, Patskovsky Y, Liu W, Ramagopal U, Sauder JM, Burley SK, Almo SC, Dunaway-Mariano D, Allen KN Biochemistry. 2013 Aug 13;52(32):5372-86. doi: 10.1021/bi400659k. Epub 2013 Jul, 29. PMID:23848398<ref>PMID:23848398</ref>
-	~~[[4hgo]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacteroides_thetaiotaomicron_vpi-5482 Bacteroides thetaiotaomicron vpi~~-~~5482]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4HGO OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023848398</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Bacteroides thetaiotaomicron vpi-5482]]		[[Category: Bacteroides thetaiotaomicron vpi-5482]]
	[[Category: Allen, K N.]]		[[Category: Allen, K N.]]
Line 13:		Line 25:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Phosphohydroylase]]		[[Category: Phosphohydroylase]]
-	[[Category: ~~Rossman~~ fold]]	+	[[Category: Rossmann fold]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 08:21, 21 August 2013

2013-08-21T08:21:01Z

←Older revision		Revision as of 08:21, 21 August 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4hgo\| PDB=4hgo \| SCENE= }}
		+	===2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic===
		+	{{ABSTRACT_PUBMED_23848398}}

-	~~The entry~~ 4hgo is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4hgo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron_vpi-5482 Bacteroides thetaiotaomicron vpi-5482]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HGO OCA].

-	~~Authors~~: ~~Daughtry~~, K.~~D., Allen~~, K.N.	+	==Reference==
-		+	<ref group="xtra">PMID:023848398</ref><references group="xtra"/><references/>
-	~~Description~~: ~~2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic~~	+	[[Category: Bacteroides thetaiotaomicron vpi-5482]]
		+	[[Category: Allen, K N.]]
		+	[[Category: Daughtry, K D.]]
		+	[[Category: Hydrolase]]
		+	[[Category: Phosphohydroylase]]
		+	[[Category: Rossman fold]]
		+	[[Category: Transferase]]

OCA at 20:43, 12 December 2012

2012-12-12T20:43:48Z

←Older revision		Revision as of 20:43, 12 December 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4hgo is ON HOLD	+	The entry 4hgo is ON HOLD until Paper Publication

	Authors: Daughtry, K.D., Allen, K.N.		Authors: Daughtry, K.D., Allen, K.N.

	Description: 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic		Description: 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic

OCA: Protected "4hgo" [edit=sysop:move=sysop]

2012-10-17T06:37:05Z

Protected "4hgo" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:37, 17 October 2012

OCA: New page: '''Unreleased structure''' The entry 4hgo is ON HOLD Authors: Daughtry, K.D., Allen, K.N. Description: 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bact...

2012-10-17T06:37:04Z

New page: '''Unreleased structure''' The entry 4hgo is ON HOLD Authors: Daughtry, K.D., Allen, K.N. Description: 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bact...

New page

'''Unreleased structure'''

The entry 4hgo is ON HOLD

Authors: Daughtry, K.D., Allen, K.N.

Description: 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphohydrolase from Bacteroides thetaiotaomicron in complex with transition state mimic