4x2p - Revision history

OCA at 21:07, 12 April 2023

OCA — Wed, 12 Apr 2023 21:07:56 GMT

←Older revision		Revision as of 21:07, 12 April 2023
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	==P. putida mandelate racemase in complex with 3-hydroxypyruvate==		==P. putida mandelate racemase in complex with 3-hydroxypyruvate==
-	<StructureSection load='4x2p' size='340' side='right' caption='[[4x2p]], [[Resolution\|resolution]] 1.65Å' scene=''>	+	<StructureSection load='4x2p' size='340' side='right'caption='[[4x2p]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4x2p]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X2P OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4X2P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4x2p]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X2P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4X2P FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3PY:3-HYDROXYPYRUVIC+ACID'>3PY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3PY:3-HYDROXYPYRUVIC+ACID'>3PY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mdlA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</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=4x2p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x2p OCA], [https://pdbe.org/4x2p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4x2p RCSB], [https://www.ebi.ac.uk/pdbsum/4x2p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4x2p ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mandelate_racemase Mandelate racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.2.2 5.1.2.2] </span></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4x2p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x2p OCA], [~~http~~://pdbe.org/4x2p PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4x2p RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4x2p PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4x2p ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MANR_PSEPU MANR_PSEPU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4x2p" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4x2p" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Mandelate racemase\|Mandelate racemase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus fluorescens putidus flugge 1886~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Mandelate racemase~~]]	+	[[Category: Pseudomonas putida]]
-	[[Category: ~~St Maurice,~~ M]]	+	[[Category: StMaurice M]]
-	[[Category: Wyatt~~, B N]]~~	+	[[Category: Wyatt BN]]
-	~~[[Category: Enolase superfamily]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Racemase~~]]	+

OCA at 07:29, 6 December 2017

OCA — Wed, 06 Dec 2017 07:29:58 GMT

←Older revision		Revision as of 07:29, 6 December 2017
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		+
	==P. putida mandelate racemase in complex with 3-hydroxypyruvate==		==P. putida mandelate racemase in complex with 3-hydroxypyruvate==
	<StructureSection load='4x2p' size='340' side='right' caption='[[4x2p]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='4x2p' size='340' side='right' caption='[[4x2p]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4x2p]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X2P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X2P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4x2p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X2P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X2P FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3PY:3-HYDROXYPYRUVIC+ACID'>3PY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3PY:3-HYDROXYPYRUVIC+ACID'>3PY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mdlA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mandelate_racemase Mandelate racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.2.2 5.1.2.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mandelate_racemase Mandelate racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.2.2 5.1.2.2] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4x2p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x2p OCA], [http://pdbe.org/4x2p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4x2p RCSB], [http://www.ebi.ac.uk/pdbsum/4x2p 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=4x2p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x2p OCA], [http://pdbe.org/4x2p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4x2p RCSB], [http://www.ebi.ac.uk/pdbsum/4x2p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4x2p ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Mandelate racemase]]		[[Category: Mandelate racemase]]
	[[Category: St Maurice, M]]		[[Category: St Maurice, M]]

OCA at 03:50, 16 October 2015

OCA — Fri, 16 Oct 2015 03:50:21 GMT

←Older revision		Revision as of 03:50, 16 October 2015
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-	'''~~Unreleased~~ structure'''	+	==P. putida mandelate racemase in complex with 3-hydroxypyruvate==
		+	<StructureSection load='4x2p' size='340' side='right' caption='[[4x2p]], [[Resolution\|resolution]] 1.65Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4x2p]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X2P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X2P FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3PY:3-HYDROXYPYRUVIC+ACID'>3PY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mandelate_racemase Mandelate racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.2.2 5.1.2.2] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4x2p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x2p OCA], [http://pdbe.org/4x2p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4x2p RCSB], [http://www.ebi.ac.uk/pdbsum/4x2p PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mandelate racemase (MR), a member of the enolase superfamily, catalyzes the Mg(2+)-dependent interconversion of the enantiomers of mandelate. Several alpha-keto acids are modest competitive inhibitors of MR [e.g., mesoxalate (Ki = 1.8 +/- 0.3 mM) and 3-fluoropyruvate (Ki = 1.3 +/- 0.1 mM)], but, surprisingly, 3-hydroxypyruvate (3-HP) is an irreversible, time-dependent inhibitor (kinact/KI = 83 +/- 8 M(-1) s(-1)). Protection from inactivation by the competitive inhibitor benzohydroxamate, trypsinolysis and electrospray ionization tandem mass spectrometry analyses, and X-ray crystallographic studies reveal that 3-HP undergoes Schiff-base formation with Lys 166 at the active site, followed by formation of an aldehyde/enol(ate) adduct. Such a reaction is unprecedented in the enolase superfamily and may be a relic of an activity possessed by a promiscuous progenitor enzyme. The ability of MR to form and deprotonate a Schiff-base intermediate furnishes a previously unrecognized mechanistic link to other alpha/beta-barrel enzymes utilizing Schiff-base chemistry and is in accord with the sequence- and structure-based hypothesis that members of the metal-dependent enolase superfamily and the Schiff-base-forming N-acetylneuraminate lyase superfamily and aldolases share a common ancestor.

-	~~The entry 4x2p is ON HOLD until Paper Publication~~	+	Inactivation of Mandelate Racemase by 3-Hydroxypyruvate Reveals a Potential Mechanistic Link between Enzyme Superfamilies.,Nagar M, Wyatt BN, St Maurice M, Bearne SL Biochemistry. 2015 May 5;54(17):2747-57. doi: 10.1021/acs.biochem.5b00221. Epub, 2015 Apr 20. PMID:25844917<ref>PMID:25844917</ref>

-	~~Authors: Wyatt~~, B.N.~~, St. Maurice, M~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~P. putida mandelate~~ racemase ~~in complex with 3-hydroxypyruvate~~	+	<div class="pdbe-citations 4x2p" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Wyatt, B.N]]	+	<references/>
-	[[Category: ~~St. Maurice, M~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Mandelate racemase]]
		+	[[Category: St Maurice, M]]
		+	[[Category: Wyatt, B N]]
		+	[[Category: Enolase superfamily]]
		+	[[Category: Isomerase]]
		+	[[Category: Racemase]]

OCA at 11:01, 18 February 2015

OCA — Wed, 18 Feb 2015 11:01:08 GMT

←Older revision		Revision as of 11:01, 18 February 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4x2p is ON HOLD	+	The entry 4x2p is ON HOLD until Paper Publication

	Authors: Wyatt, B.N., St. Maurice, M.		Authors: Wyatt, B.N., St. Maurice, M.

OCA at 20:22, 24 December 2014

OCA — Wed, 24 Dec 2014 20:22:33 GMT

←Older revision		Revision as of 20:22, 24 December 2014
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	Description: P. putida mandelate racemase in complex with 3-hydroxypyruvate		Description: P. putida mandelate racemase in complex with 3-hydroxypyruvate
		+	[[Category: Unreleased Structures]]
		+	[[Category: Wyatt, B.N]]
		+	[[Category: St. Maurice, M]]

OCA at 09:57, 24 December 2014

OCA — Wed, 24 Dec 2014 09:57:55 GMT

←Older revision		Revision as of 09:57, 24 December 2014
Line 3:		Line 3:
	The entry 4x2p is ON HOLD		The entry 4x2p is ON HOLD

-	Authors: Wyatt, B.N., St Maurice, M.	+	Authors: Wyatt, B.N., St. Maurice, M.

	Description: P. putida mandelate racemase in complex with 3-hydroxypyruvate		Description: P. putida mandelate racemase in complex with 3-hydroxypyruvate

OCA: Protected "4x2p" [edit=sysop:move=sysop]

OCA — Wed, 03 Dec 2014 08:47:16 GMT

Protected "4x2p" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:47, 3 December 2014

OCA: New page: '''Unreleased structure''' The entry 4x2p is ON HOLD Authors: Wyatt, B.N., St Maurice, M. Description: P. putida mandelate racemase in complex with 3-hydroxypyruvate

OCA — Wed, 03 Dec 2014 08:47:15 GMT

New page: '''Unreleased structure''' The entry 4x2p is ON HOLD Authors: Wyatt, B.N., St Maurice, M. Description: P. putida mandelate racemase in complex with 3-hydroxypyruvate

New page

'''Unreleased structure'''

The entry 4x2p is ON HOLD

Authors: Wyatt, B.N., St Maurice, M.

Description: P. putida mandelate racemase in complex with 3-hydroxypyruvate