6a11 - Revision history

OCA at 09:12, 22 November 2023

OCA — Wed, 22 Nov 2023 09:12:53 GMT

←Older revision		Revision as of 09:12, 22 November 2023
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	<StructureSection load='6a11' size='340' side='right'caption='[[6a11]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='6a11' size='340' side='right'caption='[[6a11]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6a11]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"streptomyces_orientalis"_pittenger_and_brigham_1956 "streptomyces~~ orientalis~~" pittenger and brigham 1956~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A11 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6A11 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6a11]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Amycolatopsis_orientalis Amycolatopsis orientalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A11 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6A11 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene~~>, ~~<scene name='pdbligand=PPY:3-PHENYLPYRUVIC+ACID'>PPY</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]] 1.45Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>hmo ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~31958~~ "~~Streptomyces orientalis~~" ~~Pittenger and Brigham 1956])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=PPY:3-PHENYLPYRUVIC+ACID'>PPY</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/4-hydroxymandelate_oxidase 4-hydroxymandelate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.3.46 1.1.3.46]~~ </~~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=6a11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a11 OCA], [https://pdbe.org/6a11 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6a11 RCSB], [https://www.ebi.ac.uk/pdbsum/6a11 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6a11 ProSAT]</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=6a11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a11 OCA], [~~http~~://pdbe.org/6a11 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6a11 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6a11 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6a11 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/HMO_AMYOR HMO_AMYOR]] Catalyzes the oxidation of p-hydroxymandelate to p-hydroxybenzoylformate in the biosynthesis of L-(4-hydroxyphenyl)glycine and L-(3,5-dihydroxyphenyl)glycine, 2 non-proteinogenic amino acids occurring in the vancomycin group of antibiotics.<ref>PMID:11137816</ref> <ref>PMID:12240298</ref>	+	[https://www.uniprot.org/uniprot/HMO_AMYOR HMO_AMYOR] Catalyzes the oxidation of p-hydroxymandelate to p-hydroxybenzoylformate in the biosynthesis of L-(4-hydroxyphenyl)glycine and L-(3,5-dihydroxyphenyl)glycine, 2 non-proteinogenic amino acids occurring in the vancomycin group of antibiotics.<ref>PMID:11137816</ref> <ref>PMID:12240298</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: ~~Streptomyces~~ orientalis ~~pittenger and brigham 1956]]~~	+	[[Category: Amycolatopsis orientalis]]
-	~~[[Category: 4-hydroxymandelate oxidase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Li~~, T L~~]]	+	[[Category: Li TL]]
-	[[Category: Lin~~, K H]]~~	+	[[Category: Lin KH]]
-	~~[[Category: Flavoprotein]]~~	+
-	~~[[Category: Fmn-dependent oxidase~~]]	+

OCA at 17:15, 14 August 2019

OCA — Wed, 14 Aug 2019 17:15:56 GMT

←Older revision		Revision as of 17:15, 14 August 2019
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	<StructureSection load='6a11' size='340' side='right'caption='[[6a11]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='6a11' size='340' side='right'caption='[[6a11]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6a11]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A11 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6A11 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6a11]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"streptomyces_orientalis"_pittenger_and_brigham_1956 "streptomyces orientalis" pittenger and brigham 1956]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A11 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6A11 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=PPY:3-PHENYLPYRUVIC+ACID'>PPY</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=PPY:3-PHENYLPYRUVIC+ACID'>PPY</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hmo ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=31958 "Streptomyces orientalis" Pittenger and Brigham 1956])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/4-hydroxymandelate_oxidase 4-hydroxymandelate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.3.46 1.1.3.46] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/4-hydroxymandelate_oxidase 4-hydroxymandelate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.3.46 1.1.3.46] </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=6a11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a11 OCA], [http://pdbe.org/6a11 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6a11 RCSB], [http://www.ebi.ac.uk/pdbsum/6a11 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6a11 ProSAT]</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=6a11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a11 OCA], [http://pdbe.org/6a11 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6a11 RCSB], [http://www.ebi.ac.uk/pdbsum/6a11 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6a11 ProSAT]</span></td></tr>
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/HMO_AMYOR HMO_AMYOR]] Catalyzes the oxidation of p-hydroxymandelate to p-hydroxybenzoylformate in the biosynthesis of L-(4-hydroxyphenyl)glycine and L-(3,5-dihydroxyphenyl)glycine, 2 non-proteinogenic amino acids occurring in the vancomycin group of antibiotics.<ref>PMID:11137816</ref> <ref>PMID:12240298</ref>		[[http://www.uniprot.org/uniprot/HMO_AMYOR HMO_AMYOR]] Catalyzes the oxidation of p-hydroxymandelate to p-hydroxybenzoylformate in the biosynthesis of L-(4-hydroxyphenyl)glycine and L-(3,5-dihydroxyphenyl)glycine, 2 non-proteinogenic amino acids occurring in the vancomycin group of antibiotics.<ref>PMID:11137816</ref> <ref>PMID:12240298</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	p-Hydroxymandelate oxidase (Hmo) is a flavin mononucleotide (FMN)-dependent enzyme that oxidizes mandelate to benzoylformate. How the FMN-dependent oxidation is executed by Hmo remains unclear at the molecular level. A continuum of snapshots from crystal structures of Hmo and its mutants in complex with physiological/nonphysiological substrates, products and inhibitors provides a rationale for its substrate enantioselectivity/promiscuity, its active-site geometry/reactivity and its direct hydride-transfer mechanism. A single mutant, Y128F, that extends the two-electron oxidation reaction to a four-electron oxidative decarboxylation reaction was unexpectedly observed. Biochemical and structural approaches, including biochemistry, kinetics, stable isotope labeling and X-ray crystallography, were exploited to reach these conclusions and provide additional insights.
		+
		+	Biochemical and structural explorations of alpha-hydroxyacid oxidases reveal a four-electron oxidative decarboxylation reaction.,Yeh HW, Lin KH, Lyu SY, Li YS, Huang CM, Wang YL, Shih HW, Hsu NS, Wu CJ, Li TL Acta Crystallogr D Struct Biol. 2019 Aug 1;75(Pt 8):733-742. doi:, 10.1107/S2059798319009574. Epub 2019 Jul 30. PMID:31373572<ref>PMID:31373572</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6a11" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Streptomyces orientalis pittenger and brigham 1956]]
	[[Category: 4-hydroxymandelate oxidase]]		[[Category: 4-hydroxymandelate oxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 05:47, 19 June 2019

OCA — Wed, 19 Jun 2019 05:47:13 GMT

←Older revision		Revision as of 05:47, 19 June 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6a11 is ~~ON HOLD until Paper Publication~~	+	==Mandelate oxidase mutant-Y128F with phenylpyruvic acid==
-		+	<StructureSection load='6a11' size='340' side='right'caption='[[6a11]], [[Resolution\|resolution]] 1.45Å' scene=''>
-	~~Authors~~: Li, T.L., ~~Lin~~, K.H.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6a11]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A11 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6A11 FirstGlance]. <br>
-	~~Description~~: ~~Mandelate oxidase mutant~~-~~Y128F with phenylpyruvic acid~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=PPY:3-PHENYLPYRUVIC+ACID'>PPY</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/4-hydroxymandelate_oxidase 4-hydroxymandelate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.3.46 1.1.3.46] </span></td></tr>
-	[[Category: Li, T.L]]	+	<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=6a11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a11 OCA], [http://pdbe.org/6a11 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6a11 RCSB], [http://www.ebi.ac.uk/pdbsum/6a11 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6a11 ProSAT]</span></td></tr>
-	[[Category: Lin, K.H]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HMO_AMYOR HMO_AMYOR]] Catalyzes the oxidation of p-hydroxymandelate to p-hydroxybenzoylformate in the biosynthesis of L-(4-hydroxyphenyl)glycine and L-(3,5-dihydroxyphenyl)glycine, 2 non-proteinogenic amino acids occurring in the vancomycin group of antibiotics.<ref>PMID:11137816</ref> <ref>PMID:12240298</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 4-hydroxymandelate oxidase]]
		+	[[Category: Large Structures]]
		+	[[Category: Li, T L]]
		+	[[Category: Lin, K H]]
		+	[[Category: Flavoprotein]]
		+	[[Category: Fmn-dependent oxidase]]

OCA at 03:50, 27 June 2018

OCA — Wed, 27 Jun 2018 03:50:31 GMT

←Older revision		Revision as of 03:50, 27 June 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6a11 is ON HOLD	+	The entry 6a11 is ON HOLD until Paper Publication

	Authors: Li, T.L., Lin, K.H.		Authors: Li, T.L., Lin, K.H.

OCA: Protected "6a11" [edit=sysop:move=sysop]

OCA — Thu, 14 Jun 2018 05:29:17 GMT

Protected "6a11" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:29, 14 June 2018

OCA: New page: '''Unreleased structure''' The entry 6a11 is ON HOLD Authors: Li, T.L., Lin, K.H. Description: Mandelate oxidase mutant-Y128F with phenylpyruvic acid [[Category: Unreleased Structures]...

OCA — Thu, 14 Jun 2018 05:29:14 GMT

New page: '''Unreleased structure''' The entry 6a11 is ON HOLD Authors: Li, T.L., Lin, K.H. Description: Mandelate oxidase mutant-Y128F with phenylpyruvic acid [[Category: Unreleased Structures]...

New page

'''Unreleased structure'''

The entry 6a11 is ON HOLD

Authors: Li, T.L., Lin, K.H.

Description: Mandelate oxidase mutant-Y128F with phenylpyruvic acid
[[Category: Unreleased Structures]]
[[Category: Li, T.L]]
[[Category: Lin, K.H]]