6cxx - Revision history

OCA at 15:13, 4 October 2023

OCA — Wed, 04 Oct 2023 15:13:34 GMT

←Older revision		Revision as of 15:13, 4 October 2023
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	<StructureSection load='6cxx' size='340' side='right'caption='[[6cxx]], [[Resolution\|resolution]] 1.26Å' scene=''>		<StructureSection load='6cxx' size='340' side='right'caption='[[6cxx]], [[Resolution\|resolution]] 1.26Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cxx]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Equus_caballus Equus caballus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6CXX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cxx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Equus_caballus Equus caballus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6CXX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COD:DEPHOSPHO+COENZYME+A'>COD</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.26Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ye3\|1ye3]], [[5vkr\|5vkr]], [[1qkh\|1qkh]], [[1ju9\|1ju9]], [[6cy3\|6cy3]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=COD:DEPHOSPHO+COENZYME+A'>COD</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alcohol_dehydrogenase Alcohol dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.1 1.1.1.1] </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=6cxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxx OCA], [https://pdbe.org/6cxx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6cxx RCSB], [https://www.ebi.ac.uk/pdbsum/6cxx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxx 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=6cxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxx OCA], [~~http~~://pdbe.org/6cxx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6cxx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6cxx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxx ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ADH1E_HORSE ADH1E_HORSE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Alcohol dehydrogenase]]
	[[Category: Equus caballus]]		[[Category: Equus caballus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Plapp~~, B V]]~~	+	[[Category: Plapp BV]]
-	~~[[Category: Nad-dependent horse liver alcohol dehydrogenase e267h mutant 3'-dephosphocoenzyme some]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 09:53, 18 December 2019

OCA — Wed, 18 Dec 2019 09:53:15 GMT

←Older revision		Revision as of 09:53, 18 December 2019
Line 1:		Line 1:

	==Horse liver E267H alcohol dehydrogenase complex with 3'-dephosphocoenzyme A==		==Horse liver E267H alcohol dehydrogenase complex with 3'-dephosphocoenzyme A==
-	<StructureSection load='6cxx' size='340' side='right' caption='[[6cxx]], [[Resolution\|resolution]] 1.26Å' scene=''>	+	<StructureSection load='6cxx' size='340' side='right'caption='[[6cxx]], [[Resolution\|resolution]] 1.26Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6cxx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Equus_caballus Equus caballus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXX FirstGlance]. <br>		<table><tr><td colspan='2'>[[6cxx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Equus_caballus Equus caballus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXX FirstGlance]. <br>
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 6cxx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6cxx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Alcohol dehydrogenase 3D structures\|Alcohol dehydrogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 27:
	[[Category: Alcohol dehydrogenase]]		[[Category: Alcohol dehydrogenase]]
	[[Category: Equus caballus]]		[[Category: Equus caballus]]
		+	[[Category: Large Structures]]
	[[Category: Plapp, B V]]		[[Category: Plapp, B V]]
	[[Category: Nad-dependent horse liver alcohol dehydrogenase e267h mutant 3'-dephosphocoenzyme some]]		[[Category: Nad-dependent horse liver alcohol dehydrogenase e267h mutant 3'-dephosphocoenzyme some]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 19:08, 1 August 2018

OCA — Wed, 01 Aug 2018 19:08:35 GMT

←Older revision		Revision as of 19:08, 1 August 2018
Line 3:		Line 3:
	<StructureSection load='6cxx' size='340' side='right' caption='[[6cxx]], [[Resolution\|resolution]] 1.26Å' scene=''>		<StructureSection load='6cxx' size='340' side='right' caption='[[6cxx]], [[Resolution\|resolution]] 1.26Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cxx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cxx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Equus_caballus Equus caballus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COD:DEPHOSPHO+COENZYME+A'>COD</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COD:DEPHOSPHO+COENZYME+A'>COD</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ye3\|1ye3]], [[5vkr\|5vkr]], [[1qkh\|1qkh]], [[1ju9\|1ju9]], [[6cy3\|6cy3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ye3\|1ye3]], [[5vkr\|5vkr]], [[1qkh\|1qkh]], [[1ju9\|1ju9]], [[6cy3\|6cy3]]</td></tr>
Line 9:		Line 9:
	<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=6cxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxx OCA], [http://pdbe.org/6cxx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cxx RCSB], [http://www.ebi.ac.uk/pdbsum/6cxx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxx 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=6cxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxx OCA], [http://pdbe.org/6cxx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cxx RCSB], [http://www.ebi.ac.uk/pdbsum/6cxx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxx ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Glu-267 is highly conserved in alcohol dehydrogenases and buried as a negatively-charged residue in a loop of the NAD coenzyme binding domain. Glu-267 might have a structural role and contribute to a rate-promoting vibration that facilitates catalysis. Substitutions of Glu-267 with histidine or asparagine residues increase the dissociation constants for the coenzymes (NAD(+) by approximately 40-fold, NADH by approximately 200-fold) and significantly decrease catalytic efficiencies by 16-1200-fold various substrates and substituted enzymes. The turnover numbers modestly change with the substitutions, but hydride transfer is at least partially rate-limiting for turnover for alcohol oxidation. X-ray structures of the E267H and E267N enzymes are similar to the apoenzyme (open) conformation of the wild-type enzyme, and the substitutions are accommodated by local changes in the structure. Surprisingly, the E267H and E267N enzymes have endogenous (from the expression in E. coli) 3'-dephosphocoenzyme A bound in the active site with the ADP moiety in the NAD binding site and the pantethiene sulfhydryl bound to the catalytic zinc. The kinetics and crystallography show that the substitutions of Glu-267 hinder the conformational change, which occurs when wild-type enzyme binds coenzymes, and affect productive binding of substrates.
		+
		+	Substitutions of a buried glutamate residue hinder the conformational change in horse liver alcohol dehydrogenase and yield a surprising complex with endogenous 3'-Dephosphocoenzyme A.,Kim YH, Gogerty DS, Plapp BV Arch Biochem Biophys. 2018 Jul 7;653:97-106. doi: 10.1016/j.abb.2018.07.003. PMID:30018019<ref>PMID:30018019</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6cxx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Alcohol dehydrogenase]]		[[Category: Alcohol dehydrogenase]]
		+	[[Category: Equus caballus]]
	[[Category: Plapp, B V]]		[[Category: Plapp, B V]]
	[[Category: Nad-dependent horse liver alcohol dehydrogenase e267h mutant 3'-dephosphocoenzyme some]]		[[Category: Nad-dependent horse liver alcohol dehydrogenase e267h mutant 3'-dephosphocoenzyme some]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 05:35, 25 April 2018

OCA — Wed, 25 Apr 2018 05:35:38 GMT

←Older revision		Revision as of 05:35, 25 April 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6cxx ~~is ON HOLD~~	+	==Horse liver E267H alcohol dehydrogenase complex with 3'-dephosphocoenzyme A==
-		+	<StructureSection load='6cxx' size='340' side='right' caption='[[6cxx]], [[Resolution\|resolution]] 1.26Å' scene=''>
-	~~Authors~~: ~~Plapp, B~~.V.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6cxx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CXX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CXX FirstGlance]. <br>
-	~~Description~~: ~~Horse liver E267H alcohol~~ dehydrogenase ~~complex~~ with 3'-~~dephosphocoenzyme A~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COD:DEPHOSPHO+COENZYME+A'>COD</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ye3\|1ye3]], [[5vkr\|5vkr]], [[1qkh\|1qkh]], [[1ju9\|1ju9]], [[6cy3\|6cy3]]</td></tr>
-	[[Category: Plapp, B.V]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alcohol_dehydrogenase Alcohol dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.1 1.1.1.1] </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=6cxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cxx OCA], [http://pdbe.org/6cxx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cxx RCSB], [http://www.ebi.ac.uk/pdbsum/6cxx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cxx ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Alcohol dehydrogenase]]
		+	[[Category: Plapp, B V]]
		+	[[Category: Nad-dependent horse liver alcohol dehydrogenase e267h mutant 3'-dephosphocoenzyme some]]
		+	[[Category: Oxidoreductase]]

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

OCA — Wed, 11 Apr 2018 12:33:36 GMT

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

←Older revision

Revision as of 12:33, 11 April 2018

OCA: New page: '''Unreleased structure''' The entry 6cxx is ON HOLD Authors: Plapp, B.V. Description: Horse liver E267H alcohol dehydrogenase complex with 3'-dephosphocoenzyme A [[Category: Unrelease...

OCA — Wed, 11 Apr 2018 12:33:34 GMT

New page: '''Unreleased structure''' The entry 6cxx is ON HOLD Authors: Plapp, B.V. Description: Horse liver E267H alcohol dehydrogenase complex with 3'-dephosphocoenzyme A [[Category: Unrelease...

New page

'''Unreleased structure'''

The entry 6cxx is ON HOLD

Authors: Plapp, B.V.

Description: Horse liver E267H alcohol dehydrogenase complex with 3'-dephosphocoenzyme A
[[Category: Unreleased Structures]]
[[Category: Plapp, B.V]]