5zci - Revision history

OCA at 08:51, 22 November 2023

OCA — Wed, 22 Nov 2023 08:51:35 GMT

←Older revision		Revision as of 08:51, 22 November 2023
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	==Crystal structure of apo form of Xylose reductase from Debaryomyces nepalensis==		==Crystal structure of apo form of Xylose reductase from Debaryomyces nepalensis==
-	<StructureSection load='5zci' size='340' side='right' caption='[[5zci]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5zci' size='340' side='right'caption='[[5zci]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zci]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_22463 Atcc 22463~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZCI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZCI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zci]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Debaryomyces_nepalensis Debaryomyces nepalensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZCI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZCI FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>AR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=27299 ATCC 22463])</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='activity'><td class~~="~~sblockLbl~~">~~<b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldehyde_reductase Aldehyde reductase]~~, ~~with EC number~~ [~~http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.21 1.1.1.21~~] ~~</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=5zci FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zci OCA], [https://pdbe.org/5zci PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zci RCSB], [https://www.ebi.ac.uk/pdbsum/5zci PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zci 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=5zci FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zci OCA], [~~http~~://pdbe.org/5zci PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zci RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zci PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zci ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0M4HL56_9ASCO A0A0M4HL56_9ASCO]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 5zci" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5zci" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Aldose reductase 3D structures\|Aldose reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aldehyde reductase~~]]	+	[[Category: Debaryomyces nepalensis]]
-	[[Category: ~~Atcc 22463~~]]	+	[[Category: Large Structures]]
-	[[Category: Manoj, N]]	+	[[Category: Manoj N]]
-	~~[[Category: Aldo-keto reductase]]~~	+
-	~~[[Category: Carbohydrate metabolism]]~~	+
-	~~[[Category: Nadph dependent]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Tim barrel~~]]	+

OCA at 08:47, 19 December 2018

OCA — Wed, 19 Dec 2018 08:47:00 GMT

←Older revision		Revision as of 08:47, 19 December 2018
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	<StructureSection load='5zci' size='340' side='right' caption='[[5zci]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5zci' size='340' side='right' caption='[[5zci]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zci]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZCI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZCI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zci]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_22463 Atcc 22463]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZCI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZCI FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldehyde_reductase Aldehyde reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.21 1.1.1.21] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=27299 ATCC 22463])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldehyde_reductase Aldehyde reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.21 1.1.1.21] </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=5zci FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zci OCA], [http://pdbe.org/5zci PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zci RCSB], [http://www.ebi.ac.uk/pdbsum/5zci PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zci 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=5zci FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zci OCA], [http://pdbe.org/5zci PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zci RCSB], [http://www.ebi.ac.uk/pdbsum/5zci PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zci ProSAT]</span></td></tr>
	</table>		</table>
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	</StructureSection>		</StructureSection>
	[[Category: Aldehyde reductase]]		[[Category: Aldehyde reductase]]
		+	[[Category: Atcc 22463]]
	[[Category: Manoj, N]]		[[Category: Manoj, N]]
	[[Category: Aldo-keto reductase]]		[[Category: Aldo-keto reductase]]

OCA at 12:09, 7 November 2018

OCA — Wed, 07 Nov 2018 12:09:38 GMT

←Older revision		Revision as of 12:09, 7 November 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zci is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of apo form of Xylose reductase from Debaryomyces nepalensis==
		+	<StructureSection load='5zci' size='340' side='right' caption='[[5zci]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5zci]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZCI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZCI FirstGlance]. <br>
		+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldehyde_reductase Aldehyde reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.21 1.1.1.21] </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=5zci FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zci OCA], [http://pdbe.org/5zci PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zci RCSB], [http://www.ebi.ac.uk/pdbsum/5zci PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zci ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Aldose reductases (ARs) belonging to the aldo-keto reductase (AKR) superfamily catalyze the conversion of carbonyl substrates into their respective alcohols. Here we report the crystal structures of the yeast Debaryomyces nepalensis xylose reductase (DnXR, AKR2B10) in the apo form and as a ternary complex with a novel NADP-DTT adduct. Xylose reductase, a key enzyme in the conversion of xylose to xylitol, has several industrial applications. The enzyme displayed the highest catalytic efficiency for l-threose (138 +/- 7 mm(-1) .s(-1) ) followed by d-erythrose (30 +/- 3 mm(-1) .s(-1) ). The crystal structure of the complex reveals a covalent linkage between the C4N atom of the nicotinamide ring of the cosubstrate and the S1 sulfur atom of DTT and provides the first structural evidence for a protein mediated NADP-low-molecular-mass thiol adduct. We hypothesize that the formation of the adduct is facilitated by an in-crystallo Michael addition of the DTT thiolate to the specific conformation of bound NADPH in the active site of DnXR. The interactions between DTT, a four-carbon sugar alcohol analog, and the enzyme are representative of a near-cognate product ternary complex and provide significant insights into the structural basis of aldose binding and specificity and the catalytic mechanism of ARs. DATABASE: Structural data are available in the PDB under the accession numbers 5ZCI and 5ZCM.

-	~~Authors~~:	+	Crystal structure of yeast xylose reductase in complex with a novel NADP-DTT adduct provides insights into substrate recognition and catalysis.,Paidimuddala B, Mohapatra SB, Gummadi SN, Manoj N FEBS J. 2018 Sep 30. doi: 10.1111/febs.14667. PMID:30269423<ref>PMID:30269423</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5zci" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Aldehyde reductase]]
		+	[[Category: Manoj, N]]
		+	[[Category: Aldo-keto reductase]]
		+	[[Category: Carbohydrate metabolism]]
		+	[[Category: Nadph dependent]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Tim barrel]]

OCA at 03:47, 27 June 2018

OCA — Wed, 27 Jun 2018 03:47:34 GMT

←Older revision		Revision as of 03:47, 27 June 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5zci is ON HOLD	+	The entry 5zci is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5zci" [edit=sysop:move=sysop]

OCA — Wed, 28 Feb 2018 04:53:56 GMT

Protected "5zci" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:53, 28 February 2018

OCA: New page: '''Unreleased structure''' The entry 5zci is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 28 Feb 2018 04:53:55 GMT

New page: '''Unreleased structure''' The entry 5zci is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5zci is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]