6ytz - Revision history

OCA at 13:35, 24 January 2024

OCA — Wed, 24 Jan 2024 13:35:22 GMT

←Older revision		Revision as of 13:35, 24 January 2024
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	==Crystal structure of Malus domestica Double Bond Reductase (MdDBR) in complex with NADPH==		==Crystal structure of Malus domestica Double Bond Reductase (MdDBR) in complex with NADPH==
-	<StructureSection load='6ytz' size='340' side='right'caption='[[6ytz]]' scene=''>	+	<StructureSection load='6ytz' size='340' side='right'caption='[[6ytz]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YTZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ytz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Malus_domestica Malus domestica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YTZ FirstGlance]. <br>
-	</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=6ytz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ytz OCA], [https://pdbe.org/6ytz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ytz RCSB], [https://www.ebi.ac.uk/pdbsum/6ytz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ytz ProSAT]</span></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]] 1.4Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</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=6ytz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ytz OCA], [https://pdbe.org/6ytz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ytz RCSB], [https://www.ebi.ac.uk/pdbsum/6ytz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ytz ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In this study we describe the crystal structures of the apoform, the binary and the ternary complexes of a double bond reductase from Malus domestica L. (MdDBR) and explore a range of potential substrates. The overall fold of MdDBR is similar to that of the medium chain reductase/dehydrogenase/zinc-dependent alcohol dehydrogenase-like family. Structural comparison of MdDBR with Arabidopsis thaliana DBR (AtDBR), Nicotiana tabacum DBR (NtDBR) and Rubus idaeus DBR (RiDBR) allowed the identification of key amino acids involved in cofactor and ligands binding and shed light on how these residues may guide the orientation of the substrates. The enzyme kinetic for the substrate trans-4-phenylbuten-2-one has been analyzed, and MdDBR activity towards a variety of substrates was tested. This enzyme has been reported to be involved in the phenylpropanoid pathway where it would catalyze the NADPH-dependent reduction of the alpha, beta-unsaturated double bond of carbonyl metabolites. Our study provides new data towards the identification of MdDBR natural substrate and the biosynthetic pathway where it belongs. Furthermore, the originally proposed involvement in dihydrochalcone biosynthesis in apple must be questioned.
		+
		+	The structural and functional characterization of Malus domestica double bond reductase MdDBR provides insights towards the identification of its substrates.,Caliandro R, Polsinelli I, Demitri N, Musiani F, Martens S, Benini S Int J Biol Macromol. 2021 Jan 4;171:89-99. doi: 10.1016/j.ijbiomac.2020.12.190. PMID:33412202<ref>PMID:33412202</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ytz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Malus domestica]]
	[[Category: Benini S]]		[[Category: Benini S]]
	[[Category: Caliandro R]]		[[Category: Caliandro R]]
	[[Category: Demitri N]]		[[Category: Demitri N]]
	[[Category: Polsinelli I]]		[[Category: Polsinelli I]]

OCA at 11:08, 3 February 2021

OCA — Wed, 03 Feb 2021 11:08:54 GMT

←Older revision		Revision as of 11:08, 3 February 2021
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-	'''Unreleased structure'''

-	~~The entry 6ytz is ON HOLD until Paper Publication~~	+	==Crystal structure of Malus domestica Double Bond Reductase (MdDBR) in complex with NADPH==
-		+	<StructureSection load='6ytz' size='340' side='right'caption='[[6ytz]]' scene=''>
-	~~Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YTZ FirstGlance]. <br>
-	~~Description:~~ Crystal structure of Malus domestica Double Bond Reductase (MdDBR) in complex with NADPH	+	</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=6ytz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ytz OCA], [https://pdbe.org/6ytz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ytz RCSB], [https://www.ebi.ac.uk/pdbsum/6ytz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ytz ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Caliandro, R~~]]	+	__TOC__
-	[[Category: ~~Polsinelli, I~~]]	+	</StructureSection>
-	[[Category: Demitri, N]]	+	[[Category: Large Structures]]
-	[[Category: ~~Benini, S~~]]	+	[[Category: Benini S]]
		+	[[Category: Caliandro R]]
		+	[[Category: Demitri N]]
		+	[[Category: Polsinelli I]]

OCA at 09:27, 29 July 2020

OCA — Wed, 29 Jul 2020 09:27:00 GMT

←Older revision		Revision as of 09:27, 29 July 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S.		Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S.
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	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Caliandro, R]]		[[Category: Caliandro, R]]
		+	[[Category: Polsinelli, I]]
	[[Category: Demitri, N]]		[[Category: Demitri, N]]
	[[Category: Benini, S]]		[[Category: Benini, S]]
-	[[Category: Polsinelli, I]]

OCA at 18:34, 24 June 2020

OCA — Wed, 24 Jun 2020 18:34:19 GMT

←Older revision		Revision as of 18:34, 24 June 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ytz is ON HOLD ~~until Paper Publication~~	+	The entry 6ytz is ON HOLD

	Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S.		Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S.
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	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Caliandro, R]]		[[Category: Caliandro, R]]
-	[[Category: Polsinelli, I]]
	[[Category: Demitri, N]]		[[Category: Demitri, N]]
	[[Category: Benini, S]]		[[Category: Benini, S]]
		+	[[Category: Polsinelli, I]]

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

OCA — Wed, 06 May 2020 04:39:56 GMT

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

←Older revision

Revision as of 04:39, 6 May 2020

OCA: New page: '''Unreleased structure''' The entry 6ytz is ON HOLD until Paper Publication Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S. Description: Crystal structure of Malus dom...

OCA — Wed, 06 May 2020 04:39:55 GMT

New page: '''Unreleased structure''' The entry 6ytz is ON HOLD until Paper Publication Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S. Description: Crystal structure of Malus dom...

New page

'''Unreleased structure'''

The entry 6ytz is ON HOLD until Paper Publication

Authors: Caliandro, R., Polsinelli, I., Demitri, N., Benini, S.

Description: Crystal structure of Malus domestica Double Bond Reductase (MdDBR) in complex with NADPH
[[Category: Unreleased Structures]]
[[Category: Caliandro, R]]
[[Category: Polsinelli, I]]
[[Category: Demitri, N]]
[[Category: Benini, S]]