5xzq - Revision history

OCA at 08:18, 22 November 2023

OCA — Wed, 22 Nov 2023 08:18:12 GMT

←Older revision		Revision as of 08:18, 22 November 2023
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	<StructureSection load='5xzq' size='340' side='right'caption='[[5xzq]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='5xzq' size='340' side='right'caption='[[5xzq]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xzq]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pased Pased~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5XZQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xzq]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Passiflora_edulis Passiflora edulis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XZQ FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PeHNL (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=78168 PASED])~~</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]] 2.8Å</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=5xzq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzq OCA], [~~http~~://pdbe.org/5xzq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5xzq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5xzq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzq ProSAT]</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=5xzq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzq OCA], [https://pdbe.org/5xzq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xzq RCSB], [https://www.ebi.ac.uk/pdbsum/5xzq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzq ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A1L7NZN4_PASED A0A1L7NZN4_PASED]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Pased~~]]	+	[[Category: Passiflora edulis]]
-	[[Category: Asano, Y]]	+	[[Category: Asano Y]]
-	[[Category: Motojima, F]]	+	[[Category: Motojima F]]
-	[[Category: Nuylert, A]]	+	[[Category: Nuylert A]]
-	~~[[Category: Cyanohydrin]]~~	+
-	~~[[Category: Hydroxynitrile lyase]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 12:41, 25 December 2019

OCA — Wed, 25 Dec 2019 12:41:50 GMT

←Older revision		Revision as of 12:41, 25 December 2019
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	==Hydroxynitrile lyase from Passiflora edulis (PeHNL)==		==Hydroxynitrile lyase from Passiflora edulis (PeHNL)==
-	<StructureSection load='5xzq' size='340' side='right' caption='[[5xzq]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='5xzq' size='340' side='right'caption='[[5xzq]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5xzq]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pased Pased]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5xzq]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pased Pased]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZQ FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Pased]]		[[Category: Pased]]
	[[Category: Asano, Y]]		[[Category: Asano, Y]]

OCA at 07:36, 13 December 2017

OCA — Wed, 13 Dec 2017 07:36:49 GMT

←Older revision		Revision as of 07:36, 13 December 2017
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	<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=5xzq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzq OCA], [http://pdbe.org/5xzq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzq RCSB], [http://www.ebi.ac.uk/pdbsum/5xzq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzq 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=5xzq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzq OCA], [http://pdbe.org/5xzq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzq RCSB], [http://www.ebi.ac.uk/pdbsum/5xzq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzq ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Hydroxynitrile lyases (HNLs) are enzymes used in the synthesis of chiral cyanohydrins. The HNL from Passiflora edulis (PeHNL) is R-selective and is the smallest HNL known to date. The crystal structures of PeHNL and its C-terminal peptide depleted derivative were determined by molecular replacement method using the template structure of a heat stable protein, SP1, from Populus tremula at 2.8 and 1.8 A resolution, respectively. PeHNL belongs to dimeric alpha+beta barrel superfamily consisting of a central beta-barrel in the middle of a dimer. The structure of PeHNL complexed with (R)-mandelonitrile ((R)-MAN) was also determined. The hydroxyl group of (R)-MAN forms hydrogen bonds with His8 and Tyr30 in the active site, whereas the nitrile group is oriented toward the carboxyl group of Glu54, unlike other HNLs, where it interacts with basic residues typically. The results of mutational analysis indicate that the catalytic dyad of His8-Asn101 is critical for the enzymatic reaction. The length of the hydrogen bond between His-Ndelta1 and Asn101-Odelta1 is short in the PeHNL-(R)-MAN complex (~ 2.6 A), which would increase the basicity of His8 to abstract a proton from the hydroxyl group of (R)-MAN. The cyanide ion released from the nitrile group abstracts a proton from the protonated His8 to generate a hydrogen cyanide. Thus, the His8 in the active site of PeHNL acts both as a general acid and a general base in the reaction. ENZYMES: EC 4.1.2.10 DATABASE: Structural data are available in PDB database under the accession numbers 5XZQ, 5XZT, and 5Y02.
		+
		+	The crystal structure and catalytic mechanism of hydroxynitrile lyase from passion fruit, Passiflora edulis.,Motojima F, Nuylert A, Asano Y FEBS J. 2017 Nov 20. doi: 10.1111/febs.14339. PMID:29155493<ref>PMID:29155493</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5xzq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:41, 29 November 2017

OCA — Wed, 29 Nov 2017 07:41:57 GMT

←Older revision		Revision as of 07:41, 29 November 2017
Line 3:		Line 3:
	<StructureSection load='5xzq' size='340' side='right' caption='[[5xzq]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='5xzq' size='340' side='right' caption='[[5xzq]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xzq]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xzq]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pased Pased]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZQ FirstGlance]. <br>
-	</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=5xzq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzq OCA], [http://pdbe.org/5xzq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzq RCSB], [http://www.ebi.ac.uk/pdbsum/5xzq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzq ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PeHNL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=78168 PASED])</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=5xzq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzq OCA], [http://pdbe.org/5xzq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzq RCSB], [http://www.ebi.ac.uk/pdbsum/5xzq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzq ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Pased]]
	[[Category: Asano, Y]]		[[Category: Asano, Y]]
	[[Category: Motojima, F]]		[[Category: Motojima, F]]

OCA at 07:45, 22 November 2017

OCA — Wed, 22 Nov 2017 07:45:57 GMT

←Older revision		Revision as of 07:45, 22 November 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5xzq is ~~ON HOLD until Paper Publication~~	+	==Hydroxynitrile lyase from Passiflora edulis (PeHNL)==
-		+	<StructureSection load='5xzq' size='340' side='right' caption='[[5xzq]], [[Resolution\|resolution]] 2.80Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5xzq]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZQ FirstGlance]. <br>
-	~~Description~~:	+	</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=5xzq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzq OCA], [http://pdbe.org/5xzq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzq RCSB], [http://www.ebi.ac.uk/pdbsum/5xzq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzq ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Asano, Y]]
		+	[[Category: Motojima, F]]
		+	[[Category: Nuylert, A]]
		+	[[Category: Cyanohydrin]]
		+	[[Category: Hydroxynitrile lyase]]
		+	[[Category: Lyase]]

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

OCA — Wed, 27 Sep 2017 15:58:20 GMT

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

←Older revision

Revision as of 15:58, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5xzq is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 15:58:19 GMT

New page: '''Unreleased structure''' The entry 5xzq is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5xzq is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]