5e4d - Revision history

OCA at 06:12, 5 July 2023

2023-07-05T06:12:28Z

←Older revision		Revision as of 06:12, 5 July 2023
Line 3:		Line 3:
	<StructureSection load='5e4d' size='340' side='right'caption='[[5e4d]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='5e4d' size='340' side='right'caption='[[5e4d]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5e4d]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Davallia_tyermanii Davallia tyermanii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5E4D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5e4d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Davallia_tyermanii Davallia tyermanii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5E4D FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</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]] 1.85Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[5e46\|5e46]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5e4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4d OCA], [~~http~~://pdbe.org/5e4d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5e4d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5e4d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4d 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=5e4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4d OCA], [https://pdbe.org/5e4d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5e4d RCSB], [https://www.ebi.ac.uk/pdbsum/5e4d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4d ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A1C9V3S9_9MONI A0A1C9V3S9_9MONI]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 25:
	[[Category: Davallia tyermanii]]		[[Category: Davallia tyermanii]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Diepold, M]]	+	[[Category: Diepold M]]
-	[[Category: Gruber, K]]	+	[[Category: Gruber K]]
-	[[Category: Pavkov-Keller, T]]	+	[[Category: Pavkov-Keller T]]
-	~~[[Category: Benzoic acid]]~~	+
-	~~[[Category: Fern]]~~	+
-	~~[[Category: Hydroxynitrile lyase]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 10:44, 24 December 2020

2020-12-24T10:44:22Z

←Older revision		Revision as of 10:44, 24 December 2020
Line 5:		Line 5:
	<table><tr><td colspan='2'>[[5e4d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Davallia_tyermanii Davallia tyermanii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4D OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5E4D FirstGlance]. <br>		<table><tr><td colspan='2'>[[5e4d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Davallia_tyermanii Davallia tyermanii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4D OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5E4D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e46\|5e46]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[5e46\|5e46]]</div></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5e4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4d OCA], [http://pdbe.org/5e4d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e4d RCSB], [http://www.ebi.ac.uk/pdbsum/5e4d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4d ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5e4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4d OCA], [http://pdbe.org/5e4d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e4d RCSB], [http://www.ebi.ac.uk/pdbsum/5e4d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4d ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Homology and similarity based approaches are most widely used for the identification of new enzymes for biocatalysis. However, they are not suitable to find truly novel scaffolds with a desired function and this averts options and diversity. Hydroxynitrile lyases (HNLs) are an example of non-homologous isofunctional enzymes for the synthesis of chiral cyanohydrins. Due to their convergent evolution, finding new representatives is challenging. Here we show the discovery of unique HNL enzymes from the fern Davallia tyermannii by coalescence of transcriptomics, proteomics and enzymatic screening. It is the first protein with a Bet v1-like protein fold exhibiting HNL activity, and has a new catalytic center, as shown by protein crystallography. Biochemical properties of D. tyermannii HNLs open perspectives for the development of a complementary class of biocatalysts for the stereoselective synthesis of cyanohydrins. This work shows that systematic integration of -omics data facilitates discovery of enzymes with unpredictable sequences and helps to extend our knowledge about enzyme diversity.
		+
		+	Enzyme discovery beyond homology: a unique hydroxynitrile lyase in the Bet v1 superfamily.,Lanfranchi E, Pavkov-Keller T, Koehler EM, Diepold M, Steiner K, Darnhofer B, Hartler J, Van Den Bergh T, Joosten HJ, Gruber-Khadjawi M, Thallinger GG, Birner-Gruenberger R, Gruber K, Winkler M, Glieder A Sci Rep. 2017 May 3;7:46738. doi: 10.1038/srep46738. PMID:28466867<ref>PMID:28466867</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5e4d" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:43, 22 April 2020

2020-04-22T06:43:32Z

←Older revision		Revision as of 06:43, 22 April 2020
Line 1:		Line 1:

	==Hydroxynitrile lyase from the fern Davallia tyermanii in complex with benzoic acid==		==Hydroxynitrile lyase from the fern Davallia tyermanii in complex with benzoic acid==
-	<StructureSection load='5e4d' size='340' side='right' caption='[[5e4d]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='5e4d' size='340' side='right'caption='[[5e4d]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5e4d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4D OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5E4D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5e4d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Davallia_tyermanii Davallia tyermanii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4D OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5E4D FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e46\|5e46]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e46\|5e46]]</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=5e4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4d OCA], [http://pdbe.org/5e4d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e4d RCSB], [http://www.ebi.ac.uk/pdbsum/5e4d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4d ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5e4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4d OCA], [http://pdbe.org/5e4d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e4d RCSB], [http://www.ebi.ac.uk/pdbsum/5e4d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4d ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Davallia tyermanii]]
		+	[[Category: Large Structures]]
	[[Category: Diepold, M]]		[[Category: Diepold, M]]
	[[Category: Gruber, K]]		[[Category: Gruber, K]]

OCA at 17:37, 19 October 2016

2016-10-19T17:37:33Z

←Older revision		Revision as of 17:37, 19 October 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5e4d is ~~ON HOLD until Paper Publication~~	+	==Hydroxynitrile lyase from the fern Davallia tyermanii in complex with benzoic acid==
-		+	<StructureSection load='5e4d' size='340' side='right' caption='[[5e4d]], [[Resolution\|resolution]] 1.85Å' scene=''>
-	~~Authors~~: ~~Pavkov~~-~~Keller~~, T., ~~Diepold~~, M., ~~Gruber~~, K.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5e4d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E4D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E4D FirstGlance]. <br>
-	~~Description~~: ~~Hydroxynitrile lyase from the fern Davallia tyermanii in complex with benzoic acid~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5e46\|5e46]]</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=5e4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e4d OCA], [http://pdbe.org/5e4d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e4d RCSB], [http://www.ebi.ac.uk/pdbsum/5e4d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e4d ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Diepold, M]]
		+	[[Category: Gruber, K]]
	[[Category: Pavkov-Keller, T]]		[[Category: Pavkov-Keller, T]]
-	[[Category: ~~Gruber, K~~]]	+	[[Category: Benzoic acid]]
-	[[Category: ~~Diepold, M~~]]	+	[[Category: Fern]]
		+	[[Category: Hydroxynitrile lyase]]
		+	[[Category: Lyase]]

OCA at 22:06, 10 May 2016

2016-05-10T22:06:44Z

←Older revision		Revision as of 22:06, 10 May 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5e4d is ON HOLD	+	The entry 5e4d is ON HOLD until Paper Publication

	Authors: Pavkov-Keller, T., Diepold, M., Gruber, K.		Authors: Pavkov-Keller, T., Diepold, M., Gruber, K.

OCA at 11:37, 16 December 2015

2015-12-16T11:37:44Z

←Older revision		Revision as of 11:37, 16 December 2015
Line 7:		Line 7:
	Description: Hydroxynitrile lyase from the fern Davallia tyermanii in complex with benzoic acid		Description: Hydroxynitrile lyase from the fern Davallia tyermanii in complex with benzoic acid
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Diepold, M]]
	[[Category: Pavkov-Keller, T]]		[[Category: Pavkov-Keller, T]]
	[[Category: Gruber, K]]		[[Category: Gruber, K]]
		+	[[Category: Diepold, M]]

OCA: Protected "5e4d" [edit=sysop:move=sysop]

2015-10-16T02:58:35Z

Protected "5e4d" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:58, 16 October 2015

OCA: New page: '''Unreleased structure''' The entry 5e4d is ON HOLD Authors: Pavkov-Keller, T., Diepold, M., Gruber, K. Description: Hydroxynitrile lyase from the fern Davallia tyermanii in complex w...

2015-10-16T02:58:34Z

New page: '''Unreleased structure''' The entry 5e4d is ON HOLD Authors: Pavkov-Keller, T., Diepold, M., Gruber, K. Description: Hydroxynitrile lyase from the fern Davallia tyermanii in complex w...

New page

'''Unreleased structure'''

The entry 5e4d is ON HOLD

Authors: Pavkov-Keller, T., Diepold, M., Gruber, K.

Description: Hydroxynitrile lyase from the fern Davallia tyermanii in complex with benzoic acid
[[Category: Unreleased Structures]]
[[Category: Diepold, M]]
[[Category: Pavkov-Keller, T]]
[[Category: Gruber, K]]