5t95 - Revision history

OCA at 12:56, 4 October 2023

OCA — Wed, 04 Oct 2023 12:56:44 GMT

←Older revision		Revision as of 12:56, 4 October 2023
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	<StructureSection load='5t95' size='340' side='right'caption='[[5t95]], [[Resolution\|resolution]] 1.69Å' scene=''>		<StructureSection load='5t95' size='340' side='right'caption='[[5t95]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5t95]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Glycine_hispida~~ Glycine ~~hispida~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T95 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5T95 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5t95]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Glycine_max Glycine max]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T95 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5T95 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</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]] 1.689Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t9f\|5t9f]]~~, [[~~5t8x~~\|~~5t8x]], [[5t9e\|5t9e~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>PDH1, GLYMA_18G023100 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~3847 Glycine hispida])</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=5t95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t95 OCA], [https://pdbe.org/5t95 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5t95 RCSB], [https://www.ebi.ac.uk/pdbsum/5t95 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5t95 ProSAT]</span></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Prephenate_dehydrogenase_(NADP(+)) Prephenate dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.13 1.3.1.13]~~ </~~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=5t95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t95 OCA], [~~http~~://pdbe.org/5t95 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5t95 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5t95 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5t95 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/I1MYY4_SOYBN I1MYY4_SOYBN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Glycine ~~hispida~~]]	+	[[Category: Glycine max]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Holland~~, C K~~]]	+	[[Category: Holland CK]]
-	[[Category: Jez~~, J M]]~~	+	[[Category: Jez JM]]
-	~~[[Category: Dehydrogenase]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Tyrosine biosynthesis~~]]	+

OCA at 07:51, 27 November 2019

OCA — Wed, 27 Nov 2019 07:51:31 GMT

←Older revision		Revision as of 07:51, 27 November 2019
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	==Prephenate Dehydrogenase M219T, N222D mutant from Soybean==		==Prephenate Dehydrogenase M219T, N222D mutant from Soybean==
-	<StructureSection load='5t95' size='340' side='right' caption='[[5t95]], [[Resolution\|resolution]] 1.69Å' scene=''>	+	<StructureSection load='5t95' size='340' side='right'caption='[[5t95]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5t95]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T95 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T95 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5t95]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Glycine_hispida Glycine hispida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T95 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T95 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t9f\|5t9f]], [[5t8x\|5t8x]], [[5t9e\|5t9e]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t9f\|5t9f]], [[5t8x\|5t8x]], [[5t9e\|5t9e]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDH1, GLYMA_18G023100 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3847 Glycine hispida])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prephenate_dehydrogenase_(NADP(+)) Prephenate dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.13 1.3.1.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prephenate_dehydrogenase_(NADP(+)) Prephenate dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.13 1.3.1.13] </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=5t95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t95 OCA], [http://pdbe.org/5t95 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t95 RCSB], [http://www.ebi.ac.uk/pdbsum/5t95 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t95 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=5t95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t95 OCA], [http://pdbe.org/5t95 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t95 RCSB], [http://www.ebi.ac.uk/pdbsum/5t95 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t95 ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Glycine hispida]]
		+	[[Category: Large Structures]]
	[[Category: Holland, C K]]		[[Category: Holland, C K]]
	[[Category: Jez, J M]]		[[Category: Jez, J M]]

OCA at 04:04, 30 August 2017

OCA — Wed, 30 Aug 2017 04:04:34 GMT

←Older revision		Revision as of 04:04, 30 August 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5t95 is ~~ON HOLD until Paper~~ Publication	+	==Prephenate Dehydrogenase M219T, N222D mutant from Soybean==
		+	<StructureSection load='5t95' size='340' side='right' caption='[[5t95]], [[Resolution\|resolution]] 1.69Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5t95]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5T95 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5T95 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t9f\|5t9f]], [[5t8x\|5t8x]], [[5t9e\|5t9e]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prephenate_dehydrogenase_(NADP(+)) Prephenate dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.13 1.3.1.13] </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=5t95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5t95 OCA], [http://pdbe.org/5t95 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5t95 RCSB], [http://www.ebi.ac.uk/pdbsum/5t95 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5t95 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	L-Tyrosine (Tyr) is essential for protein synthesis and is a precursor of numerous specialized metabolites crucial for plant and human health. Tyr can be synthesized via two alternative routes by different key regulatory TyrA family enzymes, prephenate dehydrogenase (PDH, also known as TyrAp) or arogenate dehydrogenase (ADH, also known as TyrAa), representing a unique divergence of primary metabolic pathways. The molecular foundation underlying the evolution of these alternative Tyr pathways is currently unknown. Here we characterized recently diverged plant PDH and ADH enzymes, obtained the X-ray crystal structure of soybean PDH, and identified a single amino acid residue that defines TyrA substrate specificity and regulation. Structures of mutated PDHs co-crystallized with Tyr indicate that substitutions of Asn222 confer ADH activity and Tyr sensitivity. Reciprocal mutagenesis of the corresponding residue in divergent plant ADHs further introduced PDH activity and relaxed Tyr sensitivity, highlighting the critical role of this residue in TyrA substrate specificity that underlies the evolution of alternative Tyr biosynthetic pathways in plants.

-	~~Authors:~~ Holland, ~~C.K.~~, Jez, J.M.	+	Molecular basis of the evolution of alternative tyrosine biosynthetic routes in plants.,Schenck CA, Holland CK, Schneider MR, Men Y, Lee SG, Jez JM, Maeda HA Nat Chem Biol. 2017 Jun 26. doi: 10.1038/nchembio.2414. PMID:28671678<ref>PMID:28671678</ref>

-	~~Description: Prephenate Dehydrogenase M219T~~, ~~N222D mutant from Soybean~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Holland, C.K]]	+	<div class="pdbe-citations 5t95" style="background-color:#fffaf0;"></div>
-	[[Category: Jez, J.M]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Holland, C K]]
		+	[[Category: Jez, J M]]
		+	[[Category: Dehydrogenase]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Tyrosine biosynthesis]]

OCA at 13:25, 9 March 2017

OCA — Thu, 09 Mar 2017 13:25:02 GMT

←Older revision		Revision as of 13:25, 9 March 2017
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	Description: Prephenate Dehydrogenase M219T, N222D mutant from Soybean		Description: Prephenate Dehydrogenase M219T, N222D mutant from Soybean
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Jez, J.M]]
	[[Category: Holland, C.K]]		[[Category: Holland, C.K]]
		+	[[Category: Jez, J.M]]

OCA at 17:20, 9 December 2016

OCA — Fri, 09 Dec 2016 17:20:04 GMT

←Older revision		Revision as of 17:20, 9 December 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5t95 is ON HOLD	+	The entry 5t95 is ON HOLD until Paper Publication

	Authors: Holland, C.K., Jez, J.M.		Authors: Holland, C.K., Jez, J.M.

OCA: Protected "5t95" [edit=sysop:move=sysop]

OCA — Wed, 21 Sep 2016 12:22:21 GMT

Protected "5t95" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:22, 21 September 2016

OCA: New page: '''Unreleased structure''' The entry 5t95 is ON HOLD Authors: Holland, C.K., Jez, J.M. Description: Prephenate Dehydrogenase M219T, N222D mutant from Soybean [[Category: Unreleased Str...

OCA — Wed, 21 Sep 2016 12:22:19 GMT

New page: '''Unreleased structure''' The entry 5t95 is ON HOLD Authors: Holland, C.K., Jez, J.M. Description: Prephenate Dehydrogenase M219T, N222D mutant from Soybean [[Category: Unreleased Str...

New page

'''Unreleased structure'''

The entry 5t95 is ON HOLD

Authors: Holland, C.K., Jez, J.M.

Description: Prephenate Dehydrogenase M219T, N222D mutant from Soybean
[[Category: Unreleased Structures]]
[[Category: Jez, J.M]]
[[Category: Holland, C.K]]