5i5e - Revision history

OCA at 08:23, 23 August 2023

OCA — Wed, 23 Aug 2023 08:23:48 GMT

←Older revision		Revision as of 08:23, 23 August 2023
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	==Crystal Structure of Transketolase mutants-H66/261C complex with xylulose-5-phoaphate from Pichia Stipitis==		==Crystal Structure of Transketolase mutants-H66/261C complex with xylulose-5-phoaphate from Pichia Stipitis==
-	<StructureSection load='5i5e' size='340' side='right' caption='[[5i5e]], [[Resolution\|resolution]] 1.62Å' scene=''>	+	<StructureSection load='5i5e' size='340' side='right'caption='[[5i5e]], [[Resolution\|resolution]] 1.62Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i5e]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Picst Picst~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I5E OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5I5E FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i5e]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Scheffersomyces_stipitis_CBS_6054 Scheffersomyces stipitis CBS 6054]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I5E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5I5E FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=5SP:5-O-PHOSPHONO-D-XYLULOSE'>5SP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</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]] 1.62Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hgx\|5hgx]]~~, [[~~5hje~~\|~~5hje]], [[5hyv\|5hyv]], [[5i4i\|5i4i]], [[5i51\|5i51]], [[5i5g\|5i5g~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5SP:5-O-PHOSPHONO-D-XYLULOSE'>5SP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~TKT, TKT1, PICST_67105 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=5~~&id=322104 PICST])</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=5i5e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i5e OCA], [https://pdbe.org/5i5e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5i5e RCSB], [https://www.ebi.ac.uk/pdbsum/5i5e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5i5e 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/Transketolase Transketolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.2.1.1 2.2.1.1]~~ </~~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=5i5e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i5e OCA], [~~http~~://pdbe.org/5i5e PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5i5e RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5i5e PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5i5e ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TKT_PICST TKT_PICST]] Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate.	+	[https://www.uniprot.org/uniprot/TKT_PICST TKT_PICST] Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5i5e" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5i5e" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Transketolase 3D structures\|Transketolase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Picst~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Transketolase~~]]	+	[[Category: Scheffersomyces stipitis CBS 6054]]
-	[[Category: Hsu~~, L J~~]]	+	[[Category: Hsu LJ]]
-	[[Category: Hsu~~, N S~~]]	+	[[Category: Hsu NS]]
-	[[Category: Li~~, T L]]~~	+	[[Category: Li TL]]
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Xylulose-5-phosphate~~]]	+

OCA at 08:00, 16 November 2017

OCA — Thu, 16 Nov 2017 08:00:34 GMT

←Older revision		Revision as of 08:00, 16 November 2017
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	<StructureSection load='5i5e' size='340' side='right' caption='[[5i5e]], [[Resolution\|resolution]] 1.62Å' scene=''>		<StructureSection load='5i5e' size='340' side='right' caption='[[5i5e]], [[Resolution\|resolution]] 1.62Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i5e]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I5E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I5E FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i5e]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Picst Picst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I5E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I5E FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5SP:5-O-PHOSPHONO-D-XYLULOSE'>5SP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5SP:5-O-PHOSPHONO-D-XYLULOSE'>5SP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hgx\|5hgx]], [[5hje\|5hje]], [[5hyv\|5hyv]], [[5i4i\|5i4i]], [[5i51\|5i51]], [[5i5g\|5i5g]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hgx\|5hgx]], [[5hje\|5hje]], [[5hyv\|5hyv]], [[5i4i\|5i4i]], [[5i51\|5i51]], [[5i5g\|5i5g]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TKT, TKT1, PICST_67105 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=322104 PICST])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Transketolase Transketolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.2.1.1 2.2.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Transketolase Transketolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.2.1.1 2.2.1.1] </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=5i5e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i5e OCA], [http://pdbe.org/5i5e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i5e RCSB], [http://www.ebi.ac.uk/pdbsum/5i5e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i5e 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=5i5e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i5e OCA], [http://pdbe.org/5i5e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i5e RCSB], [http://www.ebi.ac.uk/pdbsum/5i5e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i5e ProSAT]</span></td></tr>
Line 11:		Line 12:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/TKT_PICST TKT_PICST]] Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate.		[[http://www.uniprot.org/uniprot/TKT_PICST TKT_PICST]] Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In the development of new functionalities of transketolase for the industrial strain Pichia stipitis (TKps) the structural information of TKps would allow us to gain insight into the enzyme's reaction mechanisms, substrates selectivity and reaction directionality to help reach the goal. We here report seven TKps crystal structures of wild type (WT) and mutants in complex with various physiological ligands. These complexes were refined to resolutions at 1.6-1.03 A. Both biochemical and mutagenic analyses concluded that residues His27, His66, His100, His261, His478, Asp473, Arg356 and Arg525 play important roles in coenzyme binding and substrates recognition. In general, His66 and His261 hold thiamine diphosphate in place; Arg356 and Arg525 serve as gatekeepers interacting with the terminal phosphate group of sugar-phosphates. His27, His66, His100, His478 and Asp473 are critical for sugars recognition/binding, in which His27 is relatively more important in interaction with sedoheptulose-7-phosphate (S7P) than xylulose-5-phosphate (X5P) in terms of molecular recognition/binding affinity. Kinetically, the reactions with X5P (forward) which were catalyzed by WT or H27A are indistinguishable, while in the reactions with S7P (backward) H27A exhibits weaker activity relative to WT. As a result, given TKps(H27A) as the biocatalyst the overall reactivity reverses from the backward reaction preference to forward, thus facilitating net xylose assimilation.
		+
		+	Structural and biochemical interrogation on transketolase from Pichia stipitis for new functionality.,Hsu LJ, Hsu NS, Wang YL, Wu CJ, Li TL Protein Eng Des Sel. 2016 Aug 29. PMID:27578891<ref>PMID:27578891</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5i5e" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Picst]]
	[[Category: Transketolase]]		[[Category: Transketolase]]
	[[Category: Hsu, L J]]		[[Category: Hsu, L J]]

OCA at 17:39, 10 March 2017

OCA — Fri, 10 Mar 2017 17:39:21 GMT

←Older revision		Revision as of 17:39, 10 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5i5e is ~~ON HOLD until Paper Publication~~	+	==Crystal Structure of Transketolase mutants-H66/261C complex with xylulose-5-phoaphate from Pichia Stipitis==
-		+	<StructureSection load='5i5e' size='340' side='right' caption='[[5i5e]], [[Resolution\|resolution]] 1.62Å' scene=''>
-	~~Authors~~: Li, T.L., ~~Hsu~~, L.J., ~~Hsu~~, N.S.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5i5e]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I5E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I5E FirstGlance]. <br>
-	~~Description~~: ~~Crystal Structure~~ of ~~Transketolase mutants~~-~~H66/261C complex with xylulose-5-phoaphate~~ from ~~Pichia Stipitis~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5SP:5-O-PHOSPHONO-D-XYLULOSE'>5SP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hgx\|5hgx]], [[5hje\|5hje]], [[5hyv\|5hyv]], [[5i4i\|5i4i]], [[5i51\|5i51]], [[5i5g\|5i5g]]</td></tr>
-	[[Category: Li, T.L]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Transketolase Transketolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.2.1.1 2.2.1.1] </span></td></tr>
-	[[Category: Hsu, N.S]]	+	<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=5i5e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i5e OCA], [http://pdbe.org/5i5e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i5e RCSB], [http://www.ebi.ac.uk/pdbsum/5i5e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i5e ProSAT]</span></td></tr>
-	[[Category: ~~Hsu~~, L.J]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TKT_PICST TKT_PICST]] Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Transketolase]]
		+	[[Category: Hsu, L J]]
		+	[[Category: Hsu, N S]]
		+	[[Category: Li, T L]]
		+	[[Category: Transferase]]
		+	[[Category: Xylulose-5-phosphate]]

OCA at 01:53, 10 March 2016

OCA — Thu, 10 Mar 2016 01:53:16 GMT

←Older revision		Revision as of 01:53, 10 March 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5i5e is ON HOLD	+	The entry 5i5e is ON HOLD until Paper Publication

	Authors: Li, T.L., Hsu, L.J., Hsu, N.S.		Authors: Li, T.L., Hsu, L.J., Hsu, N.S.

OCA: Protected "5i5e" [edit=sysop:move=sysop]

OCA — Fri, 26 Feb 2016 16:48:30 GMT

Protected "5i5e" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:48, 26 February 2016

OCA: New page: '''Unreleased structure''' The entry 5i5e is ON HOLD Authors: Li, T.L., Hsu, L.J., Hsu, N.S. Description: Crystal Structure of Transketolase mutants-H66/261C complex with xylulose-5-ph...

OCA — Fri, 26 Feb 2016 16:48:29 GMT

New page: '''Unreleased structure''' The entry 5i5e is ON HOLD Authors: Li, T.L., Hsu, L.J., Hsu, N.S. Description: Crystal Structure of Transketolase mutants-H66/261C complex with xylulose-5-ph...

New page

'''Unreleased structure'''

The entry 5i5e is ON HOLD

Authors: Li, T.L., Hsu, L.J., Hsu, N.S.

Description: Crystal Structure of Transketolase mutants-H66/261C complex with xylulose-5-phoaphate from Pichia Stipitis
[[Category: Unreleased Structures]]
[[Category: Li, T.L]]
[[Category: Hsu, N.S]]
[[Category: Hsu, L.J]]