4zrm - Revision history

OCA at 15:46, 8 November 2023

OCA — Wed, 08 Nov 2023 15:46:55 GMT

←Older revision		Revision as of 15:46, 8 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4zrm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZRM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4zrm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZRM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</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]] 1.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</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=4zrm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zrm OCA], [https://pdbe.org/4zrm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zrm RCSB], [https://www.ebi.ac.uk/pdbsum/4zrm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zrm 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=4zrm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zrm OCA], [https://pdbe.org/4zrm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zrm RCSB], [https://www.ebi.ac.uk/pdbsum/4zrm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zrm ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:39, 18 May 2023

OCA — Thu, 18 May 2023 07:39:07 GMT

←Older revision		Revision as of 07:39, 18 May 2023
Line 1:		Line 1:

	==Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima==		==Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima==
-	<StructureSection load='4zrm' size='340' side='right' caption='[[4zrm]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4zrm' size='340' side='right'caption='[[4zrm]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zrm]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Thema Thema~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZRM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4ZRM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zrm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZRM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zrn\|4zrn]]</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=4zrm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zrm OCA], [https://pdbe.org/4zrm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zrm RCSB], [https://www.ebi.ac.uk/pdbsum/4zrm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zrm ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TM_0509, THEMA_02130, Tmari_0505 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-glucose_4-epimerase UDP-glucose 4-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.2 5.1.3.2] </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=4zrm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zrm OCA], [~~http~~://pdbe.org/4zrm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4zrm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4zrm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4zrm ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9WYX9_THEMA Q9WYX9_THEMA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thema~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~UDP-glucose 4-epimerase~~]]	+	[[Category: Thermotoga maritima MSB8]]
-	[[Category: Choi~~, J M~~]]	+	[[Category: Choi JM]]
-	[[Category: Lee~~, D W~~]]	+	[[Category: Lee DW]]
-	[[Category: Lee~~, S H]]~~	+	[[Category: Lee SH]]
-	~~[[Category: Epimerization]]~~	+
-	~~[[Category: Hyperthermophile]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Thermotoga maritima~~]]	+

OCA at 17:09, 16 November 2017

OCA — Thu, 16 Nov 2017 17:09:12 GMT

←Older revision		Revision as of 17:09, 16 November 2017
Line 1:		Line 1:
		+
	==Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima==		==Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima==
	<StructureSection load='4zrm' size='340' side='right' caption='[[4zrm]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4zrm' size='340' side='right' caption='[[4zrm]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zrm]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZRM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZRM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zrm]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thema Thema]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZRM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZRM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zrn\|4zrn]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zrn\|4zrn]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TM_0509, THEMA_02130, Tmari_0505 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-glucose_4-epimerase UDP-glucose 4-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.2 5.1.3.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-glucose_4-epimerase UDP-glucose 4-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.2 5.1.3.2] </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=4zrm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zrm OCA], [http://pdbe.org/4zrm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zrm RCSB], [http://www.ebi.ac.uk/pdbsum/4zrm PDBsum]</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=4zrm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zrm OCA], [http://pdbe.org/4zrm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zrm RCSB], [http://www.ebi.ac.uk/pdbsum/4zrm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4zrm ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Thema]]
	[[Category: UDP-glucose 4-epimerase]]		[[Category: UDP-glucose 4-epimerase]]
	[[Category: Choi, J M]]		[[Category: Choi, J M]]

OCA at 21:16, 15 October 2015

OCA — Thu, 15 Oct 2015 21:16:40 GMT

←Older revision		Revision as of 21:16, 15 October 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima==
		+	<StructureSection load='4zrm' size='340' side='right' caption='[[4zrm]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4zrm]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZRM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZRM FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zrn\|4zrn]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/UDP-glucose_4-epimerase UDP-glucose 4-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.2 5.1.3.2] </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=4zrm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zrm OCA], [http://pdbe.org/4zrm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zrm RCSB], [http://www.ebi.ac.uk/pdbsum/4zrm PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	UDP-galactose 4-epimerase (GalE) catalyzes the interconversion of UDP-glucose (UDP-Glc) and UDP-galactose (UDP-Gal), which is a pivotal step in the Leloir pathway for d-galactose metabolism. Although GalE is widely distributed in prokaryotes and eukaryotes, little information is available regarding hyperthermophilic GalE. We overexpressed the TM0509 gene, encoding a putative GalE from Thermotoga maritima (TMGalE), in Escherichia coli and characterized the encoded protein. To further investigate the molecular basis of this enzyme's catalytic function, we determined the crystal structures of TMGalE and TMGalE bound to UDP-Glc at resolutions of 1.9 A and 2.0 A, respectively. The enzyme was determined to be a homodimer with a molecular mass of 70 kDa. The enzyme could reversibly catalyze the epimerization of UDP-GalNAc/UDP-GlcNAc as well as UDP-Gal/UDP-Glc at elevated temperatures, with an apparent optimal temperature and pH of 80 degrees C and 7.0, respectively. Our data showed that TM0509 is a UDP-galactosugar 4-epimerase involved in d-galactose metabolism; consequently, this study provides the first detailed characterization of a hyperthermophilic GalE. Moreover, the promiscuous substrate specificity of TMGalE, which is more similar to human GalE than E. coli GalE, supports the notion that TMGalE might exhibit the earliest form of sugar-epimerizing enzymes in the evolution of galactose metabolism.

-	The ~~entry 4zrm is ON HOLD until Paper Publication~~	+	The structural basis of substrate promiscuity in UDP-hexose 4-epimerase from the hyperthermophilic Eubacterium Thermotoga maritima.,Shin SM, Choi JM, di Luccio E, Lee YJ, Lee SJ, Lee SJ, Lee SH, Lee DW Arch Biochem Biophys. 2015 Sep 3;585:39-51. doi: 10.1016/j.abb.2015.08.025. PMID:26344854<ref>PMID:26344854</ref>

-	~~Authors: Choi~~, ~~J.M~~.~~, Lee,~~ S.H.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Crystal Structure of UDP~~-~~Glucose 4~~-~~Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima~~	+	<div class="pdbe-citations 4zrm" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Choi, J.M]]	+	<references/>
-	[[Category: Lee, S.H]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: UDP-glucose 4-epimerase]]
		+	[[Category: Choi, J M]]
		+	[[Category: Lee, D W]]
		+	[[Category: Lee, S H]]
		+	[[Category: Epimerization]]
		+	[[Category: Hyperthermophile]]
		+	[[Category: Isomerase]]
		+	[[Category: Thermotoga maritima]]

OCA at 14:38, 27 May 2015

OCA — Wed, 27 May 2015 14:38:46 GMT

←Older revision		Revision as of 14:38, 27 May 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4zrm is ON HOLD	+	The entry 4zrm is ON HOLD until Paper Publication

-	Authors: Choi, JM, Lee, SH	+	Authors: Choi, J.M., Lee, S.H.

	Description: Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima		Description: Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Choi, ~~Jm,~~ Lee, Sh]]	+	[[Category: Choi, J.M]]
		+	[[Category: Lee, S.H]]

OCA: Protected "4zrm" [edit=sysop:move=sysop]

OCA — Wed, 20 May 2015 11:04:16 GMT

Protected "4zrm" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:04, 20 May 2015

OCA: New page: '''Unreleased structure''' The entry 4zrm is ON HOLD Authors: Choi, JM, Lee, SH Description: Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Th...

OCA — Wed, 20 May 2015 11:04:15 GMT

New page: '''Unreleased structure''' The entry 4zrm is ON HOLD Authors: Choi, JM, Lee, SH Description: Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Th...

New page

'''Unreleased structure'''

The entry 4zrm is ON HOLD

Authors: Choi, JM, Lee, SH

Description: Crystal Structure of UDP-Glucose 4-Epimerase (TM0509) from Hyperthermophilic Eubacterium Thermotoga maritima
[[Category: Unreleased Structures]]
[[Category: Choi, Jm, Lee, Sh]]