1ket: Difference between revisions

Revision as of 22:39, 2 May 2008

The crystal structure of dTDP-D-glucose 4,6-dehydratase (RmlB) from Streptococcus suis with thymidine diphosphate bound

OverviewOverview

dTDP-D-glucose 4,6-dehydratase (RmlB) was first identified in the L-rhamnose biosynthetic pathway, where it catalyzes the conversion of dTDP-D-glucose into dTDP-4-keto-6-deoxy-D-glucose. The structures of RmlB from Salmonella enterica serovar Typhimurium in complex with substrate deoxythymidine 5'-diphospho-D-glucose (dTDP-D-glucose) and deoxythymidine 5'-diphosphate (dTDP), and RmlB from Streptococcus suis serotype 2 in complex with dTDP-D-glucose, dTDP, and deoxythymidine 5'-diphospho-D-pyrano-xylose (dTDP-xylose) have all been solved at resolutions between 1.8 A and 2.4 A. The structures show that the active sites are highly conserved. Importantly, the structures show that the active site tyrosine functions directly as the active site base, and an aspartic and glutamic acid pairing accomplishes the dehydration step of the enzyme mechanism. We conclude that the substrate is required to move within the active site to complete the catalytic cycle and that this movement is driven by the elimination of water. The results provide insight into members of the SDR superfamily.

About this StructureAbout this Structure

1KET is a Single protein structure of sequence from Streptococcus suis. Full crystallographic information is available from OCA.

ReferenceReference

Toward a structural understanding of the dehydratase mechanism., Allard ST, Beis K, Giraud MF, Hegeman AD, Gross JW, Wilmouth RC, Whitfield C, Graninger M, Messner P, Allen AG, Maskell DJ, Naismith JH, Structure. 2002 Jan;10(1):81-92. PMID:11796113 Page seeded by OCA on Fri May 2 22:39:23 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

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 [[Image:1ket.jpg|left|200px]]
- {{Structure
+<!--
-|PDB= 1ket |SIZE=350|CAPTION= <scene name='initialview01'>1ket</scene>, resolution 1.80&Aring;
+The line below this paragraph, containing "STRUCTURE_1ket", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=TYD:THYMIDINE-5&#39;-+DIPHOSPHATE'>TYD</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/dTDP-glucose_4,6-dehydratase dTDP-glucose 4,6-dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.46 4.2.1.46] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= rmlB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1307 Streptococcus suis])
+-->
-|DOMAIN=
+{{STRUCTURE_1ket|  PDB=1ket  |  SCENE=  }}
-|RELATEDENTRY=[[1kep|1KEP]], [[1ker|1KER]], [[1keu|1KEU]], [[1kew|1KEW]], [[1g1a|1G1A]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ket FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ket OCA], [http://www.ebi.ac.uk/pdbsum/1ket PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ket RCSB]</span>
-}}
 '''The crystal structure of dTDP-D-glucose 4,6-dehydratase (RmlB) from Streptococcus suis with thymidine diphosphate bound'''
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 [[Category: Single protein]]
 [[Category: Streptococcus suis]]
-[[Category: dTDP-glucose 4,6-dehydratase]]
+[[Category: DTDP-glucose 4,6-dehydratase]]
 [[Category: Allard, S T.M.]]
 [[Category: Allen, A G.]]
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 [[Category: Naismith, J H.]]
 [[Category: Whitfield, C.]]
-[[Category: rossmann fold]]
+[[Category: Rossmann fold]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 22:39:23 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:47:35 2008''