1wvg
From Proteopedia
| Line 1: | Line 1: | ||
| - | [[Image:1wvg.gif|left|200px]] | + | [[Image:1wvg.gif|left|200px]] |
| - | + | ||
| - | '''Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi''' | + | {{Structure |
| + | |PDB= 1wvg |SIZE=350|CAPTION= <scene name='initialview01'>1wvg</scene>, resolution 1.8Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene> and <scene name='pdbligand=CXY:CYTIDINE-5'-DIPHOSPHO-BETA-D-XYLOSE'>CXY</scene> | ||
| + | |ACTIVITY= [http://en.wikipedia.org/wiki/CDP-glucose_4,6-dehydratase CDP-glucose 4,6-dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.45 4.2.1.45] | ||
| + | |GENE= ddhB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=90370 Salmonella enterica subsp. enterica serovar Typhi]) | ||
| + | }} | ||
| + | |||
| + | '''Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi''' | ||
| + | |||
==Overview== | ==Overview== | ||
| Line 7: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
| - | 1WVG is a [ | + | 1WVG is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhi Salmonella enterica subsp. enterica serovar typhi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WVG OCA]. |
==Reference== | ==Reference== | ||
| - | Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi complexed with CDP-D-xylose., Koropatkin NM, Holden HM, Acta Crystallogr D Biol Crystallogr. 2005 Apr;61(Pt 4):365-73. Epub 2005, Mar 24. PMID:[http:// | + | Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi complexed with CDP-D-xylose., Koropatkin NM, Holden HM, Acta Crystallogr D Biol Crystallogr. 2005 Apr;61(Pt 4):365-73. Epub 2005, Mar 24. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15805590 15805590] |
[[Category: CDP-glucose 4,6-dehydratase]] | [[Category: CDP-glucose 4,6-dehydratase]] | ||
[[Category: Salmonella enterica subsp. enterica serovar typhi]] | [[Category: Salmonella enterica subsp. enterica serovar typhi]] | ||
| Line 21: | Line 30: | ||
[[Category: short-chain dehydrogenase/reductase]] | [[Category: short-chain dehydrogenase/reductase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:02:00 2008'' |
Revision as of 13:02, 20 March 2008
| |||||||
| , resolution 1.8Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | and | ||||||
| Gene: | ddhB (Salmonella enterica subsp. enterica serovar Typhi) | ||||||
| Activity: | CDP-glucose 4,6-dehydratase, with EC number 4.2.1.45 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi
Overview
Tyvelose is a unique 3,6-dideoxyhexose found in the O antigens of some pathogenic species of Yersinia and Salmonella. It is produced via a complex biochemical pathway that employs CDP-D-glucose as the starting ligand. CDP-D-glucose 4,6-dehydratase catalyzes the first irreversible step in the synthesis of this 3,6-dideoxysugar by converting CDP-D-glucose to CDP-4-keto-6-deoxyglucose via an NAD+ -dependent intramolecular oxidation-reduction reaction. Here, the cloning, protein purification and X-ray crystallographic analysis of CDP-D-glucose 4,6-dehydratase from Salmonella typhi complexed with the substrate analog CDP-D-xylose are described. Each subunit of the tetrameric enzyme folds into two domains. The N-terminal region contains a Rossmann fold and provides the platform for NAD(H) binding. The C-terminal motif is primarily composed of alpha-helices and houses the binding pocket for the CDP portion of the CDP-D-xylose ligand. The xylose moiety extends into the active-site cleft that is located between the two domains. Key residues involved in anchoring the sugar group to the protein include Ser134, Tyr159, Asn197 and Arg208. Strikingly, Ser134 O gamma and Tyr159 O eta sit within 2.9 A of the 4'-hydroxyl group of xylose. Additionally, the side chains of Asp135 and Lys136 are located at 3.5 and 3.2 A, respectively, from C-5 of xylose. In the structurally related dTDP-D-glucose 4,6-dehydratase, the Asp/Lys pair is replaced with an Asp/Glu couple. On the basis of this investigation, it can be speculated that Tyr159 serves as the catalytic base to abstract the 4'-hydroxyl proton from the sugar and that Asp135 and Lys136 play critical roles in the subsequent dehydration step that leads to the final product.
About this Structure
1WVG is a Single protein structure of sequence from Salmonella enterica subsp. enterica serovar typhi. Full crystallographic information is available from OCA.
Reference
Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi complexed with CDP-D-xylose., Koropatkin NM, Holden HM, Acta Crystallogr D Biol Crystallogr. 2005 Apr;61(Pt 4):365-73. Epub 2005, Mar 24. PMID:15805590
Page seeded by OCA on Thu Mar 20 15:02:00 2008
