3wbb | pdb_00003wbb

Crystal Structures of meso-diaminopimelate dehydrogenase from Symbiobacterium thermophilum

spinqualitylabelsall models 3wbb, resolution 1.93Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 3wbb is a 3 chain structure with sequence from Symbiobacterium thermophilum IAM 14863. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 1.93Å Ligands: GOL, NAP Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function Q67PI3_SYMTH Publication Abstract from PubMed Wild-type meso-diaminopimelate dehydrogenase (DAPDH) is usually specific to the native substrate, meso-2,6-diaminopimelate. Recently, a DAPDH from Symbiobacterium thermophilum (StDAPDH) was found to exhibit expanded substrate specificity. As such, its crystal structures in apo form and in complex with NADP(+) and both NADPH and meso-DAP were investigated to reveal the structural basis of its unique catalytic properties. Structural analysis results show that StDAPDH should prefer an ordered kinetic catalytic mechanism. A second substrate entrance tunnel with Met152 at its bottleneck was found, through which pyruvate/D-alanine might bind and enter the catalytic cavity, providing some structural insights into its high activity toward pyruvate. The side chain of Met152 might interact with Asp92 and Asn253, thus affecting the domain motion and catalysis. These results offer useful information for understanding the unique catalytic properties of StDAPDH and guiding further engineering of this enzyme. Structural and mutational studies on the unusual substrate specificity of meso-diaminopimelate dehydrogenase from Symbiobacterium thermophilum.,Liu W, Li Z, Huang CH, Guo RT, Zhao L, Zhang D, Chen X, Wu Q, Zhu D Chembiochem. 2014 Jan 24;15(2):217-22. doi: 10.1002/cbic.201300691. Epub 2013 Dec, 11. PMID:24339368 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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