3QY9 image
Deposition Date 2011-03-03
Release Date 2011-08-03
Last Version Date 2023-11-01
Entry Detail
PDB ID:
3QY9
Keywords:
Title:
The Crystal Structure of Dihydrodipicolinate reductase from Staphylococcus aureus
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.80 Å
R-Value Free:
0.22
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Dihydrodipicolinate reductase
Gene (Uniprot):dapB
Chain IDs:A, B, C, D
Chain Length:243
Number of Molecules:4
Biological Source:Staphylococcus aureus
Primary Citation
Structure and nucleotide specificity of Staphylococcus aureus dihydrodipicolinate reductase (DapB)
Febs Lett. 585 2561 2567 (2011)
PMID: 21803042 DOI: 10.1016/j.febslet.2011.07.021

Abstact

Lysine biosynthesis proceeds by the nucleotide-dependent reduction of dihydrodipicolinate (DHDP) to tetrahydrodipicolinate (THDP) by dihydrodipicolinate reductase (DHDPR). The S. aureus DHDPR structure reveals different conformational states of this enzyme even in the absence of a substrate or nucleotide-cofactor. Despite lacking a conserved basic residue essential for NADPH interaction, S. aureus DHDPR differs from other homologues as NADPH is a more preferred co-factor than NADH. The structure provides a rationale-Lys35 compensates for the co-factor site mutation. These observations are significant for bi-ligand inhibitor design that relies on ligand-induced conformational changes as well as co-factor specificity for this important drug target.

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Primary Citation of related structures