› 1yl7

X-ray diffraction
2.34Å resolution

the crystal structure of Mycobacterium tuberculosis dihydrodipicolinate reductase (Rv2773c) in complex with NADH (crystal form C)

Released:
DOI: 10.2210/pdb1yl7/pdb
PDB entry 1yl7 coloured by chain, front view.
PDB entry 1yl7 coloured by chain, side view.
PDB entry 1yl7 coloured by chain, top view.
Source organism: Mycobacterium tuberculosis
Primary publication:
The structure of dihydrodipicolinate reductase (DapB) from Mycobacterium tuberculosis in three crystal forms.
Janowski R, Kefala G, Weiss MS
Acta Crystallogr D Biol Crystallogr 66 61-72 (2010)
PMID: 20057050

Function and Biology Details

Reaction catalysed: 
(S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + NAD(P)(+) + H(2)O = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + NAD(P)H
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161917 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
4-hydroxy-tetrahydrodipicolinate reductase Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 245 amino acids
Theoretical weight: 25.7 KDa
Source organism: Mycobacterium tuberculosis
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WP23 (Residues: 2-245; Coverage: 100%)
Gene names: MTV002.38c, Rv2773c, dapB
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand NAI 8 x NAI
1 bound ligand:
Ligand MG 6 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X13
Spacegroup: C2
Unit cell:
a: 238.6Å b: 67.52Å c: 154.49Å
α: 90° β: 117.08° γ: 90°
R-values:
R R work R free
0.183 0.181 0.238
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Structure and function of Mycobacterium tuberculosis meso-diaminopimelic acid (DAP) biosynthetic enzymes.
Usha et al. (2012)
9 other articles

6 mentions without citation

A unified statistical model to support local sequence order independent similarity searching for ligand-binding sites and its application to genome-based drug discovery.
Xie et al. (2009)
5 more