› 2i2b

X-ray diffraction
2.1Å resolution

Crystal structure of LmNADK1 from Listeria monocytogenes

Released:
DOI: 10.2210/pdb2i2b/pdb
PDB 2i2b coloured by chain and viewed from the front.
PDB 2i2b coloured by chain and viewed from the side.
PDB 2i2b coloured by chain and viewed from the top.
Source organism: Listeria monocytogenes
Primary publication:
NAD kinases use substrate-assisted catalysis for specific recognition of NAD.
Poncet-Montange G, Assairi L, Arold S, Pochet S, Labesse G
J. Biol. Chem. 282 33925-34 (2007)
PMID: 17686780

Function and Biology Details

Reaction catalysed: 
ATP + NAD(+) = ADP + NADP(+)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
NAD kinase 1 Chain: A
Molecule details ›
Chain: A
Length: 272 amino acids
Theoretical weight: 31.05 KDa
Source organism: Listeria monocytogenes
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8Y8D7 (Residues: 1-264; Coverage: 100%)
Gene names: lmo0968, nadK1
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand CC5 2 x CC5
Ligand CIT 1 x CIT
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: I222
Unit cell:
a: 63.243Å b: 74.565Å c: 118.29Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.203 0.231
Expression system: Escherichia coli

Quick links

Citations

5 review citations

NAD Analogs in Aid of Chemical Biology and Medicinal Chemistry.
Depaix et al. (2019)
4 more

2 mentions without citation

Structural determinants of discrimination of NAD+ from NADH in yeast mitochondrial NADH kinase Pos5.
Ando et al. (2011)
1 more