› 1vk6

X-ray diffraction
2.2Å resolution

Crystal structure of NADH pyrophosphatase (1790429) from Escherichia coli k12 at 2.20 A resolution

Released:
DOI: 10.2210/pdb1vk6/pdb
PDB entry 1vk6 coloured by chain, front view.
PDB entry 1vk6 coloured by chain, side view.
PDB entry 1vk6 coloured by chain, top view.
Source organism: Escherichia coli K-12
Entry author: Joint Center for Structural Genomics (JCSG)

Function and Biology Details

Reaction catalysed: 
NAD(H) + H(2)O = AMP + NMN(H)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domains:

Structure analysis Details

Assemblies composition:
homo dimer
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152423 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
NAD-capped RNA hydrolase NudC Chain: A
Molecule details ›
Chain: A
Length: 269 amino acids
Theoretical weight: 31.56 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P32664 (Residues: 1-257; Coverage: 100%)
Gene names: JW5548, b3996, nudC, yjaD
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand MPD 3 x MPD
1 modified residue:
Ligand MSE 8 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: P6522
Unit cell:
a: 127.319Å b: 127.319Å c: 108.405Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.188 0.187 0.22
Expression system: Escherichia coli

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