› 4fkx

X-ray diffraction
1.7Å resolution

Crystal structure of nucleoside diphosphate kinase B from Trypanosoma brucei bound to CDP

Released:
DOI: 10.2210/pdb4fkx/pdb
PDB entry 4fkx coloured by chain, front view.
PDB entry 4fkx coloured by chain, side view.
PDB entry 4fkx coloured by chain, top view.
Source organism: Trypanosoma brucei brucei TREU927
Entry author: Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Function and Biology Details

Reaction catalysed: 
ATP + nucleoside diphosphate = ADP + nucleoside triphosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-174323 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nucleoside diphosphate kinase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 161 amino acids
Theoretical weight: 17.91 KDa
Source organism: Trypanosoma brucei brucei TREU927
Expression system: Escherichia coli
UniProt:
  • Canonical: Q381H3 (Residues: 1-153; Coverage: 100%)
Gene name: Tb11.01.7800
Sequence domains: Nucleoside diphosphate kinase
Structure domains: Nucleoside diphosphate kinase-like domain

Ligands and Environments

3 bound ligands:
Ligand CDP 3 x CDP
Ligand MG 3 x MG
Ligand MPD 1 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E+ SUPERBRIGHT
Spacegroup: C2221
Unit cell:
a: 71.63Å b: 121.37Å c: 112.87Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.154 0.152 0.182
Expression system: Escherichia coli

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