› 2oyn

X-ray diffraction
1.85Å resolution

Crystal structure of CDP-bound protein MJ0056 from Methanococcus jannaschii, Pfam DUF120

Released:
DOI: 10.2210/pdb2oyn/pdb
PDB entry 2oyn coloured by chain, front view.
PDB entry 2oyn coloured by chain, side view.
PDB entry 2oyn coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii DSM 2661
Entry authors: Bonanno JB, Dickey M, Bain KT, Lau C, Romero R, Smith D, Wasserman S, Sauder JM, Burley SK, Almo SC, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Reaction catalysed: 
CTP + riboflavin = CDP + FMN
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178778 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Riboflavin kinase Chain: A
Molecule details ›
Chain: A
Length: 146 amino acids
Theoretical weight: 16.92 KDa
Source organism: Methanocaldococcus jannaschii DSM 2661
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q60365 (Residues: 1-132; Coverage: 100%)
Gene names: MJ0056, ribK
Sequence domains: Domain of unknown function DUF120
Structure domains: Riboflavin kinase-like

Ligands and Environments

2 bound ligands:
Ligand NA 1 x NA
Ligand CDP 1 x CDP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 31-ID
Spacegroup: P41212
Unit cell:
a: 63.48Å b: 63.48Å c: 73.117Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.199 0.197 0.239
Expression system: Escherichia coli BL21(DE3)

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