› 2fkb

X-ray diffraction
2Å resolution

Crystal structure of a putative enzyme (possible Nudix hydrolase) from Escherichia Coli K12

Released:
DOI: 10.2210/pdb2fkb/pdb
PDB entry 2fkb coloured by chain, front view.
PDB entry 2fkb coloured by chain, side view.
PDB entry 2fkb coloured by chain, top view.
Source organism: Escherichia coli K-12
Entry authors: Nocek B, Evdokimova E, Kudritska M, Savchenko A, Edwards A, Joachimiak A, Midwest Center for Structural Genomics (MCSG)

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-159168 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Uncharacterized Nudix hydrolase YfcD Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 180 amino acids
Theoretical weight: 20.59 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P65556 (Residues: 1-180; Coverage: 100%)
Gene names: JW2296, b2299, yfcD
Sequence domains: NUDIX domain
Structure domains: Nucleoside Triphosphate Pyrophosphohydrolase

Ligands and Environments

4 bound ligands:
Ligand SO4 6 x SO4
Ligand MG 1 x MG
Ligand GOL 9 x GOL
Ligand ACT 4 x ACT
1 modified residue:
Ligand MSE 12 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: I222
Unit cell:
a: 89.701Å b: 134.884Å c: 145.246Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.199 0.231
Expression system: Escherichia coli BL21(DE3)

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