› 3rcm

X-ray diffraction
2.05Å resolution

crystal structure of EFI target 500140:TatD family hydrolase from Pseudomonas putida

Released:
DOI: 10.2210/pdb3rcm/pdb
PDB entry 3rcm coloured by chain, front view.
PDB entry 3rcm coloured by chain, side view.
PDB entry 3rcm coloured by chain, top view.
Source organism: Pseudomonas putida KT2440
Entry authors: Kim J, Toro R, Hillerich B, Seidel RD, Gerlt JA, Almo SC, Enzyme Function Initiative (EFI)

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-183487 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Mg-dependent cytoplasmic DNase / RNase Chain: A
Molecule details ›
Chain: A
Length: 287 amino acids
Theoretical weight: 32.41 KDa
Source organism: Pseudomonas putida KT2440
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q88KH9 (Residues: 1-265; Coverage: 100%)
Gene names: PP_2311, tatD
Sequence domains: TatD related DNase
Structure domains: Metal-dependent hydrolases

Ligands and Environments

3 bound ligands:
Ligand ZN 1 x ZN
Ligand CIT 1 x CIT
Ligand ACT 1 x ACT
1 modified residue:
Ligand MSE 3 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P212121
Unit cell:
a: 51.007Å b: 62.643Å c: 88.57Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.175 0.172 0.226
Expression system: Escherichia coli BL21

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