› 3di4

X-ray diffraction
1.6Å resolution

Crystal structure of a duf1989 family protein (spo0365) from silicibacter pomeroyi dss-3 at 1.60 A resolution

Released:
DOI: 10.2210/pdb3di4/pdb
PDB entry 3di4 coloured by chain, front view.
PDB entry 3di4 coloured by chain, side view.
PDB entry 3di4 coloured by chain, top view.
Source organism: Ruegeria pomeroyi DSS-3
Entry author: Joint Center for Structural Genomics (JCSG)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-177579 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DUF1989 domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 286 amino acids
Theoretical weight: 31.6 KDa
Source organism: Ruegeria pomeroyi DSS-3
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5LXE3 (Residues: 1-285; Coverage: 100%)
Gene name: SPO0365
Sequence domains: Domain of unknown function (DUF1989)

Ligands and Environments

4 bound ligands:
Ligand ZN 2 x ZN
Ligand CL 4 x CL
Ligand GOL 1 x GOL
Ligand SO4 1 x SO4
1 modified residue:
Ligand MSE 12 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P21
Unit cell:
a: 51.465Å b: 95.764Å c: 58.689Å
α: 90° β: 109.04° γ: 90°
R-values:
R R work R free
0.142 0.141 0.175
Expression system: Escherichia coli

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