› 3i7d

X-ray diffraction
2.3Å resolution

Crystal structure of sugar phosphate isomerase from a cupin superfamily SPO2919 from Silicibacter pomeroyi (YP_168127.1) from SILICIBACTER POMEROYI DSS-3 at 2.30 A resolution

Released:
DOI: 10.2210/pdb3i7d/pdb
PDB entry 3i7d coloured by chain, front view.
PDB entry 3i7d coloured by chain, side view.
PDB entry 3i7d 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 domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-177541 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cupin type-2 domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 163 amino acids
Theoretical weight: 17.97 KDa
Source organism: Ruegeria pomeroyi DSS-3
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5LPC9 (Residues: 1-162; Coverage: 100%)
Gene name: SPO2919
Sequence domains: Cupin domain
Structure domains: Jelly Rolls

Ligands and Environments

4 bound ligands:
Ligand CL 1 x CL
Ligand CAC 2 x CAC
Ligand ACT 1 x ACT
Ligand PEG 1 x PEG
1 modified residue:
Ligand MSE 16 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: P41212
Unit cell:
a: 52.815Å b: 52.815Å c: 252.163Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 0.196 0.245
Expression system: Escherichia coli

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