› 3drf

X-ray diffraction
1.3Å resolution

Lactococcal OppA complexed with an endogenous peptide in the closed conformation

Released:
DOI: 10.2210/pdb3drf/pdb
PDB entry 3drf coloured by chain, front view.
PDB entry 3drf coloured by chain, side view.
PDB entry 3drf coloured by chain, top view.
Source organism: Lactococcus cremoris subsp. cremoris MG1363
Primary publication:
The structural basis for peptide selection by the transport receptor OppA.
Berntsson RP, Doeven MK, Fusetti F, Duurkens RH, Sengupta D, Marrink SJ, Thunnissen AM, Poolman B, Slotboom DJ
EMBO J 28 1332-40 (2009)
PMID: 19300437

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-106940 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Solute-binding protein family 5 domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 590 amino acids
Theoretical weight: 65.14 KDa
Source organism: Lactococcus lactis subsp. cremoris MG1363
Expression system: Lactococcus lactis
UniProt:
  • Canonical: A2RJ53 (Residues: 24-600; Coverage: 99%)
Gene names: llmg_0701, oppA
Sequence domains: Bacterial extracellular solute-binding proteins, family 5 Middle
Structure domains: Dipeptide-binding Protein; Domain 3
endogenous peptide Chain: B
Molecule details ›
Chain: B
Length: 8 amino acids
Theoretical weight: 706 Da
Source organism: Lactococcus cremoris subsp. cremoris MG1363
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM16, ESRF BEAMLINE ID29
Spacegroup: P212121
Unit cell:
a: 59.114Å b: 74.65Å c: 115.445Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.133 0.131 0.161
Expression systems:
  • Lactococcus lactis
  • Not provided

Quick links

Citations

11 review citations

Perspective on the Martini model.
Marrink et al. (2013)
10 more

11 mentions without citation

The structural basis for peptide selection by the transport receptor OppA.
Berntsson et al. (2009)
10 more