› 4qfn

X-ray diffraction
2.3Å resolution

Crystal structure of dipeptide binding protein from pseudoalteromonas sp. SM9913 in complex with Gly-Glu

Released:
DOI: 10.2210/pdb4qfn/pdb
PDB entry 4qfn coloured by chain, front view.
PDB entry 4qfn coloured by chain, side view.
PDB entry 4qfn coloured by chain, top view.
Source organism: Pseudoalteromonas sp. SM9913
Primary publication:
Structural insights into the multispecific recognition of dipeptides of deep-sea gram-negative bacterium Pseudoalteromonas sp. strain SM9913.
Li CY, Chen XL, Qin QL, Wang P, Zhang WX, Xie BB, Su HN, Zhang XY, Zhou BC, Zhang YZ
J Bacteriol 197 1125-34 (2015)
PMID: 25605306

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-108498 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Solute-binding protein family 5 domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 541 amino acids
Theoretical weight: 61.76 KDa
Source organism: Pseudoalteromonas sp. SM9913
Expression system: Escherichia coli
UniProt:
  • Canonical: A7Y7W1 (Residues: 1-535; Coverage: 100%)
Gene name: dppA
Sequence domains: Bacterial extracellular solute-binding proteins, family 5 Middle
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand GLY 2 x GLY
Ligand GLU 2 x GLU
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P32
Unit cell:
a: 106.01Å b: 106.01Å c: 100.372Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.154 0.151 0.211
Expression system: Escherichia coli

Quick links

Citations

3 citation in other articles

Control of Bacterial Virulence through the Peptide Signature of the Habitat.
Krypotou et al. (2019)
2 more

3 mentions without citation

Stress-Responsive Periplasmic Chaperones in Bacteria.
Kim et al. (2021)
2 more