› 5y61

X-ray diffraction
2.99Å resolution

YfiB-YfiR complexed with GMP

Released:
DOI: 10.2210/pdb5y61/pdb
PDB entry 5y61 coloured by chain, front view.
PDB entry 5y61 coloured by chain, side view.
PDB entry 5y61 coloured by chain, top view.
Source organism: Pseudomonas aeruginosa PAO1
Primary publication:
Structural insights into the functional role of GMP in modulating the YfiBNR system.
Zhou L, Xu M, Jiang T
Biochem Biophys Res Commun 493 637-642 (2017)
PMID: 28870806

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-191376 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Negative regulator YfiR Chains: A, C
Molecule details ›
Chains: A, C
Length: 159 amino acids
Theoretical weight: 17.43 KDa
Source organism: Pseudomonas aeruginosa PAO1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9I4L4 (Residues: 35-190; Coverage: 82%)
Gene names: PA1121, yfiR
Sequence domains: YfiR/HmsC-like
Outer-membrane lipoprotein YfiB Chains: B, D
Molecule details ›
Chains: B, D
Length: 138 amino acids
Theoretical weight: 15.08 KDa
Source organism: Pseudomonas aeruginosa PAO1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9I4L6 (Residues: 34-168; Coverage: 94%)
Gene names: PA1119, yfiB
Sequence domains: OmpA family
Structure domains: OmpA-like domain

Ligands and Environments

1 bound ligand:
Ligand 5GP 1 x 5GP
1 modified residue:
Ligand MSE 4 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: P1
Unit cell:
a: 49.595Å b: 58.422Å c: 69.869Å
α: 107.39° β: 97.28° γ: 89.9°
R-values:
R R work R free
0.2 0.197 0.258
Expression system: Escherichia coli

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