› 4ynx

X-ray diffraction
1.5Å resolution

Structure of YdiE from E. coli

Released:
DOI: 10.2210/pdb4ynx/pdb
PDB entry 4ynx coloured by chain, front view.
PDB entry 4ynx coloured by chain, side view.
PDB entry 4ynx coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
The crystal and solution structure of YdiE from Escherichia coli.
Nishimura K, Addy C, Shrestha R, Voet AR, Zhang KY, Ito Y, Tame JR
Acta Crystallogr F Struct Biol Commun 71 919-24 (2015)
PMID: 26144239

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142304 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Uncharacterized protein YdiE Chains: A, B
Molecule details ›
Chains: A, B
Length: 66 amino acids
Theoretical weight: 7.41 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0ACX9 (Residues: 1-63; Coverage: 100%)
Gene names: JW1695, b1705, ydiE
Sequence domains: Hemin uptake protein hemP
Structure domains: Complement Module, domain 1

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: P212121
Unit cell:
a: 36.736Å b: 38.189Å c: 54.728Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.175 0.171 0.25
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 citations in other articles

The Small Protein HemP Is a Transcriptional Activator for the Hemin Uptake Operon in Burkholderia multivorans ATCC 17616.
Sato et al. (2017)

1 mention without citation

The crystal and solution structure of YdiE from Escherichia coli.
Nishimura et al. (2015)