› 1nmp

X-ray diffraction
2.2Å resolution

Structural genomics, ybgI protein, unknown function

Released:
DOI: 10.2210/pdb1nmp/pdb
PDB entry 1nmp coloured by chain, front view.
PDB entry 1nmp coloured by chain, side view.
PDB entry 1nmp coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Crystal structure of Escherichia coli protein ybgI, a toroidal structure with a dinuclear metal site.
Ladner JE, Obmolova G, Teplyakov A, Howard AJ, Khil PP, Camerini-Otero RD, Gilliland GL
BMC Struct Biol 3 7 (2003)
PMID: 14519207

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142745 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
GTP cyclohydrolase 1 type 2 homolog Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 247 amino acids
Theoretical weight: 26.92 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AFP6 (Residues: 1-247; Coverage: 100%)
Gene names: JW0700, b0710, ybgI
Sequence domains: Duf34/NIF3 (NGG1p interacting factor 3)
Structure domains: NIF3 (NGG1p interacting factor 3)-like

Ligands and Environments

1 bound ligand:
Ligand MG 11 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P3
Unit cell:
a: 156.73Å b: 156.73Å c: 57.61Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.212 0.212 0.253
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Beyond structural genomics: computational approaches for the identification of ligand binding sites in protein structures.
Ghersi et al. (2011)
9 other articles

6 mentions without citation

Crystal structure of Escherichia coli protein ybgI, a toroidal structure with a dinuclear metal site.
Ladner et al. (2003)
5 more