› 6czf

X-ray diffraction
1.95Å resolution

The structure of E. coli PurF in complex with ppGpp-Mg

Released:
DOI: 10.2210/pdb6czf/pdb
PDB entry 6czf coloured by chain, front view.
PDB entry 6czf coloured by chain, side view.
PDB entry 6czf coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Affinity-based capture and identification of protein effectors of the growth regulator ppGpp.
Wang B, Dai P, Ding D, Del Rosario A, Grant RA, Pentelute BL, Laub MT
Nat Chem Biol 15 141-150 (2019)
PMID: 30559427

Function and Biology Details

Reaction catalysed: 
5-phospho-beta-D-ribosylamine + diphosphate + L-glutamate = L-glutamine + 5-phospho-alpha-D-ribose 1-diphosphate + H(2)O
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142777 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Amidophosphoribosyltransferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 498 amino acids
Theoretical weight: 55.72 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AG16 (Residues: 2-499; Coverage: 99%)
Gene names: JW2309, b2312, purF
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand MG 2 x MG
Ligand G4P 2 x G4P
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P212121
Unit cell:
a: 107.293Å b: 115.339Å c: 156.066Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.217 0.216 0.241
Expression system: Escherichia coli

Quick links

Citations

23 review citations

The stringent response and physiological roles of (pp)pGpp in bacteria.
Irving et al. (2021)
22 more

6 mentions without citation

Emerging and divergent roles of pyrophosphorylated nucleotides in bacterial physiology and pathogenesis.
Chau et al. (2021)
5 more