› 1dy3

X-ray diffraction
2Å resolution

Ternary complex of 7,8-dihydro-6-hydroxymethylpterinpyrophosphokinase from Escherichia coli with ATP and a substrate analogue.

Released:
DOI: 10.2210/pdb1dy3/pdb
PDB entry 1dy3 coloured by chain, front view.
PDB entry 1dy3 coloured by chain, side view.
PDB entry 1dy3 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
2.0 A X-ray structure of the ternary complex of 7,8-dihydro-6-hydroxymethylpterinpyrophosphokinase from Escherichia coli with ATP and a substrate analogue.
Stammers DK, Achari A, Somers DO, Bryant PK, Rosemond J, Scott DL, Champness JN
FEBS Lett 456 49-53 (1999)
PMID: 10452528

Function and Biology Details

Reaction catalysed: 
ATP + 6-hydroxymethyl-7,8-dihydropterin = AMP + 6-hydroxymethyl-7,8-dihydropterin diphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-150686 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase Chain: A
Molecule details ›
Chain: A
Length: 158 amino acids
Theoretical weight: 17.97 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P26281 (Residues: 2-159; Coverage: 99%)
Gene names: JW0138, b0142, folK
Sequence domains: 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK)
Structure domains: 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK

Ligands and Environments

3 bound ligands:
Ligand ATP 1 x ATP
Ligand 87Y 1 x 87Y
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: C2221
Unit cell:
a: 40.96Å b: 69.01Å c: 115.49Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.165 0.165 not available
Expression system: Escherichia coli

Quick links

Citations

5 review citations

The folic acid biosynthesis pathway in bacteria: evaluation of potential for antibacterial drug discovery.
Bermingham et al. (2002)
4 more

9 mentions without citation

Role of protein conformational dynamics in the catalysis by 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase.
Yan et al. (2011)
8 more