› 1pot

X-ray diffraction
1.8Å resolution

SPERMIDINE/PUTRESCINE-BINDING PROTEIN COMPLEXED WITH SPERMIDINE (MONOMER FORM)

Released:
DOI: 10.2210/pdb1pot/pdb
PDB entry 1pot coloured by chain, front view.
PDB entry 1pot coloured by chain, side view.
PDB entry 1pot coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
The 1.8-A X-ray structure of the Escherichia coli PotD protein complexed with spermidine and the mechanism of polyamine binding.
Sugiyama S, Matsuo Y, Maenaka K, Vassylyev DG, Matsushima M, Kashiwagi K, Igarashi K, Morikawa K
Protein Sci 5 1984-90 (1996)
PMID: 8897598

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142736 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Spermidine/putrescine-binding periplasmic protein Chain: A
Molecule details ›
Chain: A
Length: 325 amino acids
Theoretical weight: 36.53 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AFK9 (Residues: 24-348; Coverage: 100%)
Gene names: JW1109, b1123, potD
Sequence domains: Bacterial extracellular solute-binding protein
Structure domains: Periplasmic binding protein-like II

Ligands and Environments

1 bound ligand:
Ligand SPD 1 x SPD
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: I41
Unit cell:
a: 130.3Å b: 130.3Å c: 38.7Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 0.198 not available

Quick links

Citations

3 review citations

Polyamines: mysterious modulators of cellular functions.
Igarashi et al. (2000)
2 more

14 mentions without citation

A graph-theory algorithm for rapid protein side-chain prediction.
Canutescu et al. (2003)
13 more