› 3q4l

X-ray diffraction
1.95Å resolution

Structure of a small peptide ligand bound to E.coli DNA sliding clamp

Released:
DOI: 10.2210/pdb3q4l/pdb
PDB entry 3q4l coloured by chain, front view.
PDB entry 3q4l coloured by chain, side view.
PDB entry 3q4l coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Structure-based design of short peptide ligands binding onto the E. coli processivity ring.
Wolff P, Oliéric V, Briand JP, Chaloin O, Dejaegere A, Dumas P, Ennifar E, Guichard G, Wagner J, Burnouf DY
J Med Chem 54 4627-37 (2011)
PMID: 21619076

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141830 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Beta sliding clamp Chains: A, B
Molecule details ›
Chains: A, B
Length: 368 amino acids
Theoretical weight: 40.77 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0A988 (Residues: 1-366; Coverage: 100%)
Gene names: JW3678, b3701, dnaN
Sequence domains:
Structure domains: DNA Polymerase III, subunit A, domain 2
peptide ligand Chains: C, D
Molecule details ›
Chains: C, D
Length: 6 amino acids
Theoretical weight: 770 Da
Source organism: Escherichia coli K-12
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand NA 1 x NA
2 modified residues:
Ligand ALC 2 x ALC
Ligand ZCL 2 x ZCL

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P1
Unit cell:
a: 34.84Å b: 79.57Å c: 81.64Å
α: 65.28° β: 75.26° γ: 82.22°
R-values:
R R work R free
0.2 0.199 0.232
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 review citations

Modulators of protein-protein interactions as antimicrobial agents.
Kahan et al. (2021)
1 more

1 mention without citation

DNA Sliding Clamps as Therapeutic Targets.
Altieri et al. (2018)