› 7azk

X-ray diffraction
2.05Å resolution

DNA polymerase sliding clamp from Escherichia coli with peptide 35 bound

Released:
DOI: 10.2210/pdb7azk/pdb
PDB entry 7azk coloured by chain, front view.
PDB entry 7azk coloured by chain, side view.
PDB entry 7azk coloured by chain, top view.
Source organisms:
Primary publication:
Iterative Structure-Based Optimization of Short Peptides Targeting the Bacterial Sliding Clamp.
Monsarrat C, Compain G, André C, Engilberge S, Martiel I, Oliéric V, Wolff P, Brillet K, Landolfo M, Silva da Veiga C, Wagner J, Guichard G, Burnouf DY
J Med Chem 64 17063-17078 (2021)
PMID: 34806883

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141846 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Beta sliding clamp Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 386 amino acids
Theoretical weight: 42.8 KDa
Source organism: Escherichia coli 2-427-07_S4_C3
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A988 (Residues: 1-366; Coverage: 100%)
Gene names: JW3678, b3701, dnaN
Sequence domains:
Peptide 35 Chains: H, I, J, K
Molecule details ›
Chains: H, I, J, K
Length: 6 amino acids
Theoretical weight: 784 Da
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

5 bound ligands:
Ligand GOL 2 x GOL
Ligand K 2 x K
Ligand 1PE 8 x 1PE
Ligand CL 3 x CL
Ligand PEG 2 x PEG
2 modified residues:
Ligand ALC 4 x ALC
Ligand ZCL 4 x ZCL

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P21
Unit cell:
a: 79.815Å b: 135.827Å c: 87.541Å
α: 90° β: 106.15° γ: 90°
R-values:
R R work R free
0.211 0.21 0.241
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 review citations

Fighting antibiotic resistance-strategies and (pre)clinical developments to find new antibacterials.
Walesch et al. (2023)
2 more