› 3ufd

X-ray diffraction
2.8Å resolution

C.Esp1396I bound to its highest affinity operator site OM

Released:
DOI: 10.2210/pdb3ufd/pdb
PDB entry 3ufd coloured by chain, front view.
PDB entry 3ufd coloured by chain, side view.
PDB entry 3ufd coloured by chain, top view.
Source organism: Enterobacter sp. RFL1396
Primary publication:
The structural basis of differential DNA sequence recognition by restriction-modification controller proteins.
Ball NJ, McGeehan JE, Streeter SD, Thresh SJ, Kneale GG
Nucleic Acids Res 40 10532-42 (2012)
PMID: 22941636

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116981 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
HTH cro/C1-type domain-containing protein Chains: A, B, E, F
Molecule details ›
Chains: A, B, E, F
Length: 82 amino acids
Theoretical weight: 9.52 KDa
Source organism: Enterobacter sp. RFL1396
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8GGH0 (Residues: 1-79; Coverage: 100%)
Gene name: esp1396IC
Sequence domains: Helix-turn-helix
Structure domains: lambda repressor-like DNA-binding domains
DNA (5'-D(*AP*TP*GP*TP*AP*GP*AP*CP*TP*AP*TP*AP*GP*TP*CP*GP*AP*CP*A)-3') Chains: C, G
Molecule details ›
Chains: C, G
Length: 19 nucleotides
Theoretical weight: 5.85 KDa
Source organism: Enterobacter sp. RFL1396
Expression system: Not provided
DNA (5'-D(*TP*TP*GP*TP*CP*GP*AP*CP*TP*AP*TP*AP*GP*TP*CP*TP*AP*CP*A)-3') Chains: D, H
Molecule details ›
Chains: D, H
Length: 19 nucleotides
Theoretical weight: 5.79 KDa
Source organism: Enterobacter sp. RFL1396
Expression system: Not provided

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P21
Unit cell:
a: 47.49Å b: 147.1Å c: 47.78Å
α: 90° β: 93.68° γ: 90°
R-values:
R R work R free
0.207 0.206 0.237
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

9 citation in other articles

Highlights of the DNA cutters: a short history of the restriction enzymes.
Loenen et al. (2014)
8 more

4 mentions without citation

The structural basis of differential DNA sequence recognition by restriction-modification controller proteins.
Ball et al. (2012)
3 more