› 1j1v

X-ray diffraction
2.1Å resolution

Crystal structure of DnaA domainIV complexed with DnaAbox DNA

Released:
DOI: 10.2210/pdb1j1v/pdb
PDB entry 1j1v coloured by chain, front view.
PDB entry 1j1v coloured by chain, side view.
PDB entry 1j1v coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural basis of replication origin recognition by the DnaA protein.
Fujikawa N, Kurumizaka H, Nureki O, Terada T, Shirouzu M, Katayama T, Yokoyama S
Nucleic Acids Res 31 2077-86 (2003)
PMID: 12682358

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113983 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Chromosomal replication initiator protein DnaA Chain: A
Molecule details ›
Chain: A
Length: 94 amino acids
Theoretical weight: 10.83 KDa
Source organism: Escherichia coli
Expression system: Not provided
UniProt:
  • Canonical: P03004 (Residues: 374-467; Coverage: 20%)
Gene names: JW3679, b3702, dnaA
Sequence domains: Bacterial dnaA protein helix-turn-helix
Structure domains: Chromosomal Replication Initiator Protein Dnaa; Chain: A;
5'-D(*TP*GP*TP*TP*AP*TP*CP*CP*AP*CP*AP*GP*G)-3' Chain: B
Molecule details ›
Chain: B
Length: 13 nucleotides
Theoretical weight: 3.97 KDa
Source organism: Escherichia coli
Expression system: Not provided
5'-D(*CP*CP*TP*GP*TP*GP*GP*AP*TP*AP*AP*CP*A)-3' Chain: C
Molecule details ›
Chain: C
Length: 13 nucleotides
Theoretical weight: 3.98 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 2 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P41212
Unit cell:
a: 50.385Å b: 50.385Å c: 158.83Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.229 0.249
Expression system: Not provided

Quick links

Citations

30 review citations

The many faces of the helix-turn-helix domain: transcription regulation and beyond.
Aravind et al. (2005)
29 more

20 mentions without citation

The DnaA Cycle in Escherichia coli: Activation, Function and Inactivation of the Initiator Protein.
Katayama et al. (2017)
19 more