› 1j3e

X-ray diffraction
2.5Å resolution

Crystal Structure of the E.coli SeqA protein complexed with N6-methyladenine- guanine mismatch DNA

Released:
DOI: 10.2210/pdb1j3e/pdb
PDB entry 1j3e coloured by chain, front view.
PDB entry 1j3e coloured by chain, side view.
PDB entry 1j3e coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural and biochemical analyses of hemimethylated DNA binding by the SeqA protein.
Fujikawa N, Kurumizaka H, Nureki O, Tanaka Y, Yamazoe M, Hiraga S, Yokoyama S
Nucleic Acids Res 32 82-92 (2004)
PMID: 14704346

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113984 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Negative modulator of initiation of replication Chain: A
Molecule details ›
Chain: A
Length: 115 amino acids
Theoretical weight: 12.98 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AFY8 (Residues: 71-181; Coverage: 61%)
Gene names: JW0674, b0687, seqA
Sequence domains: SeqA protein C-terminal domain
Structure domains: Replication modulator SeqA, C-terminal DNA-binding domain
5'-D(*AP*AP*GP*GP*(6MA)P*TP*CP*CP*AP*A)-3' Chain: B
Molecule details ›
Chain: B
Length: 10 nucleotides
Theoretical weight: 3.08 KDa
Source organism: Escherichia coli
Expression system: Not provided
5'-D(*TP*TP*GP*GP*AP*GP*CP*CP*TP*T)-3' Chain: C
Molecule details ›
Chain: C
Length: 10 nucleotides
Theoretical weight: 3.05 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand 6MA 1 x 6MA

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 33.432Å b: 65.061Å c: 77.176Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.23 0.23 0.296
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

4 review citations

Regulating DNA replication in bacteria.
Skarstad et al. (2013)
3 more

1 mention without citation

Structural and biochemical analyses of hemimethylated DNA binding by the SeqA protein.
Fujikawa et al. (2004)