› 2nl8

X-ray diffraction
2.3Å resolution

The origin binding domain of the SV40 large T antigen bound non specifically to a 17 bp palindrome DNA (sites 1 and 3)

Released:
DOI: 10.2210/pdb2nl8/pdb
PDB entry 2nl8 coloured by chain, front view.
PDB entry 2nl8 coloured by chain, side view.
PDB entry 2nl8 coloured by chain, top view.
Source organisms:
Primary publication:
Structure of the origin-binding domain of simian virus 40 large T antigen bound to DNA.
Bochkareva E, Martynowski D, Seitova A, Bochkarev A
EMBO J 25 5961-9 (2006)
PMID: 17139255

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115663 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Large T antigen Chain: A
Molecule details ›
Chain: A
Length: 133 amino acids
Theoretical weight: 15.36 KDa
Source organism: Macaca mulatta polyomavirus 1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q98ZP7 (Residues: 131-259; Coverage: 24%)
Sequence domains: Origin of replication binding protein
Structure domains: Replication Protein E1; Chain: A,
18-nt PEN element of the SV40 DNA origin Chain: W
Molecule details ›
Chain: W
Length: 18 nucleotides
Theoretical weight: 5.48 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P43212
Unit cell:
a: 43.87Å b: 43.87Å c: 238.308Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.24 0.237 0.299
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

6 review citations

The Mcm complex: unwinding the mechanism of a replicative helicase.
Bochman et al. (2009)
5 more

6 mentions without citation

The critical protein interactions and structures that elicit growth deregulation in cancer and viral replication.
Ou et al. (2011)
5 more