3RJF: Ternary complex of DNA Polymerase Beta with a gapped DNA containing (syn)8odG at template position paired with non-hydrolyzable dATP analog (dApCPP)

PDB ID: 3RJFDownload
MMDB ID: 96519
PDB Deposition Date: 2011/4/15
Updated in MMDB: 2023/09
Experimental Method:
x-ray diffraction
Resolution: 2.3  Å
Source Organism:
synthetic construct▼
Similar Structures:
Biological Unit for 3RJF: tetrameric; determined by author and by software (PISA)
Molecular Components in 3RJF
Label Count Molecule
Protein (1 molecule)
1
DNA Polymerase Beta
Molecule annotation
Nucleotides(3 molecules)
1
DNA (5'-d(*cp*cp*gp*ap*cp*(8og)p*tp*cp*gp*cp*ap*tp*cp*ap*gp*c)-3')
Molecule annotation
1
DNA (5'-d(*gp*cp*tp*gp*ap*tp*gp*cp*gp*a)-3')
Molecule annotation
1
DNA (5'-d(p*gp*tp*cp*gp*g)-3')
Molecule annotation
Chemicals and Non-standard biopolymers (9 molecules)
1
1
2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine
2
2
MAGNESIUM IONMAGNESIUM ION
3
2
SODIUM IONSODIUM ION
4
4
CHLORIDE IONCHLORIDE ION
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303