8VFB: Ternary DNA Polymerase Beta bound to DNA containing primer terminal dA base-paired with FapydG

PDB ID: 8VFBDownload
MMDB ID: 246592
PDB Deposition Date: 2023/12/21
Updated in MMDB: 2024/06
Experimental Method:
x-ray diffraction
Resolution: 2.64  Å
Source Organism:
synthetic construct▼
Similar Structures:
Biological Unit for 8VFB: tetrameric; determined by author and by software (PISA)
Molecular Components in 8VFB
Label Count Molecule
Protein (1 molecule)
1
DNA Polymerase Beta
Molecule annotation
Nucleotides(3 molecules)
1
DNA (5'-d(*cp*cp*gp*ap*cp*cp*(fap)p*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 (4 molecules)
1
1
PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTERPHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
2
1
SODIUM IONSODIUM ION
3
2
MANGANESE (II) IONMANGANESE (II) 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