8PPT: Pyrococcus abyssi DNA polymerase D (PolD) in its editing mode bound to a primer/template substrate containing a mismatch

PDB ID: 8PPTDownload
MMDB ID: 240252
PDB Deposition Date: 2023/7/10
Updated in MMDB: 2023/12
Experimental Method:
electron microscopy
Resolution: 2.9  Å
Source Organism:
Similar Structures:
Biological Unit for 8PPT: heptameric; determined by author and by software
Molecular Components in 8PPT
Label Count Molecule
Proteins (5 molecules)
1
DNA Polymerase II Small Subunit
Molecule annotation
3
DNA Polymerase Sliding Clamp
Molecule annotation
1
DP2
Molecule annotation
Nucleotides(2 molecules)
1
DNA (5'-d(p*cp*cp*gp*gp*gp*cp*cp*gp*ap*gp*cp*cp*gp*tp*gp*cp*tp*tp*t)-3')
Molecule annotation
1
DNA (5'-d(p*ap*gp*cp*ap*cp*gp*gp*cp*tp*cp*gp*gp*cp*cp*cp*gp*g)-3')
Molecule annotation
Chemicals and Non-standard biopolymers (6 molecules)
1
3
MAGNESIUM IONMAGNESIUM ION
2
3
ZINC IONZINC 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