6NKZ: Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma methylene dGTP

PDB ID: 6NKZDownload
MMDB ID: 182899
PDB Deposition Date: 2019/1/7
Updated in MMDB: 2020/07
Experimental Method:
x-ray diffraction
Resolution: 2.01  Å
Source Organism:
Similar Structures:
Biological Unit for 6NKZ: tetrameric; determined by author and by software (PISA)
Molecular Components in 6NKZ
Label Count Molecule
Protein (1 molecule)
1
DNA Polymerase Beta
(Gene symbol: POLB)
Molecule annotation
Nucleotides(3 molecules)
1
DNA (5'-d(*cp*cp*gp*ap*ap*cp*ap*ap*gp*cp*ap*tp*cp*ap*gp*c)-3')
Molecule annotation
1
DNA (5'-d(*gp*cp*tp*gp*ap*tp*gp*cp*tp*(2dt))-3')
Molecule annotation
1
DNA (5'-d(p*tp*tp*cp*gp*g)-3')
Molecule annotation
Chemicals and Non-standard biopolymers (5 molecules)
1
3
SODIUM IONSODIUM ION
2
1
MAGNESIUM IONMAGNESIUM ION
3
1
2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE
* 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