Ternary complex crystal structure of DNA polymerase Beta with a dideoxy terminated primer with CHCL (R & S isomers, beta, gamma dCTP analogue

Structure

x-ray diffraction · resolution 2 · 4 distinct chains.

Ligands and binding sites

• FF7 · 5'-O-[(R)-{[(R)-[(R)-chloro(phosphono)methyl](hydroxy) phosphoryl]oxy}(hydroxy)phosphoryl]-2'-deoxycytidine · ligand · chains T, P, A
• DJJ · 5'-O-[(R)-{[(R)-[(S)-chloro(phosphono)methyl](hydroxy) phosphoryl]oxy}(hydroxy)phosphoryl]-2'-deoxycytidine · ligand · chains T, P, A
• DC · 2'-deoxycytidine-5'-monophosphate · ligand · chains A
• NA · Sodium ion · metal · 3 copies · chains P, A, D
• MG · Magnesium ion · metal · 2 copies · chains A
• CL · Chloride ion · ion · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

• 6CTT · Ternary complex crystal structure of DNA polymerase beta with a dideoxy terminated primer… · the same entry in another collection · chain A against A, TM-score 1.00
• P06746 · AlphaFold monomer V2.0 prediction for DNA polymerase beta (P06746) · a predicted model of the same protein · chain A against A, TM-score 0.94

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt P06746
• Elsewhere: RCSB PDB 6CTT · PDBe 6CTT · UniProt P06746