SMTL ID : 2r8h.1

Selectivity of Nucleoside Triphosphate Incorporation Opposite 1,N2-Propanodeoxyguanosine (PdG) by the Sulfolobus solfataricus DNA Polymerase Dpo4 Polymerase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

monomer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain C: A.181, I.186 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:A.181, H2O.2, H2O.2, H2O.3, H2O.4 CA.2: 5 residues within 4Å: Chain C: D.7, D.105, E.106 Ligands: CA.3, DGT.4 No protein-ligand interaction detected (PLIP) CA.3: 5 residues within 4Å: Chain C: D.7, F.8, D.105 Ligands: CA.2, DGT.4 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.7, C:F.8, C:D.105

1 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

DGT.4: 17 residues within 4Å: Chain B: C.4, G.5 Chain C: D.7, F.8, Y.10, F.11, Y.12, A.44, T.45, Y.48, R.51, A.57, G.58, D.105, K.159 Ligands: CA.2, CA.3 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:Y.12 Hydrogen bonds: C:Y.10, C:F.11, C:Y.12, C:Y.48 Water bridges: C:D.9, C:T.45 Salt bridges: C:R.51, C:R.51, C:K.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y. et al., Insertion of dNTPs opposite the 1,N2-propanodeoxyguanosine adduct by Sulfolobus solfataricus P2 DNA polymerase IV. Biochemistry (2008)

Release Date

2008-07-22

Peptides

DNA polymerase IV: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

DNA polymerase IV

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