SMTL ID : 2uvv.1

Crystal structures of mutant Dpo4 DNA polymerases with 8-oxoG containing DNA template-primer constructs

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

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

DGT.1: 19 residues within 4Å: Chain A: D.13, F.14, D.15, Y.16, F.17, Y.18, V.38, A.50, T.51, Y.54, R.57, A.63, D.111, K.165 Chain B: C.14 Chain C: C.4, G.5 Ligands: CA.2, CA.3 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.18 Hydrogen bonds: A:D.13, A:Y.16, A:F.17, A:Y.18 Water bridges: A:D.15, A:R.57, A:T.147, A:K.165, A:K.165 Salt bridges: A:R.57, A:R.57, A:K.165, A:K.165, A:K.165

3 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: D.13, D.111, E.112 Chain B: C.14 Ligands: DGT.1, CA.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.13, A:D.111, A:E.112, H2O.2 CA.3: 5 residues within 4Å: Chain A: D.13, F.14, D.111 Ligands: DGT.1, CA.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.13, A:F.14, A:D.111 CA.4: 2 residues within 4Å: Chain A: A.187, I.192 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:A.187, A:I.192, H2O.5, H2O.6, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eoff, R.L. et al., Hydrogen Bonding of 7,8-Dihydro-8-Oxodeoxyguanosine with a Charged Residue in the Little Finger Domain Determines Miscoding Events in Sulfolobus Solfataricus DNA Polymerase Dpo4. J.Biol.Chem. (2007)

Release Date

2007-05-08

Peptides

DNA POLYMERASE IV: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA POLYMERASE IV

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