SMTL ID : 4m9n.1

DNA Polymerase Beta E295K Soaked with dATP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

monomer

Ligands

1 x DG- DT- DC- DG- DG: DNA Downstream Strand(Non-covalent)

DG-DT-DC-DG-DG.1: 17 residues within 4Å: Chain A: K.35, A.38, Y.39, L.62, P.63, G.64, V.65, G.66, T.67, K.68, I.69 Chain B: C.1, C.2, G.3, A.4, C.5 Ligands: NA.3 2 PLIP interactions: 2 interactions with chain A Water bridges: A:N.37 pi-Stacking: A:H.34

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 5 residues within 4Å: Chain A: T.101, V.103, G.105, I.106 Chain C: G.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.105, A:I.106, A:I.106 NA.3: 4 residues within 4Å: Chain A: K.60, L.62, V.65 Ligands: DG-DT-DC-DG-DG.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.65 Water bridges: A:K.60, A:K.61, A:L.62

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain A: D.190, D.192 Ligands: DTP.5 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.190, A:D.192, H2O.5, H2O.5

1 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)

DTP.5: 17 residues within 4Å: Chain A: R.149, G.179, S.180, R.183, S.188, G.189, D.190, D.192, Y.271, F.272, T.273, G.274, D.276, N.279 Chain B: A.6 Chain C: C.10 Ligands: MG.4 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:S.180, A:S.180, A:R.183, A:G.189, A:D.190, A:Y.271, A:N.279 Water bridges: A:D.276 Salt bridges: A:R.149, A:R.183

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eckenroth, B.E. et al., The E295K Cancer Variant of Human Polymerase beta Favors the Mismatch Conformational Pathway during Nucleotide Selection. J.Biol.Chem. (2013)

Release Date

2013-10-16

Peptides

DNA polymerase beta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase beta

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