SMTL ID : 2bpf.1

STRUCTURES OF TERNARY COMPLEXES OF RAT DNA POLYMERASE BETA, A DNA TEMPLATE-PRIMER, AND DDCTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

1 x DG- DG- DG- DC- DG- DC- DC- DG: DNA (5'-D(*GP*GP*GP*CP*GP*CP*CP*G)-3')(Non-covalent)

DG-DG-DG-DC-DG-DC-DC-DG.1: 25 residues within 4Å: Chain A: S.229, K.230, G.231, E.232, T.233, K.234, R.258, Y.271, N.279, R.283, A.284, L.287, T.292, I.293, N.294, E.295, Y.296 Ligands: DC-DG-DG-DC-DG-DC-DC.2, DC-DG-DG-DC-DG-DC-DC.2, DC-DG-DG-DC-DG-DC-DC.2, DC-DG-DG-DC-DG-DC-DC.2, DC-DG-DG-DC-DG-DC-DC.2, DC-DG-DG-DC-DG-DC-DC.2, DC-DG-DG-DC-DG-DC-DC.2, DCT.5 Protein-ligand interaction information (PLIP) not available

1 x DC- DG- DG- DC- DG- DC- DC: DNA (5'-D(*CP*GP*GP*CP*GP*CP*C)-3')(Non-covalent)

DC-DG-DG-DC-DG-DC-DC.2: 20 residues within 4Å: Chain A: T.104, G.105, G.107, P.108, S.109, A.110, K.234, M.236, R.254, D.256, Y.271 Ligands: DG-DG-DG-DC-DG-DC-DC-DG.1, DG-DG-DG-DC-DG-DC-DC-DG.1, DG-DG-DG-DC-DG-DC-DC-DG.1, DG-DG-DG-DC-DG-DC-DC-DG.1, DG-DG-DG-DC-DG-DC-DC-DG.1, DG-DG-DG-DC-DG-DC-DC-DG.1, DG-DG-DG-DC-DG-DC-DC-DG.1, MG.4, DCT.5 Protein-ligand interaction information (PLIP) not available

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: S.180, S.188, D.190, D.192 Ligands: DCT.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.190, A:D.192, H2O.1 MG.4: 5 residues within 4Å: Chain A: D.190, D.192, D.256 Ligands: DC-DG-DG-DC-DG-DC-DC.2, DCT.5 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.190, A:D.192

1 x DCT: 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE(Non-covalent)

DCT.5: 18 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 Ligands: DG-DG-DG-DC-DG-DC-DC-DG.1, DC-DG-DG-DC-DG-DC-DC.2, MG.3, MG.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:D.276 Hydrogen bonds: A:S.180, A:S.180, A:S.188, A:G.189, A:D.190 Water bridges: A:R.183, A:S.188, A:D.190 Salt bridges: A:R.149, A:R.183

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pelletier, H. et al., Structures of ternary complexes of rat DNA polymerase beta, a DNA template-primer, and ddCTP. Science (1994)

Release Date

1994-12-14

Peptides

PROTEIN (DNA POLYMERASE BETA (E.C.2.7.7.7)): A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PROTEIN (DNA POLYMERASE BETA (E.C.2.7.7.7))

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