SMTL ID : 5hhi.1

Structure of human DNA polymerase beta Host-Guest complexed with CBZ-platinated N7-G

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.52 Å

Oligo State

monomer

Ligands

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

DG-DT-DC-DG-DG.1: 18 residues within 4Å: Chain A: H.28, K.29, A.32, Y.33, L.56, G.58, V.59, G.60, T.61, K.62, I.63, K.66 Chain B: C.1, C.2, G.3, A.4, C.5 Ligands: NA.3 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.31, A:N.31 pi-Stacking: A:H.28

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

NA.2: 6 residues within 4Å: Chain A: T.95, V.97, S.98, G.99, I.100 Chain C: T.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.99, A:I.100, A:I.100 NA.3: 4 residues within 4Å: Chain A: K.54, L.56, V.59 Ligands: DG-DT-DC-DG-DG.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.56

1 x 61C: platinum(4+) chloride azanide [2-(9H-carbazol-9-yl)ethyl]azanide (1:1:2:1)(Non-functional Binders)

61C.4: 5 residues within 4Å: Chain B: G.12, C.13 Chain C: T.3, G.4, C.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheun, Y. et al., Synthesis, structure, and biological evaluation of a platinum-carbazole conjugate. Chem Biol Drug Des (2018)

Release Date

2017-01-18

Peptides

DNA polymerase beta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase beta

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