SMTL ID : 5zad.1

Human topoisomerase II beta in complex with DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

homo-dimer

Ligands

2 x DA- DG- DC- DC- DG- DA- DG- DC: DNA (5'-D(P*AP*GP*CP*CP*GP*AP*GP*C)-3')(Non-covalent)

DA-DG-DC-DC-DG-DA-DG-DC.1: 27 residues within 4Å: Chain A: E.59, G.86, K.87, D.143, I.147, R.311, K.321, Q.324, Y.355, H.357, G.358, T.365, N.368, K.396, E.452, I.454, R.527, W.529 Chain B: A.4, G.5, C.6, T.7, C.8, G.9, G.10, C.11, T.12 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:D.61, A:I.454 Hydrogen bonds: A:D.61, A:D.61, A:R.85, A:K.87, A:K.87, A:N.90, A:N.90, A:N.102, A:E.359, A:G.457, A:A.459, A:T.594, A:N.596 Water bridges: A:G.86, A:K.260, A:Q.360, A:Q.360 Salt bridges: A:D.61, A:H.146, A:R.259, A:K.260, A:K.461 DA-DG-DC-DC-DG-DA-DG-DC.2: 26 residues within 4Å: Chain C: E.59, G.86, K.87, D.143, I.147, R.311, K.321, Q.324, Y.355, H.357, G.358, T.365, N.368, E.452, I.454, R.527, W.529 Chain D: A.4, G.5, C.6, T.7, C.8, G.9, G.10, C.11, T.12 Protein-ligand interaction information (PLIP) not available

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, L.Y. et al., Increasing the distance between two monomers of topoisomerase II beta under the action of antitumor agent 4 beta-sulfur-(benzimidazole) 4'-demethylepipodophyllotoxin. Sci Rep (2018)

Release Date

2019-03-20

Peptides

DNA topoisomerase 2-beta: AC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

DNA topoisomerase 2-beta

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