SMTL ID : 1k4t.1

HUMAN DNA TOPOISOMERASE I (70 KDA) IN COMPLEX WITH THE POISON TOPOTECAN AND COVALENT COMPLEX WITH A 22 BASE PAIR DNA DUPLEX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x TTG: 2-(1-DIMETHYLAMINOMETHYL-2-HYDROXY-8-HYDROXYMETHYL-9-OXO-9,11-DIHYDRO-INDOLIZINO[1,2-B]QUINOLIN-7-YL)-2-HYDROXY-BUTYRIC ACID(Non-covalent)

TTG.1: 12 residues within 4Å: Chain A: T.10 Chain B: G.1 Chain C: C.12, A.13 Chain D: E.183, R.191, K.359, D.360, T.545, N.549, Y.550 Ligands: TTC.2 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.191, D:T.545, D:T.545, D:N.549 Water bridges: D:N.549 Salt bridges: D:K.359

1 x TTC: (S)-10-[(DIMETHYLAMINO)METHYL]-4-ETHYL-4,9-DIHYDROXY-1H-PYRANO[3',4':6,7]INOLIZINO[1,2-B]-QUINOLINE-3,14(4H,12H)-DIONE(Non-covalent)

TTC.2: 11 residues within 4Å: Chain A: T.10 Chain B: G.1 Chain C: C.12, A.13 Chain D: E.183, R.191, K.359, D.360, T.545, Y.550 Ligands: TTG.1 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.191 Salt bridges: D:K.359

1 x HG: MERCURY (II) ION(Non-covalent)

HG.3: 5 residues within 4Å: Chain D: A.313, R.417, A.421, L.456, C.457 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:C.457

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 7 residues within 4Å: Chain D: D.327, R.335, E.337, H.338, D.355, F.356, L.357 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.335, D:L.357, D:L.357

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Staker, B.L. et al., The mechanism of topoisomerase I poisoning by a camptothecin analog. Proc.Natl.Acad.Sci.USA (2002)

Release Date

2002-12-04

Peptides

DNA topoisomerase I: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
A

DNA topoisomerase I

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