SMTL ID : 3px7.1

Crystal Structure of covalent complex of topoisomerase 1A with substrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

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

DT-DT.1: 12 residues within 4Å: Chain A: E.9, S.10, P.11, V.31, G.32, Q.309, Y.312, E.313, Y.319, R.321 Ligands: DA-DT-DG-DC-DG-DC-DT.2, HG.4 Protein-ligand interaction information (PLIP) not available

1 x DA- DT- DG- DC- DG- DC- DT: DNA 5'-D(*A*AP*TP*GP*CP*GP*CP*T)-3'(Non-covalent)

DA-DT-DG-DC-DG-DC-DT.2: 31 residues within 4Å: Chain A: E.9, G.32, H.33, D.36, L.67, R.70, E.115, R.168, R.169, D.172, R.173, G.176, Y.177, S.180, P.181, W.184, L.191, S.192, A.193, G.194, R.195, V.196, Q.197, Y.319, R.493, S.495, T.496, R.507 Ligands: DT-DT.1, HG.4, HG.5 Protein-ligand interaction information (PLIP) not available

3 x HG: MERCURY (II) ION(Non-covalent)(Non-functional Binders)

HG.3: 3 residues within 4Å: Chain A: G.281, Y.355, C.401 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.401, A:C.401 HG.4: 4 residues within 4Å: Ligands: DT-DT.1, DT-DT.1, DA-DT-DG-DC-DG-DC-DT.2, HG.5 No protein-ligand interaction detected (PLIP) HG.5: 2 residues within 4Å: Ligands: DA-DT-DG-DC-DG-DC-DT.2, HG.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tse-Dinh, Y.C. et al., Structure of E. coli Topoisomerase I Trapped as Covalent Complex Intermediate with Cleaved DNA. To be Published

Release Date

2011-04-20

Peptides

DNA topoisomerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA topoisomerase