SMTL ID : 4gyz.2 (8 other biounits)

Mus Musculus Tdp2 Bound to dAMP and Mg2+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.56 Å

Oligo State

monomer

Ligands

1 x D5M: 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE(Non-covalent)

D5M.1: 12 residues within 4Å: Chain A: N.16, E.48, H.122, S.125, T.126, D.158, N.160, R.162, W.193, F.211, H.245 Ligands: MG.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.16, A:S.125, A:S.125, A:T.126, A:N.160, A:N.160, A:R.162, A:D.244 Salt bridges: A:H.122, A:H.245

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.18, E.48 Ligands: D5M.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.48, H2O.1, H2O.1, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schellenberg, M.J. et al., Mechanism of repair of 5'-topoisomerase II-DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2. Nat.Struct.Mol.Biol. (2012)

Release Date

2012-10-31

Peptides

Tyrosyl-DNA phosphodiesterase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Tyrosyl-DNA phosphodiesterase 2

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