SMTL ID : 7cd6.1

mAPE1-recessed dsDNA product complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

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

DG-DC-DG-DT-DA-DA-DT-DA-DC.1: 24 residues within 4Å: Chain A: Y.118, N.164, R.167 Chain B: D.60, G.61, L.62, R.63, A.64, K.68, K.88, K.93, E.116, G.117, R.167, Y.259, M.260, M.261 Ligands: DG-DC-DG-DT-DA-DA-DT-DA-DC.2, DG-DC-DG-DT-DA-DA-DT-DA-DC.2, DG-DC-DG-DT-DA-DA-DT-DA-DC.2, DG-DC-DG-DT-DA-DA-DT-DA-DC.2, DG-DC-DG-DT-DA-DA-DT-DA-DC.2, DG-DC-DG-DT-DA-DA-DT-DA-DC.2, DG-DC-DG-DT-DA-DA-DT-DA-DC.2 Protein-ligand interaction information (PLIP) not available DG-DC-DG-DT-DA-DA-DT-DA-DC.2: 24 residues within 4Å: Chain A: D.60, G.61, L.62, R.63, A.64, K.68, K.88, K.93, E.116, G.117, R.167, Y.259, M.260, M.261 Chain B: Y.118, N.164, R.167 Ligands: DG-DC-DG-DT-DA-DA-DT-DA-DC.1, DG-DC-DG-DT-DA-DA-DT-DA-DC.1, DG-DC-DG-DT-DA-DA-DT-DA-DC.1, DG-DC-DG-DT-DA-DA-DT-DA-DC.1, DG-DC-DG-DT-DA-DA-DT-DA-DC.1, DG-DC-DG-DT-DA-DA-DT-DA-DC.1, DG-DC-DG-DT-DA-DA-DT-DA-DC.1 Protein-ligand interaction information (PLIP) not available

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, T.C. et al., APE1 distinguishes DNA substrates in exonucleolytic cleavage by induced space-filling. Nat Commun (2021)

Release Date

2021-01-13

Peptides

DNA-(apurinic or apyrimidinic site) endonuclease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

DNA-(apurinic or apyrimidinic site) endonuclease