SMTL ID : 6w0q.1 (1 other biounit)

APE1 endonuclease product complex D148E

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: E.54 Chain B: N.1 Chain C: C.10 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.54, H2O.1, H2O.2, H2O.2

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 10 residues within 4Å: Chain A: V.130, W.146, D.147, F.150, R.151, L.169, V.171, G.197, F.198, L.201 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.151, A:G.197

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 3 residues within 4Å: Chain A: K.21, E.44, E.45 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.21, A:E.44 Water bridges: A:D.8, A:K.10, A:K.10 EDO.4: 4 residues within 4Å: Chain A: L.2, Y.3, W.225, N.235 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.3, A:Y.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Whitaker, A.M. et al., Molecular and structural characterization of disease-associated APE1 polymorphisms. DNA Repair (Amst.) (2020)

Release Date

2020-06-10

Peptides

DNA-(apurinic or apyrimidinic site) lyase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA-(apurinic or apyrimidinic site) lyase

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