SMTL ID : 8ka3.1

Arabidopsis AP endonuclease ARP complex with 22bp THF-containing DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

monomer

Ligands

1 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 5 residues within 4Å: Chain A: N.45, E.74, D.287 Chain C: C.10 Ligands: 3DR.2 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.74, A:E.74, H2O.1

1 x 3DR: 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE(Non-covalent)

3DR.2: 14 residues within 4Å: Chain A: N.43, E.74, Y.150, N.153, D.190, N.192, A.210, Y.245, W.259, L.261, H.288 Chain B: C.11 Chain C: C.10 Ligands: NI.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.259 Hydrogen bonds: A:N.43, A:Y.150, A:N.192 Salt bridges: A:H.288

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, W. et al., Structural insights into the catalytic mechanism of the AP endonuclease AtARP. Structure (2024)

Release Date

2024-02-21

Peptides

DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic

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