SMTL ID : 6ksf.1

Crystal Structure of ALKBH1 bound to 21-mer DNA bulge

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 3 residues within 4Å: Chain A: D.214, R.264, R.325 Ligand excluded by PLIP CL.2: 2 residues within 4Å: Chain A: G.261, F.262 Ligand excluded by PLIP

1 x SIN: SUCCINIC ACID(Non-covalent)

SIN.3: 7 residues within 4Å: Chain A: N.201, L.209, H.212, D.214, H.268, R.325 Chain B: C.10 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.209 Hydrogen bonds: A:N.201 Salt bridges: A:H.212, A:H.212, A:H.268, A:R.325

1 x XL3: propane-1-thiol(Non-covalent)

XL3.4: 7 residues within 4Å: Chain A: Y.158, Y.165, D.214, R.215, C.216, R.325 Chain B: C.10 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, M. et al., Mammalian ALKBH1 serves as an N6-mA demethylase of unpairing DNA. Cell Res. (2020)

Release Date

2020-04-08

Peptides

Alpha-ketoglutarate-dependent dioxygenase alkB homolog 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-ketoglutarate-dependent dioxygenase alkB homolog 1