SMTL ID : 6t0o.2 (1 other biounit)

Crystal structure of YTHDC1 with fragment 14 (ACA_DC1_004)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.71 Å

Oligo State

monomer

Ligands

1 x M6N: 2-methyl-3~{H}-pyrido[3,4-d]pyrimidin-4-one(Non-covalent)

M6N.1: 9 residues within 4Å: Chain A: K.35, S.36, N.37, N.41, W.51, S.52, T.53, W.102, L.113 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.51, A:W.102 Hydrogen bonds: A:N.37, A:N.37, A:N.41, A:S.52, A:L.54

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: R.125, E.126 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.126 Water bridges: A:R.125, A:R.125 Salt bridges: A:R.125 SO4.3: 3 residues within 4Å: Chain A: S.93, H.94, H.95 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.93, A:H.95, A:H.95 Salt bridges: A:H.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bedi, R.K. et al., Selectively Disrupting m6A-Dependent Protein-RNA Interactions with Fragments. Acs Chem.Biol. (2020)

Release Date

2020-03-04

Peptides

YTHDC1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

YTHDC1

Related Entries With Identical Sequence