SMTL ID : 9h2w.1 (1 other biounit)

Crystal structure of YTHDC1 in complex with AI_055

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.28 Å

Oligo State

monomer

Ligands

1 x 01: 2-sulfanyl-3~{H}-thieno[2,3-d]pyrimidin-4-one

01.1: 9 residues within 4Å: Chain A: S.19, N.20, N.24, W.34, S.35, L.37, W.85, M.91, L.96 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:N.24, A:W.34 Hydrogen bonds: A:N.20, A:N.24 Water bridges: A:N.20, A:R.61

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

SO4.2: 4 residues within 4Å: Chain A: G.1, T.2, S.3, K.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.1, A:S.3, A:K.4 Water bridges: A:K.4 Salt bridges: A:K.4 SO4.3: 2 residues within 4Å: Chain A: H.77, H.78 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.78 Salt bridges: A:H.77, A:H.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bedi, R.K. et al., Crystal structure of YTHDC1 in complex with AI_04. To Be Published

Release Date

2025-08-27

Peptides

YTH domain-containing protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

YTH domain-containing protein 1

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