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

Crystal structure of YTHDC1 with fragment 1 (DHU_DC1_141)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

monomer

Ligands

1 x M1E: ~{N}-methylthieno[3,2-d]pyrimidin-4-amine(Non-covalent)

M1E.1: 12 residues within 4Å: Chain A: K.35, S.36, N.37, N.41, W.51, S.52, T.53, W.102, P.105, M.108, L.113, D.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.37, A:N.41, A:S.52

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

SO4.2: 4 residues within 4Å: Chain A: G.18, T.19, S.20, K.21 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.18, A:G.18, A:S.20, A:K.21 Water bridges: A:S.20, A:L.22, A:L.22 Salt bridges: A:K.21 SO4.3: 3 residues within 4Å: Chain A: N.37, P.105, A.106 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.37, A:A.106

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

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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