SMTL ID : 6sz7.1 (1 other biounit)

Crystal structure of YTHDC1 with fragment 5 (DHU_DC1_066)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

monomer

Ligands

1 x M1Q: 5,6,7,8-tetrahydro-4~{a}~{H}-quinazoline-2,4-dione(Non-covalent)

M1Q.1: 11 residues within 4Å: Chain A: N.41, W.51, S.52, T.53, L.54, W.102, L.104, P.105, M.108, L.113, D.150 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.51, A:W.102, A:W.102, A:L.104 Hydrogen bonds: A:L.54

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

SO4.2: 4 residues within 4Å: Chain A: G.18, T.19, S.20, K.21 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.18, A:G.18, A:S.20, A:K.21 Salt bridges: A:K.21 SO4.3: 4 residues within 4Å: Chain A: K.60, W.139, Q.152, E.153 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.152, A:E.153 Salt bridges: A:K.60

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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