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

Crystal structure of YTHDC1 with compound DHU_DC1_139

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: G.18, T.19, S.20, K.21 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.20, A:K.21 Water bridges: A:G.18, A:T.19, A:T.19, A:S.20 Salt bridges: A:K.21 SO4.2: 2 residues within 4Å: Chain A: R.149, D.150 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.150 SO4.3: 6 residues within 4Å: Chain A: N.41, W.51, S.52, W.102, V.103, L.113 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.41, A:N.41, A:S.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Y. et al., Atomistic and Thermodynamic Analysis of N6-Methyladenosine (m 6 A) Recognition by the Reader Domain of YTHDC1. J Chem Theory Comput (2021)

Release Date

2020-07-15

Peptides

YTHDC1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

YTHDC1

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