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

Crystal Structure of YEATS domain of human YEATS2 in complex with H3K27bz peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: K.36, R.83 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.83, A:R.83 Salt bridges: A:K.36, A:R.83 SO4.2: 2 residues within 4Å: Chain A: R.6, F.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.133 Salt bridges: A:R.6 SO4.5: 3 residues within 4Å: Ligands: ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.4, ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.4, ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.4 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: R.42, G.43, S.44, E.47, P.48, S.49, I.50 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.43, A:S.44, A:E.47, A:I.50 Water bridges: A:S.44, A:N.51

1 x ACE- ALA- ALA- ARG- LBZ- SER- ALA- PRO- ALA: 2(Non-covalent)

ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.4: 15 residues within 4Å: Chain A: I.107, N.109, K.111, L.112, D.113, R.114, T.115, L.122, G.123, A.124, E.125, T.126, V.127, V.128 Ligands: SO4.5 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:T.126, A:V.128 Hydrogen bonds: A:I.107, A:D.113, A:R.114, A:R.114, A:T.115, A:G.123, A:E.125, A:E.125, A:V.127, A:V.127 Water bridges: A:I.107, A:N.109, A:N.109, A:K.111, A:K.111, A:K.111, A:T.121, A:T.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ren, X. et al., Histone benzoylation serves as an epigenetic mark for DPF and YEATS family proteins. Nucleic Acids Res. (2021)

Release Date

2020-11-18

Peptides

YEATS domain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

YEATS domain-containing protein 2

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