SMTL ID : 6lsd.2 (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

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

SO4.1: 3 residues within 4Å: Chain A: P.48, S.49, H.52 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.49 Water bridges: A:H.52 Salt bridges: A:H.52 SO4.2: 1 residues within 4Å: Chain A: R.6 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.6 SO4.3: 3 residues within 4Å: Chain A: R.6, F.8, H.133 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.133 Salt bridges: A:R.6 SO4.4: 2 residues within 4Å: Chain A: K.102, R.103 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.103 Salt bridges: A:R.103 SO4.5: 6 residues within 4Å: Chain A: S.19, K.20, K.36, W.37, M.38, Q.120 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.20, A:Q.120 Water bridges: A:T.81 Salt bridges: A:K.20 SO4.7: 3 residues within 4Å: Ligands: ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.6, ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.6, ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.6 No protein-ligand interaction detected (PLIP)

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

ACE-ALA-ALA-ARG-LBZ-SER-ALA-PRO-ALA.6: 14 residues within 4Å: Chain A: I.107, N.109, K.111, D.113, R.114, T.115, L.122, G.123, A.124, E.125, T.126, V.127, V.128 Ligands: SO4.7 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:T.126, A:V.128 Hydrogen bonds: A:I.107, 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:K.111, A:K.111, 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
B

YEATS domain-containing protein 2

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