SMTL ID : 8ij0.1 (1 other biounit)

Crystal structure of GAS41 YEATS domain in complex with H3K9ac peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.52 Å

Oligo State

hetero-1-1-mer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: Y.22, H.34, L.109, F.110, Q.111 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.34, A:Q.111, A:Q.111 GOL.2: 7 residues within 4Å: Chain A: Y.104, L.106, F.127 Chain B: A.7, R.8, K.9, S.10 6 PLIP interactions: 6 interactions with chain A Water bridges: A:Y.16, A:Y.16, A:Y.104, A:L.106, A:L.106, A:L.106 GOL.5: 5 residues within 4Å: Chain A: P.100, V.101, T.102 Chain B: R.2, T.3 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.3, A:P.100, A:T.102 Water bridges: B:T.3

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

SO4.3: 4 residues within 4Å: Chain A: V.69, V.70, T.71, K.72 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.71, A:K.72 Water bridges: A:V.69, A:K.72, A:K.72, A:P.73 Salt bridges: A:K.72 SO4.4: 2 residues within 4Å: Chain A: K.53, T.71 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.71, A:T.71 SO4.6: 3 residues within 4Å: Chain A: R.99 Chain B: A.1, R.2 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Water bridges: A:R.99, A:Q.134, B:A.1, B:A.1 Hydrogen bonds: B:A.1 Salt bridges: B:R.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kikuchi, M. et al., GAS41 promotes H2A.Z deposition through recognition of the N terminus of histone H3 by the YEATS domain. Proc.Natl.Acad.Sci.USA (2023)

Release Date

2023-11-01

Peptides

YEATS domain-containing protein 4: A
Histone H3.1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

YEATS domain-containing protein 4

Histone H3.1

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