SMTL ID : 7jfy.1

GAS41 YEATS domain in complex with 5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

4 x V91: N-(5-{3-[(2S)-1,3-thiazolidin-2-yl]azetidine-1-carbonyl}thiophen-2-yl)-L-prolinamide(Non-covalent)

V91.1: 10 residues within 4Å: Chain A: H.48, H.76, S.78, Y.79, T.96, G.97, W.98, G.99, E.100, F.101 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:H.76, A:Y.79, A:Y.79, A:W.98, A:F.101 Hydrogen bonds: A:W.98, A:G.99, A:E.100, A:E.100 Water bridges: A:H.76 pi-Stacking: A:H.76 V91.4: 10 residues within 4Å: Chain B: H.48, H.76, S.78, Y.79, T.96, G.97, W.98, G.99, E.100, F.101 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.101 Hydrogen bonds: B:W.98, B:G.99, B:E.100 Water bridges: B:E.100 pi-Stacking: B:H.76 pi-Cation interactions: B:H.48 V91.8: 9 residues within 4Å: Chain C: H.48, H.76, S.78, Y.79, G.97, W.98, G.99, E.100, F.101 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:F.101 Hydrogen bonds: C:W.98, C:G.99, C:E.100, C:E.100 Water bridges: C:G.80 pi-Stacking: C:H.76, C:Y.79, C:W.98 V91.10: 10 residues within 4Å: Chain D: H.48, H.76, S.78, Y.79, T.96, G.97, W.98, G.99, E.100, F.101 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:H.76, D:Y.79, D:F.101 Hydrogen bonds: D:W.98, D:G.99, D:E.100 Water bridges: D:H.76, D:E.100 pi-Stacking: D:H.76

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 5 residues within 4Å: Chain A: V.35, R.37, Q.51, W.52, T.53 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.37, A:R.37, A:W.52, A:T.53 EDO.5: 5 residues within 4Å: Chain B: V.35, R.37, Q.51, W.52, T.53 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.52 Water bridges: B:T.53 EDO.6: 4 residues within 4Å: Chain B: R.37, Y.38, Q.127, K.137 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.38 EDO.7: 5 residues within 4Å: Chain B: F.109, R.115, V.117, I.148, F.149 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.115, B:I.148 EDO.9: 2 residues within 4Å: Chain C: P.89, P.90 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.124, A:K.124 EDO.11: 5 residues within 4Å: Chain A: K.57 Chain B: Y.144 Chain D: Y.59, R.60, N.61 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: D:R.60, D:N.61, B:Y.144, A:K.57, A:K.57

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 4 residues within 4Å: Chain A: V.35, Y.55, K.57, E.92 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.57 Salt bridges: A:E.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Linhares, B.M. et al., GAS41 YEATS domain in complex with 5. To Be Published

Release Date

2021-07-21

Peptides

YEATS domain-containing protein 4: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
C

D
D

YEATS domain-containing protein 4