SMTL ID : 8i02.1

Cryo-EM structure of the SIN3S complex from S. pombe

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-2-1-mer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.135, C.137, C.160, T.162, C.163 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.137, A:C.160 ZN.2: 4 residues within 4Å: Chain A: C.120, C.123, H.140, C.143 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.120, A:H.140, A:C.143 ZN.3: 3 residues within 4Å: Chain C: D.173, H.175, D.261 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.173, C:H.175, C:D.261 ZN.6: 4 residues within 4Å: Chain G: C.266, C.269, H.286, C.289 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.266, G:C.269, G:H.286, G:C.289 ZN.7: 4 residues within 4Å: Chain G: C.409, C.412, H.433, C.436 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.409, G:C.412, G:C.436 ZN.8: 5 residues within 4Å: Chain G: C.425, C.428, S.430, C.453, H.456 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.425, G:C.453, G:H.456

2 x K: POTASSIUM ION(Non-covalent)

K.4: 6 residues within 4Å: Chain C: D.171, D.173, H.175, S.194, F.195, H.196 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.171, C:D.171, C:H.175 K.5: 4 residues within 4Å: Chain C: F.184, T.187, V.190, Y.219 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:F.184, C:T.187, C:V.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, C. et al., Two assembly modes for SIN3 histone deacetylase complexes. Cell Discov (2023)

Release Date

2023-05-03

Peptides

Cph1: A
Paired amphipathic helix protein pst2: B
Histone deacetylase clr6: C
RbAp48-related WD40 repeat-containing protein prw1: D
Chromatin modification-related protein eaf3: EF
Uncharacterized protein C2F7.07c: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
A

C
B

D
C

E
D

F
E

G
G

Cph1

Paired amphipathic helix protein pst2

Histone deacetylase clr6

RbAp48-related WD40 repeat-containing protein prw1

Chromatin modification-related protein eaf3

Uncharacterized protein C2F7.07c

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