SMTL ID : 8i03.1

Cryo-EM structure of the SIN3L complex from S. pombe

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY 3.20 Å

Oligo State

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

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain C: D.173, H.175, D.261 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.173, C:D.173, C:H.175, C:D.261 ZN.4: 3 residues within 4Å: Chain D: D.173, H.175, D.261 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.173, D:D.173, D:H.175, D:D.261

4 x K: POTASSIUM ION(Non-covalent)

K.2: 6 residues within 4Å: Chain C: D.171, D.173, H.175, S.194, F.195, H.196 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.171, C:D.173, C:H.175, C:F.195 K.3: 4 residues within 4Å: Chain C: F.184, T.187, V.190, Y.219 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:F.184, C:T.187, C:V.190, C:Y.219 K.5: 6 residues within 4Å: Chain D: D.171, D.173, H.175, S.194, F.195, H.196 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.171, D:D.173, D:H.175 K.6: 4 residues within 4Å: Chain D: F.184, T.187, V.190, Y.219 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:F.184, D:T.187, D: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

Paired amphipathic helix protein pst1: A
Paired amphipathic helix protein pst3: B
Histone deacetylase clr6: CD
Transcriptional regulatory protein dep1: E
Transcriptional regulatory protein rxt2: F
Transcriptional regulatory protein sds3: G
Chromatin modification-related protein png2: H
Transcriptional regulatory protein rxt3: I
RbAp48-related WD40 repeat-containing protein prw1: JK

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

Paired amphipathic helix protein pst1

Paired amphipathic helix protein pst3

Histone deacetylase clr6

Transcriptional regulatory protein dep1

Transcriptional regulatory protein rxt2

Transcriptional regulatory protein sds3

Chromatin modification-related protein png2

Transcriptional regulatory protein rxt3

RbAp48-related WD40 repeat-containing protein prw1

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