SMTL ID : 8ifg.1

Cryo-EM structure of the Clr6S (Clr6-HDAC) complex from S. pombe

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain C: D.169, H.171, D.257 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.169, C:D.169, C:H.171, C:D.257, H2O.1 ZN.2: 4 residues within 4Å: Chain G: C.409, C.412, H.433, C.436 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.409, G:C.412, G:H.433, G:C.436 ZN.3: 4 residues within 4Å: Chain G: C.425, C.428, C.453, H.456 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.425, G:C.428, G:C.453, G:H.456

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, X. et al., Class I histone deacetylase complex: Structure and functional correlates. Proc Natl Acad Sci U S A (2023)

Release Date

2024-01-03

Peptides

RbAp48-related WD40 repeat-containing protein prw1: A
Paired amphipathic helix protein pst2: B
Histone deacetylase clr6: C
Chromatin modification-related protein eaf3: DE
Cph1: F
Cph2: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
C

D
E

E
D

F
F

G
P

RbAp48-related WD40 repeat-containing protein prw1

Paired amphipathic helix protein pst2

Histone deacetylase clr6

Chromatin modification-related protein eaf3

Cph1

Cph2

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