SMTL ID : 3phd.1

Crystal structure of human HDAC6 in complex with ubiquitin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-4-4-mer

Ligands

12 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.37, C.40, H.56, H.62 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.37, A:C.40, A:H.56, A:H.62 ZN.2: 5 residues within 4Å: Chain A: C.25, C.28, C.45, N.50, H.52 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.25, A:C.28, A:C.45, A:H.52 ZN.3: 4 residues within 4Å: Chain A: C.5, H.7, C.75, C.78 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.5, A:H.7, A:C.75, A:C.78 ZN.4: 4 residues within 4Å: Chain B: C.37, C.40, H.56, H.62 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.37, B:C.40, B:H.56, B:H.62 ZN.5: 4 residues within 4Å: Chain B: C.25, C.28, C.45, H.52 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.25, B:C.28, B:C.45, B:H.52 ZN.6: 4 residues within 4Å: Chain B: C.5, H.7, C.75, C.78 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.5, B:H.7, B:C.75, B:C.78 ZN.7: 4 residues within 4Å: Chain C: C.37, C.40, H.56, H.62 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.37, C:C.40, C:H.56, C:H.62 ZN.8: 5 residues within 4Å: Chain C: C.25, C.28, C.45, N.50, H.52 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.25, C:C.28, C:C.45, C:H.52 ZN.9: 4 residues within 4Å: Chain C: C.5, H.7, C.75, C.78 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.5, C:H.7, C:C.75, C:C.78 ZN.10: 4 residues within 4Å: Chain D: C.37, C.40, H.56, H.62 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.37, D:C.40, D:H.56, D:H.62 ZN.11: 4 residues within 4Å: Chain D: C.25, C.28, C.45, H.52 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.25, D:C.28, D:C.45, D:H.52 ZN.12: 4 residues within 4Å: Chain D: C.5, H.7, C.75, C.78 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.5, D:H.7, D:C.75, D:C.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ouyang, H. et al., Protein Aggregates Are Recruited to Aggresome by Histone Deacetylase 6 via Unanchored Ubiquitin C Termini. J.Biol.Chem. (2012)

Release Date

2011-02-23

Peptides

Histone deacetylase 6: ABCD
Polyubiquitin: EFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

Histone deacetylase 6

Polyubiquitin

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