Compound three letter code : SHH
 
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Entry Information
Entry status  (1)
REL
(17)
 
Experimental methods  (2)
X-ray diffraction
(16)
Electron Microscopy
(1)
 
Authors  (195)
Christianson DW
(5)
Albrecht D
(3)
Berndt L
(3)
Deardorff MA
(3)
Decroos C
(3)
Dorre B
(3)
Dörre B
(3)
Girbardt B
(3)
Graf LG
(3)
Hocking DM
(3)
Hofmann K
(3)
Janetzky M
(3)
Jebeli L
(3)
Lammers M
(3)
Moreno-Yruela C
(3)
Olsen CA
(3)
Palm GJ
(3)
Qin C
(3)
Schmoker O
(3)
Schmöker O
(3)
Schulze S
(3)
Sievers S
(3)
Strugnell RA
(3)
Wang N
(3)
Weis DM
(3)
Zuhlke D
(3)
Zühlke D
(3)
Bowman CB
(2)
Bowman CM
(2)
Christianson KE
(2)
Moser J-AS
(2)
Moser JA
(2)
Alfieri C
(1)
Allali-Hassani A
(1)
Andrade L
(1)
Arrowsmith CH
(1)
Arvai A
(1)
Bochkarev A
(1)
Breslow R
(1)
Buck IM
(1)
Buggy JJ
(1)
Caby S
(1)
Casero Jr RA
(1)
Casero RA
(1)
Cavarelli J
(1)
Chi E
(1)
Choudhary JS
(1)
Cleasby A
(1)
Cohen A
(1)
Cons BD
(1)
Cui K
(1)
Cura V
(1)
Dawson L
(1)
Dickmanns A
(1)
Donigian JR
(1)
Dougan DR
(1)
East C
(1)
Edwards AM
(1)
Fedorowicz G
(1)
Ficner R
(1)
Finnin MS
(1)
Flicke B
(1)
Foley JR
(1)
Fong R
(1)
Futamura T
(1)
Geraldy MNE
(1)
Goto S
(1)
Griffiths-Jones C
(1)
Gunkel N
(1)
Gunzner J
(1)
Géraldy MNE
(1)
Hai Y
(1)
Hashimoto T
(1)
Hauser A
(1)
Hauser AT
(1)
Heightman TD
(1)
Heise CE
(1)
Herbst-Gervasoni CJ
(1)
Hildmann C
(1)
Ho JD
(1)
Huang J
(1)
Ishikawa S
(1)
Ito H
(1)
Jennings AJ
(1)
Jung M
(1)
Kaminker JS
(1)
Kaneko Y
(1)
Kannan S
(1)
Katz BA
(1)
Kawato T
(1)
Klinke G
(1)
Knuth MW
(1)
Koliopolous MG
(1)
Koliopoulos MG
(1)
Kondo K
(1)
Koth CM
(1)
Krantz ID
(1)
Kurihara N
(1)
Kuster B
(1)
Kwiatkowski NP
(1)
 
More...
 
Homo / hetero assembly  (2)
homo
(16)
hetero
(1)
 
Assembly composition  (2)
protein structure
(16)
protein/protein complex
(1)
 
Assembly polymer count  (4)
monomer
(13)
tetramer
(2)
dimer
(1)
trimer
(1)
 
Resolution distribution
1.0 - 1.5
(1)
1.5 - 2
(9)
2.0 - 2.5
(5)
2.5 - 3
(2)
 
Release year distribution
1995 - 2000
(1)
2000 - 2005
(2)
2005 - 2010
(2)
2010 - 2015
(5)
2015 - 2020
(3)
2020 - 2025
(7)
 
Journal  (12)
Nat Commun
(4)
ACS Chem Biol
(2)
J Biol Chem
(2)
ACS Med Chem Lett
(1)
J Am Chem Soc
(1)
J Mol Biol
(1)
J Struct Biol
(1)
Nat Chem Biol
(1)
Nature
(1)
PLoS Pathog
(1)
Structure
(1)
To be published
(1)
 
Macromolecules
Organism superkingdom  (2)
Eukaryota
(12)
Bacteria
(5)
 
Organism name  (8)
Homo sapiens
(9)
Danio rerio
(2)
Alcaligenaceae bacterium FB188
(1)
Aquifex aeolicus
(1)
Klebsiella pneumoniae subsp. ozaenae
(1)
Rhizorhabdus wittichii DC-6
(1)
Schistosoma mansoni
(1)
Vibrio cholerae
(1)
 
Molecule name  (36)
Histone deacetylase 8
(5)
HD8
(4)
Protein deacetylase HDAC8
(4)
Protein decrotonylase HDAC8
(4)
HD2
(3)
Histone deacetylase 2
(3)
Histone deacetylase domain-containing protein
(3)
Protein deacylase HDAC2
(3)
Acetoin utilization protein
(1)
Acetoin utilization protein AcuC
(1)
Deacetylase
(1)
Dimethoate hydrolase
(1)
HD7
(1)
HD7a
(1)
HDAC-like amidohydrolase
(1)
HDAH
(1)
Histone deacetylase
(1)
Histone deacetylase 10
(1)
Histone deacetylase 6
(1)
Histone deacetylase 7
(1)
Histone deacetylase 7A
(1)
Histone deacetylase complex subunit Sin3b
(1)
Histone deacetylase-like amidohydrolase
(1)
LTA-4 hydrolase
(1)
Leukotriene A(4) hydrolase
(1)
Leukotriene A-4 hydrolase
(1)
PHD factor 1
(1)
PHD finger protein 12
(1)
Paired amphipathic helix protein Sin3b
(1)
Pf1
(1)
Polyamine deacetylase HDAC10
(1)
Protein deacetylase HDAC7
(1)
Transcriptional corepressor Sin3b
(1)
Tripeptide aminopeptidase LTA4H
(1)
UBP-type domain-containing protein
(1)
histone deacetylase
(1)
 
Molecule type  (1)
Protein
(17)
 
Gene names  (22)
HDAC8
(5)
CDA07
(4)
HDACL1
(4)
HDAC2
(3)
hdaH
(2)
BC353_06500
(1)
HDAC7
(1)
HDAC7A
(1)
KIAA0700
(1)
KIAA1523
(1)
LTA4
(1)
LTA4H
(1)
NCTC10313_02007
(1)
NCTC5050_05964
(1)
PHF12
(1)
SIN3B
(1)
acuC1
(1)
aq_1023
(1)
dmhA
(1)
hdaH1
(1)
hdac10
(1)
hdac6
(1)
 
Interacting Molecules  (3)
Histone deacetylase 2
(1)
PHD finger protein 12
(1)
Paired amphipathic helix protein Sin3b
(1)
 
Interacting ligands  (20)
SHH : OCTANEDIOIC ACID HYDROXYAMIDE PHENYLAMIDE
(17)
ZN : ZINC ION
(17)
K : POTASSIUM ION
(11)
GOL : GLYCEROL
(5)
CA : CALCIUM ION
(3)
EDO : 1,2-ETHANEDIOL
(3)
ACT : ACETATE ION
(2)
NA : SODIUM ION
(2)
PEG : DI(HYDROXYETHYL)ETHER
(2)
PG4 : TETRAETHYLENE GLYCOL
(2)
CL : CHLORIDE ION
(1)
DMF : DIMETHYLFORMAMIDE
(1)
IMD : IMIDAZOLE
(1)
KK0 : (5~{S})-5-(4-chlorophenyl)pyrrolidin-2-one
(1)
KZF : 2-(cyclohexylazaniumyl)ethanesulfonate
(1)
MG : MAGNESIUM ION
(1)
NHE : 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
(1)
OCA : OCTANOIC ACID (CAPRYLIC ACID)
(1)
PO4 : PHOSPHATE ION
(1)
YB : YTTERBIUM (III) ION
(1)
 
Function and Biology
EC number / name  (5)
3.5.1.98 : Histone deacetylase
(10)
3.3.2.6 : Leukotriene-A(4) hydrolase
(1)
3.4.11.4 : Tripeptide aminopeptidase
(1)
3.5.1.48 : Acetylspermidine deacetylase
(1)
3.5.1.62 : Acetylputrescine deacetylase
(1)
 
Biological function  (36)
histone deacetylase activity
(13)
hydrolase activity
(11)
metal ion binding
(9)
protein binding
(7)
protein lysine deacetylase activity
(7)
DNA-binding transcription factor binding
(6)
histone deacetylase activity, hydrolytic mechanism
(6)
histone decrotonylase activity
(6)
protein decrotonylase activity
(6)
Hsp70 protein binding
(4)
Hsp90 protein binding
(4)
RNA binding
(3)
deacetylase activity
(3)
NF-kappaB binding
(2)
RNA polymerase II-specific DNA-binding transcription factor binding
(2)
chromatin binding
(2)
enzyme binding
(2)
heat shock protein binding
(2)
histone binding
(2)
histone deacetylase binding
(2)
nucleosomal DNA binding
(2)
promoter-specific chromatin binding
(2)
protein de-2-hydroxyisobutyrylase activity
(2)
protein lysine delactylase activity
(2)
transcription coregulator binding
(2)
zinc ion binding
(2)
acetylputrescine deacetylase activity
(1)
acetylspermidine deacetylase activity
(1)
aminopeptidase activity
(1)
epoxide hydrolase activity
(1)
leukotriene-A4 hydrolase activity
(1)
metalloaminopeptidase activity
(1)
metallopeptidase activity
(1)
peptidase activity
(1)
transcription corepressor activity
(1)
tripeptide aminopeptidase activity
(1)
 
Representative Structures
Representative Structures
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Entries 1 to 10 of 17
Entries 1 to 10 of 17
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Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 2 in complex with SAHA
Hai Y, Christianson DW
Nat Chem Biol (2016) [PMID: 27454933  ]
Source organism: Danio rerio  
Assembly composition: protein only structure
Bound ligands: K    K    MG    GOL    SHH    ZN    SHH    ZN    CL    MG    EDO   
Assembly name: UBP-type domain-containing protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-123745 (Preferred)   search this ID
PDBe-KB: F8W4B7   
X-ray diffraction
1.32Å resolution
Released: 27 Jul 2016
Model geometry
Fit model/data
5eei
5eei
5eei
Cryo-EM structure of the human SIN3B histone deacetylase core complex with SAHA at 2.8 Angstrom
Wan MSM, Muhammad R, Koliopolous MG, Alfieri C
Nat Commun (2023) [PMID: 37137925  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: CA    SHH    ZN    CA    SHH    ZN   
PDBe complex ID: PDB-CPX-271838 (Preferred)   search this ID
PDBe-KB: Q96QT6    Q92769    O75182   
Electron Microscopy
2.8Å resolution
Released: 10 May 2023
Model geometry
Fit model/data
Data not analysed
8bpc
8bpc
8bpc
Crystal Structure of Danio rerio Histone Deacetylase 10 in Complex with SAHA
Herbst-Gervasoni CJ, Christianson DW
J Am Chem Soc (2022) [PMID: 36200994  ]
Source organism: Danio rerio  
Assembly composition: protein only structure
Bound ligands: K    K    PEG    PEG    SHH    ZN    NA    SHH    ZN    NA    PO4   
Assembly name: Polyamine deacetylase HDAC10 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-123343 (Preferred)   search this ID
PDBe-KB: F1QCV2   
X-ray diffraction
2.1Å resolution
Released: 5 Oct 2022
Model geometry
Fit model/data
7sgg
7sgg
7sgg
Crystal Structure of Rhizorhabdus wittichii Dimethoate hydrolase (DmhA) in complex with SAHA
Graf LG, Lammers M, Schulze S, Palm GJ
Nat Commun (2024) [PMID: 39489725  ]
Assembly composition: protein only structure
Bound ligands: K    K    OCA    SHH    ZN    SHH    ZN   
Assembly name: Histone deacetylase domain-containing protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-280676 (Preferred)   search this ID
PDBe-KB: A0A067XIQ6   
X-ray diffraction
1.75Å resolution
Released: 6 Nov 2024
Model geometry
Fit model/data
9gkx
9gkx
9gkx
Crystal Structure of Deacetylase (HdaH) from Vibrio cholerae in complex with SAHA
Graf LG, Schulze S, Lammers M, Palm GJ
Nat Commun (2024) [PMID: 39489725  ]
Source organism: Vibrio cholerae  
Assembly composition: protein only structure
Bound ligands: K    ACT    K    SHH    ZN    SHH    ZN    ACT   
Assembly name: Histone deacetylase domain-containing protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-280720 (Preferred)   search this ID
PDBe-KB: A0A395TF31   
X-ray diffraction
1.9Å resolution
Released: 6 Nov 2024
Model geometry
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9gkv
9gkv
9gkv
Crystal Structure of Deacetylase (HdaH) from Klebsiella pneumoniae subsp. ozaenae in complex with the inhibitor SAHA
Qin C, Graf LG, Schulze S, Palm GJ, Lammers M
Nat Commun (2024) [PMID: 39489725  ]
Assembly composition: protein only structure
Bound ligands: K    K    SHH    ZN    SHH    ZN   
Assembly name: Histone deacetylase domain-containing protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-280717 (Preferred)   search this ID
PDBe-KB: A0A377Z5F6   
X-ray diffraction
1.95Å resolution
Released: 6 Nov 2024
Model geometry
Fit model/data
9gn6
9gn6
9gn6
Crystal structure of human histone deacetylase 8 (HDAC8) I45T mutation complexed with SAHA
Osko JD, Christianson DW, Decroos C, Porter NJ, Lee M
J Struct Biol (2021) [PMID: 33316326  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: K    K    SHH    ZN    SHH    ZN    EDO   
Assembly name: Histone deacetylase 8 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-189815 (Preferred)   search this ID
PDBe-KB: Q9BY41   
X-ray diffraction
1.5004766Å resolution
Released: 16 Dec 2020
Model geometry
Fit model/data
7jvu
7jvu
7jvu
Crystal structure of I243N HDAC8 in complex with SAHA
Decroos C, Bowman CB, Moser J-AS, Christianson KE, Deardorff MA, Christianson DW
ACS Chem Biol (2014) [PMID: 25075551  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: K    K    GOL    SHH    ZN    SHH    ZN   
Assembly name: Histone deacetylase 8 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-189815 (Preferred)   search this ID
PDBe-KB: Q9BY41   
X-ray diffraction
2.377Å resolution
Released: 6 Aug 2014
Model geometry
Fit model/data
4qa2
4qa2
4qa2
Crystal structure of a HDAC-like protein with SAHA bound
Nielsen TK, Hildmann C, Dickmanns A, Schwienhorst A, Ficner R
J Mol Biol (2005) [PMID: 16242151  ]
Assembly composition: protein only structure
Bound ligands: K    K    SHH    ZN    SHH    ZN   
Assembly name: Histone deacetylase-like amidohydrolase (Preferred)   search this complex
PDBe complex ID: PDB-CPX-180684 (Preferred)   search this ID
PDBe-KB: Q70I53   
X-ray diffraction
1.57Å resolution
Released: 29 Nov 2005
Model geometry
Fit model/data
1zz1
1zz1
1zz1
Crystal Structure of human HDAC8 complexed with SAHA
Somoza JR, Skene RJ, Katz BA, Mol C, Ho JD, Jennings AJ, Luong C, Arvai A, Buggy JJ, Chi E, Tang J, Sang B-C, Verner E, Wynands R, Leahy EM, Dougan DR, Snell G, Navre M, Knuth MW, Swanson RV, McRee DE, Tari LW
Structure (2004) [PMID: 15242608  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: SHH    ZN    SHH    ZN   
Assembly name: Histone deacetylase 8 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-189815 (Preferred)   search this ID
PDBe-KB: Q9BY41   
X-ray diffraction
2.91Å resolution
Released: 27 Jul 2004
Model geometry
Fit model/data
1t69
1t69
1t69
Entries 1 to 10 of 17
Entries 1 to 10 of 17