Structure of PDB 3f0r Chain A

Receptor sequence
>3f0rA (length=364) Species: 9606 (Homo sapiens) [Search protein sequence]
SLVPVYIYSPEYVSMCDSLIPKRASMVHSLIEAYALHKQMRIVKPKVASM
EEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGIFDYAAA
IGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILR
LRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDV
SDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQL
GADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARC
WTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQ
ILNYIKGNLKHVVI
3D structure
PDB3f0r Structural studies of human histone deacetylase 8 and its site-specific variants complexed with substrate and inhibitors.
ChainA
Resolution2.54 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.5.1.-
3.5.1.98: histone deacetylase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 ZN A D178 H180 D267 D164 H166 D253
BS02 TSN A I34 P35 R37 W141 P273 Y306 I20 P21 R23 W127 P259 Y292 PDBbind-CN: -logKd/Ki=6.89,Ki=130nM
BindingDB: IC50=90nM,Ki=45nM,Kd=3.9e+2nM
BS03 TSN A Y100 H143 F152 D178 H180 Y306 Y86 H129 F138 D164 H166 Y292 PDBbind-CN: -logKd/Ki=6.89,Ki=130nM
BindingDB: IC50=90nM,Ki=45nM,Kd=3.9e+2nM
Gene Ontology
Molecular Function
GO:0004407 histone deacetylase activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0030544 Hsp70 protein binding
GO:0033558 protein lysine deacetylase activity
GO:0046872 metal ion binding
GO:0051879 Hsp90 protein binding
GO:0140297 DNA-binding transcription factor binding
GO:0160008 protein decrotonylase activity
GO:0160009 histone decrotonylase activity
Biological Process
GO:0000122 negative regulation of transcription by RNA polymerase II
GO:0006325 chromatin organization
GO:0007064 mitotic sister chromatid cohesion
GO:0031397 negative regulation of protein ubiquitination
GO:0031647 regulation of protein stability
GO:0032204 regulation of telomere maintenance
GO:0040029 epigenetic regulation of gene expression
Cellular Component
GO:0000118 histone deacetylase complex
GO:0000228 nuclear chromosome
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005694 chromosome
GO:0005737 cytoplasm

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3f0r, PDBe:3f0r, PDBj:3f0r
PDBsum3f0r
PubMed19053282
UniProtQ9BY41|HDAC8_HUMAN Histone deacetylase 8 (Gene Name=HDAC8)

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