Structure of PDB 5td7 Chain A

Receptor sequence
>5td7A (length=626) Species: 7955 (Danio rerio) [Search protein sequence]
AASGSALIFDEEMSRYKLLWTDPACEIEVPERLTVSYEALRTHGLAQRCK
AVPVRQATEQEILLAHSEEYLEAVKQTPGMNVEELMAFSKKYNDVYFHQN
IYHCAKLAAGATLQLVDSVMKREVRNGMALVRPPGHHSQRSAANGFCVFN
NVAFAALYAKKNYNLNRILIVDWDVHHGQGIQYCFEEDPSVLYFSWHRYE
HQSFWPNLPESDYSSVGKGKGSGFNINLPWNKVGMTNSDYLAAFFHVLLP
VAYEFDPELVIVSAGFDSAIGDPEGEMCALPEIFAHLTHLLMPLAAGKMC
VVLEGGFNLTSLGQSVCQTVHSLLGDPTPRISGLGTACDSALESIQNVRN
VQSSYWSSFKHLAQSVRTVVVPPPGVELTLPKNCQHSISESTAKEVQRIR
DKHFDLTDQNILRSLGNIISVLDRMMRSDEVCNGCVVVSDLSVSVQCALQ
HALTEPAERVLVVYVGDGELPVKTNDGKVFLVQICTKETEDKCVNRLTLC
LREGESLTAGFMQALLGLILPVAYEFNPALVLGIVEETAAKTRLMRVWGH
MTCLIQGLARGRMLTLLQGYDKDLLELTVSALSGASISPLGPLRAPKPED
VEMMEKQRQRLQERWGLLRCTVSESW
3D structure
PDB5td7 Histone deacetylase 10 structure and molecular function as a polyamine deacetylase.
ChainA
Resolution2.85 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.5.1.48: acetylspermidine deacetylase.
3.5.1.62: acetylputrescine 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 D174 H176 D267 D174 H176 D267
BS02 FKS A D94 P134 H136 H137 G145 F146 D174 H176 W205 E274 E304 G305 F307 D94 P134 H136 H137 G145 F146 D174 H176 W205 E274 E304 G305 F307 PDBbind-CN: -logKd/Ki=5.77,IC50=1.7uM
Gene Ontology
Molecular Function
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0019213 deacetylase activity
GO:0033558 protein lysine deacetylase activity
GO:0046872 metal ion binding
GO:0047609 acetylputrescine deacetylase activity
GO:0047611 acetylspermidine deacetylase activity
Biological Process
GO:0016236 macroautophagy
GO:0035825 homologous recombination
GO:0036269 swimming behavior
GO:0040029 epigenetic regulation of gene expression
GO:0090043 regulation of tubulin deacetylation
GO:0106047 polyamine deacetylation
GO:0106048 spermidine deacetylation
Cellular Component
GO:0005634 nucleus
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:5td7, PDBe:5td7, PDBj:5td7
PDBsum5td7
PubMed28516954
UniProtF1QCV2|HDA10_DANRE Polyamine deacetylase HDAC10 (Gene Name=hdac10)

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