Browse entries in the PDBbind-CN Database

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Related entries of code: 5eek
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
5eeiRCSB PDB    PDBbind364aa, >5EEI_1|Chains... *
5eenRCSB PDB    PDBbind364aa, >5EEN_1|Chains... at 100%
5ef7RCSB PDB    PDBbind364aa, >5EF7_1|Chains... at 100%
5ef8RCSB PDB    PDBbind364aa, >5EF8_1|Chains... at 100%
5efbRCSB PDB    PDBbind364aa, >5EFB_1|Chain... at 100%
5efhRCSB PDB    PDBbind364aa, >5EFH_1|Chains... at 100%
5efjRCSB PDB    PDBbind364aa, >5EFJ_1|Chain... at 100%
6cgpRCSB PDB    PDBbind364aa, >6CGP_1|Chain... at 100%
6cspRCSB PDB    PDBbind364aa, >6CSP_1|Chains... at 100%
6csqRCSB PDB    PDBbind364aa, >6CSQ_1|Chains... at 100%
6csrRCSB PDB    PDBbind364aa, >6CSR_1|Chains... at 100%
6cssRCSB PDB    PDBbind364aa, >6CSS_1|Chains... at 100%
6dvlRCSB PDB    PDBbind364aa, >6DVL_1|Chains... at 100%
6dvmRCSB PDB    PDBbind364aa, >6DVM_1|Chains... at 100%
6dvnRCSB PDB    PDBbind364aa, >6DVN_1|Chains... at 100%
6dvoRCSB PDB    PDBbind364aa, >6DVO_1|Chain... at 100%
6mr5RCSB PDB    PDBbind364aa, >6MR5_1|Chains... at 100%
6r0kRCSB PDB    PDBbind359aa, >6R0K_1|Chain... at 100%
6cw8RCSB PDB    PDBbind364aa, >6CW8_1|Chains... at 100%
5w5kRCSB PDB    PDBbind364aa, >5W5K_1|Chains... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
1c3rRCSB PDB    PDBbindTSN
3c10RCSB PDB    PDBbindTSN
3f0rRCSB PDB    PDBbindTSN
5eduRCSB PDB    PDBbindTSN
5eefRCSB PDB    PDBbindTSN
6hoyRCSB PDB    PDBbindTSN
Entry Information
PDB ID5eek
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameDanio rerio (zebrafish) histone deacetylase 6 catalytic domain 2, HDAC6 (zCD2)
Ligand NameTSN
EC.Number E.C.3.5.1.98
Resolution 1.59(Å)
Affinity (Kd/Ki/IC50)Ki=0.8nM
Release Year2016
Protein/NA SequenceCheck fasta file
Primary Reference (2016) Nat.Chem.Biol. Vol. 12: pp. 741-747
Ligand Properties
Formula C17H22N2O3
Molecular Weight 302.368
Exact Mass 302.163
No. of atoms 44
No. of bonds 44
Polar Surface Area 69.64
LOGP Value 2.75      (Computed with XLOGP3)
2.97      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 2
No. of Hydrogen Bond Acceptors: 3
No. of Rotatable Bonds: 8
No. of Nitrogen and Oxygen Atoms: 5
No. of Rings: 1
Canonical SMILES
InChI String

Links to External Databases
RCSB PDBThe mother database
PDBsumEnhanced annotations on PDB entries
PubchemComprehensive collection of chemical and biological data
UniProtKB ACUniProt accession number (AC): F8W4B7  
Entrez Gene IDNCBI Entrez Gene ID: 565482  
ASDInformation of known allosteric effects of PDB entries
 
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