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Related entries of code: 6dyv
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
3nm6RCSB PDB    PDBbind230aa, >3NM6_1|Chain... at 99%
4ffsRCSB PDB    PDBbind239aa, >4FFS_1|Chain... at 98%
4wknRCSB PDB    PDBbind245aa, >4WKN_1|Chain... *
4wkoRCSB PDB    PDBbind245aa, >4WKO_1|Chain... at 100%
4wkpRCSB PDB    PDBbind245aa, >4WKP_1|Chains... at 100%
4ynbRCSB PDB    PDBbind245aa, >4YNB_1|Chain... at 100%
4yo8RCSB PDB    PDBbind245aa, >4YO8_1|Chains... at 100%
6dyyRCSB PDB    PDBbind245aa, >6DYY_1|Chains... at 100%
6dywRCSB PDB    PDBbind245aa, >6DYW_1|Chains... at 100%
6dyuRCSB PDB    PDBbind245aa, >6DYU_1|Chains... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
6dz0RCSB PDB    PDBbindOS3
Entry Information
PDB ID6dyv
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein Name5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase
Ligand NameOS3
EC.Number E.C.3.2.2.9
Resolution 1.62(Å)
Affinity (Kd/Ki/IC50)Kd=0.026nM
Release Year2019
Protein/NA SequenceCheck fasta file
Primary Reference (2019) J. Med. Chem. Vol. 62: pp. 3286-3296
Ligand Properties
Formula C17H24N5OS
Molecular Weight 346.470
Exact Mass 346.170
No. of atoms 48
No. of bonds 50
Polar Surface Area 117.56
LOGP Value 0.90      (Computed with XLOGP3)
2.21      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 4
No. of Hydrogen Bond Acceptors: 3
No. of Rotatable Bonds: 9
No. of Nitrogen and Oxygen Atoms: 6
No. of Rings: 3
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): Q9ZMY2  
Entrez Gene IDNo matched NCBI Entrez Gene ID found!
ASDInformation of known allosteric effects of PDB entries
 
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