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Related entries of code: 5iyy
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
3i97RCSB PDB    PDBbind158aa, >3I97_1|Chains... *
5ijrRCSB PDB    PDBbind156aa, >5IJR_1|Chains... at 100%
5j1xRCSB PDB    PDBbind158aa, >5J1X_1|Chains... at 100%
5jgiRCSB PDB    PDBbind156aa, >5JGI_1|Chains... at 100%
5jgqRCSB PDB    PDBbind158aa, >5JGQ_1|Chains... at 100%
5jhkRCSB PDB    PDBbind158aa, >5JHK_1|Chains... at 100%
6fmcRCSB PDB    PDBbind158aa, >6FMC_1|Chain... at 100%
6fmfRCSB PDB    PDBbind158aa, >6FMF_1|Chain... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
No complexes with the same small molecule ligand are found!
Entry Information
PDB ID5iyy
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameNeuropilin-1
Ligand NameR40
EC.Number E.C.-.-.-.-
Resolution 1.6(Å)
Affinity (Kd/Ki/IC50)Kd=17uM
Release Year2017
Protein/NA SequenceCheck fasta file
Primary Reference (2018) FEBS J. Vol. 285: pp. 1290-1304
Ligand Properties
Formula C14H21N4O4
Molecular Weight 309.341
Exact Mass 309.156
No. of atoms 43
No. of bonds 43
Polar Surface Area 139.27
LOGP Value 3.22      (Computed with XLOGP3)
0.29      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 1
No. of Hydrogen Bond Acceptors: 3
No. of Rotatable Bonds: 9
No. of Nitrogen and Oxygen Atoms: 8
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): O14786  
Entrez Gene IDNCBI Entrez Gene ID: 8829  
ASDInformation of known allosteric effects of PDB entries
 
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