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Related entries of code: 5dex
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
2a5sRCSB PDB    PDBbind284aa, >2A5S_1|Chain... *
5i56RCSB PDB    PDBbind281aa, >5I56_2|Chain... at 99%
5i58RCSB PDB    PDBbind281aa, >5I58_2|Chain... at 99%
5i59RCSB PDB    PDBbind281aa, >5I59_2|Chain... at 99%
5u8cRCSB PDB    PDBbind283aa, >5U8C_2|Chain... at 99%
5vihRCSB PDB    PDBbind283aa, >5VIH_2|Chain... at 99%
5viiRCSB PDB    PDBbind283aa, >5VII_2|Chain... at 99%
5vijRCSB PDB    PDBbind283aa, >5VIJ_2|Chain... at 99%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
No complexes with the same small molecule ligand are found!

Entry Information
PDB ID5dex
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameGlutamate receptor ionotropic, NMDA 1
Ligand Name5E0
EC.Number E.C.-.-.-.-
Resolution 2.4(Å)
Affinity (Kd/Ki/IC50)Ki=22.6nM
Release Year2016
Protein/NA SequenceCheck fasta file
Primary Reference (2017) Proc. Natl. Acad. Sci. U.S.A. Vol. : pp. -
Ligand Properties
Formula C13H19N3O4
Molecular Weight 281.308
Exact Mass 281.138
No. of atoms 39
No. of bonds 40
Polar Surface Area 122.09
LOGP Value -2.11      (Computed with XLOGP3)
-0.08      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 2
No. of Hydrogen Bond Acceptors: 4
No. of Rotatable Bonds: 3
No. of Nitrogen and Oxygen Atoms: 7
No. of Rings: 2
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): P35439  Q00959  
Entrez Gene IDNCBI Entrez Gene ID: 24408  24409  
ASDInformation of known allosteric effects of PDB entries

 
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