Browse entries in the PDBbind-CN Database

Display Options: Structure:  




Goto PDB code:

3D presentation of molecule is powered by 3Dmol, which supports all modern browsers and mobile devices via WebGL.

           
Hold mouse button: left to rotate,middle to shift,right to zoom

Related entries of code: 5vij
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
2a5sRCSB PDB    PDBbind284aa, >2A5S_1|Chain... *
5dexRCSB PDB    PDBbind283aa, >5DEX_2|Chain... at 99%
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%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
No complexes with the same small molecule ligand are found!

Entry Information
PDB ID5vij
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameGlutamate receptor ionotropic, NMDA 1
Ligand Name5DX
EC.Number E.C.-.-.-.-
Resolution 2.11(Å)
Affinity (Kd/Ki/IC50)Ki=24.3nM
Release Year2017
Protein/NA SequenceCheck fasta file
Primary Reference (2017) Proc. Natl. Acad. Sci. U.S.A. Vol. 114: pp. E6942-E6951
Ligand Properties
Formula C13H16BrN3O4
Molecular Weight 358.188
Exact Mass 357.032
No. of atoms 37
No. of bonds 38
Polar Surface Area 126.96
LOGP Value 1.01      (Computed with XLOGP3)
0.25      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 1
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

 
This site has been visited times since Nov 2007.


Copyright ©2007-2024    涓婃捣鐩堣禌鎬濅俊鎭鎶鏈夐檺鍏徃    缃戠珯澶囨鍙凤細娌狪CP澶2021015625鍙-3    娌叕缃戝畨澶囷細姝e湪鐢宠涓


Technical Support锛堟妧鏈敮鎸侊級: yingsaisi@foxmail.com