Browse entries in the PDBbind-CN Database

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Related entries of code: 5d3x
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
No similar entries are found!
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
1b55RCSB PDB    PDBbind4IP
1bwnRCSB PDB    PDBbind4IP
1faoRCSB PDB    PDBbind4IP
1w1dRCSB PDB    PDBbind4IP
2lkoRCSB PDB    PDBbind4IP
Entry Information
PDB ID5d3x
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameP-Rex1 PH domain
Ligand Name4IP
EC.Number E.C.-.-.-.-
Resolution 1.69(Å)
Affinity (Kd/Ki/IC50)Kd=440nM
Release Year2016
Protein/NA SequenceCheck fasta file
Primary Reference (2016) Structure Vol. 24: pp. 730-740
Ligand Properties
Formula C6H20O18P4
Molecular Weight 504.107
Exact Mass 503.960
No. of atoms 48
No. of bonds 48
Polar Surface Area 374.5
LOGP Value -8.74      (Computed with XLOGP3)
-5.12      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 2
No. of Hydrogen Bond Acceptors: 14
No. of Rotatable Bonds: 6
No. of Nitrogen and Oxygen Atoms: 18
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): Q8TCU6  
Entrez Gene IDNCBI Entrez Gene ID: 57580  
ASDInformation of known allosteric effects of PDB entries
 
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