Browse entries in the PDBbind-CN Database

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Related entries of code: 5ndf
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
6egsRCSB PDB    PDBbind503aa, >6EGS_1|Chains... at 98%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
3sz1RCSB PDB    PDBbindLU2
4dewRCSB PDB    PDBbindLU2
4dgnRCSB PDB    PDBbindLU2
4hknRCSB PDB    PDBbindLU2
5auuRCSB PDB    PDBbindLU2
5ii2RCSB PDB    PDBbindLU2
6m8aRCSB PDB    PDBbindLU2

Entry Information
PDB ID5ndf
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NamePolypeptide N-acetylgalactosaminyltransferase 2
Ligand NameLU2
EC.Number E.C.2.4.1.41
Resolution 2.3(Å)
Affinity (Kd/Ki/IC50)Ki=1.4uM
Release Year2017
Protein/NA SequenceCheck fasta file
Primary Reference (2017) J. Biol. Chem. Vol. 292: pp. 21304-21319
Ligand Properties
Formula C15H10O6
Molecular Weight 286.236
Exact Mass 286.048
No. of atoms 31
No. of bonds 33
Polar Surface Area 107.97
LOGP Value 1.60      (Computed with XLOGP3)
2.00      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 3
No. of Hydrogen Bond Acceptors: 5
No. of Rotatable Bonds: 4
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): Q10471  
Entrez Gene IDNCBI Entrez Gene ID: 2590  
ASDInformation of known allosteric effects of PDB entries

 
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