Browse entries in the PDBbind-CN Database

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Related entries of code: 5ito
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
4powRCSB PDB    PDBbind265aa, >4POW_1|Chains... *
4poxRCSB PDB    PDBbind265aa, >4POX_1|Chains... at 100%
4pp0RCSB PDB    PDBbind265aa, >4PP0_1|Chains... at 99%
5itpRCSB PDB    PDBbind265aa, >5ITP_1|Chains... at 100%
5ot8RCSB PDB    PDBbind265aa, >5OT8_1|Chains... at 99%
5ot9RCSB PDB    PDBbind265aa, >5OT9_1|Chains... at 100%
5otaRCSB PDB    PDBbind265aa, >5OTA_1|Chains... at 100%
5otcRCSB PDB    PDBbind265aa, >5OTC_1|Chains... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
5itpRCSB PDB    PDBbind6DB
5orgRCSB PDB    PDBbind6DB
5ot8RCSB PDB    PDBbind6DB

Entry Information
PDB ID5ito
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein Nameperiplasmic binding protein mutant M117N -NocT from A. tumefaciens
Ligand Name6DB
EC.Number E.C.-.-.-.-
Resolution 2.35(Å)
Affinity (Kd/Ki/IC50)Kd=68.9uM
Release Year2016
Protein/NA SequenceCheck fasta file
Primary Reference (2017) ISME J Vol. 11: pp. 374-385
Ligand Properties
Formula C9H20N4O4
Molecular Weight 248.279
Exact Mass 248.148
No. of atoms 37
No. of bonds 36
Polar Surface Area 157.22
LOGP Value 0.18      (Computed with XLOGP3)
-2.99      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 1
No. of Hydrogen Bond Acceptors: 4
No. of Rotatable Bonds: 6
No. of Nitrogen and Oxygen Atoms: 8
No. of Rings: 0
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): P35120  
Entrez Gene IDNo matched NCBI Entrez Gene ID found!
ASDInformation of known allosteric effects of PDB entries

 
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