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Related entries of code: 5ldm
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
5ldkRCSB PDB    PDBbind177aa, >5LDK_1|Chains... *
5ldoRCSB PDB    PDBbind177aa, >5LDO_1|Chains... at 100%
5ldpRCSB PDB    PDBbind177aa, >5LDP_1|Chains... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
1rgkRCSB PDB    PDBbind2AM
6rntRCSB PDB    PDBbind2AM

Entry Information
PDB ID5ldm
Complex TypeProtein-Ligand
PDBbind Subsetrefined set
Protein NameRNA 2',3'-cyclic phosphodiesterase
Ligand Name2AM
EC.Number E.C.-.-.-.-
Resolution 2.46(Å)
Affinity (Kd/Ki/IC50)Kd=139uM
Release Year2017
Protein/NA SequenceCheck fasta file
Primary Reference (2017) PLoS ONE Vol. 12: pp. e0170355-e0170355
Ligand Properties
Formula C10H15N5O7P
Molecular Weight 348.229
Exact Mass 348.071
No. of atoms 38
No. of bonds 40
Polar Surface Area 202.82
LOGP Value -3.16      (Computed with XLOGP3)
-1.72      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 3
No. of Hydrogen Bond Acceptors: 8
No. of Rotatable Bonds: 5
No. of Nitrogen and Oxygen Atoms: 12
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): A0A140NFI1  
Entrez Gene IDNo matched NCBI Entrez Gene ID found!
ASDInformation of known allosteric effects of PDB entries

 
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