Browse entries in the PDBbind-CN Database

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Related entries of code: 5yid
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
1leeRCSB PDB    PDBbind331aa, >1LEE_1|Chain... *
1lf2RCSB PDB    PDBbind331aa, >1LF2_1|Chain... at 100%
1lf3RCSB PDB    PDBbind331aa, >1LF3_1|Chain... at 99%
1smeRCSB PDB    PDBbind329aa, >1SME_1|Chains... at 99%
1w6hRCSB PDB    PDBbind331aa, >1W6H_1|Chains... at 99%
2igxRCSB PDB    PDBbind329aa, >2IGX_1|Chain... at 99%
2igyRCSB PDB    PDBbind329aa, >2IGY_1|Chains... at 99%
2r9bRCSB PDB    PDBbind329aa, >2R9B_1|Chains... at 99%
4ckuRCSB PDB    PDBbind329aa, >4CKU_1|Chains... at 100%
4y6mRCSB PDB    PDBbind329aa, >4Y6M_1|Chains... at 99%
4ya8RCSB PDB    PDBbind329aa, >4YA8_1|Chains... at 100%
4z22RCSB PDB    PDBbind329aa, >4Z22_1|Chains... at 100%
5yiaRCSB PDB    PDBbind328aa, >5YIA_1|Chain... at 99%
5yibRCSB PDB    PDBbind328aa, >5YIB_1|Chain... at 99%
5yicRCSB PDB    PDBbind328aa, >5YIC_1|Chain... at 99%
5yieRCSB PDB    PDBbind327aa, >5YIE_1|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 ID5yid
Complex TypeProtein-Ligand
PDBbind Subsetgeneral set
Protein Namerecombinant plasmepsin II
Ligand NameK95
EC.Number E.C.-.-.-.-
Resolution 2.1(Å)
Affinity (Kd/Ki/IC50)Ki=4.0uM
Release Year2018
Protein/NA SequenceCheck fasta file
Primary Reference (2018) FEBS J. Vol. : pp. -
Ligand Properties
Formula C37H44N4O6S2
Molecular Weight 704.898
Exact Mass 704.270
No. of atoms 93
No. of bonds 97
Polar Surface Area 198.67
LOGP Value 3.53      (Computed with XLOGP3)
3.73      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 5
No. of Hydrogen Bond Acceptors: 6
No. of Rotatable Bonds: 19
No. of Nitrogen and Oxygen Atoms: 10
No. of Rings: 5
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): Q8I6V3  
Entrez Gene IDNCBI Entrez Gene ID: 811659  
ASDInformation of known allosteric effects of PDB entries
 
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