Browse entries in the PDBbind-CN Database

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Related entries of code: 5vdw
Entries with 90% protein sequence similarity cutoff in PDBbind
PDB CodeCheck DatabaseProtein Sequence Similarity
6nfgRCSB PDB    PDBbind362aa, >6NFG_1|Chains... at 99%
6nfoRCSB PDB    PDBbind362aa, >6NFO_1|Chains... at 99%
5v8oRCSB PDB    PDBbind362aa, >5V8O_1|Chains... at 99%
5vdoRCSB PDB    PDBbind363aa, >5VDO_1|Chains... at 99%
5vdpRCSB PDB    PDBbind363aa, >5VDP_1|Chains... at 99%
5vdqRCSB PDB    PDBbind363aa, >5VDQ_1|Chains... at 99%
5vdrRCSB PDB    PDBbind363aa, >5VDR_1|Chains... at 99%
5vdsRCSB PDB    PDBbind363aa, >5VDS_1|Chains... at 99%
5vdtRCSB PDB    PDBbind363aa, >5VDT_1|Chains... at 99%
5vduRCSB PDB    PDBbind363aa, >5VDU_1|Chains... at 99%
5vdvRCSB PDB    PDBbind363aa, >5VDV_1|Chains... at 99%
6naoRCSB PDB    PDBbind362aa, >6NAO_1|Chains... at 99%
6mjuRCSB PDB    PDBbind372aa, >6MJU_1|Chain... *
6mjwRCSB PDB    PDBbind372aa, >6MJW_1|Chain... at 100%
Complexes with the same small molecule ligand
PDB CodeCheck DatabaseLigand Name
No complexes with the same small molecule ligand are found!
Entry Information
PDB ID5vdw
Complex TypeProtein-Ligand
PDBbind Subsetgeneral set
Protein NameCyclic GMP-AMP synthase
Ligand Name9BY
EC.Number E.C.-.-.-.-
Resolution 2.71(Å)
Affinity (Kd/Ki/IC50)Kd~200uM
Release Year2017
Protein/NA SequenceCheck fasta file
Primary Reference (2017) Protein Sci. Vol. 26: pp. 2367-2380
Ligand Properties
Formula C12H9N3O2S
Molecular Weight 259.284
Exact Mass 259.042
No. of atoms 27
No. of bonds 29
Polar Surface Area 96.25
LOGP Value 2.75      (Computed with XLOGP3)
2.24      (Computed with Open Babel)
Drug likeness No. of Hydrogen Bond Donors: 0
No. of Hydrogen Bond Acceptors: 4
No. of Rotatable Bonds: 2
No. of Nitrogen and Oxygen Atoms: 5
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): Q8N884  
Entrez Gene IDNCBI Entrez Gene ID: 115004  
ASDInformation of known allosteric effects of PDB entries
 
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