BindingDB

BindingDB database of measured binding affinities

Database of measured binding affinities, focusing chiefly on the interactions of protein considered to be drug-targets with small, drug-like molecules.

IDBindingDB
AccDB-0127
Homehttp://www.bindingdb.org/
EDAM topicProtein-ligand interactions
EDAM topicDrugs and targets
CategoryOther
Taxonall
Linkinghttp://www.bindingdb.org/bind/SearchTemplates.jsp

Available data

Data Format Query Link
Protein-drug interaction HTML UniProt accession http://www.bindingdb.org/uniprot/%s
Inhibitor annotation HTML Protein name {BindingDB target name} http://www.bindingdb.org/jsp/dbsearch/PrimarySearch_ki.jsp?tag=tg&kiunit=nM&icunit=nM&column=ki&submit=Search&energyterm=kJ%2Fmole&target=%s
Small molecule report {ITC data} HTML Protein name {BindingDB target name} http://www.bindingdb.org/jsp/dbsearch/PrimarySearch_itc.jsp?tag=tg&column=delta_G0&energyterm=kJ%2Fmole&startPg=0&Increment=50&submit=Search&target=%s
Database hits (sequence) {BindingDB entries} HTML Identifier {Protein sequence} http://www.bindingdb.org/bind/blastResult.jsp?DATASOURCE=protein&Search=B2&blastSeq=%s
Small molecule report HTML BindingDB Monomer ID http://www.bindingdb.org/bind/chemsearch/marvin/MolStructure.jsp?monomerid=%s
Small molecule report HTML Identifier {SMILES string} http://www.bindingdb.org/bind/searchby_smiles.jsp?SearchType=4&submit=Search&smilesStr=%s
Protein-drug interaction HTML PDB ID http://www.bindingdb.org/jsp/dbsearch/PrimarySearch_PDBids.jsp?PDBids_submit=Search&PDBids=%s
Protein-drug interaction HTML PubMed ID http://www.bindingdb.org/jsp/dbsearch/PrimarySearch_pubmed.jsp?pubmed_submit=Search&pubmed=%s

Example queries

Data Format Query Example
Protein-drug interaction HTML UniProt accession Q29005
Database hits (sequence) {BindingDB entries} HTML Identifier {Protein sequence} VKCGSRRERCGYRLVRRQRSADEQLHCAGKAKRSGGHAPRVRELLLD
Small molecule report HTML BindingDB Monomer ID 100
Small molecule report HTML Identifier {SMILES string} CC%28C%29C1%28C%29SC%28Nc2ccccc2C%28F%29%28F%29F%29%3DNC1%3DO+%7Cc%3A18%7C
Protein-drug interaction HTML PDB ID 1OKZ
Protein-drug interaction HTML PubMed ID 17408953