Web services | IUPHAR/BPS Guide to PHARMACOLOGY

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<div class="grid_16 alpha list"> <h4>Web services</h4> <a name="top"></a> <ul style="list-style:none;"> <li><a href="#overview">Overview</a></li> <li><a href="#targets">Target web services</a></li> <li><a href="#ligands">Ligand web services</a></li> <li><a href="#interactions">Interaction web services</a></li> <li><a href="#diseases">Disease web services</a></li> <li><a href="#refs">Reference web services</a></li> <li><a href="#examples">Examples</a></li> <li><a href="#databases">Databases</a></li> <li><a href="#responses">HTTP response codes</a></li> </ul> </div>  <div class="grid_16 alpha"> <a name="overview"></a> <h4>Overview</h4> <div class="contentboxfullhelp"> <div class="textright"> <p>This page describes our REST web services which are designed to provide computational access to the data in the Guide to PHARMACOLOGY. The web services currently serve up JSON files, though we will look at extending the range of options in the future. You can retrieve families, targets, genes, ligands, interactions and text annotations.</p> <p>The GtoPdb web service base URL (<b>base_url</b>) is <span class="url"><b>https://www.guidetopharmacology.org/services/</b></span> and points to the current version of the web services API. The API will be updated in accordance with normal database release cycles to accommodate new data types as required.</p> <p>Specific services may be accessed by appending the correct portion of the URL as given below in the tables. Optional parameters can be included by appending a question mark (<b>?</b>) to the end of the service name and separating parameters with ampersand (<b>&</b>), e.g. <span class="url">https://www.guidetopharmacology.org/services/targets/290/interactions?affinityType=pKi&species=Human</span>. Users can read a description of the web services output in the <a href="/DATA/web_service_descriptions.txt" onClick="recordEvent(this, 'Downloads', 'Data Files', 'Web Services Description');return false;">GtoPdb Web Service Output Description</a> file</p> <p></p> <p>The Guide to PHARMACOLOGY database is licensed under the <a href="https://opendatacommons.org/licenses/odbl/" target="_blank">Open Data Commons Open Database License (ODbL)</a> and its contents are licensed under the <a href="http://creativecommons.org/licenses/by-sa/4.0/" target="_blank">Creative Commons Attribution-ShareAlike 4.0 International License</a>.</p> <p>Further information may be obtained by <a href="revealEmail.jsp" onclick="window.open('revealEmail.jsp', '', 'toolbar=0,scrollbars=0,location=0,statusbar=0,menubar=0,resizable=0,width=550,height=300'); return false;" title="Reveal this e-mail address">emailing us</a>. We are particularly keen to hear from people using the web services and have feedback.</p> <h3>Version 2.0</h3> <p>The second version of our web services was released on <date>23rd March 2017</date> and contains new <b>interaction web services</b>, returning lists of target-ligand pairs which can be filtered by target/ligand type, affinity etc., and <b>reference web services</b>, which can retrieve references by id or the full interaction reference set. There are some minor changes to the way that specific target and ligand interactions are accessed too, with new filtering options and simplification of the results so that just a single list of interactions is returned rather than grouping the same types of interaction together. We have also made improvements to the speed of accessing many of the web services (though it should be noted that retrieving a large list of several thousand results does take more than a few seconds). We have also introduced a basic anonymous tracking mechanism to count the number of hits so that we can better monitor usage and inform future development (this does not record any information about the client).</p> <h3>Python wrapper</h3> <p><a href="https://github.com/samirelanduk/pygtop" target="_blank">pyGtoP</a> provides a Python interface to the web services, which is available on <a href="https://github.com/samirelanduk/pygtop" target="_blank">GitHub</a>. Full documentation is available <a href="https://pygtop.readthedocs.io/" target="_blank">here</a>. The Python wrapper was created as part of another project and is not actively maintained, however please <a href="revealEmail.jsp" onclick="window.open('revealEmail.jsp', '', 'toolbar=0,scrollbars=0,location=0,statusbar=0,menubar=0,resizable=0,width=550,height=300'); return false;" title="Reveal this e-mail address">email us</a> with any questions or bug reports and we'll do our best to help.</p> </div> </div> </div>  <div class="grid_16 alpha"> <a name="targets"></a> <h4>Target web services</h4> <div class="contentboxfullhelp"> <div class="data_tables_container" style="padding: 5px;"> <table class="glossary"> <tr style="font-weight: bold;"> <td>Service</td><td>URL</td><td>Parameters</td> </tr> <tr> <td>List of targets</td><td class="url">{base_url}/targets</td><td><div class="table_cell_list"><b>type</b> (optional): The target class abbreviation, i.e. 'GPCR', 'NHR', 'LGIC', 'VGIC', 'OtherIC', 'Enzyme', 'CatalyticReceptor', 'Transporter', 'OtherProtein', 'AccessoryProtein'</div><div class="table_cell_list"><b>name</b> (optional): search for targets by name</div><div class="table_cell_list"><b>geneSymbol</b> (optional): a human, mouse or rat gene symbol</div><div class="table_cell_list"><div class="table_cell_list"><b>ecNumber</b> (optional): an Enzyme Commission (EC) number</div><div class="table_cell_list"><b>accession</b> (optional): an external database accession number or Id</div><div class="table_cell_list"><b>database</b> (optional): the name* of the database the accession number relates to (default = UniProt)</div><div class="table_cell_list"><b>immuno</b> (optional): filter targets based on whether they are tagged in GtoImmuPdb (true or false)</div><div class="table_cell_list"><b>malaria</b> (optional): filter ligands based on whether they are tagged in GtoMPdb (true or false)</div</td> </tr> <tr> <td>Single target</td><td class="url">{base_url}/targets/{targetId}</td><td><div class="table_cell_list"><b>targetId</b>: a GtoPdb target Id</div></td> </tr> <tr> <td>List of target families</td><td class="url">{base_url}/targets/families</td><td><div class="table_cell_list"><b>type</b> (optional): target class abbreviation as above</div><div class="table_cell_list"><b>name</b> (optional): search for families by name</div></td> </tr> <tr> <td>Single family</td><td class="url">{base_url}/targets/families/{familyId}</td><td><div class="table_cell_list"><b>familyId</b>: a GtoPdb family Id</div></td> </tr> <tr> <td>Component subunits</td><td class="url">{base_url}/targets/{targetId}/subunits</td><td></td> </tr> <tr> <td>Complexes</td><td class="url">{base_url}/targets/{targetId}/complexes</td><td></td> </tr> <tr> <td>Synonyms</td><td class="url">{base_url}/targets/{targetId}/synonyms</td><td></td> </tr> <tr> <td>Gene and protein information</td><td class="url">{base_url}/targets/{targetId}/geneProteinInformation</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Database links</td><td class="url">{base_url}/targets/{targetId}/databaseLinks</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div><div class="table_cell_list"><b>database</b> (optional): the name* of the database to retrieve links for</div></td> </tr> <tr> <td>Natural/endogenous ligands</td><td class="url">{base_url}/targets/{targetId}/naturalLigands</td><td></td> </tr> <tr> <td>Interactions</td><td class="url">{base_url}/targets/{targetId}/interactions</td><td><div class="table_cell_list"><b>type</b> (optional): the type of ligand action, i.e. 'Activator', 'Agonist', 'Allosteric modulator', 'Antagonist', 'Antibody', 'Channel blocker', 'Gating inhibitor', 'Inhibitor', 'Subunit-specific'</div><div class="table_cell_list"><b>affinityParameter</b> (optional): one of 'pA2', 'pEC50', 'pIC50', 'pKB', 'pKd', 'pKi'</div><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div><div class="table_cell_list"><b>affinity</b> (optional): returned results must have affinity greater than this value, e.g. 7.5.</div><div class="table_cell_list"><b>ligandType</b> (optional): the class of ligand, one of 'Synthetic organic', 'Metabolite', 'Natural product', 'Endogenous peptide', 'Peptide', 'Antibody', 'Inorganic', 'Labelled', 'INN'</div><div class="table_cell_list"><b>approved</b> (optional): boolean which indicates if the interactions are for approved drugs only</div><div class="table_cell_list"><b>primaryTarget</b> (optional): boolean which indicates whether results should only include interactions where the target is marked as the primary target</div></td> </tr> <tr> <td>Rank order lists of ligands and other activators</td><td class="url">{base_url}/targets/{targetId}/rankOrder</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div><div class="table_cell_list">These lists can contain details of substrates, endogenous ligands and other non-chemical activators (pH, heat etc.). The description field describes the list and the property field lists the ligands</div></td> </tr> <tr> <td>Function</td><td class="url">{base_url}/targets/{targetId}/function</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Tissue distribution</td><td class="url">{base_url}/targets/{targetId}/tissueDistribution</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Functional assay</td><td class="url">{base_url}/targets/{targetId}/functionalAssay</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Gene expression and pathophysiology</td><td class="url">{base_url}/targets/{targetId}/geneExpressionPathophysiology</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Physiological consequences of altering gene expression</td><td class="url">{base_url}/targets/{targetId}/alteredExpression</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Xenobiotics influencing gene expression</td><td class="url">{base_url}/targets/{targetId}/xenobioticsGeneExpression</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Clinically-relevant mutations and pathophysiology</td><td class="url">{base_url}/targets/{targetId}/pathophysiology</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Diseases</td><td class="url">{base_url}/targets/{targetId}/diseases</td><td></td> </tr> <tr> <td>Variants</td><td class="url">{base_url}/targets/{targetId}/variants</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>PDB structures</td><td class="url">{base_url}/targets/{targetId}/pdbStructure</td><td></td> </tr> <tr> <td>Associated proteins</td><td class="url">{base_url}/targets/{targetId}/associatedProteins</td><td></td> </tr> <tr> <td>Ion selectivity</td><td class="url">{base_url}/targets/{targetId}/ionSelectivity</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Ion conductance</td><td class="url">{base_url}/targets/{targetId}/ionConductance</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Ion channel voltage dependence</td><td class="url">{base_url}/targets/{targetId}/voltageDependence</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>GPCR transduction mechanisms</td><td class="url">{base_url}/targets/{targetId}/transduction</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>NHR binding partners</td><td class="url">{base_url}/targets/{targetId}/bindingPartners</td><td></td> </tr> <tr> <td>NHR co-regulators</td><td class="url">{base_url}/targets/{targetId}/coregulators</td><td></td> </tr> <tr> <td>NHR target genes</td><td class="url">{base_url}/targets/{targetId}/targetGenes</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>NHR DNA binding sequence</td><td class="url">{base_url}/targets/{targetId}/dnaBinding</td><td></td> </tr> <tr> <td>Enzyme reaction</td><td class="url">{base_url}/targets/{targetId}/reactions</td><td></td> </tr> <tr> <td>Substrates</td><td class="url">{base_url}/targets/{targetId}/substrates</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Products</td><td class="url">{base_url}/targets/{targetId}/products</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Cofactors</td><td class="url">{base_url}/targets/{targetId}/cofactors</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Target comments</td><td class="url">{base_url}/targets/{targetId}/comments</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div><div class="table_cell_list"><b>database</b> (optional): the name* of the database to retrieve links for</div></td> </tr> <tr> <td>Immunological Processes</td><td class="url">{base_url}/targets/{targetId}/immunoProcesses</td><td></td> </tr> <tr> <td>Immunological Celltypes</td><td class="url">{base_url}/targets/{targetId}/immunoCelltypes</td><td></td> </tr> <tr> <td>Target contributing authors</td><td class="url">{base_url}/targets/{targetId}/contributors</td><td></td> </tr> <tr> <td>Family contributing authors</td><td class="url">{base_url}/targets/families/{familyId}/contributors</td><td></td> </tr> <tr> <td>Family NC-IUPHAR subcommittee</td><td class="url">{base_url}/targets/families/{familyId}/subcommittee</td><td></td> </tr> <tr> <td>Family overview</td><td class="url">{base_url}/targets/families/{familyId}/overview</td><td></td> </tr> <tr> <td>Family comments</td><td class="url">{base_url}/targets/families/{familyId}/comments</td><td></td> </tr> <tr> <td>Family introduction</td><td class="url">{base_url}/targets/families/{familyId}/introduction</td><td></td> </tr> <tr> <td>Introduction contributing authors</td><td class="url">{base_url}/targets/families/{familyId}/introduction/contributors</td><td></td> </tr> </table> </div> </div> </div>   <div class="grid_16 alpha"> <a name="ligands"></a> <h4>Ligand web services</h4> <div class="contentboxfullhelp"> <div class="data_tables_container" style="padding: 5px;"> <table class="glossary"> <tr style="font-weight: bold;"> <td>Service</td><td>URL</td><td>Parameters</td> </tr> <tr> <td>List of ligands</td><td class="url">{base_url}/ligands</td><td><div class="table_cell_list"><b>type</b> (optional): The ligand type, one of 'Synthetic organic', 'Metabolite', 'Natural product', 'Endogenous peptide', 'Peptide', 'Antibody', 'Inorganic', 'Approved', 'Withdrawn', 'Labelled', 'INN'</div><div class="table_cell_list"><b>name</b> (optional): search for ligands by name</div><div class="table_cell_list"><b>geneSymbol</b> (optional): a human, mouse or rat gene symbol</div><div class="table_cell_list"><b>accession</b> (optional): an external database accession number or Id</div><div class="table_cell_list"><b>database</b> (optional): the name* of the database the accession number relates to (default = PubChemCID)</div><div class="table_cell_list"><b>inchikey</b> (optional): the ligand's InChIKey, or for backbone matches (other isomers) just provide the backbone part (the first 14 characters)</div><div class="table_cell_list"><b>lipinskyGt & lipinskyLt</b> (optional): lower and upper cut-offs for the number of Lipinsky's rules broken</div><div class="table_cell_list"><b>logpGt & logpLt</b> (optional): lower and upper cut-offs for the LogP</div><div class="table_cell_list"><b>molWeightGt & molWeightLt</b> (optional): lower and upper cut-offs for the molecular weight</div><div class="table_cell_list"><b>hBondAcceptorsGt & hBondAcceptorsLt</b> (optional): lower and upper cut-offs for the number of hydrogen bond acceptors</div><div class="table_cell_list"><b>hBondDonorsGt & hBondDonorsLt</b> (optional): lower and upper cut-offs for the number of hydrogen bond donors</div><div class="table_cell_list"><b>rotatableBondsGt & rotatableBondsLt</b> (optional): lower and upper cut-offs for the number of rotatable bonds</div><div class="table_cell_list"><b>tpsaGt & tpsaLt</b> (optional): lower and upper cut-offs for the topological polar surface area</div><div class="table_cell_list"><b>immuno</b> (optional): filter ligands based on whether they are tagged in GtoImmuPdb (true or false)</div><div class="table_cell_list"><b>malaria</b> (optional): filter ligands based on whether they are tagged in GtoMPdb (true or false)</div><div class="table_cell_list"><b>antibacterial</b> (optional): filter ligands based on whether they are tagged as antibacterial (true or false)</div></td> </tr> <tr> <td>Exact match structure search</td><td class="url">{base_url}/ligands/exact</td><td><div class="table_cell_list"><b>smiles</b>: a SMILES string to search</div></td> </tr> <tr> <td>Substructure search</td><td class="url">{base_url}/ligands/substructure</td><td><div class="table_cell_list"><b>smiles</b>: a SMILES string to search</div><div class="table_cell_list"><b>lipinskyGt & lipinskyLt</b> (optional): lower and upper cut-offs for the number of Lipinsky's rules broken</div><div class="table_cell_list"><b>logpGt & logpLt</b> (optional): lower and upper cut-offs for the LogP</div><div class="table_cell_list"><b>molWeightGt & molWeightLt</b> (optional): lower and upper cut-offs for the molecular weight</div><div class="table_cell_list"><b>hBondAcceptorsGt & hBondAcceptorsLt</b> (optional): lower and upper cut-offs for the number of hydrogen bond acceptors</div><div class="table_cell_list"><b>hBondDonorsGt & hBondDonorsLt</b> (optional): lower and upper cut-offs for the number of hydrogen bond donors</div><div class="table_cell_list"><b>rotatableBondsGt & rotatableBondsLt</b> (optional): lower and upper cut-offs for the number of rotatable bonds</div><div class="table_cell_list"><b>tpsaGt & tpsaLt</b> (optional): lower and upper cut-offs for the topological polar surface area</div></td> </tr> <tr> <td><br>Structure similarity search</td><td class="url">{base_url}/ligands/similarity</td><td><div class="table_cell_list"><b>smiles</b>: a SMILES string to search</div><div class="table_cell_list"><b>similarityGt</b> (optional): lower cut-off for the % similarity (use decimal, i.e. 80% = 0.8)</div><div class="table_cell_list"><b>lipinskyGt & lipinskyLt</b> (optional): lower and upper cut-offs for the number of Lipinsky's rules broken</div><div class="table_cell_list"><b>logpGt & logpLt</b> (optional): lower and upper cut-offs for the LogP</div><div class="table_cell_list"><b>molWeightGt & molWeightLt</b> (optional): lower and upper cut-offs for the molecular weight</div><div class="table_cell_list"><b>hBondAcceptorsGt & hBondAcceptorsLt</b> (optional): lower and upper cut-offs for the number of hydrogen bond acceptors</div><div class="table_cell_list"><b>hBondDonorsGt & hBondDonorsLt</b> (optional): lower and upper cut-offs for the number of hydrogen bond donors</div><div class="table_cell_list"><b>rotatableBondsGt & rotatableBondsLt</b> (optional): lower and upper cut-offs for the number of rotatable bonds</div><div class="table_cell_list"><b>tpsaGt & tpsaLt</b> (optional): lower and upper cut-offs for the topological polar surface area</div></td> </tr> <tr> <td>List of ligand families/groups</td><td class="url">{base_url}/ligands/families</td><td><div class="table_cell_list"><b>name</b> (optional): search for families/groups by name</div></td> </tr> <tr> <td>Single ligand</td><td class="url">{base_url}/ligands/{ligandId}</td><td><div class="table_cell_list"><b>ligandId</b>: a GtoPdb ligand Id</div></td> </tr> <tr> <td>Path to image file</td><td class="url">{base_url}/ligands/{ligandId}/image</td><td></td> </tr> <tr> <td>Ligand structure</td><td class="url">{base_url}/ligands/{ligandId}/structure</td><td></td> </tr> <tr> <td>Component subunits</td><td class="url">{base_url}/ligands/{ligandId}/subunits</td><td></td> </tr> <tr> <td>Complexes</td><td class="url">{base_url}/ligands/{ligandId}/complexes</td><td></td> </tr> <tr> <td>Precursors (endogenous peptides)</td><td class="url">{base_url}/ligands/{ligandId}/precursors</td><td></td> </tr> <tr> <td>Molecular properties (non-peptides)</td><td class="url">{base_url}/ligands/{ligandId}/molecularProperties</td><td></td> </tr> <tr> <td>Synonyms</td><td class="url">{base_url}/ligands/{ligandId}/synonyms</td><td></td> </tr> <tr> <td>Database links</td><td class="url">{base_url}/ligands/{ligandId}/databaseLinks</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div><div class="table_cell_list"><b>database</b> (optional): the name* of the database to retrieve links for</div></td> </tr> <tr> <td>Interactions</td><td class="url">{base_url}/ligands/{ligandId}/interactions</td><td><div class="table_cell_list"><b>type</b> (optional): the type of interaction, i.e. 'Activator', 'Agonist', 'Allosteric modulator', 'Antagonist', 'Antibody', 'Channel blocker', 'Gating inhibitor', 'Inhibitor', 'Subunit-specific'</div><div class="table_cell_list"><b>affinityParameter</b> (optional): one of 'pA2', 'pEC50', 'pIC50', 'pKB', 'pKd', 'pKi'</div><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div><div class="table_cell_list"><b>affinity</b> (optional): returned results must have affinity greater than this value, e.g. 7.5.</div><div class="table_cell_list"><b>asTarget</b> (optional): boolean which indicates if this ligand Id should be considered as the target of interactions by other ligands, e.g. antibodies (default = true)</div><div class="table_cell_list"><b>asLigand</b> (optional): boolean which indicates if this ligand Id should be considered as the ligand interacting with other targets (default = true)</div><div class="table_cell_list"><b>targetType</b> (optional): name of a target class, i.e. 'GPCR', 'NHR', 'LGIC', 'VGIC', 'OtherIC', 'Enzyme', 'CatalyticReceptor', 'Transporter', 'OtherProtein'</div><div class="table_cell_list"><b>primaryTarget</b> (optional): boolean which indicates whether results should only include interactions marked as primary targets</div></td> </tr> <tr> <td>Rank order lists of ligands at targets</td><td class="url">{base_url}/ligands/{ligandId}/rankOrder</td><td><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div></td> </tr> <tr> <td>Ligand comments and clinical use information</td><td class="url">{base_url}/ligands/{ligandId}/comments</td><td></td> </tr> </table> </div> </div> </div>   <div class="grid_16 alpha"> <a name="interactions"></a> <h4>Interaction web services</h4> <div class="contentboxfullhelp"> <div class="data_tables_container" style="padding: 5px;"> <table class="glossary"> <tr style="font-weight: bold;"> <td>Service</td><td>URL</td><td>Parameters</td> </tr> <tr> <td>List of interactions</td><td class="url">{base_url}/interactions</td><td><div class="table_cell_list"><b>type</b> (optional): the type of ligand action, i.e. 'Activator', 'Agonist', 'Allosteric modulator', 'Antagonist', 'Antibody', 'Channel blocker', 'Gating inhibitor', 'Inhibitor', 'Subunit-specific'</div><div class="table_cell_list"><b>affinityParameter</b> (optional): one of 'pA2', 'pEC50', 'pIC50', 'pKB', 'pKd', 'pKi'</div><div class="table_cell_list"><b>species</b> (optional): the species common name, e.g. 'Human, 'Mouse', 'Rat' etc.</div><div class="table_cell_list"><b>Plasmodium species</b> (optional): the species short name, e.g. For <i>P. falciparum</i> use 'Pf'; for <i>P. vivax</i> use 'Pv'; for <i>P. knowlesi</i> use 'Pk'; for <i>P. berghei</i> use 'Pb'; for <i>P. cynomolgi</i> use 'Pc'; for <i>P. yoelii</i> use 'Py'</div><div class="table_cell_list"><b>affinity</b> (optional): returned results must have affinity greater than this value, e.g. 7.5.</div><div class="table_cell_list"><b>ligandType</b> (optional): the class of ligand, one of 'Synthetic organic', 'Metabolite', 'Natural product', 'Endogenous peptide', 'Peptide', 'Antibody', 'Inorganic', 'Labelled', 'INN'</div><div class="table_cell_list"><b>approved</b> (optional): boolean which indicates if the interactions are for approved drugs only</div><div class="table_cell_list"><b>primaryTarget</b> (optional): boolean which indicates if the targets should be marked as primary targets only</div><div class="table_cell_list"><b>targetType</b> (optional): name of a target class, i.e. 'GPCR', 'NHR', 'LGIC', 'VGIC', 'OtherIC', 'Enzyme', 'CatalyticReceptor', 'Transporter', 'OtherProtein'</div><div class="table_cell_list"><b>structureSearchType</b> (optional): perform ligand structure-based searching, one of 'similarity' (the default if SMILES are provided), 'substructure' or 'exact'</div><div class="table_cell_list"><b>smiles</b> (optional): a SMILES string to search</div><div class="table_cell_list"><b>similarityGt</b> (optional): lower cut-off for the % similarity (default = 0.85)</div><div class="table_cell_list"><b>inchikey</b> (optional): perform ligand structure search using an InChIKey, or for backbone matches (other isomers) just provide the backbone part (the first 14 characters)</div><div class="table_cell_list"><i>Note: the results are formatted as target-ligand interaction pair summaries, which are linked to individual interactions.</i></div></td> </tr> <tr> <td>Single interaction</td><td class="url">{base_url}/interactions/{interactionsId}</td><td><div class="table_cell_list"><b>interactionId</b>: a GtoPdb interaction Id</div></td> </tr> </table> </div> </div> </div>   <div class="grid_16 alpha"> <a name="diseases"></a> <h4>Disease web services</h4> <div class="contentboxfullhelp"> <div class="data_tables_container" style="padding: 5px;"> <table class="glossary"> <tr style="font-weight: bold;"> <td>Service</td><td>URL</td><td>Parameters</td> </tr> <tr> <td>List of diseases</td><td class="url">{base_url}/diseases</td><td> <div class="table_cell_list"><b>name</b> (optional): search for diseases by name</div> <div class="table_cell_list"><b>synonym</b> (optional): search specifically with disease synonyms</div> <div class="table_cell_list"><b>database</b> (optional): the name* of the database the accession number relates to (default = OMIM)</div> <div class="table_cell_list"><b>accession</b> (optional): an external database accession ID or number <i>Note, this should be used in conjuction with the database parameter.</i></div> </td> </tr> <tr> <td>Single disease</td><td class="url">{base_url}/diseases/{diseaseId}</td><td><div class="table_cell_list"><b>diseaseId</b>: a GtoPdb disease Id</div></td> </tr> <tr> <td>Targets associated with disease</td><td class="url">{base_url}/diseases/{diseaseId}/diseaseTargets</td><td><div class="table_cell_list"><b>diseaseId</b>: a GtoPdb disease Id</div></td> </tr> <tr> <td>Ligands associated with disease</td><td class="url">{base_url}/diseases/{diseaseId}/diseaseLigands</td><td><div class="table_cell_list"><b>diseaseId</b>: a GtoPdb disease Id</div> <div class="table_cell_list"><b>approved</b> (optional): set to 'true' to restrict to just approved ligands. <i>Note, omitting this option, or setting to false will return all ligands</i> </div></td> </tr> </table> </div> </div> </div>   <div class="grid_16 alpha"> <a name="refs"></a> <h4>Reference web services</h4> <div class="contentboxfullhelp"> <div class="data_tables_container" style="padding: 5px;"> <table class="glossary"> <tr style="font-weight: bold;"> <td>Service</td><td>URL</td><td>Parameters</td> </tr> <tr> <td>List of references</td><td class="url">{base_url}/refs</td><td><div class="table_cell_list"><b>filter</b> (optional): a filter for the reference list, currently 'interactions' is supported which returns a list of all references associated with target-ligand interactions</div><div class="table_cell_list"><i>Warning: the full reference list (>30,000 refs) is very slow to load.</i></div></td> </tr> <tr> <td>Single reference</td><td class="url">{base_url}/refs/{referenceId}</td><td><div class="table_cell_list"><b>referenceId</b>: a GtoPdb reference Id</div></td> </tr> </table> </div> </div> </div>  <div class="grid_16 alpha"> <a name="examples"></a> <h4>Examples</h4> <div class="contentboxfullhelp"> <div class="textright"> <p>These are a few example use cases for the web services.</p> <ol> <li style="margin-bottom: 10px;"> Retrieve the target with Ensembl gene Id ENSG00000097007:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/targets?accession=ENSG00000097007&database=EnsemblGene">https://www.guidetopharmacology.org/services/targets?accession=ENSG00000097007&database=EnsemblGene</a></span> </li> <li style="margin-bottom: 10px;"> Retrieve the target encoded by HGNC gene symbol CATSPER4:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/targets?geneSymbol=CATSPER4">https://www.guidetopharmacology.org/services/targets?geneSymbol=CATSPER4</a></span> </li> <li style="margin-bottom: 10px;"> Search for the target with name HER3:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/targets?name=HER3">https://www.guidetopharmacology.org/services/targets?name=HER3</a></span> </li> <li style="margin-bottom: 10px;"> Find the subunits of 5-HT<sub>3</sub>AB (target Id 378):<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/targets/378/subunits">https://www.guidetopharmacology.org/services/targets/378/subunits</a></span> </li> <li style="margin-bottom: 10px;"> Find agonists of GPER (target Id 221) with p<i>K</i><sub>i</sub> >= 7:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/targets/221/interactions?type=Agonist&affinityType=pKi&affinity=7">https://www.guidetopharmacology.org/services/targets/221/interactions?type=Agonist&affinityType=pKi&affinity=7</a></span> </li> <li style="margin-bottom: 10px;"> Retrieve all the approved drugs:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/ligands?type=Approved">https://www.guidetopharmacology.org/services/ligands?type=Approved</a></span> </li> <li style="margin-bottom: 10px;"> Find synonyms for tamoxifen (ligand Id 1016) :<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/ligands/1016/synonyms">https://www.guidetopharmacology.org/services/ligands/1016/synonyms</a></span> </li> <li style="margin-bottom: 10px;"> Find ligands at least 80% similar to the structure CC(CN(C)C)CN1c2ccccc2Sc2ccccc12:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/ligands/similarity?smiles=CC(CN(C)C)CN1c2ccccc2Sc2ccccc12&similarityGt=0.8">https://www.guidetopharmacology.org/services/ligands/similarity?smiles=CC(CN(C)C)CN1c2ccccc2Sc2ccccc12&similarityGt=0.8</a></span> </li> <li style="margin-bottom: 10px;"> Find ligands with the substructure Nc1cnc(Cl)c(N)n1 and calculated LogP between 0 and 2:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/ligands/substructure?smiles=Nc1cnc(Cl)c(N)n1&logpGt=0&logpLt=2">https://www.guidetopharmacology.org/services/ligands/substructure?smiles=Nc1cnc(Cl)c(N)n1&logpGt=0&logpLt=2</a></span> </li> <li style="margin-bottom: 10px;"> Find all the p<i>K</i><sub>i</sub> interaction data for approved drugs at GPCRs:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/interactions?affinityType=pki&approved=true&targetType=GPCR">https://www.guidetopharmacology.org/services/interactions?affinityType=pki&approved=true&targetType=GPCR</a></span> </li> <li style="margin-bottom: 10px;"> Retrieve all diseases with OMIM database ID mapped:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/diseases?database=OMIM">https://www.guidetopharmacology.org/services/diseases?database=OMIM</a></span> </li> <li style="margin-bottom: 10px;"> Retrieve all diseases mapped to Disease Ontology ID 6688 (Autoimmune Lymphoproliferative syndrome):<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/diseases?database=DOID&accession=6688">https://www.guidetopharmacology.org/services/diseases?database=DOID&accession=6688</a></span> </li> <li style="margin-bottom: 10px;"> Retrieve all targets tagged in database as relevant to immunopharmacology (GtoImmuPdb):<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/targets?immuno=true">https://www.guidetopharmacology.org/services/targets?immuno=true</a></span> </li> <li style="margin-bottom: 10px;"> Retrieve all ligands tagged in database as relevant to immunopharmacology (GtoImmuPdb):<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/ligands?immuno=true">https://www.guidetopharmacology.org/services/ligands?type=immuno</a></span> </li> <li style="margin-bottom: 10px;"> Retrieve all interaction data for Plasmodium species <i>P. vivax</i>:<br/><span class="url"><a href="https://www.guidetopharmacology.org/services/interactions?species=Pv">https://www.guidetopharmacology.org/services/interactions?species=Pv</a></span> </li> </ol> </div> </div> </div>  <div class="grid_16 alpha"> <a name="databases"></a> <h4>Databases</h4> <div class="contentboxfullhelp"> <div class="textright"> <p>* This is a list of the database names to use when searching for targets or ligands by accession number. For more information about these databases see the <a href="/helpPage.jsp#databaseLinks">help page</a>.</p> <div class="data_tables_container" style="padding: 5px;"> <table class="glossary"> <tr style="font-weight: bold;"> <td>Database</td><td>Database name in GtoPdb</td><td>Target or ligand</td> </tr> <tr> <td>BindingDB database of binding affinities</td><td>BindingDB</td><td>Ligand</td> </tr> <tr> <td>BitterDB database of bitter compounds</td><td>BitterDB</td><td>Target</td> </tr> <tr> <td>BRENDA database of enzyme reactions</td><td>BRENDA</td><td>Ligand</td> </tr> <tr> <td>CAS Registry Number</td><td>CAS</td><td>Ligand</td> </tr> <tr> <td>Chemical Entities of Biological Interest (ChEBI)</td><td>ChEBI</td><td>Ligand</td> </tr> <tr> <td>ChEMBL medicinal chemistry database</td><td>ChEMBL</td><td>Target &amp Ligand</td> </tr> <tr> <td>NCBI Database for Short Genetic Variations (dbSNP)</td><td>dbSNP</td><td>Target</td> </tr> <tr> <td>Disease Ontology</td><td>DOID</td><td>Disease</td> </tr> <tr> <td>DrugBank</td><td>DrugBank</td><td>Target & Ligand</td> </tr> <tr> <td>Ensembl Gene</td><td>EnsemblGene</td><td>Target & Ligand</td> </tr> <tr> <td>Ensembl Protein</td><td>EnsemblProtein</td><td>Target</td> </tr> <tr> <td>Ensembl Transcript</td><td>EnsemblTranscript</td><td>Target</td> </tr> <tr> <td>NCBI Entrez Gene</td><td>EntrezGene</td><td>Target & Ligand</td> </tr> <tr> <td>GPCRDB</td><td>GPCRDB</td><td>Target</td> </tr> <tr> <td>Human Metabolome Database (HMDB)</td><td>HMDB</td><td>Ligand</td> </tr> <tr> <td>HGNC database of human gene names</td><td>HGNC</td><td>Target</td> </tr> <tr> <td>IMGT/mAb-DB database of therapeutic monoclonal antibodies</td><td>IMGT</td><td>Ligand</td> </tr> <tr> <td>LIPID MAPS Lipidomics Gateway</td><td>LipidMaps</td><td>Ligand</td> </tr> <tr> <td>MEROPS peptidase database</td><td>MEROPS</td><td>Target</td> </tr> <tr> <td>Mouse Genome Informatics</td><td>MGI</td><td>Target</td> </tr> <tr> <td>Nuclear Receptor Signaling Atlas</td><td>NURSA</td><td>Target & Ligand</td> </tr> <tr> <td>Online Mendelian Inheritance in Man (OMIM)</td><td>OMIM</td><td>Target & Ligand & Disease</td> </tr> <tr> <td>Orphanet database of rare diseases</td><td>Orphanet</td><td>Target & Disease</td> </tr> <tr> <td>NCBI Protein database GI numbers</td><td>ProteinGI</td><td>Target & Ligand</td> </tr> <tr> <td>Protein Data Bank (PDB)</td><td>PDB</td><td>Ligand</td> </tr> <tr> <td>PubChem Compound Id (CID)</td><td>PubChemCID</td><td>Ligand</td> </tr> <tr> <td>NCBI RefSeq Nucleotide</td><td>RefSeqNucleotide</td><td>Target & Ligand</td> </tr> <tr> <td>NCBI RefSeq Protein</td><td>RefSeqProtein</td><td>Target & Ligand</td> </tr> <tr> <td>Rat Genome Database</td><td>RGD</td><td>Target</td> </tr> <tr> <td>UniProtKB protein resource</td><td>UniProtKB</td><td>Target & Ligand</td> </tr> <tr> <td>UniProtKB variant database</td><td>UniProtVariant</td><td>Target</td> </tr> </table> </div> </div> </div> </div>  <div class="grid_16 alpha"> <a name="responses"></a> <h4>HTTP response codes</h4> <div class="contentboxfullhelp"> <div class="textright"> <p>This is a listing of specific HTTP response error codes which can be returned by the GtoPdb web services and their meanings.</p> <div class="data_tables_container" style="padding: 5px;"> <table class="glossary"> <tr style="font-weight: bold;"> <td>HTTP response code</td><td>Meaning</td><td>Description</td> </tr> <tr> <td>204</td><td>No content</td><td>An empty page and a 204 no content response usually mean there are no results to display for the given URL (i.e. no data in the requested database table).</td> </tr> <tr> <td>303</td><td>See other</td><td>Redirection to an alternative location for the requested data (e.g. the path to a ligand image).</td> </tr> <tr> <td>404</td><td>Not found</td><td>Either a resource with that address or an entity such as a ligand with the given identifier cannot be found.</td> </tr> </table> </div> </div> </div> </div>  </div>   <div class="clear"></div> <div id="footer"> <div> <div style="display:table-cell; 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