Protein-ligand interaction ontology

Last uploaded: November 3, 2014
Preferred Name

Ligand

ID

http://www.semanticweb.org/ontologies/2010/3/Ontology1271664172453.owl#Ligand

isDefinedBy

Ligand: organic molecule with molecular weight typically less than 600 Da. A molecule that binds to another molecule; used especially to refer to a small molecule that binds specifically to a larger molecule, eg, an antigen binding to an antibody, a hormone or neurotransmitter binding to a receptor, or a substrate or allosteric effector binding to an enzyme. To summarise two definitions: Ligand: A small organic molecule with molecular weight typically less than 600 Da that binds specifically to a larger molecule.

prefixIRI

Ontology1271664172453:Ligand

prefLabel

Ligand

Reference

Gilson, M. K. & Zhou, H. X. Calculation of protein-ligand binding affinities. Annual Review of Biophysics and Biomolecular Structure 36, 21-42 (2007) http://www.researchherpathways.com/researchherpath/glossary/index.m

software

MarvinSketch is an advanced, Java based chemical editor for drawing chemical structures, queries and reactions. http://www.chemaxon.com/marvin/sketch/index.php In this site go to Tools section after drawing the molecular structure: protonation partitioning charge Isomers Geometry (polar surface area, molecular surface area calculation) Conformation analyses (molecular dynamics) Other(H bond donor/ Hbond acceptor)

Synonym

ligand ligands guest

subClassOf

http://www.semanticweb.org/ontologies/2010/3/Ontology1271664172453.owl#Functional_Entity

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http://purl.jp/bio/4/id/200906016681155937 IOBC LOOM
http://semanticscience.org/resource/Ligand CHEAR LOOM
http://semanticscience.org/resource/Ligand HASCO LOOM
http://d-nb.info/gnd/4035711-9 FAST-TOPICAL LOOM
http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C95009 NCIT LOOM
http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C95009 NCIT LOOM
http://ontology.apa.org/apaonto/termsonlyOUT%20(5).owl#Ligand APAONTO LOOM
http://www.stanford.edu/~coulet/phare.owl#GeneLigand PHARE LOOM
http://semanticscience.org/resource/SIO_010432 ORTH LOOM
http://semanticscience.org/resource/SIO_010432 BIOMO LOOM
http://semanticscience.org/resource/SIO_010432 SIO LOOM
http://www.stanford.edu/~coulet/phare.owl#Ligand PHARE LOOM
http://bioportal.bioontology.org/ontologies/txpo/TXPO_0000624 TXPO LOOM
http://bioportal.bioontology.org/ontologies/txpo/TXPO_0000624 TXPO LOOM
http://bioportal.bioontology.org/ontologies/txpo/TXPO_0000624 TXPO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 PHIPO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 HUPSON LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 PHIPO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 BIOMODELS LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 GO-PLUS LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 CHEBI LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 OCMR LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 BAO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 ENVO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 DINTO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 MCO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 ECOCORE LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 BAO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 GO-PLUS LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 CHEBI LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 UPHENO LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 ZP LOOM
http://purl.obolibrary.org/obo/CHEBI_52214 NIFSTD LOOM
http://purl.obolibrary.org/obo/TXPO_0000624 TXPO LOOM
http://purl.obolibrary.org/obo/TXPO_0000624 TXPO LOOM
http://purl.obolibrary.org/obo/TXPO_0000624 TXPO LOOM
http://purl.bioontology.org/ontology/CSP/1851-3200 CRISP LOOM
http://www.bootstrep.eu/ontology/GRO#Ligand GRO LOOM
http://www.bootstrep.eu/ontology/GRO#Ligand SYN LOOM
http://www.projecthalo.com/aura#Ligand AURA LOOM
http://purl.obolibrary.org/obo/SBO_0000280 SBO LOOM
http://sbmi.uth.tmc.edu/ontology/ochv#C0023688 OCHV LOOM