The following conceptual model represents the knowledge associated to the protein domain, including protein-protein interactions, pathways, functionality, post translational modifications, and association with disease.León Palacio, A.; Pastor López, O. (2020). Conceptual Model of Proteins. http://hdl.handle.net/10251/14788

León Palacio, Ana

Pastor López, Oscar

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Conceptual Model of Proteins Ana León and Oscar Pastor. PROS Research Center - Universitat Politécnica de València  Description The following conceptual model represents the knowledge associated to the protein domain, including protein-protein interactions, pathways, functionality, post translational modifications, and association with disease. The concepts have been extracted from the UniProtKB database [1]. More information about the conceptualization process can be found in [2] References: [1] The UniProt Consortium, UniProt: a worldwide hub of protein knowledge, Nucleic Acids Research, Volume 47, Issue D1, 08 January 2019, Pages D506–D515, https://doi.org/10.1093/nar/gky1049 [2] León Palacio, A.; Pastor López, O. (2020). Conceptual Modeling of Proteins Based on UniProt. http://hdl.handle.net/10251/145619  EvidenceEvidence Tagevidence_type: StringEvidence Sourcesource_name: Stringsource_id: String1*Proteinidrecommended_nameshort_namealternative_namesactivity_regulationbiotechnological_usepharmaceutical_useGenenameordered_locus_namesORF_names* 1..*Organismcommon_namescientific_namesynonym1 1ProteomeidComponentname1..*Virus1..*1HostBinary Interaction11Protein-ComplexHost-Pathogen1..* 1..*Complex+complex_name1..** 1..*Familyname: String1..*Lineagetaxon_nameprevious_taxon0..10..11..*0..1Cellular Componentname1*Pathwaynamesuper-pathway*sub-pathway*Stepnumber1..*1..*Subcellular LocationnamedescriptionnoteIsoformidnamesynonymssequencelengthlast_modifiedchecksummassnoteCanonicalstatusis_precursor11Sequence Cautionsequence_idreason1 *Eventname11..*Sequence FeaturestartenddescriptionRegionlength > 11 *Enzymelength = 1SiteQuaternary Unitname: String*1Binding Siteligand_typeis_covalenthistidine_nitrogenviaActive SiteroleintermediateMetal Binding Sitemetal_name2D ElementtypeDomainstartenddescriptionMotifstartenddescriptionIntramembrane Transmembrane Topological DomainCalcium Binding DNA-BindingtypeZinc FingertypeCoiled CoilCompositional BiasHomopolymeric Large CB RegionSignal PeptidePropeptide Transit Peptide11Repeatname: StringIsoform Functiondescription1*Chemical Reactiondescriptionec_number1..*1..*11..*CofactoridnamenoteFunctional Propertyadditional_infoKinetic PropertysubstrateconditionKM ConstantvalueunitsVmaxvalueunitsdirectionAbsortionvalueunitsOptimum pHvalueRedox PotentialvalueunitsTemperature Dependencemin_tempmax_tempunits1*1*10..1Processing EventdescriptionPre-Translational Co-Translational Post-translationalMature Chainnameid**Active PeptidefunctionPTM Cleavage0..1*0..1*0..1*Initiator Methionine Residue Modificationprotein_formtypefrequency0..10..110..110..1LipidationtypeGlycosylationtypeN-Linkedglycan_typeC-Linked O-Linked S-LinkedSiteSiteDisulfide Bondis_redoxIntrachaindescriptionInterchainRegionCross-linkorigin_aatarget_aatypeRegionCysteine Positionposition*0..1RNA EditingpositionsDiseasenameabbreviationdescriptionRolerole*1..*Variantstartendnameref_aaalt_aaeffectstrainisolatecultivar1..**PolymorphismdbSNP_idoriginFrequencypopulationfrequency * 1Allergic Reaction**Toxic Effectdosetypedelivery1**1CanonicalCross ReferencesCross-referencedatabase_name: Stringentry_id: String1..*1..*Interactiondescription*1..*Cross-referenceCleavage Siteprotease EvidenceEvidenceEvidence****EvidenceIntegrity Constraint:IF role <> "nucleophile" THENintermediate IS NULLCross-referenceCross-reference

Conceptual Model of Proteins

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Conceptual Model of Proteins

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