{"database":"BioModels","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Txt":["https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=curation_notes.txt"],"Pdf":["https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212.pdf"],"Owl":["https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212-biopax2.owl","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212-biopax3.owl"],"Svg":["https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212.svg"],"Xml":["https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212_url.xml","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=manifest.xml"],"Other":["https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212.vcml","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212_url.sedml","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212.m","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=curation_image.png","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212.ode","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=metadata.rdf","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212-matlab.m","https://www.ebi.ac.uk/biomodels/model/download/BIOMD0000000212?filename=BIOMD0000000212.png"]},"type":"primary"},"statusCodeValue":200,"statusCode":"OK"}],"scores":null,"additional":{"submitter":["Gilles Curien"],"curationStatus":["Manually curated"],"modellingApproach":["ordinary differential equation model"],"levelVersion":["L2V4"],"full_dataset_link":["https://www.ebi.ac.uk/biomodels/BIOMD0000000212"],"publication_pubmed":["19455135"],"isPrivate":["false"],"repository":["BioModels"],"modelFormat":["SBML"],"omics_type":["Models"],"tokenised_name":["Curien2009 Aspartate Metabolism"],"publication_year":["2009"],"submissionId":["MODEL3336584391"],"publication_authors":["Gilles Curien, Olivier Bastien, Mylène Robert-Genthon, Athel Cornish-Bowden, María Luz Cárdenas, Renaud Dumas"],"first_author":["Gilles Curien"],"publication":["19455135,\n                            The aspartate-derived amino-acid pathway from plants is well suited for analysing the function of the allosteric network of interactions in branched pathways. For this purpose, a detailed kinetic model of the system in the plant model Arabidopsis was constructed on the basis of in vitro kinetic measurements. The data, assembled into a mathematical model, reproduce in vivo measurements and also provide non-intuitive predictions. A crucial result is the identification of allosteric interactions whose function is not to couple demand and supply but to maintain a high independence between fluxes in competing pathways. In addition, the model shows that enzyme isoforms are not functionally redundant, because they contribute unequally to the flux and its regulation. Another result is the identification of the threonine concentration as the most sensitive variable in the system, suggesting a regulatory role for threonine at a higher level of integration.. null, 5.\n                            CNRS, UMR 5168, 17 rue des Martyrs, Grenoble, France. gcurien@cea.fr"],"submitter_mail":["gcurien@cea.fr"],"submitter_affiliation":["Centre National de la Recherchce Scientifique (CNRS)"],"publicationId":["BIOMD0000000212"],"pubmed_abstract":["The aspartate-derived amino-acid pathway from plants is well suited for analysing the function of the allosteric network of interactions in branched pathways. For this purpose, a detailed kinetic model of the system in the plant model Arabidopsis was constructed on the basis of in vitro kinetic measurements. The data, assembled into a mathematical model, reproduce in vivo measurements and also provide non-intuitive predictions. A crucial result is the identification of allosteric interactions whose function is not to couple demand and supply but to maintain a high independence between fluxes in competing pathways. In addition, the model shows that enzyme isoforms are not functionally redundant, because they contribute unequally to the flux and its regulation. Another result is the identification of the threonine concentration as the most sensitive variable in the system, suggesting a regulatory role for threonine at a higher level of integration."],"pubmed_title":["Understanding the regulation of aspartate metabolism using a model based on measured kinetic parameters."],"pubmed_authors":["Curien Gilles G, Bastien Olivier O, Robert-Genthon Mylène M, Cornish-Bowden Athel A, Cárdenas María Luz ML, Dumas Renaud R"],"pubmed_abstract_synonyms":["Regulations, Ammonium, Biocatalysts, A., L Aspartate, Pflanze, Monopotassium, L-Threonine, Monosodium, (+-)-Aspartic Acid, Threonin., Social Controls, viridiplantae, Cardaminopsis, Potassium Salt, Arabidopsis thalianas, (R, sensitive, A. thalianas, Magnesium (1:1) Salt, thalianas, ramiform, Hydrobromide, Magnesiocard, Formal Social Controls, sensitivity, Threonin, plantae, Disodium Salt, anatomical systems, Cresses, Trihydrate, Mouse-ear Cress, Monosodium Salt, Potassium Aspartate, plants, ramified, L 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nip, L-Threonine, Human Reproductive Indexes, NOVH, CCN3, Monosodium, QM, (+-)-Aspartic Acid, Social Controls, viridiplantae, Cardaminopsis, Transfer RNA, Readability, Arabidopsis thalianas, A. thalianas, B1, l(2)SH1330, ramiform, Transfer, Hydrobromide, Suppressor Transfer, Reproductive Periods, Formal Social Controls, fs(1)M104, Threonin, Disodium Salt, Human Reproductive Index, K, Mouse-ear Cress, epsilon-diaminocaproic acid, 35Bb, plants, ramified, free, Mouse-ear, Social, IBP-9, allergic reaction, LYS, Lys, acidos nucleicos, Lysin, reproductive physiological process, Periods, multi-synapse, NOVh, Arabidopses, Magnesium (2:1) Salt, Lzm, Lzp, Indices, Index, Aspartic Acid, land plants, Dipotassium Salt, acid, multisynapse, A. thaliana, results, Reproductive Index, tRNA, l(2)br3, l35Bb, nucleic acids, Human Reproductive Indices, Ammonium Salt, Ribonucleic acids, NOV, Lzm-s1, PlexA1, Nucleic., Acid, Dipotassium Aspartate, Plxn1, aspartate metabolism, acide, Magnesium-Potassium (2:1:2) Salt, Control, Disodium Aspartate, Plant, acids, nov, acido, alpha, Controls, Magnesium Aspartate, mKIAA4053, fs(1)Y[b], Nucleic, l(2)SH2 1330, Lysm, Sodium Salt, higher plants, Arabidopsis, Aspartate Magnesium Hydrochloride, Calcium Aspartate, C130088N23Rik, Biocatalyst, PLXN1, Acids, BG:DS01219.1, DXS648E, L Aspartic Acid, Regulation, multiple synapse, Regulations, Ammonium, YB, mol, Biocatalysts, L Aspartate, Monopotassium, number, Copyrights, DmelCG4482, presence, DOI, Human, Potassium Salt, acides nucleiques, Publication, Yb, (R, sensitive, Magnesium (1:1) Salt, thalianas, Magnesiocard, sensitivity, CG2706, l(2)br23, doi, plantae, anatomical systems, Cresses, Trihydrate, Monosodium Salt, Potassium Aspartate, L Threonine, IGFBP9, Reproductive Indices, Kiaa4053, Enzyme, Abstract, Aspartate, L10, Cress, Mouse ear, Saeure, Human Reproductive, Potassium, Lyzs, Reproductive, RNA, Formal Social Control, CG4482, acide nucleique, DmelCG2706, Arabidopsis thaliana, l(2)35Bb, Reproductive Period, DXS648, function, Magnesium, count in organism, transfer ribonucleic acid, L-Aspartic Acid, Period, Social Control, IGFBP-9, Nucleic Acid, Hydrochloride, transfer, NA, Sodium, aspartic acid dianion, Data Base, 2-aminosuccinate, Calcium, S)-Aspartic Acid, Nukleinsaeure, Saeuren, thaliana, Monopotassium Salt, Monopotassium Aspartate, acido nucleico, Understanding, CG15268, Disodium, Suppressor, Mouse-ear Cresses, br3, Dipotassium, Mg-5-Longoral, Ammonium Aspartate, concentration, Indexes, Nukleinsaeuren, EG:95B7.8, 2600013D04Rik, regulation, NIP, transfer RNA, Sodium Aspartate, Monosodium Aspartate, variable, Calcium Salt, L-Aspartate, Suppressor Transfer RNA"],"pubmed_title_synonyms":["Social, Regulations, Readability, Social Control, Formal Social Control, aspartate metabolism., Control, regulation, Understanding, Controls, Regulation, Formal Social Controls, Social Controls"],"additional_accession":[]},"is_claimable":false,"name":"Curien2009_Aspartate_Metabolism","description":"\n      \n        This a model described in the article:      \n        Understanding the regulation of aspartate metabolism using a model based on measured kinetic parameters.\n        \n          Curien G, Bastien O, Robert-Genthon M, Cornish-Bowden A, Cárdenas ML, Dumas R.      Mol Syst Biol.\n          2009;5:271. Epub 2009 May 19. PMID:      19455135\n          , doi:      10.1038/msb.2009.29\n        \n        Abstract:\n        \n          The aspartate-derived amino-acid pathway from plants is well suited for analysing the function of the allosteric network of interactions in branched pathways. For this purpose, a detailed kinetic model of the system in the plant model Arabidopsis was constructed on the basis of in vitro kinetic measurements. The data, assembled into a mathematical model, reproduce in vivo measurements and also provide non-intuitive predictions. A crucial result is the identification of allosteric interactions whose function is not to couple demand and supply but to maintain a high independence between fluxes in competing pathways. In addition, the model shows that enzyme isoforms are not functionally redundant, because they contribute unequally to the flux and its regulation. Another result is the identification of the threonine concentration as the most sensitive variable in the system, suggesting a regulatory role for threonine at a higher level of integration.      \n      The limiting rates for the tRNA synthetase reactions, V_Lys_RS, V_Thr_RS and V_Ile_RS, are all assigned a joined value, Vmax_AA_RS, to facilitate reproduction of the results in the publication. To alter these rates seperately these assignments have to be changed or removed.\n      This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2009 The BioModels Team.      \n          For more information see the      terms of use\n          .      \n          To cite BioModels Database, please use      Le Novère N., Bornstein B., Broicher A., Courtot M., Donizelli M., Dharuri H., Li L., Sauro H., Schilstra M., Shapiro B., Snoep J.L., Hucka M. (2006) BioModels Database: A Free, Centralized Database of Curated, Published, Quantitative Kinetic Models of Biochemical and Cellular Systems Nucleic Acids Res., 34: D689-D691.\n  \n\n","dates":{"last_modification":"2024-08-21","publication":"2024-09-02","submission":"2009-05-28"},"accession":"BIOMD0000000212","cross_references":{"kegg__reaction":["R00480","R02291","R01775","R01771","R01466","R03260","R03658","R03663","R03656","R00716","R00751"],"ec-code":["2.7.2.4","1.2.1.11","2.6.1.83","5.1.1.7","1.3.1.26","4.2.1.52","4.1.1.20","1.1.1.3","2.7.1.39","4.2.3.1","2.5.1.48","1.1.1.86","2.2.1.6","4.2.1.9","4.3.1.19","2.6.1.42","6.1.1.6","6.1.1.3","6.1.1.5","1.5.1.8","4.1.2.5"],"kegg__pathway":["ath00260"],"pubmed":["19455135"],"chebi":["CHEBI:17053","CHEBI:18019","CHEBI:15414","CHEBI:15836","CHEBI:16857","CHEBI:13086","CHEBI:15699","CHEBI:15961","CHEBI:18367","CHEBI:17561","CHEBI:17755","CHEBI:17191","CHEBI:16414","CHEBI:16047","CHEBI:29163","CHEBI:29160","CHEBI:16927","CHEBI:15428"],"biomodels__db":["MODEL3336584391","BIOMD0000000212"],"go":["GO:0006531","GO:0009570","GO:0004072","GO:0004073","GO:0009089","GO:0004412","GO:0004413","GO:0004795","GO:0009097","GO:0004824","GO:0006430","GO:0006435","GO:0004812","GO:0006428","GO:0047130","GO:0004793"],"kegg__compound":["C00049","C00047","C00019","C03082","C00188","C00441","C00263","C01102","C00009","C00097","C00542","C00407","C00183","C01931","C02992","C03127","C00449","C00037"],"pubchem__substance":["47205730","47205736"],"taxonomy":["3702"],"uniprot":["Q9LYU8","O23653","Q9SA18","O81852","Q9FVC4","Q9LZX6","Q9FVC8","Q9XEE0","Q9S7B5","P55217","Q9ZSS6","Q9SMZ4","Q9FPH3","Q8RXU4"]}}