Request BIGG metabolite
request_bigg_universal_metabolite(
url = "http://bigg.ucsd.edu/api/v2/universal/metabolites",
metabolite_id = "g3p",
return_form = c("list", "data.frame")
)url http://bigg.ucsd.edu/api/v2/universal/metabolites
metabolite_id, for example, g3p
data.frame or list.
universal metabolite information
x <- request_bigg_universal_metabolite(metabolite_id = "g3p", return_form = "list")
x
#> $bigg_id
#> [1] "g3p"
#>
#> $name
#> [1] "Glyceraldehyde 3-phosphate"
#>
#> $formula
#> [1] "C3H9O6P{}C3H5O6P"
#>
#> $old_identifiers
#> [1] "g3p"
#>
#> $charges
#> [1] "0{}-2"
#>
#> $database_link
#> database
#> 1 InChI Key
#> 2 Reactome Compound
#> 3 SEED Compound
#> 4 CHEBI
#> 5 Human Metabolome Database
#> 6 MetaNetX (MNX) Chemical
#> 7 KEGG Compound
#> 8 BioCyc
#> id
#> 1 LXJXRIRHZLFYRP-VKHMYHEASA-L
#> 2 29578
#> 3 cpd00102{}cpd19005
#> 4 12983{}12984{}14333{}17138{}181{}18324{}21026{}29052{}5446{}58027{}59776
#> 5 HMDB01112
#> 6 MNXM74
#> 7 C00118{}C00661
#> 8 META:GAP
#>
#> $compartments_in_models
#> bigg_id organism
#> 1 c Escherichia coli str. K-12 substr. MG1655
#> 2 c Escherichia coli str. K-12 substr. MG1655
#> 3 c Saccharomyces cerevisiae S288C
#> 4 c Staphylococcus aureus subsp. aureus N315
#> 5 c Escherichia coli APEC O1
#> 6 c Saccharomyces cerevisiae S288C
#> 7 c Yersinia pestis CO92
#> 8 c Shigella flexneri 2a str. 301
#> 9 c Pseudomonas putida KT2440
#> 10 c Helicobacter pylori 26695
#> 11 c Mycobacterium tuberculosis H37Rv
#> 12 c Escherichia coli BW2952
#> 13 c Escherichia coli BL21(DE3)
#> 14 c Escherichia coli CFT073
#> 15 c Escherichia coli O127:H6 str. E2348/69
#> 16 c Escherichia coli 042
#> 17 c Escherichia coli 55989
#> 18 c Escherichia coli ABU 83972
#> 19 c Escherichia coli B str. REL606
#> 20 c Escherichia coli 'BL21-Gold(DE3)pLysS AG'
#> 21 c Escherichia coli BL21(DE3)
#> 22 c Escherichia coli DH1
#> 23 c Escherichia coli DH1
#> 24 c Escherichia coli str. K-12 substr. DH10B
#> 25 c Escherichia coli O139:H28 str. E24377A
#> 26 c Escherichia coli ED1a
#> 27 c Escherichia coli O157:H7 str. EC4115
#> 28 c Escherichia coli HS
#> 29 c Escherichia coli IAI1
#> 30 c Escherichia coli IAI39
#> 31 c Escherichia coli NA114
#> 32 c Escherichia coli O103:H2 str. 12009
#> 33 c Escherichia coli O111:H- str. 11128
#> 34 c Escherichia coli O26:H11 str. 11368
#> 35 c Escherichia coli IHE3034
#> 36 c Escherichia coli ATCC 8739
#> 37 c Escherichia coli 536
#> 38 c Escherichia coli S88
#> 39 c Escherichia coli O157:H7 str. Sakai
#> 40 c Escherichia coli SE11
#> 41 c Escherichia coli SE15
#> 42 c Escherichia coli SMS-3-5
#> 43 c Escherichia coli O157:H7 str. TW14359
#> 44 c Escherichia coli UMN026
#> 45 c Escherichia coli W
#> 46 c Escherichia coli KO11FL
#> 47 c Escherichia coli ETEC H10407
#> 48 c Escherichia coli O55:H7 str. CB9615
#> 49 c Escherichia coli LF82
#> 50 c Escherichia coli O83:H1 str. NRG 857C
#> 51 c Shigella flexneri 2a str. 2457T
#> 52 c Shigella boydii CDC 3083-94
#> 53 c Shigella boydii Sb227
#> 54 c Shigella dysenteriae Sd197
#> 55 c Shigella flexneri 5 str. 8401
#> 56 c Shigella flexneri 2002017
#> 57 c Shigella sonnei Ss046
#> 58 c Escherichia coli UM146
#> 59 c Escherichia coli UMNK88
#> 60 c Escherichia coli UTI89
#> 61 c Escherichia coli W
#> 62 c Escherichia coli O157:H7 str. EDL933
#> 63 c Escherichia coli str. K-12 substr. MG1655
#> 64 c Escherichia coli str. K-12 substr. MG1655
#> 65 c Klebsiella pneumoniae subsp. pneumoniae MGH 78578
#> 66 c Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
#> 67 c Geobacter metallireducens GS-15
#> 68 c Synechocystis sp. PCC 6803
#> 69 c Mus musculus
#> 70 c Methanosarcina barkeri str. Fusaro
#> 71 c Thermotoga maritima MSB8
#> 72 c Clostridium ljungdahlii DSM 13528
#> 73 c Chlamydomonas reinhardtii
#> 74 c Escherichia coli str. K-12 substr. W3110
#> 75 c Bacillus subtilis subsp. subtilis str. 168
#> 76 c Homo sapiens
#> 77 c Homo sapiens
#> 78 c Homo sapiens
#> 79 c Escherichia coli str. K-12 substr. MG1655
#> 80 c Cricetulus griseus
#> 81 c Lactococcus lactis subsp. cremoris MG1363
#> 82 c Escherichia coli str. K-12 substr. MG1655
#> 83 c Synechococcus elongatus PCC 7942
#> 84 c Phaeodactylum tricornutum CCAP 1055/1
#> 85 c Homo sapiens
#> 86 c Mycobacterium tuberculosis H37Rv
#> 87 c Cricetulus griseus
#> 88 c Staphylococcus aureus subsp. aureus USA300_TCH1516
#> 89 c Escherichia coli BL21(DE3)
#> 90 c Escherichia coli ATCC 8739
#> 91 c Escherichia coli W
#> 92 c Escherichia coli str. K-12 substr. W3110
#> 93 c Acinetobacter baumannii AYE
#> 94 c Escherichia coli DH5[alpha
#> 95 c Escherichia coli C
#> 96 c Synechocystis sp. PCC 6803
#> 97 c Plasmodium falciparum 3D7
#> 98 c Plasmodium vivax Sal-1
#> 99 c Plasmodium berghei
#> 100 c Plasmodium cynomolgi strain B
#> 101 c Plasmodium knowlesi strain H
#> 102 c Trypanosoma cruzi Dm28c
#> 103 c Trypanosoma cruzi Dm28c
#> 104 c Trypanosoma cruzi Dm28c
#> 105 c Trypanosoma cruzi Dm28c
#> 106 c Clostridioides difficile 630
#> 107 c Pseudomonas putida KT2440
#> 108 c Salmonella pan-reactome
#> 109 e Clostridioides difficile 630
#> 110 m Chlamydomonas reinhardtii
#> 111 m Phaeodactylum tricornutum CCAP 1055/1
#> 112 x Trypanosoma cruzi Dm28c
#> 113 x Trypanosoma cruzi Dm28c
#> 114 x Trypanosoma cruzi Dm28c
#> 115 x Trypanosoma cruzi Dm28c
#> 116 h Chlamydomonas reinhardtii
#> 117 h Phaeodactylum tricornutum CCAP 1055/1
#> 118 h Plasmodium falciparum 3D7
#> 119 h Plasmodium vivax Sal-1
#> 120 h Plasmodium berghei
#> 121 h Plasmodium cynomolgi strain B
#> 122 h Plasmodium knowlesi strain H
#> 123 f Chlamydomonas reinhardtii
#> model_bigg_id
#> 1 iJO1366
#> 2 iAF1260
#> 3 iMM904
#> 4 iSB619
#> 5 iAPECO1_1312
#> 6 iND750
#> 7 iPC815
#> 8 iSF_1195
#> 9 iJN746
#> 10 iIT341
#> 11 iNJ661
#> 12 iBWG_1329
#> 13 iB21_1397
#> 14 ic_1306
#> 15 iE2348C_1286
#> 16 iEC042_1314
#> 17 iEC55989_1330
#> 18 iECABU_c1320
#> 19 iECB_1328
#> 20 iECBD_1354
#> 21 iECD_1391
#> 22 iEcDH1_1363
#> 23 iECDH1ME8569_1439
#> 24 iECDH10B_1368
#> 25 iEcE24377_1341
#> 26 iECED1_1282
#> 27 iECH74115_1262
#> 28 iEcHS_1320
#> 29 iECIAI1_1343
#> 30 iECIAI39_1322
#> 31 iECNA114_1301
#> 32 iECO103_1326
#> 33 iECO111_1330
#> 34 iECO26_1355
#> 35 iECOK1_1307
#> 36 iEcolC_1368
#> 37 iECP_1309
#> 38 iECS88_1305
#> 39 iECs_1301
#> 40 iECSE_1348
#> 41 iECSF_1327
#> 42 iEcSMS35_1347
#> 43 iECSP_1301
#> 44 iECUMN_1333
#> 45 iECW_1372
#> 46 iEKO11_1354
#> 47 iETEC_1333
#> 48 iG2583_1286
#> 49 iLF82_1304
#> 50 iNRG857_1313
#> 51 iS_1188
#> 52 iSbBS512_1146
#> 53 iSBO_1134
#> 54 iSDY_1059
#> 55 iSFV_1184
#> 56 iSFxv_1172
#> 57 iSSON_1240
#> 58 iUMN146_1321
#> 59 iUMNK88_1353
#> 60 iUTI89_1310
#> 61 iWFL_1372
#> 62 iZ_1308
#> 63 iJR904
#> 64 e_coli_core
#> 65 iYL1228
#> 66 STM_v1_0
#> 67 iAF987
#> 68 iJN678
#> 69 iMM1415
#> 70 iAF692
#> 71 iLJ478
#> 72 iHN637
#> 73 iRC1080
#> 74 iY75_1357
#> 75 iYO844
#> 76 RECON1
#> 77 iAT_PLT_636
#> 78 iAB_RBC_283
#> 79 iAF1260b
#> 80 iCHOv1
#> 81 iNF517
#> 82 iML1515
#> 83 iJB785
#> 84 iLB1027_lipid
#> 85 Recon3D
#> 86 iEK1008
#> 87 iCHOv1_DG44
#> 88 iYS854
#> 89 iEC1356_Bl21DE3
#> 90 iEC1349_Crooks
#> 91 iEC1364_W
#> 92 iEC1372_W3110
#> 93 iCN718
#> 94 iEC1368_DH5a
#> 95 iEC1344_C
#> 96 iSynCJ816
#> 97 iAM_Pf480
#> 98 iAM_Pv461
#> 99 iAM_Pb448
#> 100 iAM_Pc455
#> 101 iAM_Pk459
#> 102 iIS312_Trypomastigote
#> 103 iIS312_Epimastigote
#> 104 iIS312
#> 105 iIS312_Amastigote
#> 106 iCN900
#> 107 iJN1463
#> 108 iYS1720
#> 109 iCN900
#> 110 iRC1080
#> 111 iLB1027_lipid
#> 112 iIS312_Trypomastigote
#> 113 iIS312_Epimastigote
#> 114 iIS312
#> 115 iIS312_Amastigote
#> 116 iRC1080
#> 117 iLB1027_lipid
#> 118 iAM_Pf480
#> 119 iAM_Pv461
#> 120 iAM_Pb448
#> 121 iAM_Pc455
#> 122 iAM_Pk459
#> 123 iRC1080
#>
y <- request_bigg_universal_metabolite(metabolite_id = "g3p", return_form = "data.frame")
y
#> bigg_id name formula old_identifiers charges
#> 1 g3p Glyceraldehyde 3-phosphate C3H9O6P{}C3H5O6P g3p 0{}-2
#> organism
#> 1 Escherichia coli str. K-12 substr. MG1655{}Escherichia coli str. K-12 substr. MG1655{}Saccharomyces cerevisiae S288C{}Staphylococcus aureus subsp. aureus N315{}Escherichia coli APEC O1{}Saccharomyces cerevisiae S288C{}Yersinia pestis CO92{}Shigella flexneri 2a str. 301{}Pseudomonas putida KT2440{}Helicobacter pylori 26695{}Mycobacterium tuberculosis H37Rv{}Escherichia coli BW2952{}Escherichia coli BL21(DE3){}Escherichia coli CFT073{}Escherichia coli O127:H6 str. E2348/69{}Escherichia coli 042{}Escherichia coli 55989{}Escherichia coli ABU 83972{}Escherichia coli B str. REL606{}Escherichia coli 'BL21-Gold(DE3)pLysS AG'{}Escherichia coli BL21(DE3){}Escherichia coli DH1{}Escherichia coli DH1{}Escherichia coli str. K-12 substr. DH10B{}Escherichia coli O139:H28 str. E24377A{}Escherichia coli ED1a{}Escherichia coli O157:H7 str. EC4115{}Escherichia coli HS{}Escherichia coli IAI1{}Escherichia coli IAI39{}Escherichia coli NA114{}Escherichia coli O103:H2 str. 12009{}Escherichia coli O111:H- str. 11128{}Escherichia coli O26:H11 str. 11368{}Escherichia coli IHE3034{}Escherichia coli ATCC 8739{}Escherichia coli 536{}Escherichia coli S88{}Escherichia coli O157:H7 str. Sakai{}Escherichia coli SE11{}Escherichia coli SE15{}Escherichia coli SMS-3-5{}Escherichia coli O157:H7 str. TW14359{}Escherichia coli UMN026{}Escherichia coli W{}Escherichia coli KO11FL{}Escherichia coli ETEC H10407{}Escherichia coli O55:H7 str. CB9615{}Escherichia coli LF82{}Escherichia coli O83:H1 str. NRG 857C{}Shigella flexneri 2a str. 2457T{}Shigella boydii CDC 3083-94{}Shigella boydii Sb227{}Shigella dysenteriae Sd197{}Shigella flexneri 5 str. 8401{}Shigella flexneri 2002017{}Shigella sonnei Ss046{}Escherichia coli UM146{}Escherichia coli UMNK88{}Escherichia coli UTI89{}Escherichia coli W{}Escherichia coli O157:H7 str. EDL933{}Escherichia coli str. K-12 substr. MG1655{}Escherichia coli str. K-12 substr. MG1655{}Klebsiella pneumoniae subsp. pneumoniae MGH 78578{}Salmonella enterica subsp. enterica serovar Typhimurium str. LT2{}Geobacter metallireducens GS-15{}Synechocystis sp. PCC 6803{}Mus musculus{}Methanosarcina barkeri str. Fusaro{}Thermotoga maritima MSB8{}Clostridium ljungdahlii DSM 13528{}Chlamydomonas reinhardtii{}Escherichia coli str. K-12 substr. W3110{}Bacillus subtilis subsp. subtilis str. 168{}Homo sapiens{}Homo sapiens{}Homo sapiens{}Escherichia coli str. K-12 substr. MG1655{}Cricetulus griseus{}Lactococcus lactis subsp. cremoris MG1363{}Escherichia coli str. K-12 substr. MG1655{}Synechococcus elongatus PCC 7942{}Phaeodactylum tricornutum CCAP 1055/1{}Homo sapiens{}Mycobacterium tuberculosis H37Rv{}Cricetulus griseus{}Staphylococcus aureus subsp. aureus USA300_TCH1516{}Escherichia coli BL21(DE3){}Escherichia coli ATCC 8739{}Escherichia coli W{}Escherichia coli str. K-12 substr. W3110{}Acinetobacter baumannii AYE{}Escherichia coli DH5[alpha{}Escherichia coli C{}Synechocystis sp. PCC 6803{}Plasmodium falciparum 3D7{}Plasmodium vivax Sal-1{}Plasmodium berghei{}Plasmodium cynomolgi strain B{}Plasmodium knowlesi strain H{}Trypanosoma cruzi Dm28c{}Trypanosoma cruzi Dm28c{}Trypanosoma cruzi Dm28c{}Trypanosoma cruzi Dm28c{}Clostridioides difficile 630{}Pseudomonas putida KT2440{}Salmonella pan-reactome{}Clostridioides difficile 630{}Chlamydomonas reinhardtii{}Phaeodactylum tricornutum CCAP 1055/1{}Trypanosoma cruzi Dm28c{}Trypanosoma cruzi Dm28c{}Trypanosoma cruzi Dm28c{}Trypanosoma cruzi Dm28c{}Chlamydomonas reinhardtii{}Phaeodactylum tricornutum CCAP 1055/1{}Plasmodium falciparum 3D7{}Plasmodium vivax Sal-1{}Plasmodium berghei{}Plasmodium cynomolgi strain B{}Plasmodium knowlesi strain H{}Chlamydomonas reinhardtii
#> model_bigg_id
#> 1 iJO1366{}iAF1260{}iMM904{}iSB619{}iAPECO1_1312{}iND750{}iPC815{}iSF_1195{}iJN746{}iIT341{}iNJ661{}iBWG_1329{}iB21_1397{}ic_1306{}iE2348C_1286{}iEC042_1314{}iEC55989_1330{}iECABU_c1320{}iECB_1328{}iECBD_1354{}iECD_1391{}iEcDH1_1363{}iECDH1ME8569_1439{}iECDH10B_1368{}iEcE24377_1341{}iECED1_1282{}iECH74115_1262{}iEcHS_1320{}iECIAI1_1343{}iECIAI39_1322{}iECNA114_1301{}iECO103_1326{}iECO111_1330{}iECO26_1355{}iECOK1_1307{}iEcolC_1368{}iECP_1309{}iECS88_1305{}iECs_1301{}iECSE_1348{}iECSF_1327{}iEcSMS35_1347{}iECSP_1301{}iECUMN_1333{}iECW_1372{}iEKO11_1354{}iETEC_1333{}iG2583_1286{}iLF82_1304{}iNRG857_1313{}iS_1188{}iSbBS512_1146{}iSBO_1134{}iSDY_1059{}iSFV_1184{}iSFxv_1172{}iSSON_1240{}iUMN146_1321{}iUMNK88_1353{}iUTI89_1310{}iWFL_1372{}iZ_1308{}iJR904{}e_coli_core{}iYL1228{}STM_v1_0{}iAF987{}iJN678{}iMM1415{}iAF692{}iLJ478{}iHN637{}iRC1080{}iY75_1357{}iYO844{}RECON1{}iAT_PLT_636{}iAB_RBC_283{}iAF1260b{}iCHOv1{}iNF517{}iML1515{}iJB785{}iLB1027_lipid{}Recon3D{}iEK1008{}iCHOv1_DG44{}iYS854{}iEC1356_Bl21DE3{}iEC1349_Crooks{}iEC1364_W{}iEC1372_W3110{}iCN718{}iEC1368_DH5a{}iEC1344_C{}iSynCJ816{}iAM_Pf480{}iAM_Pv461{}iAM_Pb448{}iAM_Pc455{}iAM_Pk459{}iIS312_Trypomastigote{}iIS312_Epimastigote{}iIS312{}iIS312_Amastigote{}iCN900{}iJN1463{}iYS1720{}iCN900{}iRC1080{}iLB1027_lipid{}iIS312_Trypomastigote{}iIS312_Epimastigote{}iIS312{}iIS312_Amastigote{}iRC1080{}iLB1027_lipid{}iAM_Pf480{}iAM_Pv461{}iAM_Pb448{}iAM_Pc455{}iAM_Pk459{}iRC1080
#> BioCyc
#> 1 META:GAP
#> CHEBI
#> 1 12983{}12984{}14333{}17138{}181{}18324{}21026{}29052{}5446{}58027{}59776
#> HMDB InChI_Key KEGG KEGG_Drug KEGG_Glycan
#> 1 HMDB01112 LXJXRIRHZLFYRP-VKHMYHEASA-L C00118{}C00661 <NA> <NA>
#> LipidMaps MetaNetX Reactome SEED
#> 1 <NA> MNXM74 29578 cpd00102{}cpd19005