diff --git a/model/Human-GEM.yml b/model/Human-GEM.yml index f724aa74..568f34fd 100644 --- a/model/Human-GEM.yml +++ b/model/Human-GEM.yml @@ -70690,16 +70690,14 @@ - metabolites: !!omap - MAM00671m: -1 - MAM01596m: 1 - - MAM01597m: -1 - - MAM02552m: -1 - - MAM02553m: 1 - - MAM02774m: 1 + - MAM02039m: -1 + - MAM02984m: -1 - lower_bound: 0 - upper_bound: 1000 - - gene_reaction_rule: "ENSG00000083123 and ENSG00000091140 and ENSG00000137992 and ENSG00000248098" + - gene_reaction_rule: "ENSG00000248098 and ENSG00000083123" - rxnNotes: "" - rxnFrom: "HMRdatabase" - - eccodes: "1.2.7.2" + - eccodes: "1.2.4.4" - references: "PMID:2649080;PMID:283398;PMID:3718468;PMID:9381974" - subsystem: - "Propanoate metabolism" @@ -81043,11 +81041,10 @@ - id: "MAR04599" - name: "2-Oxoadipate:lipoamde 2-oxidoreductase(decarboxylating and acceptor-succinylating)" - metabolites: !!omap - - MAM00670m: -1 - - MAM01596m: 1 - - MAM02039m: -1 - MAM02393m: -1 - MAM02899m: 1 + - MAM02984m: 1 + - MAM20077m: -1 - lower_bound: 0 - upper_bound: 1000 - gene_reaction_rule: "(ENSG00000105953 and ENSG00000119689) or (ENSG00000181192 and ENSG00000119689)" @@ -82450,11 +82447,10 @@ - id: "MAR06419" - name: "(S)-3-Methyl-2-oxopentanoate:[dihydrolipoyllysine-residue (2-methylpropanoyl)transferase] lipoyllysine 2-oxidoreductase (decarboxylating, acceptor-2-methylpropanoylating)" - metabolites: !!omap - - MAM00669m: -1 - - MAM01596m: 1 - - MAM02039m: -1 - MAM02393m: -1 - MAM02856m: 1 + - MAM02984m: 1 + - MAM20079m: -1 - lower_bound: 0 - upper_bound: 1000 - gene_reaction_rule: "ENSG00000083123 and ENSG00000142046 and ENSG00000248098" @@ -82487,11 +82483,10 @@ - id: "MAR06421" - name: "4-methyl-2-oxopentanoate:[dihydrolipoyllysine-residue (2-methylpropanoyl)transferase] lipoyllysine 2-oxidoreductase (decarboxylating, acceptor-2-methylpropanoylating)" - metabolites: !!omap - - MAM01013m: -1 - - MAM01596m: 1 - - MAM02039m: -1 - MAM02393m: -1 - MAM02858m: 1 + - MAM02984m: 1 + - MAM20080m: -1 - lower_bound: 0 - upper_bound: 1000 - gene_reaction_rule: "ENSG00000083123 and ENSG00000142046 and ENSG00000248098" @@ -87595,11 +87590,10 @@ - id: "MAR06416" - name: "3-methyl-2-oxobutanoate:[dihydrolipoyllysine-residue (2-methylpropanoyl)transferase] lipoyllysine 2-oxidoreductase (decarboxylating, acceptor-2-methylpropanoylating)" - metabolites: !!omap - - MAM00824m: -1 - - MAM01596m: 1 - - MAM02039m: -1 - MAM02393m: -1 - MAM02857m: 1 + - MAM02984m: 1 + - MAM20078m: -1 - lower_bound: 0 - upper_bound: 1000 - gene_reaction_rule: "ENSG00000083123 and ENSG00000142046 and ENSG00000248098" diff --git a/model/reactions.tsv b/model/reactions.tsv index b0a15a7b..7a245d98 100644 --- a/model/reactions.tsv +++ b/model/reactions.tsv @@ -160,7 +160,7 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR00153" "R00925" "ACS2" "" "r0218" "" "ACS2" "MNXR106753;MNXR95222" "HMR_0153" "RCR10460" "" 0 "RHEA:20374" "RHEA:20373" "HMR_0153" "MAR03212" "R00924" "PPCOAOm" "" "r0683" "" "PPCOAOm;r0683" "MNXR103101" "HMR_3212;HMR_3211" "RCR11088;RCR14348" "" 0 "" "" "HMR_3212;MAR03211" "MAR03797" "R00925" "ACCOALm" "" "r0219" "" "ACCOALm" "MNXR106753;MNXR95222" "HMR_3797" "RCR14211" "" 0 "RHEA:20376" "RHEA:20373" "HMR_3797" -"MAR03800" "" "OBDHm" "" "r1154" "" "r1154" "MNXR102133" "HMR_3800" "RCR10461" "" 0 "" "" "HMR_3800" +"MAR03800" "R10996" "OBDHm" "" "r1154" "" "r1154" "MNXR114300" "HMR_3800" "RCR10461" "" 0 "" "" "HMR_3800" "MAR04105" "R00233" "MCD" "" "r0063" "" "MCD" "MNXR101412" "HMR_4105" "RCR10285" "" 0 "RHEA:18782" "RHEA:18781" "HMR_4105" "MAR04106" "R00233" "MCDm" "" "r0064" "" "MCDm" "MNXR101412" "HMR_4106" "RCR11089" "" 0 "RHEA:18782" "RHEA:18781" "HMR_4106" "MAR04107" "R00233" "MCDp" "" "r0065" "" "MCDp" "MNXR101412" "HMR_4107" "RCR14212" "" 0 "RHEA:18782" "RHEA:18781" "HMR_4107" @@ -713,7 +713,7 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR04288" "R00716" "SACCD3m" "R00716M" "r0180" "" "SACCD3m" "MNXR104238" "HMR_4288" "RCR11333" "" 0 "" "RHEA:19373" "HMR_4288" "MAR04596" "R01939" "" "R01939C" "r0450" "" "AATAi" "MNXR95160" "HMR_4596" "RCR10526" "" 0 "" "RHEA:12601" "HMR_4596" "MAR04597" "R01939" "" "R01939M" "r0450" "" "r0450" "MNXR95160" "HMR_4597" "RCR11334" "" 0 "" "RHEA:12601" "HMR_4597" -"MAR04599" "R01940" "2OXOADOXm" "R01940M;R01933M" "r0451;r0448" "" "r0451;2OXOADOXm" "MNXR102246;MNXR107241" "HMR_4599;HMR_4239" "RCR10318;RCR11332" "" 0 "RHEA:12189" "RHEA:12188" "HMR_4599;MAR04239;HMR_4239" +"MAR04599" "R13167" "2OXOADOXm" "R01940M;R01933M" "r0451;r0448" "" "r0451;2OXOADOXm" "" "HMR_4599;HMR_4239" "RCR10318;RCR11332" "" 0 "" "" "HMR_4599;MAR04239;HMR_4239" "MAR04667" "R02313" "r0525" "R02313C" "r0525" "" "r0525" "MNXR105347" "HMR_4667" "RCR11335" "" 0 "" "RHEA:24520" "HMR_4667" "MAR04668" "R02315" "SACCD4m" "" "r0526" "" "SACCD4m" "MNXR104236" "HMR_4668" "RCR11336" "" 0 "" "RHEA:10020" "HMR_4668" "MAR04737" "R03102" "" "R03102M" "r0594" "" "r0594" "MNXR95158" "HMR_4737" "RCR10319" "" 0 "" "RHEA:12308" "HMR_4737" @@ -787,9 +787,9 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR03795" "R00922" "MMSAD1m" "R00922M" "r0223" "" "MMSAD1m" "MNXR101662" "HMR_3795" "RCR10324" "" 0 "" "RHEA:20804" "HMR_3795" "MAR04797" "R03869" "" "R03869C" "r0642" "" "r0642" "MNXR105358;MNXR95762" "HMR_4797" "RCR10533" "" 0 "" "RHEA:31043" "HMR_4797" "MAR06417" "R02662" "" "RE3326M" "r0561" "" "RE3326M;r0561" "MNXR107649;MNXR97451" "HMR_6417" "RCR14349" "" 0 "" "RHEA:18865" "HMR_6417" -"MAR06419" "R04225" "" "R04225C" "r0670" "" "r0670" "MNXR108745;MNXR94911" "HMR_6419" "RCR11381" "" 0 "" "" "HMR_6419" +"MAR06419" "R07604" "" "R04225C" "r0670" "" "r0670" "MNXR142264;MNXR183201" "HMR_6419" "RCR11381" "" 0 "" "" "HMR_6419" "MAR06420" "R03174" "" "" "r0604" "" "r0604" "MNXR108002;MNXR97450" "HMR_6420" "RCR14350" "" 0 "" "" "HMR_6420" -"MAR06421" "R01702;R01651" "OIVD1m" "R01702C;R03171M" "r0386;r0601" "" "r0386;OIVD1m" "MNXR107132;MNXR95029;MNXR102172;MNXR107999" "HMR_6421;HMR_3767" "RCR11382;RCR14422" "" 0 "" "RHEA:25177" "HMR_6421;HMR_3767;MAR03767_1" +"MAR06421" "R01702" "OIVD1m" "R01702C;R03171M" "r0386;r0601" "" "r0386;OIVD1m" "MNXR144603;MNXR183200" "HMR_6421;HMR_3767" "RCR11382;RCR14422" "" 0 "" "" "HMR_6421;HMR_3767;MAR03767_1" "MAR06422" "R04097;R01651" "OIVD1m" "R0317M" "r0656;r0601" "" "r0656;OIVD1m" "MNXR108654;MNXR97452;MNXR102172;MNXR107999" "HMR_6422;HMR_3767" "RCR14351;RCR14422" "" 0 "" "RHEA:25177" "HMR_6422;MAR03767_2" "MAR06923" "R01090" "LEUTA" "" "" "" "LEUTA" "MNXR96229" "HMR_6923" "RCR10325" "" 0 "" "RHEA:18321" "HMR_6923" "MAR03765" "R01090" "LEUTAm" "R01090C" "r0262" "" "LEUTAm" "MNXR96229" "HMR_3765" "RCR11383" "" 0 "" "RHEA:18321" "HMR_3765" @@ -1060,7 +1060,7 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR03792" "R02048" "" "R02048M" "r0483" "" "3AIBTm;r0483" "MNXR105346" "HMR_3792" "RCR11523" "" 0 "" "" "HMR_3792" "MAR03796" "R00926" "" "R00926C" "r0221" "" "r0221" "MNXR105315;MNXR106754" "HMR_3796" "RCR10119" "" 0 "" "" "HMR_3796" "MAR03823" "R04203" "HACD9m" "R04203M" "r0664" "" "HACD9m" "MNXR100550" "HMR_3823" "RCR11524" "" 0 "" "RHEA:13281" "HMR_3823" -"MAR06416" "R01701" "" "R01701C" "r0385" "" "r0385" "MNXR107131;MNXR94910" "HMR_6416" "RCR11525" "" 0 "" "RHEA:13457" "HMR_6416" +"MAR06416" "R07600" "" "R01701C" "r0385" "" "r0385" "MNXR142260;MNXR183199" "HMR_6416" "RCR11525" "" 0 "" "" "HMR_6416" "MAR03986" "" "" "" "r1374" "" "r1374" "MNXR105461" "HMR_3986" "RCR30265" "" 0 "" "" "HMR_3986" "MAR03988" "R00022" "" "R00022C" "r0013" "" "r0013" "MNXR100746;MNXR95628" "HMR_3988" "RCR11526" "" 0 "" "RHEA:30671" "HMR_3988" "MAR04124" "R01384" "UDPGLDCg" "R01384C" "r0326" "" "HMR_4124" "MNXR105068" "HMR_4124" "RCR11527" "" 0 "" "RHEA:23916" "HMR_4124" @@ -12994,9 +12994,9 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR20170" "" "" "" "" "" "" "" "" "" "" 0 "RHEA:30144" "RHEA:30143" "" "MAR20171" "" "" "" "" "" "" "" "" "" "" 0 "RHEA:40060" "RHEA:40059" "" "MAR20172" "" "" "" "" "" "" "" "" "" "" 0 "" "" "" -"MAR20173" "R13167" "" "" "" "" "" "" "" "" "" 0 "" "" "" +"MAR20173" "R13166" "" "" "" "" "" "" "" "" "" 0 "" "" "" "MAR20174" "R07599" "" "" "" "" "" "MNXR145675" "" "" "" 0 "" "" "" "MAR20175" "R07603" "" "" "" "" "" "MNXR145677" "" "" "" 0 "" "" "" "MAR20176" "R07601" "" "" "" "" "" "MNXR145679" "" "" "" 0 "" "" "" -"MAR20177" "R10996" "" "" "" "" "" "MNXR114300" "" "" "" 0 "" "" "" -"MAR20178" "R10997" "" "" "" "" "" "MNXR114301" "" "" "" 0 "" "" "" +"MAR20177" "R10997" "" "" "" "" "" "MNXR114301" "" "" "" 0 "" "" "" +"MAR20178" "R10998" "" "" "" "" "" "MNXR114302" "" "" "" 0 "" "" ""