Manual

	Common name	Ec number	Reconstruction category	Reconstruction tool	Reconstruction source	Reconstruction comment	Gene associated	In pathway
1.1.1.8-RXN	ORF Glycerol-3-phosphate dehydrogenase	EC-1.1.1.8	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 13013 Tiso gene 15777 Tiso gene 6069 Tiso gene 2810 Tiso gene 2811 Tiso gene 3718	PWY-6118 PWY-7385 PWY-7411
1.10.2.2-RXN	Cytochrome b6-fcomplexiron-sulfurchloroplastic Ubiquinol-cytochrome c reductase Probable mitochondrial-processingpeptidasesubunitbeta	EC-1.10.2.2	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Manual-primary network Annotation-in-silico annotation Orthology-esiliculosus		Tiso gene 7235 Tiso gene 9627 Tiso gene 4973 Tiso gene 18330 Tiso gene 15926	PWY-7279 PWY-7082 PWY-3781
1.18.1.2-RXN	Ferredoxin--nadp embryochloroplastic Ferredoxin--nadp root isozyme chloroplastic	EC-1.18.1.2	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-in-silico annotation Manual-primary network Annotation-experimental annotation Orthology-esiliculosus		Tiso gene 20054 Tiso gene 19031 Tiso gene 17381 Tiso gene 17170 Tiso gene 20055 Tiso gene 20168	PWY-7230 PWY-101
1.2.1.13-RXN	Glyceraldehyde-3-phosphate dehydrogenase	EC-1.2.1.13	Manual Annotation	Pathwaytools	Annotation-in-silico annotation Manual-primary network Annotation-experimental annotation		Tiso gene 6765 Tiso gene 20000 Tiso gene 10646 Tiso gene 6766	CALVIN-PWY
1.5.1.20-RXN	Methylenetetrahydrofolate reductase -methylenetetrahydrofolate reductase	EC-1.5.1.20	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-in-silico annotation Manual-primary network Annotation-experimental annotation Orthology-esiliculosus		Tiso gene 16954 Tiso gene 14582	PWY-2201 1CMET2-PWY CODH-PWY PWY-3841
1.5.5.1-RXN		EC-1.5.5.1	Orthology Manual	Pantograph	Manual-primary network Orthology-esiliculosus		Tiso gene 18526
1.8.4.9-RXN		EC-1.8.4.9	Manual		Manual-primary network			SULFMETII-PWY
1TRANSKETO-RXN	Transketolase	EC-2.2.1.1	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-in-silico annotation Manual-primary network Orthology-athaliana Annotation-experimental annotation Orthology-synechocystis		Tiso gene 5008 Tiso gene 11559	P124-PWY CALVIN-PWY P21-PWY PWY-5723 PWY-1861 P185-PWY NONOXIPENT-PWY
2-ISOPROPYLMALATESYN-RXN	2-isopropylmalate synthase chloroplastic	EC-2.3.3.13	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 11453	LEUSYN-PWY PWY-6871
2.5.1.19-RXN	Pentafunctional protein	EC-2.5.1.19	Orthology Manual Annotation	Pantograph Pathwaytools	Orthology-creinhardtii Manual-primary network Annotation-in-silico annotation Orthology-athaliana		Tiso gene 5752 Tiso gene 5753	PWY-6163
2.7.1.148-RXN	4-diphosphocytidyl-2-c-methyl-d-erythritol kinase	EC-2.7.1.148	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 13463	NONMEVIPP-PWY PWY-7560
2.7.7.60-RXN	2-c-methyl-d-erythritol 4-phosphate cytidylyltransferase 4-diphosphocytidyl-2-methylerithritol synthase (sugar nucleotide phosphorylase family)	EC-2.7.7.60	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 17568	NONMEVIPP-PWY PWY-7560
2OXOGLUTDECARB-RXN	Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase mitochondrial Oxoglutarate decarboxylase 2-oxoglutarate decarboxylation	EC-1.2.4.2	Manual Annotation	Pathwaytools	Annotation-experimental annotation Manual-primary network Annotation-in-silico annotation		Tiso gene 10209	PWY66-398 PWY-5084
2PGADEHYDRAT-RXN	Bifunctional enolase2transcriptionalactivator Bifunctional enolase 2 transcriptional activator Enolase 1	EC-4.2.1.11	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 5619 Tiso gene 13317 Tiso gene 14718 Tiso gene 8720	PWY-1042 P341-PWY PWY-2221 PWY-7124 PWY-1622 GLUCONEO-PWY GLYCOLYSIS NPGLUCAT-PWY ANAGLYCOLYSIS-PWY PWY-7218 PWY-6901 P124-PWY PWY-6886 PWY-5723 PWY-6142 P122-PWY PWY66-399 PWY-5484 PWY-7003
2TRANSKETO-RXN	Transketolase	EC-2.2.1.1	Orthology Manual Annotation	Pantograph Pathwaytools	Orthology-creinhardtii Annotation-experimental annotation Orthology-athaliana Annotation-in-silico annotation Manual-primary network		Tiso gene 11559 Tiso gene 5008	PWY-6901 CALVIN-PWY P21-PWY PWY-5723 PWY-1861 P185-PWY NONOXIPENT-PWY
3-DEHYDROQUINATE-DEHYDRATASE-RXN	Pentafunctional protein	EC-4.2.1.10	Orthology Manual Annotation	Pantograph Pathwaytools	Orthology-athaliana Annotation-in-silico annotation Manual-primary network Orthology-esiliculosus		Tiso gene 5619 Tiso gene 14718 Tiso gene 8720 Tiso gene 5753 Tiso gene 5752	PWY-6163 PWY-6416 QUINATEDEG-PWY PWY-6707
3-DEHYDROQUINATE-SYNTHASE-RXN	3-dehydroquinate synthase Pentafunctional protein	EC-4.2.3.4	Orthology Manual Annotation	Pantograph Pathwaytools	Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 5753 Tiso gene 3446 Tiso gene 3445 Tiso gene 3974 Tiso gene 5752 Tiso gene 3447	PWY-6164
3-OXOACYL-ACP-SYNTH-BASE-RXN	3-oxoacyl-synthase Polyketide synthase	EC-2.3.1.86 EC-2.3.1.85 EC-2.3.1.41	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network		Tiso gene 19302 Tiso gene 136 Tiso gene 14485 Tiso gene 13394 Tiso gene 5939 Tiso gene 135 Tiso gene 10876 Tiso gene 500 Tiso gene 15991	PWY-5965 PWY-5966 FASYN-INITIAL-PWY PWY-7388
3PGAREARR-RXN	Phosphoglycerate mutase Bisphosphoglycerate-dependent phosphoglycerate mutase ORF Plastid phosphoglycerate mutase protein	EC-5.4.2.12	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 16271 Tiso gene 5468 Tiso gene 14530 Tiso gene 7201 Tiso gene 20311 Tiso gene 2365 Tiso gene 10516 Tiso gene 16754 Tiso gene 9922 Tiso gene 2667 Tiso gene 15391 Tiso gene 2841 Tiso gene 15048 Tiso gene 14212 Tiso gene 9923 Tiso gene 14664	PWY-1042 P341-PWY PWY-2221 GLUCONEO-PWY GLYCOLYSIS PWY-6901 PWY-7218 P124-PWY PWY-6886 PWY-5723 PWY-6142 PWY-5484 PWY-7124 PWY-7003
4.2.1.58-RXN	Polyketide synthase Β-hydroxybutyryl acyl carrier protein (ACP) dehydrase Β-hydroxybutyryl acyl carrier protein dehydrase Enoyl acyl carrier protein hydrase Crotonyl acyl carrier protein hydratase 3-hydroxybutyryl acyl carrier protein dehydratase	EC-2.3.1.86 EC-2.3.1.85 EC-4.2.1.59	Manual Annotation	Pathwaytools	Annotation-experimental annotation Manual-primary network Annotation-in-silico annotation		Tiso gene 6884 Tiso gene 13394 Tiso gene 136 Tiso gene 500 Tiso gene 135 Tiso gene 10876	PWY-5971 PWY-5994 PWY-7388
4.2.1.59-RXN	Polyketide synthase	EC-2.3.1.86 EC-2.3.1.85 EC-4.2.1.59	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-in-silico annotation Manual-primary network Annotation-experimental annotation Orthology-synechocystis		Tiso gene 500 Tiso gene 13394 Tiso gene 10876 Tiso gene 135 Tiso gene 6884 Tiso gene 6885 Tiso gene 136	PWY-5971 PWY-5994
4.2.1.61-RXN	Polyketide synthase Β-hydroxypalmitoyl-acyl carrier protein dehydrase Β-hydroxypalmitoyl thioester dehydratase Β-hydroxypalmityl-ACP dehydrase	EC-2.3.1.86 EC-2.3.1.85 EC-4.2.1.59	Manual Annotation	Pathwaytools	Annotation-in-silico annotation Manual-primary network Annotation-experimental annotation		Tiso gene 136 Tiso gene 13394 Tiso gene 10876 Tiso gene 500 Tiso gene 6884 Tiso gene 135	PWY-5971 PWY-5994
4.3.1.17-RXN		EC-4.3.1.17	Orthology Manual	Pantograph	Manual-primary network Orthology-creinhardtii Orthology-synechocystis		Tiso gene 12535
6PFRUCTPHOS-RXN	Pyrophosphate-dependent phosphofructose kinase	EC-2.7.1.11	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Manual-primary network Orthology-creinhardtii		Tiso gene 5733 Tiso gene 596	PWY-1042 GLYCOLYSIS PWY-7385 PWY-1861 ANAGLYCOLYSIS-PWY PWY-5484
6PGLUCONOLACT-RXN	ORF 6-phosphogluconolactonase	EC-3.1.1.31	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Manual-primary network Orthology-creinhardtii		Tiso gene 10799 Tiso gene 5901 Tiso gene 15950 Tiso gene 8585 Tiso gene 20412	P122-PWY RUMP-PWY OXIDATIVEPENT-PWY GLYCOLYSIS-E-D
ACETATE--COA-LIGASE-RXN	Acetyl-coenzyme a synthetase	EC-6.2.1.1	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 3617 Tiso gene 1612 Tiso gene 3616	PWY66-161 PWY66-21 PWY66-162 PWY0-1313 PWY-6672 PWY-7118
ACETOLACTREDUCTOISOM-RXN	2,3-Dihydroxy-3-methylbutanoate:DP+ oxidoreductase (isomerizing), chloroplast	EC-1.1.1.86	Orthology Manual Annotation	Pantograph Pathwaytools	Manual-primary network Annotation-experimental annotation Orthology-esiliculosus		Tiso gene 10173	VALSYN-PWY PWY-7111
ACETOLACTSYN-RXN	Acetolactate synthase catalytic subunit, mitochondrial	EC-2.2.1.6	Manual Annotation	Pathwaytools	Manual-primary network Annotation-experimental annotation		Tiso gene 11362	VALSYN-PWY PWY-7111 PWY-6389 PWY-5938 PWY-5939
ACETOOHBUTREDUCTOISOM-RXN	2,3-Dihydroxy-3-methylbutanoate:DP+ oxidoreductase (isomerizing), chloroplast	EC-1.1.1.86	Orthology Manual Annotation	Pantograph Pathwaytools	Manual-primary network Annotation-experimental annotation Orthology-esiliculosus		Tiso gene 10173	PWY-5103 ILEUSYN-PWY
ACETOOHBUTSYN-RXN	2-aceto-2-hydroxy-butyrate synthase Acetolactate synthase catalytic subunit, mitochondrial	EC-2.2.1.6	Manual Annotation	Pathwaytools	Manual-primary network Annotation-experimental annotation		Tiso gene 11362	PWY-5103 ILEUSYN-PWY PWY-5101 PWY-5104
ACETYL-COA-CARBOXYLTRANSFER-RXN		EC-6.4.1.2	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-in-silico annotation Orthology-athaliana Annotation-experimental annotation Manual-primary network Orthology-esiliculosus		Tiso gene 3800 Tiso gene 5029 Tiso gene 2812 Tiso gene 7965	PWY-7388 PWY-6722 PWY-5743 PWY-5744 PWY-5789 PWY-6679 PWY-4381
ACP-S-ACETYLTRANSFER-RXN	Polyketide synthase	EC-2.3.1.86 EC-2.3.1.85 EC-2.3.1.38	Orthology Manual Annotation	Pantograph Pathwaytools	Manual-primary network Orthology-athaliana Annotation-in-silico annotation Orthology-synechocystis		Tiso gene 13394 Tiso gene 15991 Tiso gene 10876 Tiso gene 136 Tiso gene 500 Tiso gene 135	PWY-5966 FASYN-INITIAL-PWY
ACSERLY-RXN	Cysteine synthase Cog0031: cysteine synthase Cysteine	EC-2.5.1.47	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 6110 Tiso gene 12184 Tiso gene 2283 Tiso gene 819 Tiso gene 17043 Tiso gene 7852	CYSTSYN-PWY
ADENOSINE-KINASE-RXN	ORF	EC-2.7.1.20	Manual Annotation	Pathwaytools	Annotation-experimental annotation Manual-primary network Annotation-in-silico annotation		Tiso gene 12078	PWY-6619
ADENOSYLHOMOCYSTEINASE-RXN	Adenosylhomocysteinase 1	EC-3.3.1.1	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 14191	METHIONINE-DEG1-PWY PWY-5041
ADENYL-KIN-RXN	Adenylate kinase (Fragment) n ORF Adenylate kinase Adenylate kinase 4 Central pair complex 1	EC-2.7.4.3	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 694 Tiso gene 5837 Tiso gene 12257 Tiso gene 4816 Tiso gene 5839 Tiso gene 19036 Tiso gene 12256 Tiso gene 8576 Tiso gene 5387 Tiso gene 5081 Tiso gene 1453 Tiso gene 14116 Tiso gene 13477 Tiso gene 5388 Tiso gene 805 Tiso gene 3353 Tiso gene 19734	PWY-7219
ADENYLOSUCCINATE-SYNTHASE-RXN	Adenylosuccinate synthase Adenylosuccinate synthetase	EC-6.3.4.4	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 6453 Tiso gene 743	PWY-7219
ADPREDUCT-RXN	ADP reductase Ribonucleoside-diphosphate reductase	EC-1.17.4.1	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network		Tiso gene 10617 Tiso gene 9916 Tiso gene 10138 Tiso gene 9915	PWY-7220 PWY-7227
AICARSYN-RXN		EC-4.3.2.2	Manual Annotation	Pathwaytools	Manual-primary network Annotation-in-silico annotation			PWY-6123 PWY-6124 PWY-7234
AICARTRANSFORM-RXN	Bifunctional purine biosynthesis 5-aminoimidazole-4-carboxamide ribonucleotide transformylase	EC-2.1.2.3	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-in-silico annotation Manual-primary network Annotation-experimental annotation Orthology-esiliculosus		Tiso gene 18420	PWY-6123 PWY-6124
AIRCARBOXY-RXN	Phosphoribosylaminoimidazole carboxylase	EC-4.1.1.21	Orthology Manual Annotation	Pantograph Pathwaytools	Orthology-athaliana Annotation-in-silico annotation Manual-primary network Orthology-esiliculosus		Tiso gene 16011	PWY-6124
AIRS-RXN		EC-6.3.3.1	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Manual-primary network Annotation-in-silico annotation Orthology-synechocystis		Tiso gene 1369	PWY-6121 PWY-6122 PWY-6277
ALANINE--GLYOXYLATE-AMINOTRANSFERASE-RXN	Acetylornithine aminotransferase	EC-2.6.1.44	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Manual-primary network Annotation-in-silico annotation Orthology-athaliana Orthology-esiliculosus		Tiso gene 11231 Tiso gene 6134 Tiso gene 5726	GLYSYN-ALA-PWY
ALANINE-AMINOTRANSFERASE-RXN	Alanine aminotransferase mitochondrial Alanine aminotransferase	EC-2.6.1.2	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-athaliana Annotation-in-silico annotation Manual-primary network Orthology-esiliculosus		Tiso gene 5959 Tiso gene 10957	ALANINE-DEG3-PWY PWY-7383 PWY-7117 ALACAT2-PWY PWY-7115 ALANINE-SYN2-PWY
AMPSYN-RXN		EC-4.3.2.2	Manual Annotation	Pathwaytools	Annotation-experimental annotation Manual-primary network Annotation-in-silico annotation			PWY-7219
ANTHRANSYN-RXN	Anthranilate synthase	EC-4.1.3.27	Orthology Manual Annotation	Pantograph Pathwaytools	Orthology-athaliana Annotation-in-silico annotation Manual-primary network Orthology-esiliculosus		Tiso gene 11176	TRPSYN-PWY PWY-5958 PWY-6661 PWY-6660
ARGSUCCINLYA-RXN	Argininosuccinate lyase	EC-4.3.2.1	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 2485	PWY-4984 ARGSYN-PWY PWY-5154 ARGSYNBSUB-PWY PWY-4983 PWY-7400
ARGSUCCINSYN-RXN	Argininosuccinate synthase	EC-6.3.4.5	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 12592	PWY-5154 ARGSYN-PWY PWY-4984 ARGSYNBSUB-PWY PWY-4983 PWY-7400
ASNSYNB-RXN	Asparagine synthetase Asparagine synthetase domaincontaining protein putat	EC-6.3.5.4	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-athaliana Annotation-in-silico annotation Manual-primary network Orthology-esiliculosus		Tiso gene 2973 Tiso gene 7495	ASPARAGINE-BIOSYNTHESIS
ASPAMINOTRANS-RXN	Aminotransferase Aspartate aminotransferase	EC-2.6.1.1	Orthology Manual Annotation	Pantograph Pathwaytools	Annotation-experimental annotation Orthology-esiliculosus Annotation-in-silico annotation Orthology-athaliana Orthology-synechocystis Manual-primary network Orthology-creinhardtii		Tiso gene 17809 Tiso gene 6815 Tiso gene 17718 Tiso gene 13538 Tiso gene 12889 Tiso gene 15680	PWY-5913 MALATE-ASPARTATE-SHUTTLE-PWY PWY-7383 ASPARTATE-DEG1-PWY ASPARTATESYN-PWY PWY-7117 GLUTDEG-PWY PWY-7115 ASPARAGINE-DEG1-PWY-1
... further results