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Table 2 Possible new annotations for C. thermocellum ORFs based on identified metabolic gaps

From: Genome-scale metabolic analysis of Clostridium thermocellum for bioethanol production

Missing EC number Enzyme name Possible Cth ORF Current annotation Reciprocal best hita E valueb
2.7.1.107 diacylglycerol kinase Cthe_3168 hypothetical protein A0R923 7.00E-35
3.2.1.52 Hexosaminidase Cthe_0787 isoleucyl-tRNA synthetase A4N847 0
2.7.7.39 CDP-glycerol pyrophosphorylase Cthe_1276 pantetheine-phosphate adenylyltransferase A1SHB9 3.00E-07
2.7.8.8 phosphatidylserine synthase Cthe_0158 Ribonuclease A9JBA9 1.00E-68
4.1.1.65 phosphatidylserine decarboxylase Cthe_0505 formate acetyltransferase A4NBN7 0
1.3.99.1 succinate dehydrogenase Cthe_2355 L-aspartate oxidase Q97W79 1.00E-94
1.3.1.6 NADH-fumarate reductase Cthe_2355 L-aspartate oxidase B0VG44 5.00E-98
1.3.5.1 succinate dehydrogenase Cthe_2355 L-aspartate oxidase A4YEK0 2.00E-85
6.2.1.5 succinate--CoA ligase Cthe_1907 amino acid adenylation domain A3P3B3 3.00E-40
6.4.1.2 acetyl-CoA carboxylase Cthe_0699 carboxyl transferase A0RY61 8.00E-169
6.3.4.14 biotin carboxylase Cthe_0949 carbamoyl-phosphate synthase, large subunit B2J980 0
4.1.3.38 aminodeoxychorismate lyase Cthe_0026 queuosine biosynthesis protein Q03L66 3.00E-54
3.1.3.1 alkaline phosphatase Cthe_2965 binding-protein-dependent transport systems inner membrane component B0USD4 1.00E-59
2.6.1.2 alanine transaminase Cthe_0755 aminotransferase, class I and II Q7LYW0 3.00E-66
2.6.1.51 serine--pyruvate transaminase Cthe_0265 aminotransferase, class V B4BE13 0
2.7.1.39 homoserine kinase Cthe_0397 ABC transporter related protein A5 M0U7 3.00E-140
3.1.3.3 phosphoserine phosphatase Cthe_0256 histidine kinase A9G173 3.00E-54
2.7.1.40 pyruvate kinase Cthe_1955 RNA binding S1 A5LC67 0
1.2.2.1 formate dehydrogenase Cthe_0199 4Fe-4S ferredoxin, iron-sulfur binding Q2LVY6 9.00E-11
1.7.99.4 nitrate reductase Cthe_0200 FAD-dependent pyridine nucleotide-disulphide oxidoreductase Q11VH4 4.00E-24
2.2.1.2 transaldolase Cthe_0217 Glucose-6-phosphate isomerase Q2S6E8 1.00E-22
6.3.4.1 GMP synthase Cthe_0375 GMP synthase, large subunit A2C5P2 4.00E-176
1.2.1.2 formate dehydrogenase Cthe_0341 NADH dehydrogenase (quinone) B5IPC7 6.00E-126
5.3.3.2 isopentenyl-diphosphate Delta-isomerase Cthe_1022 Glycerol-3-phosphate dehydrogenase A8VXT5 2.00E-94
2.5.1.29 farnesyltranstransferase Cthe_0831 Polyprenyl synthetase B2J443 4.00E-69
2.5.1.33 trans-pentaprenyltranstransferase Cthe_0564 Trans-hexaprenyltranstransferase Q6KZR8 3.00E-25
3.2.1.108 lactase Cthe_0212 Beta-glucosidase P09848 3.00E-89
3.5.1.19 nicotinamidase Cthe_1178 isochorismatase hydrolase Q6F6U3 6.00E-08
1.2.4.4 branched chain keto acid dehydrogenase Cthe_0547 periplasmic solute binding protein A8VXE7 2.00E-27
  1. aUniProt accession numbers
  2. bE value based on reciprocal best hit against C. thermocellum gene