GapMind for catabolism of small carbon sources

 

myo-inositol catabolism

Analysis of pathway myoinositol in 276 genomes

Genome Best path
Acidovorax caeni R-24608 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Actinokineospora bangkokensis 44EHW iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Actinomyces timonensis 7400942 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Algiphilus aromaticivorans DG1253 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Algoriphagus aquaeductus T4 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Algoriphagus machipongonensis PR1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Alicyclobacillus ferrooxydans TC-34 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Alishewanella agri BL06 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Alistipes indistinctus YIT 12060 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Alistipes shahii WAL 8301 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Alkalitalea saponilacus SC/BZ-SP2 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Amantichitinum ursilacus IGB-41 PS417_11885, PS417_11890, PS417_11895, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Amphibacillus jilinensis Y1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Amphritea japonica JAMM 1866 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Amycolatopsis halophila YIM 93223 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Amycolatopsis xylanica CPCC 202699 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Aquimarina agarilytica ZC1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Aquimarina longa SW024 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Aquimarina macrocephali JAMB N27 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Archaeoglobus sulfaticallidus PM70-1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Arcticibacter svalbardensis MN12-7 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Ardenticatena maritima 110S iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Arenimonas metalli CF5-1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Arenitalea lutea P7-3-5 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Azospirillum humicireducens SgZ-5 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Azospirillum thiophilum BV-S iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Bacillus altitudinis 41KF2b iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bacillus coahuilensis m4-4 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bacillus cytotoxicus NVH 391-98 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bacillus horneckiae 1P01SC iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bacillus okhensis Kh10-101 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bacillus safensis FO-36b iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bacillus velezensis CBMB205 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bacteroides clarus YIT 12056 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Bacteroides faecis MAJ27 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Bacteroides fluxus YIT 12057 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Bacteroides oleiciplenus YIT 12058 SMIT1, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Barnesiella intestinihominis YIT 11860 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Belnapia rosea CPCC 100156 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Bizionia argentinensis JUB59 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bradyrhizobium diazoefficiens USDA110 PS417_11885, PS417_11890, PS417_11895, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Brevibacterium jeotgali SJ5-8 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Brucella inopinata BO1 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Brucella microti CCM 4915 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Bryobacter aggregatus MPL3 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Caldicellulosiruptor hydrothermalis 108 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Caldicellulosiruptor kronotskyensis 2002 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Carboxydothermus pertinax Ug1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Catellicoccus marimammalium M35/04/3 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Chromobacterium vaccinii MWU205 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Chryseobacterium angstadtii KM iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Chryseobacterium arthrosphaerae CC-VM-7 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Chryseobacterium viscerum 687B-08 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Cloacibacillus porcorum CL-84 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Cobetia crustatorum JO1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Collimonas arenae Ter10 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Collimonas pratensis Ter91 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Collinsella tanakaei YIT 12063 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Coprobacter fastidiosus NSB1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Corynebacterium deserti GIMN1.010 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Corynebacterium frankenforstense ST18 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Corynebacterium lactis RW2-5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Croceitalea dokdonensis DOKDO 023 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Cronobacter condimenti 1330 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Cronobacter muytjensii ATCC 51329 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Cronobacter universalis NCTC 9529 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Desulfatitalea tepidiphila S28bF iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Desulfotomaculum hydrothermale Lam5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Dethiosulfovibrio salsuginis USBA 82 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Devosia chinhatensis IPL18 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Devriesea agamarum IMP2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Dialister succinatiphilus YIT 11850 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Dietzia timorensis ID05-A0528 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Dokdonella koreensis DS-123 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Domibacillus robiginosus WS 4628 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Duganella sacchari Sac-22 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Dyadobacter tibetensis Y620-1 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Dyella jiangningensis SBZ3-12 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Endozoicomonas montiporae CL-33 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Enterococcus termitis LMG 8895 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Enterorhabdus caecimuris B7 iolF, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Epibacterium ulvae U95 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Erythrobacter gangjinensis K7-2 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Erythrobacter marinus HWDM-33 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Ethanoligenens harbinense YUAN-3 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Fervidicella metallireducens AeB iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Fibrella aestuarina BUZ 2 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Flammeovirga pacifica WPAGA1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Flaviramulus ichthyoenteri Th78 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Flavobacterium beibuense F44-8 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Flavobacterium glycines Gm-149 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Flavobacterium sp. LM5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Flavobacterium ummariense DS-12 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Frischella perrara PEB0191 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Galbibacter marinus ck-I2-15 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Gallaecimonas xiamenensis 3-C-1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Geobacter daltonii FRC-32 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Gillisia marina CBA3202 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Gracilibacillus halophilus YIM-C55.5 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Granulicella mallensis MP5ACTX8 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Granulicella tundricola MP5ACTX9 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Hafnia paralvei ATCC 29927 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Haladaptatus cibarius D43 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halioglobus japonicus S1-36 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halobacillus alkaliphilus FP5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halococcus hamelinensis 100A6 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halomonas salina B6 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halomonas smyrnensis AAD6 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halomonas stevensii S18214 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halomonas titanicae BH1 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Halomonas xinjiangensis TRM 0175 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Halopiger salifodinae KCY07-B2 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Halostagnicola larsenii XH-48 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Haloterrigena daqingensis JX313 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Herbaspirillum aquaticum IEH 4430 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Hippea alviniae EP5-r iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Hippea jasoniae Mar08-272r iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Hoeflea phototrophica DFL-43 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Hyphomicrobium nitrativorans NL23 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Imtechella halotolerans K1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Indibacter alkaliphilus LW1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Jannaschia aquimarina GSW-M26 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Jeotgalibacillus soli P9 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Kangiella geojedonensis YCS-5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Knoellia flava TL1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Kocuria flava HO-9041 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Kocuria turfanensis HO-9042 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Laceyella sediminis RHA1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lacinutrix algicola AKS293 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lacinutrix himadriensis E4-9a iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lacinutrix mariniflava AKS432 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lactobacillus curieae CCTCC M 2011381 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lactobacillus delbrueckii ZN7a-9 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Lactobacillus hokkaidonensis LOOC260 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lactobacillus oryzae SG293 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lactobacillus pobuzihii E100301 iolF, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Lactobacillus shenzhenensis LY-73 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lactobacillus silagei IWT126 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Leeuwenhoekiella blandensis MED217 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lentibacillus jeotgali Grbi iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Limnohabitans curvus MWH-C5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Limnohabitans parvus II-B4 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Listeria fleischmannii LU2006-1 iolF, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Luteimonas huabeiensis HB2 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Luteipulveratus mongoliensis MN07-A0370 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Lutibaculum baratangense AMV1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Lysobacter daejeonensis GH1-9 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Magnetovibrio blakemorei MV-1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Marinicella litoralis KMM 3900 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Mariniradius saccharolyticus AK6 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Marinobacter algicola DG893 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Marinobacter guineae M3B iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Marinobacter psychrophilus 20041 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Marinomonas arctica 328 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Marivita geojedonensis DPG-138 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Martelella endophytica YC6887 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Megamonas funiformis YIT 11815 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Mesorhizobium ciceri WSM1271 iatP, iatA, ibpA, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanobacterium arcticum M2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanobacterium veterum MK4 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanocella arvoryzae MRE50 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanococcus aeolicus Nankai-3 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanoculleus horonobensis T10 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanolinea tarda NOBI-1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanosarcina soligelidi SMA-21 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanospirillum lacunae Ki8-1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methanospirillum stamsii Pt1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methylibium petroleiphilum PM1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methylobacterium gossipiicola Gh-105 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methylocapsa aurea KYG iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Methylotenera versatilis 301 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Microbacterium profundi Shh49 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Microvirga lotononidis WSM3557 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Moritella dasanensis ArB 0140 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Mucilaginibacter gossypii Gh-67 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Mucilaginibacter gossypiicola Gh-48 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Mucilaginibacter mallensis MP1X4 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Nafulsella turpanensis ZLM-10 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Natronomonas moolapensis 8.8.11 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Nautilia profundicola AmH iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Neiella marina J221 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Neptunomonas antarctica S3-22 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Nocardioides daejeonensis MJ31 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Nocardioides dokdonensis FR1436 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Nocardiopsis baichengensis YIM 90130 iolF, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Nocardiopsis gilva YIM 90087 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Novosphingobium barchaimii LL02 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Novosphingobium fuchskuhlense FNE08-7 iolF, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Novosphingobium lindaniclasticum LE124 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Oceanisphaera arctica V1-41 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Ochrobactrum rhizosphaerae PR17 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Ochrobactrum thiophenivorans DSM 7216 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Oscillibacter ruminantium GH1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Paenisporosarcina indica PN2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Palaeococcus pacificus DY20341 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Paludibacter propionicigenes WB4 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Pandoraea thiooxydans ATSB16 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pantoea rwandensis LMG 26275 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pedobacter arcticus A12 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Photobacterium gaetbulicola Gung47 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Photobacterium jeanii R-40508 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Phyllobacterium brassicacearum STM 196 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Phyllobacterium endophyticum PEPV15 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Phyllobacterium leguminum ORS 1419 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Planktomarina temperata RCA23 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Planococcus halocryophilus Or1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pleomorphomonas diazotrophica R5-392 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Polaribacter dokdonensis DSW-5 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Pontibacillus litoralis JSM 072002 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pontibacter lucknowensis DM9 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Pontibacter ramchanderi LP43 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pontimonas salivibrio CL-TW6 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Porphyrobacter dokdonensis DSW-74 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pseudoalteromonas arctica A 37-1-2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pseudomonas baetica a390 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pseudomonas litoralis 2SM5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pseudomonas taeanensis MS-3 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Pseudovibrio axinellae Ad2 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Psychrobacter arcticus 273-4 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Psychrobacter cryohalolentis K5 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Psychromonas ingrahamii 37 PS417_11885, PS417_11890, PS417_11895, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Psychromonas ossibalaenae JAMM 0738 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Rhizobium freirei PRF 81 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhizobium grahamii CCGE 502 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhizobium subbaraonis JC85 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhodanobacter denitrificans 2APBS1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhodobacter johrii JA192 iatP, iatA, ibpA, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhodobacter maris JA276 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Rhodobacter ovatus JA234 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhodobacter viridis JA737 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhodococcus qingshengii djl-6-2 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rhodopseudomonas pseudopalustris DSM 123 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Roseateles aquatilis CCUG 48205 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Roseivirga spongicola UST030701-084 SMIT1, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Rubrivirga marina SAORIC-28 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Ruegeria conchae TW15 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Saccharomonospora marina XMU15 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Salinicoccus carnicancri Crm iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Serinicoccus profundi MCCC 1A05965 SMIT1, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Shewanella halifaxensis HAW-EB4 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Skermanella stibiiresistens SB22 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Snodgrassella alvi wkB2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Sphaerochaeta globosa Buddy iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Sphaerochaeta pleomorpha Grapes PS417_11885, PS417_11890, PS417_11895, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Sphingobium baderi LL03 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Sphingobium czechense LL01 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Sphingobium quisquiliarum P25 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Sphingomonas histidinilytica UM2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Sphingomonas indica Dd16 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Sphingomonas laterariae LNB2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Sphingopyxis indica DS15 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Sphingopyxis terrae UI2 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Sporolactobacillus vineae SL153 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Streptacidiphilus oryzae TH49 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Streptococcus anginosus CCUG 39159 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Streptococcus massiliensis 4401825 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Streptococcus oralis 7747 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Streptococcus oralis AZ_3a iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Streptomyces kebangsaanensis SUK12 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Succinatimonas hippei YIT 12066 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Sulfurimonas gotlandica GD1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Tatumella morbirosei LMG 23360 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Thauera humireducens SgZ-1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Thermoactinomyces daqus H-18 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Thermobifida halotolerans YIM 90462 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Thermodesulfovibrio aggregans TGE-P1 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Thermophagus xiamenensis HS1 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Thermovenabulum gondwanense R270 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Thioclava dalianensis DLFJ1-1 PGA1_c07300, PGA1_c07310, PGA1_c07320, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Thiohalospira halophila HL 3 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Tistlia consotensis USBA 355 iolT, iolG, iolM, iolN, iolO, uxaE, uxuB, uxuA, kdgK, eda
Vagococcus penaei CD276 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Verminephrobacter eiseniae EF01-2 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Weissella oryzae SG25 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Williamsia sterculiae CPCC 203464 iolT, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi
Yersinia intermedia Y228 PS417_11885, PS417_11890, PS417_11895, iolG, iolE, iolD, iolB, iolC, iolJ, mmsA, tpi

Confidence: high confidence medium confidence low confidence
transporter – transporters and PTS systems are shaded because predicting their specificity is particularly challenging.

This GapMind analysis is from Sep 24 2021. The underlying query database was built on Sep 17 2021.

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About GapMind

Each pathway is defined by a set of rules based on individual steps or genes. Candidates for each step are identified by using ublast (a fast alternative to protein BLAST) against a database of manually-curated proteins (most of which are experimentally characterized) or by using HMMer with enzyme models (usually from TIGRFam). Ublast hits may be split across two different proteins.

A candidate for a step is "high confidence" if either:

where "other" refers to the best ublast hit to a sequence that is not annotated as performing this step (and is not "ignored").

Otherwise, a candidate is "medium confidence" if either:

Other blast hits with at least 50% coverage are "low confidence."

Steps with no high- or medium-confidence candidates may be considered "gaps." For the typical bacterium that can make all 20 amino acids, there are 1-2 gaps in amino acid biosynthesis pathways. For diverse bacteria and archaea that can utilize a carbon source, there is a complete high-confidence catabolic pathway (including a transporter) just 38% of the time, and there is a complete medium-confidence pathway 63% of the time. Gaps may be due to:

GapMind relies on the predicted proteins in the genome and does not search the six-frame translation. In most cases, you can search the six-frame translation by clicking on links to Curated BLAST for each step definition (in the per-step page).

For more information, see:

If you notice any errors or omissions in the step descriptions, or any questionable results, please let us know

by Morgan Price, Arkin group, Lawrence Berkeley National Laboratory