GapMind for Amino acid biosynthesis

 

chorismate biosynthesis

Analysis of pathway chorismate in 276 genomes

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

Confidence: high confidence medium confidence low confidence
? – known gap: despite the lack of a good candidate for this step, this organism (or a related organism) performs the pathway

This GapMind analysis is from Apr 09 2024. The underlying query database was built on Apr 09 2024.

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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