GapMind for Amino acid biosynthesis

 

L-arginine biosynthesis

Analysis of pathway arg in 276 genomes

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

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 Jul 26 2024. The underlying query database was built on Jul 25 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