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TyrA Subsystem Homepage
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Extended Table of Sources & Properties of TyrA Sequences
Cohesion group & lineagea Click at right of each CG# to view gene neighborhood Source of TyrA sequence: Bacteria Acronymb SEED: fig & peg number gi numberc TyrA specificitiesd & fusionse Core size (aa) 276-Rxxx----R-284f
β                       TyrCG-1       Actinobacillus actinomycetemcomitans Aact fig|714.2.peg.737 NAg AroHINADTyrAc 258 RLELAMVGR
lower-Gammaproteobacteria (4 Orders) Actinobacillus pleuropneumoniae Aple_1 fig|228399.1.peg.927 32034455 * AroHINADTyrAc 257 RLELAMVGR
16S rRNA - congruent Actinobacillus succinogenes Asuc NA 75429313 * AroHINADTyrAc 260 RLELAMIGR
  Blochmannia floridanush Bflo fig|203907.1.peg.169 33519649 * AroHINADTyrAc 260 QLELILIGR
  Citrobacter rodentium Crod NA NA AroHINADTyrAc 256 RLELAMVGR
  Colwellia psychrerythraea Cpsy_4 fig|167879.3.peg.3829 71281624 * AroHINADTyrAc 256 RLELIMVGR
  Erwinia carotovora Ecar fig|218491.3.peg.2590 50122273 * AroHINADTyrAc 257 RLELIMVGR
  Erwinia chrysanthemi Echr NA NA AroHINADTyrAc 257 RLELAMVGR
  Escherichia coli Ecol fig|199310.1.peg.3046 26248963 * AroHINADTyrAc 257 RLELAMVGR
  Haemophilus influenzae Hinf fig|71421.1.peg.1230 16273204 * AroHINADTyrAc 258 RLELAMVGR
  Haemophilus somnus Hsom fig|205914.1.peg.1395 53692322 * AroHINADTyrAc 258 RLELAMVGR
  Idiomarina loihiensis Iloi fig|283942.3.peg.1532 56460822 * AroHINADTyrAc 257 RMELMMIGR
  Klebsiella pneumoniae Kpne fig|573.2.peg.6446 NA AroHINADTyrAc 257 RLELAMVGR
  Mannheimia haemolytica Mhae fig|75985.2.peg.2378 NA AroHINADTyrAc 258 RLELAMVGR
  Mannheimia succiniciproducens Msuc fig|221988.1.peg.1037 52307209 * AroHINADTyrAc 258 RLELAMVGR
  Pantoea agglomerans Pagg NA 267186 AroHINADTyrAc 257 RLELAMVGR
  Pasteurella multocida Pmul fig|272843.1.peg.664 15602529 * AroHINADTyrAc 258 RLELAMVGR
  Photobacterium profundum Ppro_2 fig|298386.1.peg.5258 46914574 * AroHINADTyrAc 257 RLELAMVGR
  Photorhabdus asymbiotica Pasy fig|171440.1.peg.2864 NA AroHINADTyrAc 259 RLELIMVGR
  Photorhabdus luminescens Plum fig|243265.1.peg.1198 37525230 * AroHINADTyrAc 257 RLELIMVGR
  Proteus mirabilis Pmir_1 fig|584.1.peg.249 NA AroHINADTyrAc 260 RLELAMIGR
  Salmonella bongori Sbon fig|12149.1.peg.2668 NA AroHINADTyrAc 257 RLELAMVGR
  Salmonella enterica Sent_2 fig|209261.1.peg.2450 29142993 * AroHINADTyrAc 257 RLELAMVGR
  Salmonella typhimurium Styp_1 fig|99287.1.peg.2578 16765984 * AroHINADTyrAc 257 RLELAMVGR
  Serratia marcescens Smar fig|615.1.peg.3937 NA AroHINADTyrAc 257 RLELAMVGR
  Shewanella amazonensis Sama fig|326297.3.peg.3526 68547562 * AroHINADTyrAc 254 RLELAMVGR
  Shewanella baltica Sbal fig|325240.3.peg.4134 68544265 * AroHINADTyrAc 258 RLELAMVGR
  Shewanella denitrificans Sden_1 fig|318161.3.peg.1131 91794100 * AroHINADTyrAc 258 RLELAMVGR
  Shewanella frigidimarina Sfri fig|318167.3.peg.2662 69952675 * AroHINADTyrAc 258 RLELAMVGR
  Shewanella oneidensis Sone fig|211586.1.peg.1265 24372940 * AroHINADTyrAc 258 RLELAMVGR
  Shigella dysenteriae Sdys fig|216598.1.peg.4845 82777951 * AroHINADTyrAc 257 RLELAMVGR
  Shigella flexneri Sfle fig|198214.1.peg.2489 24113939 * AroHINADTyrAc 257 RLELAMVGR
  Shigella sonnei Sson fig|216599.1.peg.1580 74313184 * AroHINADTyrAc 257 RLELAMVGR
  Vibrio cholerae Vcho fig|243277.1.peg.686 15640715 * AroHINADTyrAc 257 RLELAMVGR
  Vibrio fischeri Vfis fig|312309.3.peg.604 59711161 * AroHINADTyrAc 257 RLELLMVGR
  Vibrio parahaemolyticus Vpar_2 fig|223926.1.peg.547 28897321 * AroHINADTyrAc 257 RLELAMVGR
  Vibrio vulnificus Vvul fig|216895.1.peg.466 27360075 * AroHINADTyrAc 257 RLELAMVGR
  Yersinia enterocolitica Yent fig|630.2.peg.825 NA AroHINADTyrAc 257 RLELAMVGR
  Yersinia pestis Ypes fig|214092.1.peg.3269 16123440 * AroHINADTyrAc 257 RLELAMVGR
  Yersinia pseudotuberculosis Ypse fig|273123.1.peg.967 51595192 * AroHINADTyrAc 257 RLELAMVGR
-------------------------- ----------------------------------- ----------- ----------------------- ---------- -------------------- ----------- -----------
Xenolog Intruders Nostoc sp.i 2NOST_1 fig|103690.1.peg.729 17129763 * jAroHINADTyrAc 260 RQEIEIIKR
Cyanobacteria Nostoc punctiformei 2Npun_1 fig|63737.1.peg.2248 23128268 * jAroHINADTyrAc 260 RQEIDIVKR
α                       TyrCG-2       Azotobacter vinelandii Avin_1 fig|354.1.peg.1510 67158240 * NADTyrAc●AroF 280 RDFT----R
upper-Gamma_1proteobacteria (Pseudomonadaceae Family) Pseudomonas aeruginosa Paer_1 fig|208964.1.peg.3164 15598360 * NADTyrAc●AroF 280 RDFT----R
16S rRNA - congruent Pseudomonas fluorescens Pflu fig|205922.3.peg.3160 77460295 * NADTyrAc●AroF 280 RDFT----R
  Pseudomonas putida Pput fig|160488.1.peg.1756 26988501 * NADTyrAc●AroF 280 RDFT----R
  Pseudomonas stutzeri Pstu NA 29727034 NADTyrAc●AroF 280 RDFT----R
  Pseudomonas syringae pv. syringae Psyr_2 fig|205918.4.peg.4081 66046873 * NADTyrAc●AroFj 280 RDFT----R
  Pseudomonas syringae pv. tomato Psyr_3 fig|223283.1.peg.1711 28868954 * NADTyrAc●AroFj 280 RDFT----R
α                       TyrCG-3       Acinetobacter sp. ACIN fig|62977.3.peg.2127 50085330 * NADPTyrAc●AroF 281 RDFS----R
upper-Gamma_2proteobacteria (Moraxellaceae Family) Psychrobacter cryohalolentis Pcry fig|335284.3.peg.415 93006034 * NADTyrAc●AroF 286 RDFT----R
16S rRNA - congruent Psychrobacter sp. (P. arcticus) PSYC fig|259536.4.peg.787 71038727 * NADTyrAc●AroF 285 RDFT----R
β                       TyrCG-4       Stenotrophomonas maltophilia Smal_2 fig|40324.1.peg.2028 NA NADTyrAc●ACT 268 ELDTAIISR
upper-Gamma_3proteobacteria (Xanthomonadaceae Family) Xanthomonas axonopodis Xaxo fig|190486.1.peg.1502 21242276 * NADTyrAc●ACT 268 ELDTAVIAR
16S rRNA - congruent Xanthomonas campestris Xcam fig|190485.1.peg.1454 21230932 * NADTyrAc●ACT 268 ELDTAVIAR
  Xanthomonas oryzae Xory fig|291331.3.peg.4549 58581657 * NADTyrAc●ACT 268 ELDTAVIAR
  Xylella fastidiosa Xfas fig|160492.1.peg.2324 15838929 * NADTyrAc●ACT 268 ELDTAVIAR
α                       TyrCG-5       Alkalilimnicola ehrlichei Aehr fig|187272.6.peg.896 114320089 * NADPTyrAc 281 RDFT----R
upper-Gamma_4proteobacteria (Chromatiales Order) Halorhodospira halophila Hhal_3 NA 88950354 * NADPTyrAc 283 RDFT----R
16S rRNA - congruent Nitrococcus mobilis Nmob fig|314278.3.peg.2952 88810650 * NADPTyrAc 283 RDFT----R
  Thermochromatium tepidum Ttep NA NA NADPTyrAc 262 PHSL----R
α                       TyrCG-6       Hahella chejuensis Hche fig|349521.5.peg.4370 83647660 * NADTyrAc●AroF 281 RDFT----R
upper-Gamma_5proteobacteria (2 Orders) Marinobacter aquaeolei Maqu NA 77952716 * NADTyrAc●AroF 260 RDFT----R
16S rRNA - congruent Oceanospirillum sp. OCEA NA 89094102 NADTyrAc●AroF 282 RDFT----R
α                       TyrCG-7       Burkholderia cenocepacia Bcen_1 fig|216591.1.peg.4051 NA NAD(P)TyrAc 290 RDTF----R
Beta_1proteobacteria (Burkholderiaceae Family) Burkholderia cepacia Bcep fig|269483.3.peg.5254 46316716 * NAD(P)TyrAc 290 RDTF----R
16S rRNA - congruent Burkholderia mallei Bmal fig|243160.4.peg.907 52428212 * NAD(P)TyrAc●AroF 290 RDTF----R
  Burkholderia pseudomallei Bpse_6 fig|272560.3.peg.4863 53720127 * NAD(P)TyrAc●AroF 290 RDTF----R
  Burkholderia sp. BURK NA 78065629 * NAD(P)TyrAc 290 RDTF----R
  Burkholderia thailandensis Btha NA 83721591 * NAD(P)TyrAc●aroF 290 RDTF----R
  Burkholderia vietnamiensis Bvie fig|60552.1.peg.3874 67546805 * NAD(P)TyrAc 290 RDTF----R
  Burkholderia xenovorans (B. fungorum) Bxen fig|36873.1.peg.4890 91784814 * NAD(P)TyrAc 290 RDTF----R
  Ralstonia eutropha Reut fig|264198.3.peg.3327 73542258 * NAD(P)TyrAc 282 RDTF----R
  Ralstonia metallidurans Rmet fig|119219.1.peg.2049 94309663 * NAD(P)TyrAc 282 RDTF----R
  Ralstonia solanacearum Rsol fig|267608.1.peg.906 17427918 * NAD(P)TyrAc 282 RDTF----R
α                       TyrCG-8       Bordetella avium Bavi fig|521.1.peg.518 NA NAD(P)TyrAc 282 RDTF----R
Beta_2proteobacteria (Alcaligenaceae Family) Bordetella bronchiseptica Bbro fig|257310.1.peg.3450 33602443 * NAD(P)TyrAc 282 RDTF----R
16S rRNA - congruent Bordetella parapertussis Bpar fig|257311.1.peg.2940 33597663 * NAD(P)TyrAc 282 RDTF----R
  Bordetella pertussis Bper_1 fig|257313.1.peg.827 33592104 * NAD(P)TyrAc 282 RDFT----R
α                       TyrCG-9       Neisseria gonorrhoeae Ngon fig|242231.4.peg.1532 59801853 * NADTyrAc 284 RDFT----R
Beta_3proteobacteria (Neisseriaceae Family) Neisseria lactamica Nlac fig|486.1.peg.642 NA NADTyrAc 284 RDFT----R
16S rRNA - congruent Neisseria meningitides Nmen fig|122586.1.peg.422 15676352 * NADTyrAc 284 RDFT----R
α                       TyrCG-10       Acidovorax avenae Aave NA 120611939 NAD(P)TyrAc 283 RDFT----R
Beta_4proteobacteria (Comamonadaceae Family) Acidovorax sp. ACID_2 NA 110592958 NAD(P)TyrAc 283 RDFT----R
16S rRNA - congruent Polaromonas sp. POLA fig|296591.1.peg.2815 91787673 * NAD(P)TyrAc 283 RDFT----R
Rhodoferax ferrireducens Rfer_1 fig|338969.3.peg.3314 89900360 * NAD(P)TyrAc 283 RDFT----R
  Rubrivivax gelantinosus (M. petroleiphilum) Rgel_1 fig|279263.3.peg.1701 47575153 NAD(P)TyrAc 283 RDFT----R
α                       TyrCG-11       Nitrosomonas europaea Neur fig|228410.1.peg.323 30248354 * NADPTyrAa 289 NDMT----R
Beta_5proteobacteria (Nitrosomonadaceae Family) Nitrosomonas eutropha Neut fig|335283.3.peg.1872 114331555 * NADPTyrAa 289 NGMT----R
16S rRNA - congruent Nitrosospira multiformis Nmul_1 NA 82411378 * NADPTyrAa 290 RDST----R
α                       TyrCG-12       Agrobacterium tumefaciens Atum fig|176299.4.peg.3832 15159711 * NADPTyrAc 280 RDFT----R
Alpha_1proteobacteria (Most Orders) Bartonella henselae Bhen fig|283166.1.peg.1442 49476273 * NADPTyrAc 282 RDFT----R
16S rRNA - congruent Bartonella quintana Bqui fig|283165.1.peg.1102 49240294 * NADPTyrAc 282 RDFT----R
  Bradyrhizobium japonicum Bjap_1 fig|224911.1.peg.1396 27376507 * NADPTyrAc 282 RDFT----R
  Brucella abortus Babo fig|262698.3.peg.1913 62290836 * NADPTyrAc 282 RDFT----R
  Brucella melitensis Bmel fig|224914.1.peg.79 17981952 * NADPTyrAc 282 RDFT----R
  Brucella suis Bsui_1 fig|204722.1.peg.1920 23348861 * NADPTyrAc 282 RDFT----R
  Caulobacter crescentus Ccre fig|190650.1.peg.2207 16126463 * NADPTyrAc 285 RDFT----R
  Erythrobacter litoralis Elit fig|314225.3.peg.737 85375111 * NADTyrAc 280 RDFT----R
  Erythrobacter sp. ERYT fig|237727.3.peg.3049 85710209 * NADTyrAc 281 RDFT----R
  Gluconobacter oxydans Goxy fig|290633.1.peg.2186 58040677 * NADPTyrAp 278 RDFT----R
  Loktanella vestfoldensis Lves_1 fig|314232.3.peg.2934 84514473 * NADPTyrAc 282 RDFT----R
  Magnetospirillum magnetotacticum Mmag_1 fig|188.1.peg.9423 23016193 * NADTyrAc 282 RDFT----R
  Mesorhizobium loti Mlot fig|266835.1.peg.2723 13473052 * NADPTyrAc 282 RDFT----R
  Mesorhizobium sp. MESO fig|266779.1.peg.199 110635414 * NADPTyrAc 282 RDFT----R
  Nitrobacter hamburgensis Nham fig|323097.3.peg.298 92116292 * xTyrAc 282 RDFT----R
  Nitrobacter sp. NITR fig|314253.3.peg.167 85713573 * NADPTyrAc 282 RDFT----R
  Nitrobacter winogradskyi Nwin fig|323098.3.peg.226 75674780 * NADPTyrAc 282 RDFT----R
  Novosphingobium aromaticivorans Naro fig|48935.1.peg.1935 87198720 * NADTyrAc 281 RDFT----R
  Oceanicola batsensis Obat fig|252305.3.peg.283 84500113 * NADPTyrAc 282 RDFT----R
  Oceanicola granulosus Ogra_1 NA 89070716 NADPTyrAc 282 RDFT----R
  Parvularcula bermudensis Pber_1 fig|314260.3.peg.961 84702226 * NADTyrAc 282 RDFT----R
  Rhizobium etli Retl NA 86359392 * NADPTyrAc 282 RDFT----R
  Rhizobium leguminosarum Rleg fig|216596.1.peg.4473 NA NADPTyrAc 282 RDFT----R
  Rhodobacter capsulatus Rcap NA NA NADPTyrAc 282 RDFT----R
  Rhodobacter sphaeroides Rsph fig|272943.3.peg.1478 77462837 * NADPTyrAc 282 RDFT----R
  Rhodobacterales (unidentified species) RHOD fig|314271.3.peg.844 84686190 * NADPTyrAc 282 RDFT----R
  Rhodopseudomonas palustris Rpal fig|258594.1.peg.4419 39937500 * NADPTyrAc 282 RDFT----R
  Rhodospirillum rubrum 1Rrub_1 fig|1085.1.peg.904 83594593 * NADTyrAc 282 RDFT----R
  Roseobacter sp. ROSE fig|314262.3.peg.2107 86136450 * NADPTyrAc 282 RDFT----R
  Roseovarius nubinhibens Rnub fig|89187.3.peg.541 83949929 * NADPTyrAc 282 RDFT----R
  Roseovarius sp. ROSE_1 fig|314264.3.peg.2308 85704144 * NADPTyrAc 282 RDFT----R
  Silicibacter pomeroyi 1Spom_1 fig|246200.3.peg.3549 56679745 * NADPTyrAc 282 RDFT----R
  Silicibacter sp. SILI fig|292414.1.peg.467 69301685 * NADPTyrAc 282 RDFT----R
  Sinorhizobium meliloti Smel_2 fig|266834.1.peg.3955 15075685 * NADPTyrAc 282 RDFT----R
  Sphingopyxis alaskensis Sala_2 fig|317655.9.peg.2749 103488365 * NADTyrAc 281 RDFT----R
  Sulfitobacter sp. SULF fig|52598.3.peg.2337 83941368 * NADPTyrAc 282 RDFT----R
  Zymomonas mobilis Zmob fig|264203.3.peg.916 56551316 * NADTyrAc 281 RDAT----R
α                       TyrCG-13       Campylobacter coli Ccol fig|306254.1.peg.1062 57168699 * NADTyrAx 274 KGMS----R
Epsilonproteobacteria Class Campylobacter jejuni Cjej fig|192222.1.peg.119 15791518 * NADTyrAx 274 KGMS----R
16S rRNA - congruent Campylobacter lari Clar fig|306263.1.peg.477 57240749 * NADTyrAx 274 KDMC----R
  Campylobacter upsaliensis Cups fig|306264.1.peg.1263 57505600 * NADTyrAx 274 KGMC----R
  Helicobacter hepaticus Hhep fig|235279.1.peg.993 32262543 * NADTyrAx 281 RSMS----R
Helicobacter mustelae Hmus fig|217.1.peg.608 NA NADTyrAx 274 RDMS----R
  Helicobacter pylori Hpyl fig|85963.1.peg.1290 15612359 * NADTyrAx 274 RDMS----R
  Thiomicrospira denitrificans Tden_2 fig|326298.3.peg.2020 78776858 * NADTyrAx 274 RSMS----R
  Wolinella succinogenes Wsuc fig|273121.1.peg.325 34482497 * NADTyrAx 274 RDMS----R
------------------------- -------------------------------- ----------- ----------------- ------------ ------------ ----------- -----------
Xenolog Intruders Cellulophaga sp. CELL_1 fig|313590.3.peg.343 86131676 * NADTyrAx 279 ASTV----R
Flavobacteria Class Flavobacteriales bacterium Fbac fig|313603.3.peg.816 88713205 * NADTyrAx 278 ESTV----R
Flavobacterium johnsoniae Fjoh NA 90591593 NADTyrAx 279 ESTV----R
Flavobacterium sp. FLAV fig|313593.3.peg.860 NA NADTyrAx 279 ASTV----R
  Polaribacter filamentus Pfil NA NA NADTyrAx 279 ESTV----R
  Polaribacter irgensii Pirg fig|313594.3.peg.497 88801515 NADTyrAx 279 ASTV----R
  Psychroflexus torquis Ptor NA 91216681 NADTyrAx 281 ASTV----R
  Robiginitalea biformata Rbif NA 88806861 * NADTyrAx 279 ESTV----R
  Tenacibaculum sp. TENA fig|313598.3.peg.1203 86134253 * NADTyrAx 279 ESTV----R
α                       TyrCG-14       Desulfuromonas acetoxidans 1Dace_5 fig|891.1.peg.2292 NA NADPTyrAx 282 RDFT----R
Delta_1proteobacteria (Desulfuromonadales Order) Desulfuromonas acetoxidans 2Dace_5 fig|891.1.peg.100 68179840 * NADTyrAx 281 RDFT----R
16S rRNA - congruent Geobacter metallireducens Gmet fig|269799.3.peg.938 78222083 * NADPTyrAx 281 RDFT----R
  Geobacter sp. GEOB NA 110601840 NADPTyrAx 281 RDFT----R
  Geobacter sulfurreducens Gsul fig|243231.1.peg.2590 39997701 * NADTyrAx 281 RDFT----R
  Geobacter uraniumreducens Gura fig|351605.3.peg.1757 88936215 * NADPTyrAx 281 RDFT----R
  Pelobacter carbinolicus Pcar_1 fig|338963.3.peg.816 77919482 * NADPTyrAx 281 RDFT----R
  Pelobacter propionicus Ppro NA 71836770 NADPTyrAx 281 RDFT----R
β                       TyrCG-15                    
Delta_2proteobacteria (Desulfovibrionales Order) Desulfovibrio desulfuricans Ddes fig|207559.3.peg.3693 78358524 * NADTyrAx 255 RRRLDAA-R
16S rRNA - congruent Desulfovibrio vulgaris Dvul fig|882.1.peg.463 46578880 * NADTyrAx 253 RRRLDAA-R
α                       TyrCG-16       Anabaena variabilis Avar fig|240292.3.peg.4775 75910594 * NADPTyrAa 276 RDTS----R
Cyanobacteria Phylum Crocosphaera watsonii Cwat fig|165597.1.peg.2861 67922127 NADPTyrAa 276 RDTS----R
16S rRNA - congruent Gloeobacter violaceus Gvio fig|251221.1.peg.406 37519975 * NADPTyrAa 271 FDTT----R
  Nostoc punctiforme 1Npun_1 fig|63737.1.peg.6205 53686866 * NADPTyrAa 273 RDTS----R
  Nostoc sp. 1NOST_1 fig|103690.1.peg.1451 17130487 * NADPTyrAa 276 RDTS----R
  Prochlorococcus marinus str. MIT 9313 Pmar_10 fig|74547.1.peg.1718 33635575 * xTyrAa 276 ADTT----R
  Prochlorococcus marinus str. CCMP 1375 Pmar_16 fig|167539.1.peg.1716 33241168 * xTyrAa 276 EDTT----R
  Prochlorococcus marinus ssp. pastoris Pmar_17 fig|59919.1.peg.1561 33862121 * xTyrAa 275 ADTT----R
  Synechococcus elongatus Selo fig|1140.3.peg.870 81299471 NADPTyrAa 276 CDTS----R
  Synechococcus sp. pcc7002 SYNE NA NA NADPTyrAa 276 RDTS----R
  Synechococcus sp. WH 8102 SYNE_1 fig|84588.1.peg.2051 33633368 * xTyrAa 276 ADTS----R
  Synechococcus sp. CC9902 SYNE_4 fig|316279.3.peg.1511 78185511 * xTyrAa 276 ADTT----R
  Synechococcus sp. CC9605 SYNE_5 fig|110662.3.peg.1551 78211937 * xTyrAa 276 ADTS----R
  Synechocystis sp. PCC6803 SYNE_3 fig|1148.1.peg.1391 16330562 * NADPTyrAa 276 RDTS----R
  Thermosynechococcus elongatus Telo fig|197221.1.peg.2434 22299978 * NADPTyrAa 276 RDTS----R
  Trichodesmium erythraeum Tery fig|203124.1.peg.1189 71674828 * NADPTyrAa 276 HDTS----R
α                       TyrCG-17       Actinomyces naeslundii Anae NA NA NADTyrAa●ACT 271 RDVT----R
Actinobacteridae Subclass Actinoplanes teichomyceticus Atei NA 45580876 NADTyrAa●ACT 270 RDVT----R
16S rRNA - congruent Amycolatopsis balhimycina Abal NA 46275288 NADTyrAa 268 RDVT----R
  Amycolatopsis orientalis Aori NA 5051821 NADTyrAa●ACT 268 RDTT----R
  Bifidobacterium longum Blon_1 fig|206672.1.peg.1314 23465944 * NAD(P)TyrAa 283 RDMT----R
  Brevibacterium linens Blin fig|321955.3.peg.1676 62424885 NADTyrAa●ACT 273 RDVT----R
  Clavibacter michiganensis Cmic fig|31964.1.peg.6 NA NADTyrAa●ACT 270 RDTT----R
  Corynebacterium diphtheriae Cdip fig|257309.1.peg.226 38232868 * NAD(P)TyrAa 283 RDST----R
  Corynebacterium efficiens Ceff fig|196164.1.peg.195 25026751 * NAD(P)TyrAa 282 RDVT----R
  Corynebacterium glutamicum Cglu_1 fig|196627.4.peg.262 19551477 * NAD(P)TyrAa 286 RDST----R
  Corynebacterium jeikeium Cjei fig|306537.3.peg.792 68537120 * NAD(P)TyrAa 321 RDGT----R
  Janibacter sp. JANI fig|313589.3.peg.1373 84496364 * NADTyrAa●ACT 270 RDVT----R
  Kineococcus radiotolerans Krad fig|266940.1.peg.4186 46365046 * NADTyrAa●ACT 270 RDVT----R
  Leifsonia xyli Lxyl fig|281090.3.peg.1564 50954354 * NADTyrAa●ACT 270 RDVT----R
  Mycobacterium avium Mavi fig|262316.1.peg.277 41406375 * NAD(P)TyrAa 276 RDGT----R
  Mycobacterium bovis Mbov_3 fig|233413.1.peg.3747 31794924 NAD(P)TyrAa 274 RDAT----R
  Mycobacterium leprae Mlep fig|272631.1.peg.1472 15828337 * NAD(P)TyrAa 276 RDAT----R
  Mycobacterium marinum Mmar_4 fig|216594.1.peg.258 NA NAD(P)TyrAa 276 RDAT----R
  Mycobacterium microti Mmic_1 fig|1806.1.peg.3235 NA NAD(P)TyrAa 276 RDAT----R
  Mycobacterium smegmatis Msme fig|246196.1.peg.6289 NA NAD(P)TyrAa 274 RDGT----R
  Mycobacterium sp. MYCO_1 fig|164756.6.peg.4730 92913346 * NAD(P)TyrAa 276 RDGT----R
  Mycobacterium tuberculosis Mtub fig|83331.1.peg.4002 15843374 * NAD(P)TyrAa 276 RDAT----R
  Nocardia farcinica Nfar fig|247156.1.peg.306 54022200 * NAD(P)TyrAa 277 RDVT----R
  Nonomuraea sp. NONO NA 32487233 NADTyrAa●ACT 268 RDVT----R
  Propionibacterium acnes Pacn fig|267747.1.peg.1192 50842688 * NADTyrAa●ACT 276 RDVT----R
  Streptomyces avermitilis Save fig|227882.1.peg.6523 29610185 * NADTyrAa●ACT 272 RDVT----R
  Streptomyces caeruleus Scae_2 NA 7688712 NADTyrAa●ACT 270 SEIP----Q
  Streptomyces coelicolor Scoe_1 fig|100226.1.peg.1728 31340546 * NADTyrAa●ACT 270 RDVT----R
  Streptomyces lavendulae Slav NA 15029332 NADTyrAa●ACT 269 RDAT----R
  Streptomyces roseochomogenes Sros NA 24940594 NADTyrAa●ACT 270 SEIP----Q
  Streptomyces toyocaensis Stoy NA 21911427 NADTyrAa●ACT 270 RDVT----R
  Thermobifida fusca Tfus fig|269800.4.peg.764 72161612 * NADTyrAa●ACT 271 RDMT----R
  Tropheryma whipplei Twhi fig|218496.1.peg.55 28572230 * NADTyrAa●ACT 300 KDMT----R
α                       TyrCG-18       Bacillus anthracis Bant fig|198094.1.peg.2717 30262912 * NADTyrAp●ACT 280 KDIT----R
Bacilli Class Bacillus cereus Bcer fig|226900.1.peg.2798 30021055 * NADTyrAp●ACT 280 KDIT----R
16S rRNA - congruent Bacillus clausii Bcla_1 fig|66692.3.peg.1946 56963667 * NADTyrAp●ACT 279 RDIT----R
  Bacillus halodurans Bhal_2 fig|272558.1.peg.1666 15614229 * NADTyrAp●ACT 280 RDIT----R
  Bacillus licheniformis Blic fig|279010.5.peg.246 52003980 * NADTyrAp●ACT 281 RDIT----R
  Bacillus subtilis Bsub fig|224308.1.peg.2265 16079318 * NADTyrAp●ACT 281 RDIT----R
  Bacillus thuringiensis Bthu fig|281309.1.peg.2659 49479572 * NADTyrAp●ACT 280 RDIT----R
  Enterococcus faecalis Efae fig|226185.1.peg.1467 29376128 * NADTyrAp●ACT 278 RDIT----R
  Enterococcus faecium Efae_1 fig|1352.1.peg.2808 68194610 NADTyrAp●ACT 277 RDIT----R
  Geobacillus kaustophilus Gkau fig|235909.3.peg.1007 56420732 * NADTyrAp●ACT 282 RDIT----R
  Geobacillus stearothermophilus Gste fig|272567.1.peg.1853 NA NADTyrAp●ACT 280 RDIT----R
  Lactobacillus plantarum Lpla fig|220668.1.peg.1693 28271503 * NADTyrAp●ACT 280 KSIT----R
  Lactococcus lactis Llac_1 fig|272623.1.peg.1789 15673727 * NADTyrAp●ACT 273 RDLT----R
  Listeria innocua Linn fig|272626.1.peg.2025 16801104 * NADTyrAp●ACT 281 RDIT----R
  Listeria monocytogenes Lmon fig|169963.1.peg.1915 16803963 * NADTyrAp●ACT 281 RDIT----R
  Oceanobacillus iheyensis Oihe fig|221109.1.peg.1782 23099236 * NADTyrAp●ACT 280 RDIT----R
  Staphylococcus aureus Saur_2 fig|93062.4.peg.1582 49244651 * NADTyrAp●ACT 281 RDIT----R
  Staphylococcus epidermidis Sepi fig|176280.1.peg.1047 27467965 * NADTyrAp●ACT 281 RDIT----R
  Staphylococcus haemolyticus Shae fig|279808.3.peg.2461 70726545 * NADTyrAp●ACT 281 RDIT----R
  Staphylococcus saprophyticus Ssap fig|342451.4.peg.734 73662696 * NADTyrAp●ACT 281 RDIT----R
  Streptococcus gordonii Sgor NA NA NAD(P)TyrAp●ACT 281 RDMT----R
  Streptococcus mitis Smit fig|246201.1.peg.707 NA NAD(P)TyrAp●ACT 282 RDMT----R
  Streptococcus mutans Smut_1 fig|210007.1.peg.708 24379240 * NAD(P)TyrAp●ACT 282 RDMT----R
  Streptococcus pneumoniae Spne fig|171101.1.peg.1230 15903274 * NAD(P)TyrAp●ACT 282 RDMT----R
  Streptococcus sobrinus Ssob NA NA NAD(P)TyrAp●ACT 282 RDMT----R
  Streptococcus suis Ssui fig|1307.2.peg.1363 50591601 NADTyrAp●ACT 282 RDMT----R
  Streptococcus thermophilus Sthe_5 fig|299768.3.peg.345 55738597 * NAD(P)TyrAp●ACT 282 RDMT----R
α                       TyrCG-19       Clostridium acetobutylicum Cace_2 fig|272562.1.peg.1058 15023791 * NADTyrAx 276 RDAT----R
Clostridia_1 (Clostridiales Order) Clostridium difficile Cdif fig|1496.1.peg.2965 115250885 * NADTyrAx 275 RDLT----R
16S rRNA - congruent Ruminococcus albus Ralb NA NA NADTyrAx 273 KDMT----R
α                       TyrCG-20       Carboxydothermus hydrogenoformans Chyd_4 fig|246194.3.peg.918 78043672 * NADTyrAp●ACT 243 RDLT----R
Clostridia_2 (2 Orders) Clostridium thermocellum Cthe_5 fig|203119.1.peg.2939 67874921 * NADTyrAp●ACT 278 KDIT----R
16S rRNA - congruent Thermoanaerobacter tengcongensis Tten fig|273068.3.peg.479 20807494 * NADTyrAx 275 KDTT----R
α                       TyrCG-21                    
Clostridia_3 (2 Orders) Heliobacillus mobilis Hmob NA NA NADTyrAp●ACT 280 RDTT----R
16S rRNA - congruent Moorella thermoacetica Mthe_3 fig|264732.1.peg.2464 83590180 * NADTyrAp●ACT 279 RDTT----R
α                       TyrCG-22       Deinococcus geothermalis Dgeo fig|68909.1.peg.516 66781145 * NADTyrAx●ACT 273 RDLT----R
Deinococci (Class) Deinococcus radiodurans Drad fig|243230.1.peg.1305 6458858 * NADTyrAx●ACT 273 RDLT----R
16S rRNA - congruent Thermus thermophilus Tthe_2 fig|300852.3.peg.856 55980768 * NADTyrAx●ACT 276 RDLT----R
-------------------------- ------------------------------------- ----------- ---------------------- ---------- ------------------- ----------- -----------
Xenolog Intruder            
Actinobacteria Rubrobacter xylanophilus Rxyl fig|266117.1.peg.2540 45546179 * NADTyrAx●ACT 266 RDLT----R
β                       TyrCG-23       Bacteroides fragilis Bfra fig|295405.3.peg.3998 53715229 * NADTyrAx 256 KKHMAIA-K
Bacteroidetes Class Bacteroides thetaiotaomicron Bthe_9 fig|226186.1.peg.3931 29341249 * NADTyrAx 256 KKHMAIA-K
16S rRNA - congruent Prevotella ruminicola Prum NA NA NADTyrAx 263 KRHMRIA-K
  Tannerella forsythensis Tfor_2 NA NA NADTyrAx 259 RRHMKIA-K
α                       TyrCG-24       Chlorobium chlorochromatii (uncultured Chlorobi) Cchl fig|156405.1.peg.554 78170201 * NADTyrAx 276 ATLT----R
Chlorobia Class Chlorobium ferrooxidans Cfer_8 NA 110597282 NADTyrAx 277 ATLA----R
16S rRNA - congruent Chlorobium limicola Clim NA 67918022 NADTyrAx 281 ATLA----R
  Chlorobium phaeobacteroides Cpha_1 NA 67936884 NADTyrAx 281 ATLA----R
  Chlorobium tepidum Ctep fig|194439.1.peg.84 21672925 * NADTyrAx 276 ASMA----R
  Chlorochromiumaggregatum sp. CHLO_4 fig|888888.1.peg.969 NA NADTyrAx 278 ATLT----R
  Pelodictyon luteolum Plut fig|319225.3.peg.2029 78167793 * NADTyrAx 277 ASLT----R
  Pelodictyon phaeoclathratiforme Ppha NA 68549324 NADTyrAx 273 ATLA----R
  Prosthecochloris aestuarii Paes NA 68552198 NADTyrAx 281 ATLT----R
  Prosthecochloris vibrioformis Pvib_1 NA 71481353 NADTyrAx 281 LSMA----R
-------------------------- ------------------------------------- ----------- ---------------------- ------------ ------------------- ----------- -----------
Xenolog Intruders Acidobacterium capsulatum Acap NA NA NADTyrAx 282 REMT----R
Acidobacteria Solibacter usitatus Susi fig|234267.9.peg.7488 67928654 xTyrAx 276 EDMT----R
α                       TyrCG-25                    
Unresolved phylogenetic mixture              
Dictyoglomi Dictyoglomus thermophilum Dthe_6 NA NA NADTyrAx 279 KDTT----R
Thermotogae Petrotoga miotherma Pmio NA NA NADTyrAx 276 KDTT----R
β                       TyrCG-26                    
Unresolved phylogenetic mixture        
Bacteroidetes Cytophaga hutchinsonii Chut fig|985.1.peg.1111 48855133 * NADTyrAx 243 LDIK----R
upper-Gammaproteobacteria Coxiella burnetii Cbur fig|227377.1.peg.935 29654299 * NADTyrAx 251 VMAQTCNDK
Alphaproteobacteria Jannaschia sp. JANN NA 89056034 * NADTyrAx 243 RMTT----R
α                       TyrCG-27                    
Unresolved phylogenetic mixture              
Deltaproteobacteria Anaeromyxobacter dehalogenans Adeh NA 86156612 * NADTyrAx 274 KDAT----R
Planctomycetaceae Rhodopirellula baltica (Pirellula sp.) Rbal fig|243090.1.peg.3009 32473675 NADPTyrAx 272 LDTT----R
Verrucomicrobia Verrucomicrobium spinosum Vspi NA NA NADPTyrAx 281 RDTT----R
α                       TyrCG-28                    
Unresolved phylogenetic mixture              
Fibrobacteres Fibrobacter succinogenes Fsuc NA NA NADPTyrAx 288 RDMT----R
Spirochaetes Leptospira interrogans Lint_1 fig|267671.1.peg.2379 45658293 * NADPTyrAx 287 RDMT----R
β                       TyrCG-29                    
Chloroflexi (Dehalococcoidetes Class) Dehalococcoides ethenogenes Deth fig|243164.3.peg.722 57234714 * NAD(P)TyrAx 279 RLLDTLT-K
16S rRNA - congruent Dehalococcoides sp. DEHA fig|255470.3.peg.868 73748302 * NAD(P)TyrAx 269 RLLDTLT-K
β                       TyrCG-30       Maricaulis maris Mmar NA 110609330 * NADTyrAx 235 TRSYDLL-K
Alpha_2proteobacteria (2 Orders) Rhodospirillum rubrum 2Rrub_1 fig|1085.1.peg.3401 83592308 * NADTyrAx 282 RDSEALF-R
16S rRNA – congruent Silicibacter pomeroyi 2Spom_1 fig|246200.3.peg.1790 56678001 * NADTyrAx 242 TASFDLL-K
-------------------------- ------------------------------------- ---------- --------------------- ---------- ------------------- ---------- ----------
Xenolog Intruder              
Deltaproteobacteria Myxococcus xanthus Mxan NA 108759735 * NADTyrAx●AroH 262 PPSFQPVAR
α                       TyrCG-31                    
Planctomyceteceae Family Blastopirellula marina Bmar_4 fig|314230.3.peg.3748 87311378 NADPTyrAx 275 ADTT----R
16S rRNA - congruent Gemmata obscuriglobus Gobs NA NA NADTyrAx 276 RDVT----R
TyrCG Orphans              
α upper-Gammaproteobacteria Acidithiobacillus ferrooxidans Afer_4 NA NA NADTyrAc 278 RDFS----R
αi Aquificae Aquifex aeolicus Aaeo fig|224324.1.peg.1217 15606822 * NADTyrAc 279 KDFT----R
α Betaproteobacteria Azoarcus sp. AZOA fig|76114.4.peg.1423 56475924 * NAD(P)TyrAc 279 RDFT----R
α Betaproteobacteria    Chromobacterium violaceum Cvio fig|243365.1.peg.3407 34498862 * NAD(P)TyrAc 279 RDFT----R
α Betaproteobacteria    Dechloromonas aromatica Daro fig|159087.4.peg.933 71906873 * NAD(P)TyrAc 281 RDFT----R
α Clostridia    Desulfitobacterium hafniense Dhaf fig|49338.1.peg.2227 89334457 * NADTyrAx 273 REIT----R
α unclassified proteobacteria    Magnetococcus sp. MAGN_1 fig|156889.1.peg.1669 NA NADTyrAx 260 RDFT----R
α Betaproteobacteria    Methylobacillus flagellatus Mfla_5 fig|265072.1.peg.206 91775427 * NAD(P)TyrAc 280 RDFT----R
α upper-Gammaproteobacteria    Methylococcus capsulatus Mcap_1 fig|243233.4.peg.782 53804254 * NADTyrAc 284 RDFT----R
α upper-Gammaproteobacteria    Microbulbifer degradans (Saccharophagus d.) Mdeg fig|203122.1.peg.1111 90021791 * NADPTyrAc●AroF 283 RDFT----R
α upper-Gammaproteobacteria    Nitrosococcus oceani Noce_1 fig|323261.3.peg.7 77163714 * NADTyrAc 281 RDFS----R
α Alphaproteobacteria    Pelagibacter ubiqueh Pubi fig|335992.3.peg.1115 71082920 * NADTyrAc 281 RDFS----R
α Firmicutes    Symbiobacterium thermophilum Sthe fig|292459.1.peg.1361 51856245 * NAD(P)TyrAa 309 RDAT----R
β Deltaproteobacteria    Syntrophobacter fumaroxidans Sfum_1 fig|335543.6.peg.3883 71548230 NADTyrAx 254 RVELSQVGR
α Clostridia Syntrophomonas wolfei Swol_1 NA 114566874 * NADTyrAp 274 RDTT----R
β Thermodesulfobacteria Thermodesulfobacterium commune Tcom NA NA NADTyrAx 251 KQLEILQ-R
α Thermotogae    Thermotoga maritima Tmar fig|243274.1.peg.339 15643112 * NADTyrAx 252 LSNT----R
α Betaproteobacteria    Thiobacillus denitrificans Tden fig|292415.3.peg.543 74316971 * NAD(P)TyrAc 278 RDFT----R
Cohesion group & lineagea Source of TyrA sequence: Archaea Acronymb SEED: fig & peg number gi numberc TyrA specificitiesd & fusionse Core size (aa) 276-Rxxx----R-284f
β                       TyrCG-80       Methanococcoides burtonii Mbur fig|259564.1.peg.2246 91773934 * NAD(P)TyrAx●REG 269 EIMVDFVGR
Euryarchaea Phylum Methanococcus maripaludis Mmar_5 fig|267377.1.peg.1514 45359077 * NADTyrAx●REG 272 ELMINIIAR
16S rRNA - congruent Methanocoldococcus jannaschii Mjan fig|243232.1.peg.633 15668793 * NADTyrAx●REG 273 ELMISIIGR
  Methanopyrus kandleri Mkan_1 fig|190192.1.peg.795 20094235 * NAD(P)TyrAx●REG 270 RLLMDVVGR
  Methanosarcina acetivorans Mace fig|188937.1.peg.4480 20093379 * NAD(P)TyrAx●REG 269 SIMLDFVGR
  Methanosarcina barkeri Mbar fig|269797.3.peg.484 73668462 * NAD(P)TyrAx●REG 269 AIMLDFVGR
  Methanosarcina mazei Mmaz fig|192952.1.peg.1275 21227377 * NAD(P)TyrAx●REG 269 SIMLDFVGR
  Methanothermobacter thermautotrophicus Mthe_7 fig|187420.1.peg.1607 2622768 * NADTyrAx●REG 269 NLMIDTIAR
β                       TyrCG-81       Haloarcula marismortui Hmar_2 fig|272569.1.peg.498 55377389 * NADTyrAx 243 AGLFDLVEQ
Euryarchaea (Halobacteria Class) Halobacterium sp. HALO_6 fig|64091.1.peg.1136 15790293 * NADTyrAx 244 RLAD----R
16S rRNA - congruent Haloferax volcanii Hvol_1 NA NA NADTyrAx 251 AALDELVAS
  Natronomonas pharaonis Npha_1 fig|348780.3.peg.1741 76558182 * NADTyrAx 242 EPLEALVDD
β                       TyrCG-82       Ferroplasma acidarmanus Faci_1 fig|97393.1.peg.324 68141176 * NADTyrAx 210 KFLEIEKIK
Euryarchaea (Thermoplasmata Class) Picrophilus torridus Ptor_1 fig|263820.1.peg.836 48477908 * NADTyrAx 210 KLLEVSEIK
16S rRNA - congruent Thermoplasma acidophilum Taci_3 fig|273075.1.peg.248 16082503 * NADTyrAx 194 HTRSFDMAR
  Thermoplasma volcanium Tvol_2 fig|273116.1.peg.1350 13542181 * NADTyrAx 195 RTKSFDTFK
β                       TyrCG-83                    
Euryarchaea (Methanomicobia Class) Methanoculleus marisnigri Mmar_6 NA 110604808 xTyrAx 271 RIEMGIAGR
16S rRNA - congruent Methanospirillum hungatei Mhun fig|323259.5.peg.1087 88602324 * xTyrAx 255 RIETGIAGR
β                       TyrCG-84       Sulfolobus acidocaldarius Saci_4 fig|330779.3.peg.447 70606024 * AroHINADTyrAx 249 REISKILDR
Crenarchaeota (Sulfolobales Order) Sulfolobus solfataricus Ssol fig|273057.1.peg.273 15897245 * AroHINADTyrAx 253 RELNKIIER
16S rRNA - congruent Sulfolobus tokodaii Stok fig|273063.1.peg.2438 15922601 * AroHINAD(P)TyrAx 248 RELNKILKR
β                       TyrCG-85                    
Unresolved phylogenetic mixture              
Crenarchaeota Aeropyrum pernix Aper_1 fig|272557.1.peg.437 118431108 * NADTyrAx 265 SPLPSTTYR
Crenarchaeota Pyrobaculum aerophilum Paer_2 fig|178306.1.peg.1339 18312982 * NADTyrAx 244 KY-GGTSFK
Euryarchaea Pyrococcus furiosus Pfur fig|186497.1.peg.1751 18978075 * xTyrAx 255 RF-LTIYGK
Euryarchaea Thermococcus kodakaraensis Tkod fig|69014.3.peg.6 57158518 * NADTyrAx 255 AF-LETYGK
β                       TyrCG-86                    
Unresolved phylogenetic mixture              
Euryarchaea Archaeoglobus fulgidus Aful_1 fig|224325.1.peg.224 11497843 * NADTyrAx●AroH●PheAIp●ACT 242 KLAS----R
Nanoarchaeota Nanoarchaeum equitans Nequ fig|228908.1.peg.192 41614988 * NADPTyrAx●AroH●PheAIp●ACT 255 RLSE----R
Cohesion group & lineagea Source of TyrA sequence: Eukaryota Acronymb SEED: fig & peg number gi numberc TyrA specificitiesd & fusionse Core size (aa) 276-Rxxx----R-284f
β                       TyrCG-95       Arabidopsis thaliana 1Atha fig|3702.1.peg.1877 15218283 * NADPTyrAa 273 ETLLDLVEN
Viridiplantae Kingdom Arabidopsis thaliana 2Athak fig|3702.1.peg.25198 15242898 * NADPTyrAaNADPTyrAa 312, 275 ETLLD/RLVEN
  Lotus corniculatus 1Lcor_3 NA NA NADPTyrAa 273 ESLLNLVEN
  Lotus corniculatus 2Lcor_3 NA NA NADPTyrAa 273 ETLLSLVEN
  Lycopersicon esculentum Lesc NA NA NADPTyrAa 261 ESLLNLMEN
  Medicago truncatula Mtrul NA 92884247 NADPTyrAaNADPTyrAa 273, 274 ES/TLLN/SLVEN
  Oryza sativa 1Osat NA 53792620 * NADPTyrAa 273 ETLLRLVDN
  Oryza sativa 2Osat NA 53792618 * NADPTyrAa 276 ETLLRLVDN
β                       TyrCG-98       Ashbya gossypii Agos NA 44986169 * NADTyrAx 277 KMNISL--R
Fungi Kingdom Aspergillus fumigatus Afum NA 71001394 * NADTyrAx 274 KINITL--R
  Aspergillus oryzae Aory NA 83774947 * NADTyrAx 274 KINITL--R
  Candida albicans Calb_2 NA 68466097 * NADTyrAx 274 KINISL--R
  Candida dubliniensis Cdub NA NA NADTyrAx 274 KINISL--R
  Candida glabrata Cgla NA 49528922 * NADTyrAx 279 KVNISL--R
  Coccidioides immitis Cimm NA 90303694 NADTyrAx 276 KINITL--R
  Cryptococcus neoformans Cneo_2 NA 57229998 NADTyrAx 270 KVNITL--R
  Debaryomyces hansenii Dhan NA 49658011 NADTyrAx 274 KMNISL--R
  Kluyveromyces lactis Klac NA 49644201 NADTyrAx 277 KVNISL--R
  Saccharomyces cerevisiae Scer fig|4932.3.peg.431 6319643 * NADTyrAx 277 KVNISL--R
  Schizosaccharomyces pombe Spom fig|4896.1.peg.867 3184059 * NADTyrAx 274 KMNLSM--R
  Ustilago maydis Umay NA 71020197 * NADTyrAx 275 KINICL--R
  Yarrowia lipolytica Ylip NA 50556274 * NADTyrAx 275 KMNISL--R
α designates cohesion groups that belong to the TyrAα sub-homology group as shown in the Tyr CG tree. TyrA CG tree    
β designates cohesion groups that belong to the TyrAβ sub-homology group as shown in the TyrA CG tree. TyrA CG tree
aAn attempt is made to describe each cohesion group at the hierarchical level at which all organisms having the sequence occupy the same taxon. NCBI's taxonomy page is used as a resource for this. Typically, cohesion groups gather at about the level of Class, but wide deviations occur in either direction (see text). In our treatment, Gammaproteobacteria are clearly divided into two groups, with lower-Gammaproteobacteria and upper-Gammaproteobacteria being the equivalent of "Superorder" taxon designations. Thus, for example, the Betaproteobacteria (a formal class) partition into five cohesion groups which do not correspond to formal taxon subdivisions. The organism names and gi numbers are hyper-linked to the Taxonomy Browser at NCBI, the fig/peg numbers are hyperlinked to Protein Pages at the SEED.
bOrganism acronyms consist of four letters: the first letter of the genus name followed by the first three letters of the Species name. If underscore-number designations follow the acronym proper, these are used to distinguish potential ambiguities, multiple TyrA species in a single organism are distinguished by numbers preceding the acronym. (as implemented at AroPath).
cGene identification number. A red asterisk indicates that sequencing of the genome is essentially complete.
dSpecificities that have been experimentally demonstrated or which are considered certain for other reasons are shown in black. Specificities which can be predicted with a fair degree of confidence are shown in grey. Subscripts appended to the right of TyrA (TyrAa, TyrAp, TyrAc, and TyrAx) denote specificities for the cyclohexadiencyl substrate (arogenate, prephenate, both substrates, and substrate unknown), respectively.
eFusions are denoted by the convention of a bullet between the named domains.
fMotif numbering is based on the master alignment of the 58 cohesion-group representatives, where the motif RxxxR is shown as Rxxx----R to accommodate comparison of sequences that have an insertion in this region.
gNA, fig number (at SEED) or gi number is not available.
hIn some databases "Candidatus" (refers to an organism that cannot be maintained in a culture collection) precedes the genus/species designation.
iSee TyrCG-1 for additional TyrA xenologs present in these two organisms.
jGreen lettering indicates that the domain indicated is a pseudogene.
kArabidopsis thaliana has two tyrA genes, one of them being a fusion of two non-identical but similar domains. All three domains were included in the initial alignment
lMedicato truncatula possesses a tyrA gene that consists of fused non-identical, but similar, domains. Both domains were included in the initial alignment.