Table S1. Organisms from superkingdoms Eukarya (E), Bacteria (B) and Archaea (A) that were analyzed with corresponding name abbreviations (Abbr.), inclusion in set described in Figure S1 (SF1), and number of sequences retrieved for analysis.

Organisms(Eukarya 219, Bacteria 478, Archaea 52) Abbr. Domain SF1 Sequences

Sequences with no structure

Homo sapiens 49_36k hs E + 30713 15878Pan troglodytes 49_21h xp E   21712 11425Gorilla gorilla 52_1 gx E + 11200 5582Pongo pygmaeus 49_1 of E + 15446 7963Macaca mulatta 49_10h ru E   24287 12097Otolemur garnettii 49_1c ob E   10460 4988Microcebus murinus 49_1 io E   11069 5250Tarsius syrichta 51_1 ih E   9217 4344Rattus norvegicus 49_34s rn E + 23024 9924Mus musculus 49_37b mm E   26914 12753Spermophilus tridecemlineatus 49_1e gb E   9939 4891Dipodomys ordii 51_1 in E + 10933 4817Cavia porcellus 51_3 gu E   14096 5678Oryctolagus cuniculus 49_1f ok E   10396 5042Ochotona princeps 49_1 oq E   10876 4967Tupaia belangeri 49_1d tz E   10471 4991Bos taurus 49_3f bv E   18673 9021Vicugna pacos 51_1 vu E   7953 3752Tursiops truncatus 51_1 ut E   11462 5031Canis familiaris 49_2g dg E   18338 7220Felis catus 49_1c fe E   9979 4864Equus caballus 49_2 eq E   15957 6791Myotis lucifugus 49_1e lu E   11080 5152Pteropus vampyrus 51_1 vr E   11842 5089Sorex araneus 49_1c xr E   9122 4070Erinaceus europaeus 49_1c ek E   9973 4619Procavia capensis 51_1 vn E   10997 5006Loxodonta africana 49_1d lk E   10678 5039Echinops telfairi 49_1e ee E   11076 5486Dasypus novemcinctus 49_1f d5 E + 10368 5171Monodelphis domestica 49_5d op E   24682 7875Ornithorhynchus anatinus 49_1f oh E   18455 8381Gallus gallus 49_2g gg E   14376 7819Xenopus laevis xl E + 23167 7873Xenopus tropicalis 49_41i xn E   19964 7747Danio rerio 49_7c da E   23072 8671Gasterosteus aculeatus 49_1f gc E + 19521 8056Oryzias latipes 49_1e ol E   17226 7435Tetraodon nigroviridis 49_1k tn E   16043 11948Takifugu rubripes 49_4i to E + 38145 9696Branchiostoma floridae 1.0 bf E   33445 17372Ciona savignyi 49_2f c0 E + 12650 7493Ciona intestinalis 49_2i is E   11913 7945Strongylocentrotus purpuratus tu E + 27118 15302

Helobdella robusta hx E   11381 12051Capitella sp. I i1 E   17170 15245Bombyx mori om E   8802 12500Nasonia vitripennis nz E   6664 2590Apis mellifera 37.2d ai E   15858 11897Drosophila grimshawi 1.3 gd E   8205 6781Drosophila willistoni 1.3 gw E   8120 7393Drosophila pseudoobscura 2.3 do E   8260 7811Drosophila persimilis 1.3 dq E   8389 8489Drosophila yakuba 1.3 dy E   8196 7886Drosophila simulans 1.3 dw E   7657 7758Drosophila sechellia 1.3 dz E   8512 7959Drosophila melanogaster Ensembl 49_54 dd E + 12692 8123Drosophila erecta 1.3 ge E   7987 7061Drosophila ananassae 1.3 dk E + 8077 6993Drosophila virilis 1.2 du E   7898 6593Drosophila mojavensis 1.3 dx E + 7746 6849Aedes aegypti 49_1b ax E   10220 6569Culex pipiens quinquefasciatus ie E   10769 8114Anopheles gambiae 49_3j ag E   8072 5061Tribolium castaneum 3.0 tj E + 8490 7932Acyrthosiphon pisum qp E   7061 3405Daphnia pulex d7 E   11750 19190Lottia gigantea gy E   12223 11628Pristionchus pacificus wp E   10791 18853Meloidogyne hapla wm E   5928 8493Brugia malayi r0 E + 3643 4208Caenorhabditis japonica wj E   8865 10640Caenorhabditis brenneri wn E   8090 18150Caenorhabditis remanei wr E + 12755 18886Caenorhabditis elegans Ensembl 49_180a cl E   14297 12605Caenorhabditis briggsae 2 cw E   9625 12352Nematostella vectensis 1.0 nw E   15306 11967Hydra magnipapillata qm E   10132 7266Trichoplax adhaerens rq E   7663 3857Monosiga brevicollis ov E   5777 3419Malassezia globosa CBS 7966 gz E   2752 1534Ustilago maydis um E   3829 2693Puccinia graminis f. sp. tritici CRL 75-36-700-3 p4 E + 5100 15466Melampsora laricis-populina ql E   4893 11801Sporobolomyces roseus IAM 13481 yu E   3411 2125Coprinopsis cinerea okayama7 130 or E   6143 7401Laccaria bicolor S238N-H82 lo E + 7148 13466Schizophyllum commune zc E   6267 6914Heterobasidion annosum qa E + 5306 6964Phanerochaete chrysosporium RP-78 2.1 fc E   5688 4360Postia placenta ia E   8835 8338Cryptococcus neoformans JEC21 cf E   3601 2281Schizosaccharomyces octosporus yFS286 o9 E   3136 1789

Schizosaccharomyces japonicus yFS275 hj E + 3059 1755Schizosaccharomyces pombe po E   3225 1796Magnaporthe grisea 70-15 gr E   5871 5172Podospora anserina nq E   5772 4842Chaetomium globosum CBS 148.51 hg E   5692 5432Neurospora tetrasperma n4 E   4724 5916Neurospora discreta FGSC 8579 n3 E   4631 5317Neurospora crassa OR74A ns E   4745 5080Cryphonectria parasitica yh E   6191 4993Fusarium oxysporum f. sp. lycopersici 4286 fo E + 9210 8398Nectria haematococca mpVI nx E + 9236 6471Fusarium verticillioides 7600 fv E   7599 6576Fusarium graminearum fg E + 6894 6427Trichoderma atroviride wt E   6519 4581Trichoderma reesei 1.2 re E + 5432 3697Trichoderma virens Gv29-8 nj E   6981 4662Verticillium dahliae VdLs.17 vd E   5850 4685Verticillium albo-atrum VaMs.102 ve E + 5552 4668Botrytis cinerea B05.10 b7 E   5958 10490Sclerotinia sclerotiorum lz E   5564 8958Ajellomyces dermatitidis SLH14081 j2 E   4568 4987Histoplasma capsulatum class NAmI strain WU24 hk E   4238 5010Microsporum gypseum gp E + 4713 4163Microsporum canis CBS 113480 qc E   4850 3915Trichophyton equinum CBS 127.97 o7 E   4450 4110Paracoccidioides brasiliensis Pb18 iv E   4084 4657Coccidioides posadasii RMSCC 3488 i6 E   4530 5367Coccidioides immitis RS im E   4542 5810Uncinocarpus reesii 1704 ur E   4291 3507Neosartorya fischeri NRRL 181 nh E   6296 4111Aspergillus terreus NIH2624 gi E   6411 3995Aspergillus fumigatus Af293 ao E   5874 4013Aspergillus oryzae RIB40 a8 E   7194 4869Aspergillus niger ATCC 1015 a5 E   5208 3384Aspergillus flavus NRRL3357 gq E + 7388 5199Aspergillus clavatus NRRL 1 a7 E   5505 3615Aspergillus nidulans FGSC A4 an E   6335 4330Alternaria brassicicola l3 E   5336 5352Pyrenophora tritici-repentis t4 E   5903 6266Cochliobolus heterostrophus wc E   5904 3729Stagonospora nodorum nd E   6930 9667Mycosphaerella fijiensis CIRAD86 ym E + 5585 4728Mycosphaerella graminicola IPO323 yo E   5774 5621Candida tropicalis MYA-3404 t3 E + 3650 2608Candida parapsilosis ik E + 3483 2250Candida albicans SC5314 al E + 3635 2530Yarrowia lipolytica CLIB122 yl E   3853 2595Candida lusitaniae ATCC 42720 iu E   3316 2625Vanderwaltozyma polyspora DSM 70294 vw E   3191 2154

Candida glabrata CBS138 gl E   3155 2047Kluyveromyces thermotolerans CBS 6340 yv E   3163 1929Lachancea kluyveri y4 E   3272 2049Kluyveromyces waltii kw E   3106 2108Lodderomyces elongisporus NRRL YB-4239 ly E + 3356 2443Ashbya gossypii ATCC 10895 go E + 2908 1809Debaromyces hansenii dh E   3682 2590Zygosaccharomyces rouxii yz E + 3084 1907Saccharomyces mikatae MIT y6 E + 3602 6713Saccharomyces paradoxus MIT y8 E + 3489 7070Saccharomyces cerevisiae SGD sc E + 3523 3194Saccharomyces cerevisiae Ensembl 49_1h xs E   3517 3181Saccharomyces bayanus MIT y1 E   3573 8423Candida guilliermondii ATCC 6260 ng E + 5692 5432Pichia stipitis CBS 6054 ip E   3609 2230Kluyveromyces lactis kl E   3096 1980Rhizopus oryzae RA 99-880 ry E + 7845 9622Phycomyces blakesleeanus hn E   6497 8295Mucor circinelloides ul E   6567 4363Encephalitozoon cuniculi eu E   1059 937Batrachochytrium dendrobatidis JEL423 b8 E   4302 4491Dictyostelium discoideum dt E   6643 6816Dictyostelium purpureum yd E   6623 5787Entamoeba histolytica 1 en E + 5009 4763Vitis vinifera vt E   17268 13166Arabidopsis lyrata l4 E + 17472 15198Arabidopsis thaliana 8 at E + 19612 13213Carica papaya r6 E + 12095 16494Medicago truncatula mw E   16819 27485Populus trichocarpa 1.1 pt E   25547 20008Oryza sativa ssp. japonica 5.0 os E + 31684 35026Sorghum bicolor oj E   18423 16073Selaginella moellendorffii gj E   20302 14395Physcomitrella patens subsp. patens pw E   13310 22628Chlorella sp. NC64A h2 E   6153 3638Chlorella vulgaris vg E   5560 4434Volvox carteri f. nagariensis vo E   6986 8558Chlamydomonas reinhardtii 3.1 cy E   7132 7466Ostreococcus sp. RCC809 o8 E + 4511 3262Ostreococcus lucimarinus CCE9901 oz E   4608 3043Ostreococcus tauri ou E   4295 3430Micromonas sp. RCC299 ij E   5638 4177Micromonas pusilla CCMP1545 iq E   5601 4874Cyanidioschyzon merolae ya E   3152 1862Giardia lamblia gf E   2426 2463Trypanosoma cruzi strain CL Brener uz E   8565 11042Trypanosoma brucei tb E   3931 4827Leishmania major strain Friedlin em E + 4132 4170Leishmania infantum JPCM5 lh E   4058 4115Leishmania braziliensis ib E   3993 4085

MHOM/BR/75/M2904 Aureococcus anophagefferens a6 E   7871 3630Phytophthora ramorum 1.1 ra E   8800 6943Phytophthora sojae 1.1 sj E   9867 9160Phytophthora infestans T30-4 iy E   9664 12994Phytophthora capsici yy E   8932 8482Phaeodactylum tricornutum hr E   5800 4602Thalassiosira pseudonana tl E   6238 5538Paramecium tetraurelia ir E   17934 21638Tetrahymena thermophila SB210 1 hy E + 11268 13457bovis T2Bo o0 E + 1801 1905Theileria parva pv E   1813 2266Theileria annulata nu E   1796 1999Plasmodium falciparum 3D7 pl E   2468 2992Plasmodium vivax SaI-1 vx E   2373 3059Plasmodium knowlesi strain H fw E   2351 2834Plasmodium yoelii ssp. yoelii 1 py E   2452 5409Plasmodium chabaudi fy E   3287 11720Plasmodium berghei ANKA fb E + 2917 9318Cryptosporidium hominis rm E   1699 2235Cryptosporidium muris uc E   2025 1909Cryptosporidium parvum Iowa II cv E   1899 1906Neospora caninum un E   2981 2606Toxoplasma gondii ME49 ue E   3422 4571Naegleria gruberi eb E   8619 7134Trichomonas vaginalis tx E   24902 72981Guillardia theta gt E   355 243Emiliania huxleyi CCMP1516 ex E   19074 20051Candidatus Phytoplasma mali 9y B   313 166Aster yellows witches-broom phytoplasma AYWB ay B   371 300Onion yellows phytoplasma OY-M oy B   465 289Acholeplasma laidlawii PG-8A 8b B + 904 476Mesoplasma florum L1 mf B   471 211Ureaplasma parvum ser. 3 ATCC 700970 uu B   377 237Ureaplasma urealyticum ser. 10 ATCC 33699 kf B + 381 265Mycoplasma penetrans HF-2 me B   575 462Mycoplasma mobile 163K m0 B   422 211Mycoplasma arthritidis 158L3-1 9w B   368 263Mycoplasma agalactiae PG2 45 B   446 296Mycoplasma synoviae 53 yc B   412 247Mycoplasma pulmonis UAB CTIP mq B   468 314Mycoplasma pneumoniae M129 mp B   436 253Mycoplasma mycoides ssp. mycoides SC PG1 mi B   600 416Mycoplasma hyopneumoniae 232 x9 B   405 286Mycoplasma genitalium G37 mg B + 354 123Mycoplasma gallisepticum R my B   441 285Mycoplasma capricolum ssp. capricolum ATCC 27343 yi B   493 319

Leptospira borgpetersenii ser. Hardjo-bovis L550 0k B   1804 1141Leptospira interrogans ser. Lai 56601 lr B   2088 2639Leptospira biflexa ser. Patoc Patoc 1 (Paris) 83 B   2230 1437Treponema pallidum ssp. pallidum Nichols tp B   615 421Treponema denticola ATCC 35405 td B   1478 1289Borrelia garinii PBi ga B   543 289Borrelia afzelii PKo 04 B   547 308Borrelia burgdorferi B31 bb B   544 307Updated Borrelia recurrentis A1 g7 B   546 254Updated Borrelia duttonii Ly f7 B + 560 260Borrelia turicatae 91E135 9c B   557 261Updated Borrelia hermsii DAH 9u B   560 259Rhodopirellula baltica SH 1 pi B   3219 4106Bifidobacterium longum NCC2705 bl B   1185 542Updated Bifidobacterium animalis ssp. lactis AD011 g5 B   1047 481Bifidobacterium adolescentis ATCC 15703 5g B   1108 523Kineococcus radiotolerans SRS30216 58 B   2945 1535Acidothermus cellulolyticus 11B 3q B   1550 607Frankia sp. CcI3 fk B   2831 1668Frankia alni ACN14a 1b B   4089 2622Thermobifida fusca YX tf B   2070 1040Streptomyces griseus ssp. griseus NBRC 13350 7n B   4689 2447Streptomyces avermitilis MA-4680 s9 B   4942 2638Streptomyces coelicolor A3(2) sf B   5098 2671Saccharopolyspora erythraea NRRL 2338 18 B   4800 2397Nocardioides sp. JS614 0j B   3176 1469Propionibacterium acnes KPA171202 ac B   1520 777Salinispora arenicola CNS-205 61 B   3249 1668Salinispora tropica CNB-440 1h B   3074 1462Rhodococcus jostii RHA1 3r B   4927 2284Nocardia farcinica IFM 10152 nf B   3656 2027Mycobacterium sp. MCS yb B + 3752 1639Mycobacterium avium ssp. paratuberculosis K-10 av B   3067 1283Mycobacterium vanbaalenii PYR-1 28 B   4022 1957Mycobacterium tuberculosis H37Rv mb B   2705 1284Mycobacterium bovis AF2122/97 mc B   2662 1258Mycobacterium abscessus 8c B   3160 1760Mycobacterium ulcerans Agy99 5o B   2702 1458Mycobacterium gilvum PYR-GCK 4h B   3607 1634Mycobacterium marinum M 8u B   3781 1642Mycobacterium smegmatis MC2 155 3e B   4536 2180Mycobacterium leprae TN ml B   1091 514Corynebacterium efficiens YS-314 co B   1811 1127Corynebacterium urealyticum DSM 7109 7h B   1323 701Corynebacterium jeikeium K411 jk B   1379 725Corynebacterium glutamicum ATCC 13032 c3 B   1874 1119

KitasatoCorynebacterium diphtheriae NCTC 13129 cd B   1389 883Tropheryma whipplei Twist tw B   566 242Leifsonia xyli ssp. xyli CTCB07 lx B   1317 713Clavibacter michiganensis ssp. michiganensis NCPPB 382 32 B   2031 953Kocuria rhizophila DC2201 98 B   1627 730Arthrobacter sp. FB24 1f B   2873 1273Arthrobacter aurescens TC1 56 B   2775 1266Renibacterium salmoninarum ATCC 33209 7f B   2279 1228Rubrobacter xylanophilus DSM 9941 rw B   2267 873Petrotoga mobilis SJ95 6y B   1330 568Fervidobacterium nodosum Rt17-B1 3l B   1234 516Thermosipho melanesiensis BI429 2y B   1267 612Updated Thermosipho africanus TCF52B jt B   1287 624Thermotoga lettingae TMO 5v B   1481 559Thermotoga sp. RQ2 92 B   1337 482Thermotoga petrophila RKU-1 0v B   1317 468Thermotoga maritima MSB8 tm B   1331 527Dehalococcoides sp. CBDB1 dl B   978 480Dehalococcoides ethenogenes 195 et B   1012 568Herpetosiphon aurantiacus ATCC 23779 5u B   3307 1669Roseiflexus sp. RS-1 4a B   3010 1507Roseiflexus castenholzii DSM 13941 77 B   2981 1349Updated Chloroflexus aggregans DSM 9485 jb B + 2531 1199Chloroflexus aurantiacus J-10-fl 6w B   2659 1194Sulfurihydrogenibium sp. YO3AOP1 96 B + 1207 514Hydrogenobaculum sp. Y04AAS1 e8 B + 1128 501Aquifex aeolicus VF5 aa B   1150 379Solibacter usitatus Ellin6076 25 B + 5129 2697Acidobacteria bacterium Ellin345 a3 B   3063 1714Elusimicrobium minutum Pei191 94 B   1004 525Updated uncultured Termite group 1 bacterium phylotype Rs-D17 k6 B   604 157Pelodictyon phaeoclathratiforme BU-1 9s B   1750 957Pelodictyon luteolum DSM 273 p7 B   1463 620Chlorobium chlorochromatii CaD3 c5 B   1362 639Chlorobium phaeobacteroides DSM 266 3v B + 1731 919Chlorobium phaeovibrioides DSM 265 1x B   1281 472Updated Chlorobium limicola DSM 245 fp B   1619 815Chlorobaculum parvum NCIB 8327 ev B   1441 602Chlorobium tepidum TLS ch B   1389 856Chloroherpeton thalassium ATCC 35110 9o B   1857 853Prosthecochloris aestuarii DSM 271 ed B   1532 731Updated Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2 h8 B + 611 147Parabacteroides distasonis ATCC 8503 0g B   2470 1380Porphyromonas gingivalis W83 pg B   1174 735Bacteroides vulgatus ATCC 8482 0r B   2438 1627Bacteroides thetaiotaomicron VPI-5482 bt B   2937 1841

Bacteroides fragilis NCTC 9343 fl B   2460 1724Candidatus Amoebophilus asiaticus 5a2 f6 B   722 561Salinibacter ruber DSM 13855 rv B   1877 924Cytophaga hutchinsonii ATCC 33406 37 B + 2172 1613Candidatus Sulcia muelleri GWSS 64 B   200 27Gramella forsetii KT0803 1s B   2169 1415Flavobacterium psychrophilum JIP02/86 5d B   1533 879Flavobacterium johnsoniae UW101 1z B   3089 1928Updated Dictyoglomus turgidum DSM 6724 ix B   1282 462Updated Dictyoglomus thermophilum H-6-12 k3 B   1352 560Candidatus Protochlamydia amoebophila UWE25 p0 B   1096 935Chlamydophila pneumoniae TW-183 c2 B + 622 491Chlamydophila caviae GPIC c1 B   601 397Chlamydophila felis Fe/C-56 c6 B   614 391Chlamydophila abortus S26/3 c4 B   592 340Chlamydia muridarum Nigg cm B   563 341Chlamydia trachomatis D/UW-3/CX ct B   567 328Opitutus terrae PB90-1 8i B   3012 1600Methylacidiphilum infernorum V4 9h B   1350 1122Akkermansia muciniphila ATCC BAA-835 9a B   1379 759Updated Thermodesulfovibrio yellowstonii DSM 11347 k7 B   1437 596Fusobacterium nucleatum ssp. nucleatum ATCC 25586 fn B   1288 779Deinococcus geothermalis DSM 11300 d4 B   1635 700Deinococcus radiodurans R1 dr B   1934 1063Thermus thermophilus HB27 t0 B + 1453 529Updated Natranaerobius thermophilus JW/NM-WN-LF j0 B   1849 1033Symbiobacterium thermophilum IAM 14863 sb B   2147 1191Finegoldia magna ATCC 29328 8g B   1082 549Candidatus Desulforudis audaxviator MP104C 7u B   1410 747Pelotomaculum thermopropionicum SI 09 B   1893 1027Desulfitobacterium hafniense Y51 d2 B   3344 1716Desulfotomaculum reducens MI-1 0c B   2069 1207Syntrophomonas wolfei ssp. wolfei Goettingen 2l B + 1677 827Heliobacterium modesticaldum Ice1 8j B   1705 1295Alkaliphilus oremlandii OhILAs 68 B   1842 994Alkaliphilus metalliredigens QYMF 0n B   2648 1977Clostridium phytofermentans ISDg 5z B   2581 1321Clostridium novyi NT 12 B   1501 814Clostridium kluyveri DSM 555 16 B   2344 1494Clostridium beijerinckii NCIMB 8052 03 B   3411 1609Clostridium thermocellum ATCC 27405 4x B   2026 1163Clostridium tetani E88 te B + 1545 828Clostridium perfringens 13 cu B   1736 924Clostridium difficile 630 3x B   2419 1323

Clostridium botulinum A ATCC 3502 0i B   2210 1362Clostridium acetobutylicum ATCC 824 ca B   2342 1330Caldicellulosiruptor saccharolyticus DSM 8903 1q B   1740 939Updated Coprothermobacter proteolyticus DSM 5265 h3 B   1008 474Carboxydothermus hydrogenoformans Z-2901 c9 B   1634 986Moorella thermoacetica ATCC 39073 m8 B   1701 764Thermoanaerobacter pseudethanolicus ATCC 33223 82 B   1531 712Thermoanaerobacter sp. X514 8d B   1604 745Thermoanaerobacter tengcongensis MB4 tt B   1715 873Enterococcus faecalis V583 ef B   1778 1335Oenococcus oeni PSU-1 4m B   1141 550Leuconostoc citreum KM20 7x B   1181 521Leuconostoc mesenteroides ssp. mesenteroides ATCC 8293 2s B   1317 653Lactobacillus johnsonii NCC 533 lj B   1185 636Lactobacillus salivarius UCC118 lv B   1102 615Lactobacillus fermentum IFO 3956 9b B   1298 545Lactobacillus sakei ssp. sakei 23K ls B   1226 653Lactobacillus reuteri DSM 20016 49 B   1278 622Lactobacillus gasseri ATCC 33323 13 B   1110 645Lactobacillus plantarum WCFS1 lb B   1980 1027Lactobacillus helveticus DPC 4571 79 B + 1035 575Lactobacillus delbrueckii ssp. bulgaricus ATCC 11842 ld B   990 572Lactobacillus casei ATCC 334 1o B   1667 1084Lactobacillus brevis ATCC 367 52 B   1422 763Lactobacillus acidophilus NCFM lt B   1245 617Pediococcus pentosaceus ATCC 25745 0d B   1181 574Lactococcus lactis ssp. lactis Il1403 ll B   1479 842Updated Streptococcus equi ssp. zooepidemicus MGCS10565 jc B   1177 716Streptococcus pyogenes M1 GAS x2 B   1109 588Streptococcus pneumoniae TIGR4 sr B   1319 786Streptococcus agalactiae NEM316 s5 B   1366 728Streptococcus mutans UA159 s6 B   1318 642Streptococcus thermophilus LMG 18311 sd B   1210 679Streptococcus suis 05ZYH33 4r B   1409 777Streptococcus sanguinis SK36 5b B   1467 803Streptococcus gordonii Challis subCH1 6s B   1328 723Exiguobacterium sibiricum 255-15 7r B   1967 1040Listeria welshimeri ser. 6b SLCC5334 2g B   1818 956Listeria innocua Clip11262 li B   1910 1058Listeria monocytogenes EGD-e lm B   1943 903Lysinibacillus sphaericus C3-41 7z B   2677 1907Oceanobacillus iheyensis HTE831 oi B   2231 1269Updated Anoxybacillus flavithermus WK1 j6 B   1778 1054Geobacillus thermodenitrificans NG80-2 1u B   2110 1282

Geobacillus kaustophilus HTA426 gk B   2117 1381Bacillus halodurans C-125 bh B + 2537 1529Bacillus weihenstephanensis KBAB4 62 B + 3090 2065Bacillus thuringiensis ser. konkukian 97-27 ko B   3090 2027Bacillus cereus ATCC 14579 bc B + 3084 2150Bacillus anthracis Ames Ancestor b2 B   2971 2338Bacillus clausii KSM-K16 x4 B + 2668 1428Bacillus subtilis ssp. subtilis 168 bs B   2586 1519Bacillus pumilus SAFR-032 6f B   2315 1366Bacillus licheniformis ATCC 14580 lf B   2580 1598Bacillus amyloliquefaciens FZB42 2o B + 2423 1270Staphylococcus saprophyticus ssp. saprophyticus ATCC 15305 zt B   1658 788Staphylococcus haemolyticus JCSC1435 zh B   1636 1040Staphylococcus epidermidis RP62A ep B   1519 975Staphylococcus aureus ssp. aureus NCTC 8325 aq B   1669 1223Arcobacter butzleri RM4018 6k B   1544 715Campylobacter hominis ATCC BAA-381 00 B   970 712Campylobacter curvus 525.92 3y B   1218 713Campylobacter concisus 13826 6x B   1132 797Campylobacter jejuni ssp. jejuni NCTC 11168 cj B   1121 502Campylobacter fetus ssp. fetus 82-40 35 B   1174 545Sulfurimonas denitrificans DSM 1251 ti B   1470 626Wolinella succinogenes DSM 1740 ws B   1431 611Helicobacter hepaticus ATCC 51449 hh B   1118 757Helicobacter acinonychis Sheeba hl B   894 718Helicobacter pylori 26695 hp B   915 661Nitratiruptor sp. SB155-2 1d B   1332 511Sulfurovum sp. NBC37-1 1t B   1610 828Bdellovibrio bacteriovorus HD100 bd B   2021 1566Syntrophus aciditrophicus SB yt B   1885 1283Syntrophobacter fumaroxidans MPOB 0l B   2674 1390Desulfotalea psychrophila LSv54 dp B   1919 1197Updated Desulfatibacillum alkenivorans AK-01 9l B   3454 1798Desulfococcus oleovorans Hxd3 6c B   2226 1039Lawsonia intracellularis PHE/MN1-00 ln B   846 334Desulfovibrio vulgaris Hildenborough dv B   1970 1409Desulfovibrio desulfuricans ssp. desulfuricans G20 ds B   2211 1564Pelobacter propionicus DSM 2379 3c B + 2358 1218Pelobacter carbinolicus DSM 2380 p8 B   2226 1126Geobacter uraniireducens Rf4 3g B   3000 1357Geobacter lovleyi SZ 9z B   2461 1145Updated Geobacter bemidjiensis Bem jw B   2739 1279Geobacter sulfurreducens PCA gs B   2350 1096Geobacter metallireducens GS-15 gm B   2494 1025Sorangium cellulosum So ce 56 60 B   5645 3739Anaeromyxobacter sp. Fw109-5 55 B   3013 1453

Anaeromyxobacter dehalogenans 2CP-C ae B   2929 1417Myxococcus xanthus DK 1622 m1 B + 4357 2974Magnetococcus sp. MC-1 53 B   2379 1337Aromatoleum aromaticum EbN1 az B   2520 1613Dechloromonas aromatica RCB dj B   2837 1334Chromobacterium violaceum ATCC 12472 vi B + 2876 1531Neisseria meningitidis Z2491 nn B   1219 690Neisseria gonorrhoeae FA 1090 ni B   1184 818Methylobacillus flagellatus KT m7 B   1902 851Thiobacillus denitrificans ATCC 25259 nt B   1925 902Methylibium petroleiphilum PM1 14 B   2619 1200Leptothrix cholodnii SP-6 7i B   3073 1290Ralstonia eutropha JMP134 rl B   4216 1630Cupriavidus taiwanensis 9x B   3723 1655Ralstonia metallidurans CH34 r4 B + 4096 1818Ralstonia pickettii 12J kq B + 3198 1664Ralstonia solanacearum GMI1000 rs B   2275 1165Polynucleobacter necessarius ssp. asymbioticus QLW-P1DMWA-1 0s B   1469 608Updated Burkholderia phytofirmans PsJN ku B   4886 2188Burkholderia phymatum STM815 90 B   3706 1715Burkholderia thailandensis E264 b5 B + 3738 1896Burkholderia pseudomallei K96243 pe B   3870 1858Burkholderia mallei ATCC 23344 bi B   3188 1836Burkholderia sp. 383 bk B   5395 2322Burkholderia ambifaria AMMD 0u B   4583 1982Burkholderia cenocepacia AU 1054 b6 B   4534 1943Burkholderia multivorans ATCC 17616 76 B   4118 2003Burkholderia vietnamiensis G4 30 B   4146 2338Burkholderia xenovorans LB400 b4 B   5803 2899Verminephrobacter eiseniae EF01-2 4b B   3340 1568Delftia acidovorans SPH-1 7d B + 4051 1989Polaromonas sp. JS666 p6 B   3370 1447Polaromonas naphthalenivorans CJ2 01 B   2778 1306Rhodoferax ferrireducens T118 rx B   2970 1200Acidovorax sp. JS42 43 B   2601 1406Acidovorax avenae ssp. citrulli AAC00-1 4t B   2989 1720Herminiimonas arsenicoxydans 5e B   2123 1172Janthinobacterium sp. Marseille 4d B   2540 1157Bordetella petrii DSM 12804 5y B   3480 1547Bordetella avium 197N 9k B   2319 1062Bordetella pertussis Tohama I be B   2592 844Bordetella parapertussis 12822 bp B   3107 1078Bordetella bronchiseptica RB50 bo B   3609 1385Nitrosospira multiformis ATCC 25196 nl B   1827 930Nitrosomonas eutropha C91 3j B   1608 836Nitrosomonas europaea ATCC 19718 ne B   1681 780Caulobacter sp. K31 7o B   3419 1642Caulobacter crescentus CB15 cc B   2494 1243Phenylobacterium zucineum HLK1 kk B   2634 895

Erythrobacter litoralis HTCC2594 ey B   1915 1096Sphingopyxis alaskensis RB2256 ak B   2185 980Novosphingobium aromaticivorans DSM 12444 nv B   2233 1091Sphingomonas wittichii RW1 2i B   3672 1178Zymomonas mobilis ssp. mobilis ZM4 zm B   1267 731Maricaulis maris MCS10 2x B   2074 989Hyphomonas neptunium ATCC 15444 54 B   2373 1132Dinoroseobacter shibae DFL 12 6q B   2385 1192Jannaschia sp. CCS1 ja B   2789 1423Silicibacter sp. TM1040 ic B + 2058 972Silicibacter pomeroyi DSS-3 sg B   2691 1119Roseobacter denitrificans OCh 114 2r B   2597 1349Rhodobacter sphaeroides 2.4.1 rh B   2553 1304Paracoccus denitrificans PD1222 27 B + 2893 1568Magnetospirillum magneticum AMB-1 m5 B   2805 1754Rhodospirillum centenum SW kg B   2473 1529Rhodospirillum rubrum ATCC 11170 rb B + 2613 1178Granulibacter bethesdensis CGDNIH1 3m B   1662 775Gluconacetobacter diazotrophicus PAl 5 7c B + 2321 1151Gluconobacter oxydans 621H ox B   1643 789Candidatus Pelagibacter ubique HTCC1062 ub B   996 358Neorickettsia sennetsu Miyayama nc B + 532 400Ehrlichia chaffeensis Arkansas eg B   616 489Ehrlichia canis Jake el B   610 315Ehrlichia ruminantium Welgevonden eh B   599 289Anaplasma phagocytophilum HZ as B   622 642Anaplasma marginale St. Maries am B   622 327Orientia tsutsugamushi Boryong 2q B   633 549Rickettsia bellii RML369-C r3 B + 861 568Rickettsia canadensis McKiel 6h B + 615 478Rickettsia typhi Wilmington rt B   600 238Rickettsia prowazekii Madrid E rp B   603 232Rickettsia felis URRWXCal2 rf B   868 532Rickettsia massiliae MTU5 6a B   679 289Rickettsia akari Hartford 74 B   691 568Rickettsia rickettsii Sheila Smith 6b B + 696 649Rickettsia conorii Malish 7 rc B   740 634Wolbachia pipientis 9q B   753 522Wolbachia endosymbiont of Drosophila melanogaster wo B   647 548Xanthobacter autotrophicus Py2 2d B   3106 1640Azorhizobium caulinodans ORS 571 75 B   3288 1429Updated Methylobacterium chloromethanicum CM4 j5 B   3116 2057Methylobacterium extorquens PA1 6r B   3068 1761Methylobacterium sp. 4-46 7s B   4074 2535Updated Methylobacterium populi BJ001 fj B   3205 2109Methylobacterium radiotolerans JCM 2831 7w B   3542 2144Ochrobactrum anthropi ATCC 49188 40 B   2975 1449

Brucella canis ATCC 23365 6z B + 2024 1227Brucella suis 1330 br B + 2011 1260Brucella melitensis 16M bm B   2153 1045Brucella ovis ATCC 25840 1k B   1896 994Brucella abortus bv. 1 9-941 b3 B   1957 1128Sinorhizobium medicae WSM419 2m B   2362 1167Sinorhizobium meliloti 1021 sm B   2346 1014Rhizobium etli CFN 42 rz B   2794 1241Rhizobium leguminosarum bv. viciae 3841 17 B   3233 1461Agrobacterium tumefaciens C58 au B   3168 1448Parvibaculum lavamentivorans DS-1 1e B   2566 1070Mesorhizobium sp. BNC1 0p B   2743 1321Mesorhizobium loti MAFF303099 mk B   4335 2408Updated Methylocella silvestris BL2 ke B   2503 1315Beijerinckia indica ssp. indica ATCC 9039 8q B   2439 1130Updated Oligotropha carboxidovorans OM5 jj B   2213 1509Rhodopseudomonas palustris CGA009 rd B   3314 1499Nitrobacter winogradskyi Nb-255 wi B   1905 1217Nitrobacter hamburgensis X14 nb B   2213 1591Bradyrhizobium sp. ORS278 26 B   4329 2388Bradyrhizobium japonicum USDA 110 bj B   5401 2916Bartonella tribocorum CIP 105476 6u B   1162 912Bartonella henselae Houston-1 ho B   958 530Bartonella quintana Toulouse bq B   839 303Bartonella bacilliformis KC583 4c B   834 449Acidithiobacillus ferrooxidans ATCC 23270 kj B + 1853 1294Haemophilus somnus 129PT 5q B   1232 560Mannheimia succiniciproducens MBEL55E m3 B   1534 835Pasteurella multocida ssp. multocida Pm70 pm B   1440 575Haemophilus parasuis SH0165 km B   1328 693Haemophilus ducreyi 35000HP hd B   1021 696Haemophilus influenzae Rd KW20 hi B   1213 444Actinobacillus succinogenes 130Z 4k B   1535 544Actinobacillus pleuropneumoniae L20 1c B   1444 568Aeromonas salmonicida ssp. salmonicida A449 44 B   2743 1343Aeromonas hydrophila ssp. hydrophila ATCC 7966 33 B + 2908 1214Updated Aliivibrio salmonicida LFI1238 k1 B   2311 1493Vibrio fischeri ES114 vf B   2498 1263Vibrio splendidus LGP32 kn B   2853 1578Vibrio vulnificus YJ016 vb B + 3026 1929Vibrio parahaemolyticus RIMD 2210633 vp B   3002 1830Vibrio harveyi ATCC BAA-1116 65 B   3314 2606Vibrio cholerae O1 biov. eltor N16961 vc B   2407 1428Photobacterium profundum SS9 he B   3398 2024Psychromonas ingrahamii 37 0x B   2338 1207Idiomarina loihiensis L2TR il B + 1848 780Updated Shewanella piezotolerans WP3 h5 B   2930 2003Shewanella loihica PV-4 1r B   2678 1181

Shewanella halifaxensis HAW-EB4 8l B   2878 1400Shewanella sediminis HAW-EB3 6d B   3136 1361Shewanella denitrificans OS217 hw B   2491 1263Shewanella pealeana ATCC 700345 6t B + 2839 1402Shewanella oneidensis MR-1 sl B   2725 1593Shewanella baltica OS155 2z B   2911 1396Shewanella woodyi ATCC 51908 88 B   3228 1652Shewanella sp. MR-7 24 B   2690 1316Shewanella amazonensis SB2B 2p B   2607 1038Shewanella frigidimarina NCIMB 400 3w B   2746 1283Shewanella putrefaciens CN-32 2a B   2658 1314Colwellia psychrerythraea 34H lw B   2987 1923Pseudoalteromonas atlantica T6c px B   2992 1289Pseudoalteromonas haloplanktis TAC125 ha B   2293 1192Saccharophagus degradans 2-40 d0 B   2639 1369Marinobacter aquaeolei VT8 1n B   2620 1238Updated Alteromonas macleodii Deep ecotype kb B   2525 1547Hahella chejuensis KCTC 2396 hc B   3856 2922Alcanivorax borkumensis SK2 2b B + 1958 797Marinomonas sp. MWYL1 0z B + 3133 1306Chromohalobacter salexigens DSM 3043 c8 B   2311 987Methylococcus capsulatus Bath mt B   1953 1003Dichelobacter nodosus VCS1703A 3i B   913 367Stenotrophomonas maltophilia R551-3 e9 B   2713 1326Xylella fastidiosa 9a5c xf B   1394 1372Xanthomonas axonopodis pv. citri 306 xc B   2866 1446Xanthomonas oryzae pv. oryzae KACC10331 xo B   2469 1675Xanthomonas campestris pv. campestris ATCC 33913 xd B   2808 1373Alkalilimnicola ehrlichei MLHE-1 5r B   2025 840Halorhodospira halophila SL1 3b B   1734 673Nitrosococcus oceani ATCC 19707 nr B   1948 1026Coxiella burnetii RSA 493 cx B   1075 743Legionella pneumophila ssp. pneumophila Philadelphia 1 x7 B   1859 1083Baumannia cicadellinicola Hc b1 B   521 74Candidatus Carsonella ruddii PV 5s B   145 37Candidatus Vesicomyosocius okutanii HA 5i B   753 184Candidatus Ruthia magnifica Cm 5f B   775 201Enterobacter sakazakii ATCC BAA-894 69 B   2640 1615Candidatus Blochmannia pennsylvanicus BPEN ny B   530 80Pectobacterium atrosepticum SCRI1043 er B   2956 1516Sodalis glossinidius morsitans og B   1539 893Wigglesworthia glossinidia wb B   514 97Buchnera aphidicola APS bn B + 490 74Photorhabdus luminescens ssp. laumondii TTO1 pd B + 2790 1893Yersinia pseudotuberculosis IP 32953 yr B   2547 1354

Yersinia pestis CO92 yp B   2559 1326Yersinia enterocolitica ssp. enterocolitica 8081 1g B + 2715 1264Shigella sonnei Ss046 on B   2812 1407Shigella flexneri 2a 2457T fs B   2625 1436Shigella dysenteriae Sd197 d1 B   2453 1818Shigella boydii Sb227 sq B   2635 1499Serratia proteamaculans 568 7e B   3491 1400Salmonella typhimurium LT2 su B   2982 1441Salmonella enterica ssp. enterica ser. Paratyphi A ATCC 9150 x0 B + 2756 1337Updated Proteus mirabilis HI4320 jn B   2350 1257Klebsiella pneumoniae ssp. pneumoniae MGH 78578 2k B   3415 1361Updated Escherichia fergusonii ATCC 35469 kd B   2802 1464Escherichia coli K12 ec B   2863 1269Erwinia tasmaniensis Et1/99 ej B   2276 1151Enterobacter sp. 638 08 B   2870 1245Citrobacter koseri ATCC BAA-895 5x B   3034 1946Pseudomonas entomophila L48 pq B   3467 1667Pseudomonas syringae pv. tomato DC3000 pj B   3493 1983Pseudomonas stutzeri A1501 2e B   2802 1326Pseudomonas putida KT2440 ps B   3583 1767Pseudomonas fluorescens Pf-5 qf B   4198 1940Pseudomonas mendocina ymp 4y B   3120 1474Pseudomonas aeruginosa PAO1 pa B   3920 1646Cellvibrio japonicus Ueda107 9m B   2416 1338Psychrobacter sp. PRwf-1 1v B   1631 739Psychrobacter arcticus 273-4 ri B   1447 673Psychrobacter cryohalolentis K5 pz B   1735 732Acinetobacter sp. ADP1 ab B   2224 1083Acinetobacter baumannii ATCC 17978 1l B   2372 980Thiomicrospira crunogena XCL-2 tc B   1554 642Francisella philomiragia ssp. philomiragia ATCC 25017 8p B   1335 576Francisella tularensis ssp. tularensis SCHU S4 ft B   1072 531Gloeobacter violaceus PCC 7421 gv B   2772 1658Acaryochloris marina MBIC11017 81 B   3411 2843Prochlorococcus marinus MIT 9313 p1 B   1358 911Nostoc punctiforme PCC 73102 9j B   3760 2327Nostoc sp. PCC 7120 no B   3206 2160Anabaena variabilis ATCC 29413 va B   3155 1888Trichodesmium erythraeum IMS101 4i B   2667 1784Thermosynechococcus elongatus BP-1 th B   1582 894Cyanothece sp. ATCC 51142 8t B   2836 2375Synechocystis sp. PCC 6803 cs B   2076 1096Synechococcus elongatus PCC 6301 x3 B   1664 863Microcystis aeruginosa NIES-843 84 B   2777 3535

Nanoarchaeum equitans Kin4-M na A   320 216Candidatus Korarchaeum cryptofilum OPF8 7v A   1050 552Methanosaeta thermophila PT 11 A   1136 560Methanococcoides burtonii DSM 6242 m9 A   1403 870Methanosarcina acetivorans C2A ma A   2577 1963Methanosarcina mazei Go1 mz A   2030 1340Methanosarcina barkeri Fusaro fu A   2233 1373Methanospirillum hungatei JF-1 m6 A   1998 1141Methanocorpusculum labreanum Z 4l A   1128 611Candidatus Methanoregula boonei 6A8 3p A   1549 901Methanoculleus marisnigri JR1 23 A   1563 926Methanopyrus kandleri AV19 mn A   1005 682Archaeoglobus fulgidus DSM 4304 af A   1573 847Thermococcus onnurineus NA1 h6 A   1220 756Thermococcus kodakarensis KOD1 tk A   1355 951Pyrococcus horikoshii OT3 ph A   1164 791Pyrococcus abyssi GE5 pb A   1229 667Pyrococcus furiosus DSM 3638 pu A   1339 786Thermoplasma volcanium GSS1 tv A   1044 455Thermoplasma acidophilum DSM 1728 ta A   1049 433Picrophilus torridus DSM 9790 p3 A   1074 461Haloquadratum walsbyi DSM 16790 1w A   1487 1123Natronomonas pharaonis DSM 2160 np A   1553 1108Halobacterium salinarum R1 8m A   1284 826Halobacterium sp. NRC-1 hb A   1277 798Haloarcula marismortui ATCC 43049 hm A   1919 1493Methanocaldococcus jannaschii DSM 2661 mj A   1118 668Methanococcus aeolicus Nankai-3 4v A   1013 477Methanococcus maripaludis S2 m2 A   1140 582Methanococcus vannielii SB 57 A   1127 551Methanothermobacter thermautotrophicus Delta H md A   1195 678Methanosphaera stadtmanae DSM 3091 m4 A   992 542Methanobrevibacter smithii ATCC 35061 1p A   1068 725uncultured methanogenic archaeon RC-I 3n A   1824 1261Candidatus Methanosphaerula palustris E1-9c jx A   1702 953Hyperthermus butylicus DSM 5456 5m A   983 619Aeropyrum pernix K1 ap A   1049 651Ignicoccus hospitalis KIN4/I 63 A   868 566Staphylothermus marinus F1 0e A   932 638Desulfurococcus kamchatkensis 1221n fd A   837 634Nitrosopumilus maritimus SCM1 6e A   1105 690Metallosphaera sedula DSM 5348 02 A   1421 835Sulfolobus tokodaii 7 sv A   1588 1237Sulfolobus solfataricus P2 ss A   1726 1251Sulfolobus acidocaldarius DSM 639 za A   1391 832Thermofilum pendens Hrk 5 2v A   1109 715Caldivirga maquilingensis IC-167 6n A   1289 674Pyrobaculum calidifontis JCM 11548 4u A   1269 880

Pyrobaculum arsenaticum DSM 13514 5a A   1329 970Pyrobaculum aerophilum IM2 pc A   1361 1244Pyrobaculum islandicum DSM 4184 34 A   1209 769Thermoproteus neutrophilus V24Sta 8h A   1146 820