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Duplicated SiR/NiR-like domains 1 and 3 family domain assignments


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Select to display   Genome       Domains   Proteins
No Yes ALL   71440 71440
No Yes Selaginella moellendorffii   2 2
No Yes Pinus taeda Loblolly pine 4 2
No Yes Picea abies Norway spruce 4 2
No Yes Eucalyptus grandis v201 Rose gum 2 1
No Yes Theobroma cacao B97-61/B2 v1 Cacao 2 1
No Yes Gossypium raimondii v221   2 1
No Yes Citrus clementina v165   2 1
No Yes Citrus sinensis v154 Sweet orange 2 1
No Yes Thellungiella halophila v173   2 1
No Yes Brassica rapa Chiifu-401 1.2 Field mustard 4 2
No Yes Capsella rubella v183   2 1
No Yes Arabidopsis lyrata Lyrate rockcress 2 1
No Yes Arabidopsis thaliana 10 Thale cress 2 1
No Yes Carica papaya Papaya 2 1
No Yes Medicago truncatula Barrel medic 2 1
No Yes Phaseolus vulgaris v186 French bean 2 1
No Yes Glycine max v109 Soybean 4 2
No Yes Cucumis sativus v122 Cucumber 2 1
No Yes Fragaria vesca Wild strawberry 2 1
No Yes Malus domestica v196 Apple 2 1
No Yes Prunus persica v139 Peach 2 1
No Yes Linum usitatissimum v200 Flax 3 2
No Yes Manihot esculenta v147 Cassava 2 1
No Yes Populus trichocarpa v156 Black cottonwood 3 2
No Yes Vitis vinifera Wine grape 2 1
No Yes Mimulus guttatus v140 Spotted monkey flower 2 1
No Yes Solanum lycopersicum v.2.3 Tomato 4 2
No Yes Solanum tuberosum Potato 4 2
No Yes Actinidia chinensis Hongyang   2 1
No Yes Aquilegia coerulea v195   2 1
No Yes Triticum urartu 22   1 1
No Yes Triticum aestivum 22 Bread wheat 2 1
No Yes Aegilops tauschii 22   2 1
No Yes Brachypodium distachyon Stiff brome 2 1
No Yes Oryza barthii 22 African wild rice 6 3
No Yes Oryza meridionalis 22   1 1
No Yes Oryza glumaepatula 22   7 4
No Yes Oryza glaberrima African rice 2 1
No Yes Oryza punctata 22   2 1
No Yes Oryza nivara 22   7 4
No Yes Oryza brachyantha 22 Malo sina 2 1
No Yes Oryza sativa ssp. japonica 5.0 Japanese rice 8 4
No Yes Oryza sativa v193 Rice 8 4
No Yes Phyllostachys heterocyclavar. pubescens Kikko-chiku 2 1
No Yes Panicum virgatum v202 Switchgrass 4 2
No Yes Setaria italica v164 Foxtail millet 2 1
No Yes Zea mays subsp. mays Maize 11 7
No Yes Zea mays v181 Maize 11 7
No Yes Sorghum bicolor Sorghum 2 1
No Yes Musa balbisiana Balbis banana 2 1
No Yes Musa acuminata 22 Wild Malaysian banana 2 1
No Yes Amborella trichopoda 22   1 1
No Yes Physcomitrella patens   2 2
No Yes Coccomyxa subellipsoidea sp. C-169 v2   1 1
No Yes Asterochloris sp. Cgr/DA1pho v1.0   1 1
No Yes Chlorella variabilis sp. NC64A   1 1
No Yes Chlorella vulgaris   1 1
No Yes Volvox carteri f. nagariensis   1 1
No Yes Volvox carteri v199   2 2
No Yes Chlamydomonas reinhardtii 4.0   1 1
No Yes Ostreococcus sp. RCC809   1 1
No Yes Ostreococcus lucimarinus CCE9901   1 1
No Yes Ostreococcus tauri   1 1
No Yes Bathycoccus prasinos   1 1
No Yes Micromonas sp. RCC299   1 1
No Yes Micromonas pusilla CCMP1545 v3.0   1 1
No Yes Cyanophora paradoxa   1 1
No Yes Thermobispora bispora DSM 43833   1 1
No Yes Nakamurella multipartita DSM 44233   1 1
No Yes Modestobacter marinus   1 1
No Yes Blastococcus saxobsidens DD2   1 1
No Yes Geodermatophilus obscurus DSM 43160   1 1
No Yes Catenulispora acidiphila DSM 44928   1 1
No Yes Stackebrandtia nassauensis DSM 44728   1 1
No Yes Frankia symbiont of Datisca glomerata   1 1
No Yes Frankia sp. EAN1pec   1 1
No Yes Frankia alni ACN14a   1 1
No Yes Thermobifida fusca YX   1 1
No Yes Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111   1 1
No Yes Thermomonospora curvata DSM 43183   1 1
No Yes Streptosporangium roseum DSM 43021   1 1
No Yes Kitasatospora setae KM-6054   1 1
No Yes Streptomyces coelicolor A3(2)   1 1
No Yes Streptomyces sp. PAMC26508   1 1
No Yes Streptomyces flavogriseus ATCC 33331   1 1
No Yes Streptomyces sp. SirexAA-E   1 1
No Yes Streptomyces griseus subsp. griseus NBRC 13350   1 1
No Yes Streptomyces bingchenggensis BCW-1   1 1
No Yes Streptomyces violaceusniger Tu 4113   1 1
No Yes Streptomyces avermitilis MA-4680   1 1
No Yes Streptomyces cattleya NRRL 8057 = DSM 46488   1 1
No Yes Streptomyces scabiei 87.22   1 1
No Yes Streptomyces hygroscopicus subsp. jinggangensis 5008   1 1
No Yes Actinosynnema mirum DSM 43827   1 1
No Yes Saccharomonospora viridis DSM 43017   1 1
No Yes Pseudonocardia dioxanivorans CB1190   1 1
No Yes Saccharopolyspora erythraea NRRL 2338   1 1
No Yes Amycolatopsis mediterranei U32   1 1
No Yes Kribbella flavida DSM 17836   1 1
No Yes Nocardioides sp. JS614   1 1
No Yes Microlunatus phosphovorus NM-1   1 1
No Yes Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1   1 1
No Yes Salinispora arenicola CNS-205   1 1
No Yes Salinispora tropica CNB-440   1 1
No Yes Verrucosispora maris AB-18-032   1 1
No Yes Micromonospora sp. L5   1 1
No Yes Micromonospora aurantiaca ATCC 27029   1 1
No Yes Actinoplanes sp. N902-109   1 1
No Yes Actinoplanes sp. SE50/110   1 1
No Yes Actinoplanes missouriensis 431   1 1
No Yes Segniliparus rotundus DSM 44985   1 1
No Yes Tsukamurella paurometabola DSM 20162   2 1
No Yes Gordonia sp. KTR9   2 1
No Yes Gordonia polyisoprenivorans VH2   1 1
No Yes Gordonia bronchialis DSM 43247   1 1
No Yes Rhodococcus jostii RHA1   3 2
No Yes Rhodococcus equi 103S   2 1
No Yes Rhodococcus opacus B4   2 1
No Yes Rhodococcus erythropolis PR4   1 1
No Yes Nocardia cyriacigeorgica GUH-2   2 1
No Yes Nocardia farcinica IFM 10152   2 1
No Yes Amycolicicoccus subflavus DQS3-9A1   1 1
No Yes Mycobacterium massiliense str. GO 06   2 1
No Yes Mycobacterium abscessus ATCC 19977   2 1
No Yes Mycobacterium sp. JLS   2 1
No Yes Mycobacterium intracellulare ATCC 13950   4 2
No Yes Mycobacterium avium 104   4 2
No Yes Mycobacterium vanbaalenii PYR-1   2 1
No Yes Mycobacterium canettii CIPT 140010059   2 1
No Yes Mycobacterium africanum GM041182   2 1
No Yes Mycobacterium tuberculosis KZN 1435   2 1
No Yes Mycobacterium tuberculosis   2 1
No Yes Mycobacterium bovis BCG str. Pasteur 1173P2   2 1
No Yes Mycobacterium rhodesiae NBB3   2 1
No Yes Mycobacterium ulcerans Agy99   2 1
No Yes Mycobacterium gilvum PYR-GCK   2 1
No Yes Mycobacterium chubuense NBB4   2 1
No Yes Mycobacterium marinum M   4 2
No Yes Mycobacterium smegmatis str. MC2 155   2 1
No Yes Corynebacterium resistens DSM 45100   1 1
No Yes Corynebacterium aurimucosum ATCC 700975   1 1
No Yes Corynebacterium kroppenstedtii DSM 44385   1 1
No Yes Corynebacterium efficiens YS-314   1 1
No Yes Corynebacterium urealyticum DSM 7109   1 1
No Yes Corynebacterium jeikeium K411   1 1
No Yes Corynebacterium variabile DSM 44702   1 1
No Yes Corynebacterium glutamicum R   1 1
No Yes Jonesia denitrificans DSM 20603   1 1
No Yes Intrasporangium calvum DSM 43043   1 1
No Yes Isoptericola variabilis 225   1 1
No Yes Xylanimonas cellulosilytica DSM 15894   1 1
No Yes Cellulomonas flavigena DSM 20109   1 1
No Yes Cellulomonas fimi ATCC 484   1 1
No Yes [Cellvibrio] gilvus ATCC 13127   1 1
No Yes Arthrobacter phenanthrenivorans Sphe3   1 1
No Yes Arthrobacter chlorophenolicus A6   1 1
No Yes Arthrobacter arilaitensis Re117   1 1
No Yes Kocuria rhizophila DC2201   1 1
No Yes Arthrobacter sp. Rue61a   1 1
No Yes Arthrobacter sp. FB24   1 1
No Yes Renibacterium salmoninarum ATCC 33209   1 1
No Yes Micrococcus luteus NCTC 2665   1 1
No Yes Actinomyces sp. F0330   1 1
No Yes Neisseria meningitidis alpha14   1 1
No Yes Neisseria meningitidis FAM18   1 1
No Yes Neisseria lactamica 020-06   1 1
No Yes Neisseria gonorrhoeae NCCP11945   1 1
No Yes Advenella kashmirensis WT001   1 1
No Yes Zymomonas mobilis subsp. mobilis NCIMB 11163   1 1
No Yes Actinobacillus succinogenes 130Z   1 1
No Yes Actinobacillus pleuropneumoniae serovar 5b str. L20   1 1
No Yes Oceanimonas sp. GK1   1 1
No Yes Tolumonas auensis DSM 9187   1 1
No Yes Aeromonas veronii B565   1 1
No Yes Aeromonas hydrophila subsp. hydrophila ATCC 7966   1 1
No Yes Aliivibrio salmonicida LFI1238   1 1
No Yes Vibrio fischeri MJ11   1 1
No Yes Vibrio sp. Ex25   1 1
No Yes Vibrio harveyi ATCC BAA-1116   1 1
No Yes Vibrio parahaemolyticus RIMD 2210633   1 1
No Yes Vibrio splendidus LGP32   1 1
No Yes Vibrio anguillarum 775   1 1
No Yes Vibrio furnissii NCTC 11218   1 1
No Yes Vibrio vulnificus MO6-24/O   1 1
No Yes Vibrio cholerae O395   1 1
No Yes Photobacterium profundum SS9   1 1
No Yes Psychromonas ingrahamii 37   1 1
No Yes Shewanella piezotolerans WP3   1 1
No Yes Shewanella loihica PV-4   1 1
No Yes Shewanella halifaxensis HAW-EB4   1 1
No Yes Shewanella sediminis HAW-EB3   1 1
No Yes Shewanella denitrificans OS217   1 1
No Yes Shewanella pealeana ATCC 700345   1 1
No Yes Shewanella woodyi ATCC 51908   1 1
No Yes Shewanella amazonensis SB2B   1 1
No Yes Shewanella violacea DSS12   1 1
No Yes Colwellia psychrerythraea 34H   1 1
No Yes Pseudoalteromonas sp. SM9913   1 1
No Yes Pseudoalteromonas atlantica T6c   1 1
No Yes Pseudoalteromonas haloplanktis TAC125   1 1
No Yes Glaciecola sp. 4H-3-7+YE-5   1 1
No Yes Glaciecola nitratireducens FR1064   1 1
No Yes Alteromonas sp. SN2   1 1
No Yes Alteromonas macleodii str. 'Deep ecotype'   1 1
No Yes Baumannia cicadellinicola str. Hc (Homalodisca coagulata)   1 1
No Yes Photorhabdus asymbiotica   2 1
No Yes Photorhabdus luminescens subsp. laumondii TTO1   1 1
No Yes Xenorhabdus bovienii SS-2004   1 1
No Yes Xenorhabdus nematophila ATCC 19061   1 1
No Yes Providencia stuartii MRSN 2154   2 1
No Yes Proteus mirabilis HI4320   1 1
No Yes Rahnella sp. Y9602   1 1
No Yes Rahnella aquatilis CIP 78.65 = ATCC 33071   1 1
No Yes Yersinia pseudotuberculosis IP 31758   1 1
No Yes Yersinia pestis Pestoides F   1 1
No Yes Yersinia enterocolitica subsp. enterocolitica 8081   1 1
No Yes Serratia sp. AS12   1 1
No Yes Serratia symbiotica str. 'Cinara cedri'   1 1
No Yes Serratia sp. ATCC 39006   1 1
No Yes Serratia plymuthica AS9   1 1
No Yes Serratia proteamaculans 568   1 1
No Yes Dickeya dadantii Ech703   1 1
No Yes Dickeya zeae Ech1591   1 1
No Yes Pectobacterium wasabiae WPP163   2 1
No Yes Pectobacterium sp. SCC3193   2 1
No Yes Pectobacterium atrosepticum SCRI1043   2 1
No Yes Pectobacterium carotovorum subsp. carotovorum PC1   2 1
No Yes Sodalis glossinidius str. 'morsitans'   1 1
No Yes Halyomorpha halys symbiont   1 1
No Yes Pantoea sp. At-9b   2 1
No Yes Pantoea vagans C9-1   2 1
No Yes Pantoea ananatis LMG 20103   2 1
No Yes Erwinia tasmaniensis Et1/99   2 1
No Yes Erwinia sp. Ejp617   2 1
No Yes Erwinia billingiae Eb661   2 1
No Yes Erwinia pyrifoliae Ep1/96   2 1
No Yes Erwinia amylovora ATCC 49946   2 1
No Yes Escherichia blattae DSM 4481   1 1
No Yes Candidatus Moranella endobia PCIT   1 1
No Yes Cronobacter turicensis z3032   2 1
No Yes Cronobacter sakazakii ES15   2 1
No Yes secondary endosymbiont of Ctenarytaina eucalypti   1 1
No Yes Enterobacteriaceae bacterium strain FGI 57   2 1
No Yes Shigella sonnei Ss046   2 1
No Yes Shigella flexneri 5 str. 8401   2 1
No Yes Shigella dysenteriae Sd197   2 1
No Yes Shigella boydii CDC 3083-94   2 1
No Yes Salmonella bongori NCTC 12419   2 1
No Yes Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594   2 1
No Yes Klebsiella oxytoca E718   2 1
No Yes Klebsiella variicola At-22   2 1
No Yes Klebsiella pneumoniae NTUH-K2044   2 1
No Yes Enterobacter aerogenes KCTC 2190   2 1
No Yes Escherichia fergusonii ATCC 35469   2 1
No Yes Escherichia coli 'BL21-Gold(DE3)pLysS AG'   2 1
No Yes Enterobacter sp. R4-368   2 1
No Yes Enterobacter sp. 638   2 1
No Yes Enterobacter asburiae LF7a   2 1
No Yes Enterobacter cloacae subsp. dissolvens SDM   2 1
No Yes Citrobacter rodentium ICC168   2 1
No Yes Citrobacter koseri ATCC BAA-895   2 1
No Yes Theobroma cacao Matina 1-6 v0.9 Cacao 2 1
No Yes Hordeum vulgare 22 Domesticated barley 4 2
No Yes Oryza sativa ssp. Indica (Subspecies) Long-grained rice 5 3
No Yes Frankia sp. EuI1c   1 1
No Yes Frankia sp. CcI3   1 1
No Yes Nocardiopsis alba ATCC BAA-2165   1 1
No Yes Streptomyces albus J1074   1 1
No Yes Streptomyces rapamycinicus NRRL 5491   1 1
No Yes Streptomyces davawensis JCM 4913   1 1
No Yes Streptomyces fulvissimus DSM 40593   1 1
No Yes Streptomyces venezuelae ATCC 10712   1 1
No Yes Streptomyces collinus Tu 365   1 1
No Yes Streptomyces cattleya NRRL 8057 = DSM 46488   1 1
No Yes Streptomyces hygroscopicus subsp. jinggangensis TL01   1 1
No Yes Saccharothrix espanaensis DSM 44229   1 1
No Yes Amycolatopsis mediterranei RB   1 1
No Yes Amycolatopsis mediterranei S699   1 1
No Yes Amycolatopsis mediterranei S699   1 1
No Yes Amycolatopsis orientalis HCCB10007   1 1
No Yes Propionibacterium acidipropionici ATCC 4875   1 1
No Yes Actinoplanes friuliensis DSM 7358   1 1
No Yes Rhodococcus pyridinivorans SB3094   2 1
No Yes Rhodococcus erythropolis CCM2595   1 1
No Yes Nocardia brasiliensis ATCC 700358   2 1
No Yes Mycobacterium sp. MOTT36Y   4 2
No Yes Mycobacterium sp. JDM601   2 1
No Yes Mycobacterium abscessus subsp. bolletii 50594   2 1
No Yes Mycobacterium liflandii 128FXT   4 2
No Yes Mycobacterium sp. KMS   2 1
No Yes Mycobacterium sp. MCS   2 1
No Yes Mycobacterium yongonense 05-1390   4 2
No Yes Mycobacterium intracellulare MOTT-64   4 2
No Yes Mycobacterium indicus pranii MTCC 9506   4 2
No Yes Mycobacterium intracellulare MOTT-02   4 2
No Yes Mycobacterium avium subsp. paratuberculosis MAP4   4 2
No Yes Mycobacterium avium subsp. paratuberculosis K-10   4 2
No Yes Mycobacterium canettii CIPT 140070017   2 1
No Yes Mycobacterium canettii CIPT 140060008   2 1
No Yes Mycobacterium canettii CIPT 140070008   2 1
No Yes Mycobacterium canettii CIPT 140070010   2 1
No Yes Mycobacterium tuberculosis CAS/NITR204   2 1
No Yes Mycobacterium tuberculosis str. Beijing/NITR203   2 1
No Yes Mycobacterium tuberculosis UT205   2 1
No Yes Mycobacterium tuberculosis RGTB327   2 1
No Yes Mycobacterium tuberculosis CTRI-2   2 1
No Yes Mycobacterium tuberculosis str. Erdman = ATCC 35801   2 1
No Yes Mycobacterium tuberculosis KZN 605   2 1
No Yes Mycobacterium tuberculosis KZN 4207   2 1
No Yes Mycobacterium tuberculosis CCDC5180   2 1
No Yes Mycobacterium tuberculosis CCDC5079   2 1
No Yes Mycobacterium tuberculosis CCDC5079   2 1
No Yes Mycobacterium tuberculosis H37Ra   2 1
No Yes Mycobacterium tuberculosis str. Haarlem/NITR202   2 1
No Yes Mycobacterium tuberculosis str. Haarlem   2 1
No Yes Mycobacterium tuberculosis F11   2 1
No Yes Mycobacterium tuberculosis H37Rv   2 1
No Yes Mycobacterium tuberculosis CDC1551   2 1
No Yes Mycobacterium bovis AF2122/97   2 1
No Yes Mycobacterium bovis BCG str. Korea 1168P   2 1
No Yes Mycobacterium bovis BCG str. Mexico   2 1
No Yes Mycobacterium bovis BCG str. Tokyo 172   2 1
No Yes Mycobacterium gilvum Spyr1   2 1
No Yes Mycobacterium smegmatis str. MC2 155   2 1
No Yes Mycobacterium kansasii ATCC 12478   4 3
No Yes Corynebacterium maris DSM 45190   1 1
No Yes Corynebacterium halotolerans YIM 70093 = DSM 44683   1 1
No Yes Corynebacterium terpenotabidum Y-11   1 1
No Yes Corynebacterium urealyticum DSM 7111   1 1
No Yes Corynebacterium callunae DSM 20147   1 1
No Yes Corynebacterium glutamicum MB001   1 1
No Yes Corynebacterium glutamicum SCgG2   1 1
No Yes Corynebacterium glutamicum SCgG1   1 1
No Yes Corynebacterium glutamicum ATCC 13032   1 1
No Yes Corynebacterium glutamicum ATCC 13032   1 1
No Yes Corynebacterium glutamicum ATCC 13032   1 1
No Yes Actinomyces viscosus C505   1 1
No Yes Neisseria meningitidis WUE 2594   1 1
No Yes Neisseria meningitidis G2136   1 1
No Yes Neisseria meningitidis M04-240196   1 1
No Yes Neisseria meningitidis M01-240149   1 1
No Yes Neisseria meningitidis NZ-05/33   1 1
No Yes Neisseria meningitidis M01-240355   1 1
No Yes Neisseria meningitidis 8013   1 1
No Yes Neisseria meningitidis 053442   1 1
No Yes Neisseria meningitidis Z2491   1 1
No Yes Neisseria meningitidis H44/76   1 1
No Yes Neisseria meningitidis alpha710   1 1
No Yes Neisseria meningitidis MC58   2 2
No Yes Neisseria gonorrhoeae TCDC-NG08107   1 1
No Yes Zymomonas mobilis subsp. mobilis ATCC 29191   1 1
No Yes Zymomonas mobilis subsp. mobilis CP4   1 1
No Yes Zymomonas mobilis subsp. mobilis ATCC 10988   1 1
No Yes Zymomonas mobilis subsp. mobilis ZM4   1 1
No Yes Zymomonas mobilis subsp. pomaceae ATCC 29192   1 1
No Yes Mannheimia succiniciproducens MBEL55E   1 1
No Yes Actinobacillus suis H91-0380   1 1
No Yes Actinobacillus pleuropneumoniae serovar 3 str. JL03   1 1
No Yes Actinobacillus pleuropneumoniae serovar 7 str. AP76   1 1
No Yes Aeromonas hydrophila ML09-119   1 1
No Yes Vibrio fischeri ES114   1 1
No Yes Vibrio sp. EJY3   1 1
No Yes Vibrio parahaemolyticus BB22OP   1 1
No Yes Vibrio alginolyticus NBRC 15630 = ATCC 17749   1 1
No Yes Vibrio anguillarum Listonella anguillarum M3   1 1
No Yes Vibrio nigripulchritudo VibrioScope   1 1
No Yes Vibrio vulnificus CMCP6   1 1
No Yes Vibrio vulnificus YJ016   1 1
No Yes Vibrio cholerae LMA3984-4   1 1
No Yes Vibrio cholerae M66-2   1 1
No Yes Vibrio cholerae O395   1 1
No Yes Vibrio cholerae IEC224   1 1
No Yes Vibrio cholerae O1 str. 2010EL-1786   1 1
No Yes Vibrio cholerae MJ-1236   1 1
No Yes Vibrio cholerae O1 biovar El Tor str. N16961   1 1
No Yes Glaciecola psychrophila 170   1 1
No Yes Alteromonas macleodii str. 'Ionian Sea UM4b'   1 1
No Yes Alteromonas macleodii str. 'Ionian Sea UM7'   1 1
No Yes Alteromonas macleodii str. 'Ionian Sea U8'   1 1
No Yes Alteromonas macleodii str. 'Ionian Sea U7'   1 1
No Yes Alteromonas macleodii str. 'Ionian Sea U4'   1 1
No Yes Alteromonas macleodii str. 'Aegean Sea MED64'   1 1
No Yes Alteromonas macleodii str. 'English Channel 615'   1 1
No Yes Alteromonas macleodii AltDE1   1 1
No Yes Alteromonas macleodii str. 'English Channel 673'   1 1
No Yes Alteromonas macleodii str. 'Balearic Sea AD45'   1 1
No Yes Alteromonas macleodii str. 'Black Sea 11'   1 1
No Yes Alteromonas macleodii ATCC 27126   1 1
No Yes Proteus mirabilis BB2000   1 1
No Yes Morganella morganii subsp. morganii KT   1 1
No Yes Rahnella aquatilis HX2   1 1
No Yes Yersinia pseudotuberculosis PB1/+   1 1
No Yes Yersinia pseudotuberculosis YPIII   1 1
No Yes Yersinia pseudotuberculosis IP 32953   1 1
No Yes Yersinia pestis biovar Microtus str. 91001   1 1
No Yes Yersinia pestis A1122   1 1
No Yes Yersinia pestis Z176003   1 1
No Yes Yersinia pestis D182038   1 1
No Yes Yersinia pestis D106004   1 1
No Yes Yersinia pestis biovar Medievalis str. Harbin 35   1 1
No Yes Yersinia pestis Nepal516   1 1
No Yes Yersinia pestis Antiqua   1 1
No Yes Yersinia pestis CO92   1 1
No Yes Yersinia pestis KIM10+   1 1
No Yes Yersinia enterocolitica subsp. palearctica 105.5R(r)   1 1
No Yes Yersinia enterocolitica subsp. palearctica Y11   1 1
No Yes Serratia sp. AS13   1 1
No Yes Serratia plymuthica S13   1 1
No Yes Serratia plymuthica 4Rx13   1 1
No Yes Serratia marcescens FGI94   1 1
No Yes Serratia marcescens WW4   1 1
No Yes Serratia liquefaciens ATCC 27592   1 1
No Yes Dickeya dadantii Ech586   1 1
No Yes Dickeya dadantii 3937   1 1
No Yes Pectobacterium carotovorum subsp. carotovorum PCC21   2 1
No Yes Pantoea ananatis LMG 5342   2 1
No Yes Pantoea ananatis PA13   2 1
No Yes Pantoea ananatis AJ13355   2 1
No Yes Erwinia pyrifoliae DSM 12163   2 1
No Yes Erwinia amylovora CFBP1430   2 1
No Yes Candidatus Moranella endobia PCVAL   1 1
No Yes Cronobacter sakazakii CMCC 45402   2 1
No Yes Cronobacter sakazakii SP291   2 1
No Yes Cronobacter sakazakii ATCC BAA-894   2 1
No Yes Raoultella ornithinolytica B6   2 1
No Yes Shigella sonnei 53G   2 1
No Yes Shigella flexneri 2002017   2 1
No Yes Shigella flexneri 2a str. 2457T   2 1
No Yes Shigella flexneri 2a str. 301   2 1
No Yes Shigella dysenteriae 1617   2 1
No Yes Shigella boydii Sb227   2 1
No Yes Salmonella bongori N268-08   2 1
No Yes Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980   2 1
No Yes Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. 08-1736   2 1
No Yes Salmonella enterica subsp. enterica serovar Javiana str. CFSAN001992   2 1
No Yes Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633   2 1
No Yes Salmonella enterica subsp. enterica Serovar Cubana str. CFSAN002050   2 1
No Yes Salmonella enterica subsp. enterica serovar Enteritidis str. P125109   2 1
No Yes Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67   2 1
No Yes Salmonella enterica subsp. enterica serovar Newport str. USMARC-S3124.1   2 1
No Yes Salmonella enterica subsp. enterica serovar Newport str. SL254   2 1
No Yes Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium var. 5- str. CFSAN001921   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. U288   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. 798   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. T000240   2 1
No Yes Salmonella enterica The genome of subsp. enterica serovar Typhimurium str. DT2   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. D23580   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. LT2   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium Definitive Type 104   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhi str. P-stx-12   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhi str. Ty21a   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhi str. CT18   2 1
No Yes Salmonella enterica subsp. enterica serovar Typhi str. Ty2   2 1
No Yes Salmonella enterica serovar Bovismorbificans genomics   2 1
No Yes Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000189   2 1
No Yes Salmonella enterica subsp. enterica serovar Agona str. 24249   2 1
No Yes Salmonella enterica subsp. enterica serovar Agona str. SL483   2 1
No Yes Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1   2 1
No Yes Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7   2 1
No Yes Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601   2 1
No Yes Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150   2 1
No Yes Salmonella enterica subsp. enterica Serovar Heidelberg str. CFSAN002069   2 1
No Yes Salmonella enterica subsp. enterica serovar Heidelberg str. B182   2 1
No Yes Salmonella enterica subsp. enterica serovar Heidelberg str. 41578   2 1
No Yes Salmonella enterica subsp. enterica serovar Heidelberg str. SL476   2 1
No Yes Salmonella enterica subsp. enterica serovar Pullorum str. S06004   2 1
No Yes Salmonella enterica subsp. enterica serovar Gallinarum/pullorum str. CDC1983-67   2 1
No Yes Salmonella enterica subsp. enterica serovar Gallinarum/pullorum str. RKS5078   2 1
No Yes Salmonella enterica subsp. enterica serovar Thompson str. RM6836   2 1
No Yes Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91   2 1
No Yes Klebsiella oxytoca KCTC 1686   2 1
No Yes Klebsiella pneumoniae JM45   2 1
No Yes Klebsiella pneumoniae CG43   2 1
No Yes Klebsiella pneumoniae KCTC 2242   2 1
No Yes Klebsiella pneumoniae 342   2 1
No Yes Klebsiella pneumoniae subsp. pneumoniae 1084   2 1
No Yes Klebsiella pneumoniae subsp. pneumoniae HS11286   2 1
No Yes Klebsiella pneumoniae subsp. pneumoniae MGH 78578   2 1
No Yes Klebsiella pneumoniae subsp. rhinoscleromatis SB3432   2 1
No Yes Enterobacter aerogenes EA1509E   2 1
No Yes Escherichia coli E24377A   2 1
No Yes Escherichia coli E. coli PMV-1   2 1
No Yes Escherichia coli JJ1886   2 1
No Yes Escherichia coli LY180   2 1
No Yes Escherichia coli APEC O78   2 1
No Yes Escherichia coli O7:K1 str. CE10   2 1
No Yes Escherichia coli O104:H4 str. 2009EL-2050   2 1
No Yes Escherichia coli O104:H4 str. 2009EL-2071   2 1
No Yes Escherichia coli O104:H4 str. 2011C-3493   2 1
No Yes Escherichia coli NA114   2 1
No Yes Escherichia coli P12b   2 1
No Yes Escherichia coli str. 'clone D i2'   2 1
No Yes Escherichia coli str. 'clone D i14'   2 1
No Yes Escherichia coli UM146   2 1
No Yes Escherichia coli 042   2 1
No Yes Escherichia coli Xuzhou21   2 1
No Yes Escherichia coli IHE3034   2 1
No Yes Escherichia coli UMNK88   2 1
No Yes Escherichia coli O83:H1 str. NRG 857C   2 1
No Yes Escherichia coli ABU 83972   2 1
No Yes Escherichia coli KO11FL   2 1
No Yes Escherichia coli KO11FL   2 1
No Yes Escherichia coli LF82   2 1
No Yes Escherichia coli ED1a   2 1
No Yes Escherichia coli IAI39   2 1
No Yes Escherichia coli UMN026   2 1
No Yes Escherichia coli 55989   2 1
No Yes Escherichia coli S88   2 1
No Yes Escherichia coli IAI1   2 1
No Yes Escherichia coli W   2 1
No Yes Escherichia coli W   2 1
No Yes Escherichia coli DH1   2 1
No Yes Escherichia coli DH1   2 1
No Yes Escherichia coli ATCC 8739   2 1
No Yes Escherichia coli BL21(DE3)   2 1
No Yes Escherichia coli BL21(DE3)   2 1
No Yes Escherichia coli SMS-3-5   2 1
No Yes Escherichia coli SE15   2 1
No Yes Escherichia coli SE11   2 1
No Yes Escherichia coli APEC O1   2 1
No Yes Escherichia coli O103:H2 str. 12009   2 1
No Yes Escherichia coli UTI89   2 1
No Yes Escherichia coli 536   2 1
No Yes Escherichia coli HS   2 1
No Yes Escherichia coli ETEC H10407   2 1
No Yes Escherichia coli O55:H7 str. RM12579   2 1
No Yes Escherichia coli O55:H7 str. CB9615   2 1
No Yes Escherichia coli O26:H11 str. 11368   2 1
No Yes Escherichia coli CFT073   2 1
No Yes Escherichia coli O111:H- str. 11128   2 1
No Yes Escherichia coli O127:H6 str. E2348/69   2 1
No Yes Escherichia coli O157:H7 str. TW14359   2 1
No Yes Escherichia coli O157:H7 str. EC4115   2 1
No Yes Escherichia coli O157:H7 str. Sakai   2 1
No Yes Escherichia coli O157:H7 str. EDL933   2 1
No Yes Escherichia coli str. K-12 substr. MDS42   2 1
No Yes Escherichia coli BW2952   2 1
No Yes Escherichia coli str. K-12 substr. MG1655   2 1
No Yes Escherichia coli str. K-12 substr. W3110   2 1
No Yes Escherichia coli B str. REL606   2 1
No Yes Enterobacter cloacae SCF1   2 1
No Yes Enterobacter cloacae EcWSU1   2 1
No Yes Enterobacter cloacae subsp. cloacae ENHKU01   2 1
No Yes Enterobacter cloacae subsp. cloacae NCTC 9394   2 1
No Yes Enterobacter cloacae subsp. cloacae ATCC 13047   2 1
No Yes Lotus japonicus (Early assembly)   2 1
No Yes Malus x domestica (Duplicate) Apple 2 1
No Yes Ricinus communis (Early assembly) Castor bean 2 1
No Yes Nicotiana benthamiana 0.4.4 (Early draft)   9 4
No Yes Solanum pimpinellifolium A-1.0 (Early draft) Currant tomato 4 2
No Yes Solanum lycopersicum v2.3 (Early assembly) Tomato 4 2
No Yes Mycobacterium tuberculosis H37Rv (Duplicate of ex)   2 1
No Yes Vibrio campbellii ATCC BAA-1116 (Duplicate of NC)   1 1
No Yes Arabidopsis thaliana 10 Thale cress 2 1
No Yes 1_050719N (meta-genome)   1 1
No Yes 4_050719Q (meta-genome)   2 1
No Yes 5_050719P (meta-genome)   1 1
No Yes Atta cephalotes fungus garden (ACEF) (meta-genome)   12 8
No Yes Combined (meta-genome)   14 14
No Yes Cyphomyrmex longiscapus fungus garden (meta-genome)   12 9
No Yes Dendroctonus ponderosae beetle community (MPB hybrid beetle) (Lodgepole pine) (meta-genome)   2 2
No Yes Dendroctonus ponderosae fungus gallery (Hybrid pine) (MPB hybrid gallery) (meta-genome)   2 2
No Yes Dump bottom (Dump bottom) (meta-genome)   4 4
No Yes Dump top (Dump top) (meta-genome)   1 1
No Yes Endophytic microbiome from Rice (meta-genome)   1 1
No Yes Fossil microbial community from Whale Fall at Santa Cruz Basin of the Pacific Ocean Sample #1 (meta-genome)   1 1
No Yes Fungus garden combined (combined) (meta-genome)   12 10
No Yes Fungus garden microbial communities from Atta colombica in Panama, sample from fungus garden bottom (Fungus garden bottom) (meta-genome)   11 8
No Yes Fungus garden microbial communities from Atta colombica in Panama, sample from fungus garden top (meta-genome)   17 16
No Yes Maize field bulk soil microbial communities from University of Illinois Energy Farm, Urbana, IL (Bulk soil sample from field growing corn (Zea may (meta-genome)   1 1
No Yes Miscanthus field bulk soil microbial communities from University of Illinois Energy Farm, Urbana, IL (Bulk soil sample from field growing Miscanthu (meta-genome)   1 1
No Yes Mountain Pine Beetle microbial communities from Grand Prairie, Alberta, sample from Hybrid pine (MPB hybrid beetle) (meta-genome)   2 2
No Yes NCBI 2017_08 genome   63813 35701
No Yes simMC - Simulated Medium Complexity Metagenome (meta-genome)   2 2
No Yes Soil microbial communities from sample at FACE Site 1 Maryland Estuary CO2- (Maryland Estuary ambient) (meta-genome)   1 1
No Yes Soil microbial communities from sample at FACE Site 3 Nevada Test Site Creosote CO2+ (meta-genome)   22 22
No Yes Soil microbial communities from sample at FACE Site 3 Nevada Test Site Creosote CO2- (meta-genome)   9 9
No Yes Soil microbial communities from sample at FACE Site 4 Nevada Test Site Crust CO2- (meta-genome)   3 3
No Yes Soil microbial communities from sample at FACE Site 5 Oak Ridge CO2- (Oak Ridge ambient) (meta-genome)   2 2
No Yes STRING v9.0.5 (STRING)   301 203
No Yes Switchgrass soil microbial communities from University of Illinois Energy Farm, Urbana, IL (Rhizosphere soil sample from switchgrass (Panicum virg (meta-genome)   1 1
No Yes Uniprot 2018_03 genome   5515 4004
No Yes Global Ocean Sampling Expedition (GOS)   9 9
No Yes PDB chains (SCOP 1.75) (PDB)   6 3
No Yes Protein Data Bank (all PDB sequenc)   64 41
No Yes SCOP2 SCOPe CATH ECOD (all domain sequ)   190 169
No Yes TargetDB (Targets)   5 3
No Yes The Salmonella enterica Pan-genome (meta-genome)   62 31

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Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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