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  Home > SCOP hierarchy > Domain combination - _gap_,52200

Domain combinations for _gap_,52200 superfamilies in groups of genomes

The selected domain combination is the occurrence of the following superfamily domains in N- to C-Terminal order:

52200 - Toll/Interleukin receptor TIR domain

Phylogenetic distribution

Other domain architectures with a similar genomic distribution.
See the phylogenetic distribution for this domain architecture.

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Domain combinations in groups of genomes

Click on a group of genomes below to view all sequences containing the chosen domain combination in that group of genomes.

Groups of genomes may be slower than individual genomes.

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Domain combinations in individual genomes

Click on a genome below to view all sequences containing the chosen domain combination (listed below) in that genome.

Complete genomes
Genome     Number
Homo_sapiens_76_38   (Human)   6
Pan_troglodytes_76_2.1.4   (Chimpanzee)   2
Gorilla_gorilla_76_3.1   (Western gorilla)   4
Pongo_abelii_76_2   (Sumatran orangutan)   1
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   1
Papio_anubis_76   (Olive baboon)   2
Macaca_mulatta_76_1   (Rhesus monkey)   3
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   2
Otolemur_garnettii_76_3   (Small-eared galago)   3
Microcebus_murinus_76_1   (Gray mouse lemur)   1
Rattus_norvegicus_76_5.0   (Norway rat)   2
Mus_musculus_76_38   (House mouse)   6
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   2
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   3
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   1
Cavia_porcellus_76_3   (Domestic guinea pig)   2
Oryctolagus_cuniculus_76_2   (Rabbit)   2
Ochotona_princeps_76   (American pika)   1
Tupaia_belangeri_76   (Northern tree shrew)   1
Sus_scrofa_76_10.2   (Pig)   3
Bos_taurus_76_3.1   (Cattle)   2
Ovis_aries_76_3.1   (Sheep)   3
Vicugna_pacos_76_1   (Alpaca)   1
Tursiops_truncatus_76_1   (Bottlenose dolphin)   0
Mustela_putorius_furo_76_1.0   (Domestic ferret)   1
Ailuropoda_melanoleuca_76_1   (Giant panda)   3
Canis_familiaris_76_3.1   (Dog)   2
Felis_catus_76_6.2   (Domestic cat)   1
Equus_caballus_76_2   (Horse)   1
Myotis_lucifugus_76_2.0   (Little brown bat)   3
Pteropus_vampyrus_76_1   (Large flying fox)   2
Sorex_araneus_76_1   (European shrew)   3
Erinaceus_europaeus_76   (Western European hedgehog)   2
Procavia_capensis_76_1   (Cape rock hyrax)   1
Loxodonta_africana_76_3   (African savanna elephant)   1
Echinops_telfairi_76   (Small Madagascar hedgehog)   1
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   2
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   3
Macropus_eugenii_76_1.0   (Tammar wallaby)   0
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   1
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   1
Ornithorhynchus_anatinus_76_5   (Platypus)   3
Saccoglossus_kowalevskii_v3.0 2
Petromyzon_marinus_76_7.0   (Sea lamprey)   0
Meleagris_gallopavo_76_2   (Turkey)   2
Gallus_gallus_76_4   (Chicken)   1
Anas_platyrhynchos_76_1.0   (Mallard)   2
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   3
Ficedula_albicollis_76_1.0   (Collared flycatcher)   1
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   2
Anolis_carolinensis_76_2.0   (Green anole)   2
Xenopus_laevis_   (African clawed frog)   1
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   1
Latimeria_chalumnae_76_1   (Coelacanth)   0
Lepisosteus_oculatus_76   (Spotted gar)   2
Gadus_morhua_76_1   (Atlantic cod)   0
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   1
Takifugu_rubripes_76_4   (Torafugu)   2
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   0
Oryzias_latipes_76_1   (Japanese medaka)   1
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   2
Poecilia_formosa_76   (Amazon molly)   2
Oreochromis_niloticus_76_1.0   (Nile tilapia)   1
Astyanax_mexicanus_76   (Mexican tetra)   3
Danio_rerio_76_9   (Zebrafish)   1
Oikopleura_dioica 0
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   1
Ciona_intestinalis_76   (Vase tunicate)   2
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   19
Adineta_vaga 7
Octopus_bimaculoides_280 4
Crassostrea_gigas_22   (Pacific oyster)   14
Lottia_gigantea_   (Owl limpet)   3
Helobdella_robusta_ 0
Capitella_sp._I_ 12
Danaus_plexippus_OGS1.0   (Monarch butterfly)   0
Heliconius_melpomene_   (Postman butterfly)   0
Bombyx_mori_   (Domestic silkworm)   0
Apis_mellifera_38.2d_(Not_maintained)   (Honey bee)   0
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   0
Linepithema_humile_v1.1   (Argentine ant)   0
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   0
Solenopsis_invicta_v.2.2.3   (Red fire ant)   0
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   0
Atta_cephalotes_v1.1 0
Camponotus_floridanus_v3.3   (Florida carpenter ant)   0
Lucilia_cuprina   (Australian sheep blowfly)   0
Drosophila_grimshawi_1.3 0
Drosophila_willistoni_1.3 2
Drosophila_pseudoobscura_2.13 0
Drosophila_persimilis_1.3 0
Drosophila_suzukii 0
Drosophila_yakuba_1.3 1
Drosophila_simulans_1.3 0
Drosophila_sechellia_1.3 1
Drosophila_melanogaster_76_5   (Fruit fly)   0
Drosophila_erecta_1.3 0
Drosophila_ananassae_1.3 0
Drosophila_virilis_1.2 0
Drosophila_mojavensis_1.3 0
Megaselia_scalaris_22 2
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   0
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   0
Anopheles_darlingi_22   (American malaria mosquito)   0
Anopheles_gambiae_49_3j   (African malaria mosquito)   0
Tribolium_castaneum_3.0   (Red flour beetle)   0
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   0
Acyrthosiphon_pisum_   (Pea aphid)   0
Rhodnius_prolixus_22 0
Daphnia_pulex_   (Common water flea)   0
Strigamia_maritima_22 2
Sarcoptes_scabiei 0
Tetranychus_urticae_   (Two-spotted spider mite)   0
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   1
Pristionchus_pacificus_ 0
Meloidogyne_incognita_   (Southern root-knot nematode)   0
Meloidogyne_hapla_ 0
Onchocerca_volvulus_22 0
Brugia_malayi_WS250   (Agent of lymphatic filariasis)   0
Caenorhabditis_japonica_ 0
Caenorhabditis_brenneri_ 0
Caenorhabditis_elegans_76_235   (Roundworm)   0
Caenorhabditis_briggsae_2 0
Taenia_solium_   (Pork tapeworm)   0
Schistosoma_mansoni_ 2
Mnemiopsis_leidyi   (Sea walnut)   1
Acropora_digitifera_v1.0 9
Nematostella_vectensis_1.0   (Starlet sea anemone)   0
Hydra_vulgaris 2
Amphimedon_queenslandica 1
Trichoplax_adhaerens_ 0
Proterospongia_sp._ATCC_50818_ 1
Monosiga_brevicollis_ 0
Capsaspora_owczarzaki_ATCC_30864_ 0
Dictyostelium_discoideum 1
Dictyostelium_purpureum_ 1
Pinus_taeda   (Loblolly pine)   19
Picea_abies   (Norway spruce)   6
Eucalyptus_grandis_v201   (Rose gum)   16
Theobroma_cacao_B97-61/B2_v1   (Cacao)   1
Gossypium_raimondii_v221 1
Citrus_clementina_v165 2
Citrus_sinensis_v154   (Sweet orange)   1
Thellungiella_halophila_v173 2
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   3
Capsella_rubella_v183 3
Arabidopsis_lyrata_   (Lyrate rockcress)   1
Arabidopsis_thaliana_10   (Thale cress)   1
Carica_papaya_   (Papaya)   0
Medicago_truncatula_   (Barrel medic)   9
Phaseolus_vulgaris_v186   (French bean)   0
Glycine_max_v109   (Soybean)   0
Cucumis_sativus_v122   (Cucumber)   0
Fragaria_vesca_   (Wild strawberry)   10
Malus_domestica_v196   (Apple)   31
Prunus_persica_v139   (Peach)   1
Linum_usitatissimum_v200   (Flax)   5
Manihot_esculenta_v147   (Cassava)   0
Populus_trichocarpa_v156   (Black cottonwood)   4
Vitis_vinifera_   (Wine grape)   0
Mimulus_guttatus_v140   (Spotted monkey flower)   0
Solanum_lycopersicum_v.2.3   (Tomato)   0
Solanum_tuberosum_   (Potato)   1
Actinidia_chinensis_Hongyang_ 1
Aquilegia_coerulea_v195 0
Triticum_urartu_22 0
Triticum_aestivum_22   (Bread wheat)   3
Aegilops_tauschii_22 0
Brachypodium_distachyon_   (Stiff brome)   1
Oryza_barthii_22   (African wild rice)   1
Oryza_meridionalis_22 1
Oryza_glumaepatula_22 1
Oryza_glaberrima   (African rice)   1
Oryza_punctata_22 1
Oryza_nivara_22 1
Oryza_brachyantha_22   (Malo sina)   1
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   2
Oryza_sativa_v193   (Rice)   2
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   0
Panicum_virgatum_v202   (Switchgrass)   1
Setaria_italica_v164   (Foxtail millet)   1
Zea_mays_subsp._mays_   (Maize)   2
Zea_mays_v181   (Maize)   2
Sorghum_bicolor_   (Sorghum)   1
Musa_balbisiana   (Balbis banana)   1
Musa_acuminata_22   (Wild Malaysian banana)   1
Amborella_trichopoda_22 0
Physcomitrella_patens 0
Volvox_carteri_f._nagariensis_ 1
Volvox_carteri_v199 0
Chlamydomonas_reinhardtii_4.0 1
Micromonas_pusilla_CCMP1545_v3.0 1
Cyanidioschyzon_merolae_strain_10D_22 0
Cyanidioschyzon_merolae 0
Porphyridium_purpureum_02_2012 0
Thecamonas_trahens_ATCC_50062_ 1
Bigelowiella_natans_CCMP2755_22 0
Cyanophora_paradoxa_ 9
Aureococcus_anophagefferens_ 1
Albugo_laibachii_22 0
Pythium_iwayamai_DAOM_BR242034_22 0
Pythium_arrhenomanes_ATCC_12531_22 0
Pythium_ultimum_v1.7-2 2
Pythium_aphanidermatum_DAOM_BR444_22 0
Pythium_irregulare_DAOM_BR486_22 0
Pythium_vexans_DAOM_BR484_22 0
Phytophthora_ramorum_1.1   (Sudden oak death agent)   0
Phytophthora_sojae_1.1 0
Phytophthora_infestans_T30-4_ 0
Phytophthora_capsici_ 1
Hyaloperonospora_arabidopsidis_22 0
Perkinsus_marinus_ATCC_50983_ 0
Symbiodinium_minutum_clade_B1_v1.2 0
Guillardia_theta_CCMP2712_v1.0_ 0
Emiliania_huxleyi_CCMP1516_ 2
Leptolyngbya_sp._PCC_7376 0
Acaryochloris_marina_MBIC11017 2
Microcoleus_sp._PCC_7113 0
Trichodesmium_erythraeum_IMS101 0
Cyanothece_sp._PCC_8802 2
Rivularia_sp._PCC_7116 0
Calothrix_sp._PCC_7507 1
Anabaena_variabilis_ATCC_29413 0
Nostoc_punctiforme_PCC_73102 1
Nostoc_sp._PCC_7120 0
Anabaena_sp._90 0
Slackia_heliotrinireducens_DSM_20476 0
Modestobacter_marinus 1
Geodermatophilus_obscurus_DSM_43160 0
Frankia_symbiont_of_Datisca_glomerata 1
Frankia_sp._EAN1pec 0
Frankia_alni_ACN14a 2
Streptosporangium_roseum_DSM_43021 0
Kitasatospora_setae_KM-6054 0
Streptomyces_coelicolor_A3(2) 0
Streptomyces_griseus_subsp._griseus_NBRC_13350 0
Streptomyces_violaceusniger_Tu_4113 0
Actinoplanes_sp._N902-109 0
Tsukamurella_paurometabola_DSM_20162 0
Gordonia_sp._KTR9 0
Rhodococcus_jostii_RHA1 0
Rhodococcus_opacus_B4 1
Arthrobacter_chlorophenolicus_A6 0
Arthrobacter_sp._Rue61a 0
Eubacterium_siraeum 0
Ethanoligenens_harbinense_YUAN-3 0
Desulfosporosinus_acidiphilus_SJ4 1
Desulfitobacterium_hafniense_Y51 1
Desulfotomaculum_ruminis_DSM_2154 1
Eubacterium_eligens_ATCC_27750 0
Eubacterium_rectale_ATCC_33656 1
Syntrophomonas_wolfei_subsp._wolfei_str._Goettingen 0
Clostridium_beijerinckii_NCIMB_8052 1
Clostridium_cellulovorans_743B 0
Thermoanaerobacterium_thermosaccharolyticum_DSM_571 1
Leuconostoc_mesenteroides_subsp._mesenteroides_ATCC_8293 0
Lactobacillus_crispatus_ST1 0
Paenibacillus_terrae_HPL-003 2
Geobacillus_thermoleovorans_CCB_US3_UF5 1
Bacillus_sp._1NLA3E 1
Bacillus_subtilis_subsp._subtilis_str._168 1
Bacillus_pseudofirmus_OF4 1
Bacillus_cellulosilyticus_DSM_2522 1
Pelodictyon_phaeoclathratiforme_BU-1 1
Chlorobium_phaeobacteroides_DSM_266 0
Chlorobium_limicola_DSM_245 1
Chlorobaculum_parvum_NCIB_8327 0
Prosthecochloris_aestuarii_DSM_271 0
Haliscomenobacter_hydrossis_DSM_1100 2
Niastella_koreensis_GR20-10 0
Flexibacter_litoralis_DSM_6794 1
Leadbetterella_byssophila_DSM_17132 1
Bacteroides_sp._CF50 1
Prevotella_denticola_F0289 0
Porphyromonas_gingivalis_ATCC_33277 0
Bacteroides_vulgatus_ATCC_8482 0
Aequorivita_sublithincola_DSM_14238 0
Muricauda_ruestringensis_DSM_13258 1
Capnocytophaga_ochracea_DSM_7271 0
Planctomyces_limnophilus_DSM_3776 2
Rhodopirellula_baltica_SH_1 1
Opitutus_terrae_PB90-1 0
Turneriella_parva_DSM_21527 1
Spirochaeta_smaragdinae_DSM_11293 0
Sphaerochaeta_globus_str._Buddy 0
Treponema_denticola_ATCC_35405 0
Candidatus_Solibacter_usitatus_Ellin6076 1
Granulicella_tundricola_MP5ACTX9 1
Candidatus_Koribacter_versatilis_Ellin345 0
Terriglobus_saanensis_SP1PR4 1
Candidatus_Nitrospira_defluvii 1
Candidatus_Methylomirabilis_oxyfera 1
Acidithiobacillus_ferrooxidans_ATCC_53993 0
Helicobacter_pylori_B38 1
Sulfurovum_sp._NBC37-1 2
Syntrophus_aciditrophicus_SB 1
Desulfobacterium_autotrophicum_HRM2 0
Desulfococcus_oleovorans_Hxd3 1
Geobacter_daltonii_FRC-32 1
Geobacter_lovleyi_SZ 0
Geobacter_metallireducens_GS-15 0
Pelobacter_carbinolicus_DSM_2380 0
Sorangium_cellulosum_'So_ce_56' 0
Anaeromyxobacter_sp._Fw109-5 1
Stigmatella_aurantiaca_DW4/3-1 0
Dechloromonas_aromatica_RCB 1
Thauera_sp._MZ1T 1
Azoarcus_sp._BH72 1
Dechlorosoma_suillum_PS 1
Candidatus_Accumulibacter_phosphatis_clade_IIA_str._UW-1 2
Rubrivivax_gelatinosus_IL144 1
Burkholderia_gladioli_BSR3 0
Alicycliphilus_denitrificans_K601 0
Polaromonas_sp._JS666 1
Rhodoferax_ferrireducens_T118 0
Acidovorax_ebreus_TPSY 0
Acidovorax_sp._KKS102 0
Acidovorax_sp._JS42 0
Acidovorax_citrulli_AAC00-1 0
Herminiimonas_arsenicoxydans 0
Janthinobacterium_sp._Marseille 1
Caulobacter_sp._K31 1
Sphingobium_japonicum_UT26S 0
Sphingomonas_wittichii_RW1 0
Paracoccus_denitrificans_PD1222 1
Rhodospirillum_photometricum_DSM_122 0
Tistrella_mobilis_KA081020-065 1
Azospirillum_lipoferum_4B 0
Methylobacterium_chloromethanicum_CM4 0
Parvibaculum_lavamentivorans_DS-1 1
Brucella_microti_CCM_4915 1
Brucella_pinnipedialis_B2/94 2
Brucella_canis_ATCC_23365 1
Brucella_suis_ATCC_23445 2
Brucella_melitensis_ATCC_23457 2
Brucella_ovis_ATCC_25840 2
Brucella_abortus_S19 2
Sinorhizobium_fredii_NGR234 0
Sinorhizobium_medicae_WSM419 0
Agrobacterium_sp._H13-3 1
Beijerinckia_indica_subsp._indica_ATCC_9039 0
Oligotropha_carboxidovorans_OM4 0
Nitrobacter_winogradskyi_Nb-255 0
Bradyrhizobium_sp._ORS_278 0
Shewanella_denitrificans_OS217 1
Shewanella_pealeana_ATCC_700345 1
Marinomonas_mediterranea_MMB-1 0
Methylomonas_methanica_MC09 3
Thiocystis_violascens_DSM_198 1
Yersinia_pseudotuberculosis_IP_31758 1
Yersinia_pestis_Pestoides_F 0
Pectobacterium_wasabiae_WPP163 0
Pectobacterium_sp._SCC3193 1
Pseudomonas_fulva_12-X 1
Psychrobacter_sp._G 0
Methanocella_paludicola_SANAE 1
Methanosarcina_barkeri_str._Fusaro 0
Methanoplanus_petrolearius_DSM_11571 1
Methanobrevibacter_ruminantium_M1 0

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Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   2
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   0
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   0
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   0
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   0
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   0
Hordeum_vulgare_22   (Domesticated barley)   0
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   1
Synechococcus_sp._JA-3-3Ab 0
Oscillatoria_nigro-viridis_PCC_7112 0
Cyanothece_sp._PCC_7822 0
Cyanothece_sp._PCC_7424 0
Cyanothece_sp._PCC_8801 3
Cylindrospermum_stagnale_PCC_7417 1
Frankia_sp._EuI1c 2
Frankia_sp._CcI3 0
Streptomyces_venezuelae_ATCC_10712 0
Saccharothrix_espanaensis_DSM_44229 3
Eubacterium_siraeum_V10Sc8a 1
Ruminococcus_champanellensis_18P13 0
Coprococcus_catus_GD/7 1
Enterococcus_mundtii_QU_25 1
Enterococcus_faecium_DO 0
Leuconostoc_mesenteroides_subsp._mesenteroides_J18 1
Paenibacillus_sp._Y412MC10 0
Bacillus_subtilis_subsp._subtilis_6051-HGW 1
Bacillus_cereus_FRI-35 1
Bacillus_cereus_AH187 1
Bacillus_cereus_NC7401 1
Staphylococcus_aureus_subsp._aureus_MSHR1132 1
Staphylococcus_aureus_08BA02176 1
Staphylococcus_aureus_subsp._aureus_71193 1
Staphylococcus_aureus_subsp._aureus_S0385 1
Staphylococcus_aureus_subsp._aureus_MSSA476 1
Porphyromonas_gingivalis_TDC60 0
Porphyromonas_gingivalis_W83 0
Bacteroides_xylanisolvens_XB1A 0
Nonlabens_dokdonensis_DSW-6 1
Arcobacter_butzleri_7h1h 1
Campylobacter_jejuni_Waterborne_C.jejuni_Outbreak 1
Helicobacter_pylori_SouthAfrica20 1
Helicobacter_pylori_UM298 1
Helicobacter_pylori_UM299 1
Helicobacter_pylori_UM032 1
Helicobacter_pylori_Rif2 1
Helicobacter_pylori_Rif1 1
Helicobacter_pylori_HUP-B14 1
Helicobacter_pylori_Shi112 1
Helicobacter_pylori_Aklavik86 1
Helicobacter_pylori_Puno120 1
Helicobacter_pylori_ELS37 1
Helicobacter_pylori_Gambia94/24 1
Helicobacter_pylori_SouthAfrica7 1
Helicobacter_pylori_India7 1
Helicobacter_pylori_F30 1
Helicobacter_pylori_Sat464 1
Helicobacter_pylori_Cuz20 1
Helicobacter_pylori_PeCan4 1
Helicobacter_pylori_SJM180 1
Helicobacter_pylori_G27 1
Helicobacter_pylori_Shi470 1
Helicobacter_pylori_26695 1
Helicobacter_pylori_26695 1
Sorangium_cellulosum_So0157-2 0
Ralstonia_solanacearum_GMI1000 0
Burkholderia_sp._YI23 1
Burkholderia_ambifaria_MC40-6 1
Candidatus_Symbiobacter_mobilis_Comamonadaceae_bacterium_CR 2
Zymomonas_mobilis_subsp._mobilis_ATCC_29191 1
Rhodobacter_sphaeroides_2.4.1 1
Methylobacterium_extorquens_PA1 0
Brucella_ceti_TE10759-12 2
Brucella_ceti_TE28753-12 2
Brucella_canis_HSK_A52141 1
Brucella_suis_VBI22 1
Brucella_suis_1330 1
Brucella_suis_1330 1
Brucella_melitensis_NI 2
Brucella_melitensis_M5-90 2
Brucella_melitensis_M28 2
Brucella_melitensis_bv._1_str._16M 2
Brucella_abortus_A13334 2
Brucella_melitensis_biovar_Abortus_2308 2
Brucella_abortus_bv._1_str._9-941 2
Sinorhizobium_fredii_HH103 1
Oligotropha_carboxidovorans_OM5 0
Oligotropha_carboxidovorans_OM5 0
Bradyrhizobium_sp._BTAi1 1
Vibrio_vulnificus_CMCP6 1
Shewanella_baltica_OS223 1
Xanthomonas_axonopodis_pv._citrumelo_F1 1
Thioalkalivibrio_nitratireducens_DSM_14787 1
Thioflavicoccus_mobilis_8321 0
Rahnella_aquatilis_HX2 0
Yersinia_pseudotuberculosis_PB1/+ 0
Yersinia_pseudotuberculosis_YPIII 1
Yersinia_pestis_A1122 0
Yersinia_pestis_Z176003 0
Yersinia_pestis_D182038 0
Yersinia_pestis_D106004 0
Yersinia_pestis_biovar_Medievalis_str._Harbin_35 0
Yersinia_pestis_Nepal516 0
Yersinia_pestis_Antiqua 0
Yersinia_pestis_CO92 0
Yersinia_pestis_KIM10+ 0
Yersinia_enterocolitica_subsp._palearctica_105.5R(r) 0
Yersinia_enterocolitica_subsp._palearctica_Y11 0
Salmonella_enterica_subsp._enterica_serovar_Enteritidis_str._P125109 1
Salmonella_enterica_subsp._enterica_serovar_Dublin_str._CT_02021853 1
Salmonella_enterica_subsp._enterica_serovar_Pullorum_str._S06004 1
Salmonella_enterica_subsp._enterica_serovar_Gallinarum/pullorum_str._CDC1983-67 1
Salmonella_enterica_subsp._enterica_serovar_Gallinarum/pullorum_str._RKS5078 1
Salmonella_enterica_subsp._enterica_serovar_Gallinarum_str._287/91 1
Escherichia_coli_str._'clone_D_i2' 1
Escherichia_coli_str._'clone_D_i14' 1
Escherichia_coli_536 1
Escherichia_coli_CFT073 1
Pseudomonas_putida_W619 1
Acinetobacter_baumannii_BJAB0715 2
Acinetobacter_baumannii_D1279779 0
Acinetobacter_junii__SH205 1
Acinetobacter_johnsonii__SH046 1
Acinetobacter_lwoffii__SH145 1

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Longest transcript per gene
Genome     Number
Homo_sapiens_69_37   (Human)   1
Pan_troglodytes_69_2.1.4   (Chimpanzee)   2
Gorilla_gorilla_69_3.1   (Western gorilla)   2
Pongo_abelii_69_2   (Sumatran orangutan)   1
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   1
Macaca_mulatta_69_1   (Rhesus monkey)   1
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   1
Otolemur_garnettii_69_3   (Small-eared galago)   2
Microcebus_murinus_69_1   (Gray mouse lemur)   1
Rattus_norvegicus_69_3.4   (Norway rat)   2
Mus_musculus_69_38   (House mouse)   2
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   2
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   2
Cavia_porcellus_69_3   (Domestic guinea pig)   2
Oryctolagus_cuniculus_69_2   (Rabbit)   1
Ochotona_princeps_69   (American pika)   1
Tupaia_belangeri_69   (Northern tree shrew)   1
Sus_scrofa_69_10.2   (Pig)   3
Bos_taurus_69_3.1   (Cattle)   2
Vicugna_pacos_69_1   (Alpaca)   1
Tursiops_truncatus_69_1   (Bottlenose dolphin)   0
Mustela_putorius_furo_69_1.0   (Domestic ferret)   1
Ailuropoda_melanoleuca_69_1   (Giant panda)   2
Canis_familiaris_69_3.1   (Dog)   1
Felis_catus_69   (Domestic cat)   1
Equus_caballus_69_2   (Horse)   1
Myotis_lucifugus_69_2.0   (Little brown bat)   3
Pteropus_vampyrus_69_1   (Large flying fox)   2
Sorex_araneus_69_1   (European shrew)   3
Erinaceus_europaeus_69   (Western European hedgehog)   2
Procavia_capensis_69_1   (Cape rock hyrax)   1
Loxodonta_africana_69_3   (African savanna elephant)   1
Echinops_telfairi_69   (Small Madagascar hedgehog)   1
Dasypus_novemcinctus_69_2   (Nine-banded armadillo)   2
Choloepus_hoffmanni_69_1   (Hoffmann's two-fingered sloth)   3
Macropus_eugenii_69_1.0   (Tammar wallaby)   0
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   1
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   1
Ornithorhynchus_anatinus_69_5   (Platypus)   3
Petromyzon_marinus_69_7.0   (Sea lamprey)   0
Meleagris_gallopavo_69_2   (Turkey)   1
Gallus_gallus_69_2   (Chicken)   1
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   3
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   2
Anolis_carolinensis_69_2.0   (Green anole)   2
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   1
Latimeria_chalumnae_69_1   (Coelacanth)   0
Gadus_morhua_69_1   (Atlantic cod)   0
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   1
Takifugu_rubripes_69_4   (Torafugu)   2
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   0
Oryzias_latipes_69_1   (Japanese medaka)   1
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   2
Oreochromis_niloticus_69_1.0   (Nile tilapia)   1
Danio_rerio_69_9   (Zebrafish)   1
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   1
Ciona_intestinalis_69   (Vase tunicate)   2
Drosophila_melanogaster_69_5   (Fruit fly)   0
Caenorhabditis_elegans_69_215   (Roundworm)   0
Arabidopsis_thaliana_10   (Thale cress)   1

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Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   6
Homo_sapiens__(NCBI_version)   (Human)   3
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   2
Heliconius_numata__(Incomplete) 1
Loa_loa_v3.3_(Request)   (Eye worm)   0
Lotus_japonicus__(Early_assembly) 10
Malus_x_domestica_(Duplicate)   (Apple)   31
Ricinus_communis__(Early_assembly)   (Castor bean)   0
Nicotiana_benthamiana_0.4.4_(Early_draft) 0
Solanum_pimpinellifolium_A-1.0_(Early_draft)   (Currant tomato)   0
Solanum_lycopersicum_v2.3_(Early_assembly)   (Tomato)   0
Phoenix_dactylifera__(Early_draft)   (Date palm)   0
NCBI_plasmid_sequences_(Plasmids) 19
STRING_v9.0.5_(STRING) 180
Uniprot_2018_03_genome 7347
NCBI_viral_sequences_(Viral) 1
NCBI_2017_08_genome 7350
Protein_Data_Bank_(all_PDB_sequenc) 18
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 1
TargetDB__(Targets) 4

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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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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.