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  Home > SCOP hierarchy > Domain combination - 53822,_gap_

Domain combinations for 53822,_gap_ superfamilies in groups of genomes

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

53822 - Periplasmic binding protein-like I

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)   11
Pan_troglodytes_76_2.1.4   (Chimpanzee)   3
Gorilla_gorilla_76_3.1   (Western gorilla)   3
Pongo_abelii_76_2   (Sumatran orangutan)   1
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   6
Papio_anubis_76   (Olive baboon)   7
Macaca_mulatta_76_1   (Rhesus monkey)   12
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   9
Otolemur_garnettii_76_3   (Small-eared galago)   7
Microcebus_murinus_76_1   (Gray mouse lemur)   4
Rattus_norvegicus_76_5.0   (Norway rat)   37
Mus_musculus_76_38   (House mouse)   21
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   1
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   4
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   15
Cavia_porcellus_76_3   (Domestic guinea pig)   51
Oryctolagus_cuniculus_76_2   (Rabbit)   56
Ochotona_princeps_76   (American pika)   2
Tupaia_belangeri_76   (Northern tree shrew)   3
Sus_scrofa_76_10.2   (Pig)   9
Bos_taurus_76_3.1   (Cattle)   6
Ovis_aries_76_3.1   (Sheep)   9
Vicugna_pacos_76_1   (Alpaca)   2
Tursiops_truncatus_76_1   (Bottlenose dolphin)   0
Mustela_putorius_furo_76_1.0   (Domestic ferret)   2
Ailuropoda_melanoleuca_76_1   (Giant panda)   4
Canis_familiaris_76_3.1   (Dog)   2
Felis_catus_76_6.2   (Domestic cat)   4
Equus_caballus_76_2   (Horse)   5
Myotis_lucifugus_76_2.0   (Little brown bat)   6
Pteropus_vampyrus_76_1   (Large flying fox)   2
Sorex_araneus_76_1   (European shrew)   2
Erinaceus_europaeus_76   (Western European hedgehog)   3
Procavia_capensis_76_1   (Cape rock hyrax)   1
Loxodonta_africana_76_3   (African savanna elephant)   11
Echinops_telfairi_76   (Small Madagascar hedgehog)   4
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   29
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   4
Macropus_eugenii_76_1.0   (Tammar wallaby)   4
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   26
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   69
Ornithorhynchus_anatinus_76_5   (Platypus)   74
Saccoglossus_kowalevskii_v3.0 28
Petromyzon_marinus_76_7.0   (Sea lamprey)   6
Meleagris_gallopavo_76_2   (Turkey)   6
Gallus_gallus_76_4   (Chicken)   2
Anas_platyrhynchos_76_1.0   (Mallard)   3
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   4
Ficedula_albicollis_76_1.0   (Collared flycatcher)   3
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   3
Anolis_carolinensis_76_2.0   (Green anole)   34
Xenopus_laevis_   (African clawed frog)   1
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   199
Latimeria_chalumnae_76_1   (Coelacanth)   24
Lepisosteus_oculatus_76   (Spotted gar)   16
Gadus_morhua_76_1   (Atlantic cod)   16
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   19
Takifugu_rubripes_76_4   (Torafugu)   61
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   8
Oryzias_latipes_76_1   (Japanese medaka)   18
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   9
Poecilia_formosa_76   (Amazon molly)   5
Oreochromis_niloticus_76_1.0   (Nile tilapia)   11
Astyanax_mexicanus_76   (Mexican tetra)   13
Danio_rerio_76_9   (Zebrafish)   27
Oikopleura_dioica 1
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   8
Ciona_intestinalis_76   (Vase tunicate)   4
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   14
Adineta_vaga 5
Octopus_bimaculoides_280 6
Crassostrea_gigas_22   (Pacific oyster)   6
Lottia_gigantea_   (Owl limpet)   11
Helobdella_robusta_ 6
Capitella_sp._I_ 43
Danaus_plexippus_OGS1.0   (Monarch butterfly)   4
Heliconius_melpomene_   (Postman butterfly)   3
Bombyx_mori_   (Domestic silkworm)   5
Nasonia_vitripennis_   (Jewel wasp)   2
Apis_mellifera_38.2d_(Not_maintained)   (Honey bee)   16
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   6
Linepithema_humile_v1.1   (Argentine ant)   4
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   5
Solenopsis_invicta_v.2.2.3   (Red fire ant)   2
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   4
Atta_cephalotes_v1.1 6
Camponotus_floridanus_v3.3   (Florida carpenter ant)   5
Lucilia_cuprina   (Australian sheep blowfly)   3
Drosophila_grimshawi_1.3 1
Drosophila_willistoni_1.3 1
Drosophila_pseudoobscura_2.13 1
Drosophila_persimilis_1.3 2
Drosophila_suzukii 1
Drosophila_yakuba_1.3 1
Drosophila_simulans_1.3 3
Drosophila_sechellia_1.3 3
Drosophila_melanogaster_76_5   (Fruit fly)   4
Drosophila_erecta_1.3 2
Drosophila_ananassae_1.3 1
Drosophila_virilis_1.2 1
Drosophila_mojavensis_1.3 1
Megaselia_scalaris_22 1
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   2
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   0
Anopheles_darlingi_22   (American malaria mosquito)   1
Anopheles_gambiae_49_3j   (African malaria mosquito)   2
Tribolium_castaneum_3.0   (Red flour beetle)   3
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   3
Acyrthosiphon_pisum_   (Pea aphid)   4
Rhodnius_prolixus_22 5
Daphnia_pulex_   (Common water flea)   2
Strigamia_maritima_22 7
Sarcoptes_scabiei 6
Tetranychus_urticae_   (Two-spotted spider mite)   4
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   7
Pristionchus_pacificus_ 9
Meloidogyne_incognita_   (Southern root-knot nematode)   1
Meloidogyne_hapla_ 1
Onchocerca_volvulus_22 2
Brugia_malayi_WS250   (Agent of lymphatic filariasis)   1
Caenorhabditis_japonica_ 3
Caenorhabditis_brenneri_ 3
Caenorhabditis_remanei_ 2
Caenorhabditis_elegans_76_235   (Roundworm)   3
Caenorhabditis_briggsae_2 3
Trichinella_spiralis_22 1
Hymenolepis_microstoma_ 1
Echinococcus_multilocularis_ 1
Echinococcus_granulosus_ 1
Taenia_solium_   (Pork tapeworm)   2
Schistosoma_mansoni_ 1
Mnemiopsis_leidyi   (Sea walnut)   9
Acropora_digitifera_v1.0 16
Nematostella_vectensis_1.0   (Starlet sea anemone)   17
Hydra_vulgaris 9
Amphimedon_queenslandica 21
Trichoplax_adhaerens_ 38
Proterospongia_sp._ATCC_50818_ 0
Monosiga_brevicollis_ 0
Sphaeroforma_arctica_JP610_ 1
Capsaspora_owczarzaki_ATCC_30864_ 1
Mortierella_verticillata_NRRL_6337_ 2
Phycomyces_blakesleeanus_ 1
Rhizopus_oryzae_RA_99-880_ 0
Mucor_circinelloides_ 2
Rhizomucor_miehei_CAU432_ 2
Catenaria_anguillulae_PL171_v1.0 22
Allomyces_macrogynus_ATCC_38327_ 35
Spizellomyces_punctatus_DAOM_BR117_ 3
Dictyostelium_discoideum 2
Dictyostelium_purpureum_ 0
Selaginella_moellendorffii_ 1
Pinus_taeda   (Loblolly pine)   4
Picea_abies   (Norway spruce)   2
Eucalyptus_grandis_v201   (Rose gum)   4
Theobroma_cacao_B97-61/B2_v1   (Cacao)   0
Gossypium_raimondii_v221 0
Thellungiella_halophila_v173 0
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   0
Capsella_rubella_v183 2
Arabidopsis_thaliana_10   (Thale cress)   0
Cucumis_sativus_v122   (Cucumber)   0
Fragaria_vesca_   (Wild strawberry)   1
Malus_domestica_v196   (Apple)   1
Prunus_persica_v139   (Peach)   0
Manihot_esculenta_v147   (Cassava)   0
Populus_trichocarpa_v156   (Black cottonwood)   4
Mimulus_guttatus_v140   (Spotted monkey flower)   1
Solanum_tuberosum_   (Potato)   9
Triticum_urartu_22 1
Triticum_aestivum_22   (Bread wheat)   2
Aegilops_tauschii_22 0
Oryza_meridionalis_22 1
Oryza_glaberrima   (African rice)   1
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   0
Oryza_sativa_v193   (Rice)   0
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   1
Panicum_virgatum_v202   (Switchgrass)   1
Sorghum_bicolor_   (Sorghum)   0
Musa_acuminata_22   (Wild Malaysian banana)   0
Amborella_trichopoda_22 2
Physcomitrella_patens 1
Volvox_carteri_f._nagariensis_ 0
Volvox_carteri_v199 1
Chlamydomonas_reinhardtii_4.0 0
Thecamonas_trahens_ATCC_50062_ 0
Bigelowiella_natans_CCMP2755_22 3
Cyanophora_paradoxa_ 4
Leishmania_mexicana_2.4 0
Leishmania_major_strain_Friedlin_ 0
Leishmania_infantum_JPCM5_2.4 0
Leishmania_braziliensis_MHOM/BR/75/M2904_2.4 0
Trypanosoma_vivax_ 1
Trypanosoma_cruzi_strain_CL_Brener 1
Trypanosoma_congolense_2.4 4
Trypanosoma_brucei_gambiense_v4.1 1
Trypanosoma_brucei_TREU927_v4.1 0
Ectocarpus_siliculosus 0
Aureococcus_anophagefferens_ 0
Phytophthora_capsici_ 0
Phaeodactylum_tricornutumCCAP_1055/1 3
Fragilariopsis_cylindrus 3
Symbiodinium_minutum_clade_B1_v1.2 0
Naegleria_gruberi_ 0
Guillardia_theta_CCMP2712_v1.0_ 1
Emiliania_huxleyi_CCMP1516_ 6
Leptolyngbya_sp._PCC_7376 0
Pseudanabaena_sp._PCC_7367 0
Synechococcus_sp._PCC_7502 1
Microcoleus_sp._PCC_7113 0
Nostoc_sp._PCC_7120 0
Mycoplasma_bovis_HB0801 0
Mycoplasma_agalactiae_PG2 0
Mycoplasma_synoviae_53 1
Mycoplasma_pulmonis_UAB_CTIP 0
Mycoplasma_hyorhinis_GDL-1 1
Atopobium_parvulum_DSM_20469 1
Thermobispora_bispora_DSM_43833 1
Modestobacter_marinus 1
Blastococcus_saxobsidens_DD2 1
Kineococcus_radiotolerans_SRS30216 0
Catenulispora_acidiphila_DSM_44928 0
Frankia_symbiont_of_Datisca_glomerata 0
Frankia_sp._EAN1pec 1
Frankia_alni_ACN14a 0
Nocardiopsis_dassonvillei_subsp._dassonvillei_DSM_43111 2
Streptomyces_sp._PAMC26508 0
Streptomyces_flavogriseus_ATCC_33331 0
Streptomyces_griseus_subsp._griseus_NBRC_13350 0
Streptomyces_bingchenggensis_BCW-1 1
Streptomyces_violaceusniger_Tu_4113 0
Streptomyces_avermitilis_MA-4680 0
Streptomyces_cattleya_NRRL_8057_=_DSM_46488 0
Streptomyces_hygroscopicus_subsp._jinggangensis_5008 0
Saccharomonospora_viridis_DSM_43017 1
Amycolatopsis_mediterranei_U32 0
Kribbella_flavida_DSM_17836 0
Nocardioides_sp._JS614 1
Micromonospora_sp._L5 0
Micromonospora_aurantiaca_ATCC_27029 0
Gordonia_bronchialis_DSM_43247 1
Rhodococcus_erythropolis_PR4 1
Nocardia_cyriacigeorgica_GUH-2 0
Nocardia_farcinica_IFM_10152 0
Brachybacterium_faecium_DSM_4810 0
Isoptericola_variabilis_225 0
Xylanimonas_cellulosilytica_DSM_15894 0
Cellulomonas_flavigena_DSM_20109 0
Cellulomonas_fimi_ATCC_484 0
[Cellvibrio]_gilvus_ATCC_13127 0
Rothia_mucilaginosa_DY-18 0
Rothia_dentocariosa_ATCC_17931 1
Bifidobacterium_longum_subsp._longum_JDM301 0
Bifidobacterium_animalis_subsp._lactis_Bl-04 0
Bifidobacterium_dentium_Bd1 1
Bifidobacterium_breve_ACS-071-V-Sch8b 0
Bifidobacterium_bifidum_S17 0
Bifidobacterium_adolescentis_ATCC_15703 0
Arcanobacterium_haemolyticum_DSM_20595 1
Caldilinea_aerophila_DSM_14535_=_NBRC_104270 0
Herpetosiphon_aurantiacus_DSM_785 0
Roseiflexus_sp._RS-1 0
Roseiflexus_castenholzii_DSM_13941 0
Chloroflexus_sp._MS-G 0
Chloroflexus_aggregans_DSM_9485 0
Chloroflexus_aurantiacus_J-10-fl 0
Oceanithermus_profundus_DSM_14977 1
Meiothermus_silvanus_DSM_9946 1
Clostridium_clariflavum_DSM_19732 0
Eubacterium_siraeum 0
Clostridium_thermocellum_ATCC_27405 0
Ethanoligenens_harbinense_YUAN-3 1
Ruminococcus_sp. 1
Ruminococcus_albus_7 2
Candidatus_Desulforudis_audaxviator_MP104C 1
Thermincola_potens_JR 1
Pelotomaculum_thermopropionicum_SI 1
Desulfosporosinus_acidiphilus_SJ4 1
Desulfosporosinus_orientis_DSM_765 1
Desulfitobacterium_hafniense_Y51 1
Desulfitobacterium_dehalogenans_ATCC_51507 1
Desulfotomaculum_reducens_MI-1 1
Desulfotomaculum_acetoxidans_DSM_771 1
Desulfotomaculum_kuznetsovii_DSM_6115 0
Desulfotomaculum_carboxydivorans_CO-1-SRB 1
Desulfotomaculum_ruminis_DSM_2154 1
[Ruminococcus]_obeum 0
Eubacterium_rectale_M104/1 1
Eubacterium_rectale_ATCC_33656 1
Coprococcus_sp._ART55/1 1
Roseburia_hominis_A2-183 0
Roseburia_intestinalis 0
Butyrivibrio_proteoclasticus_B316 0
Streptococcus_gallolyticus_UCN34 1
Streptococcus_pasteurianus_ATCC_43144 1
Streptococcus_macedonicus_ACA-DC_198 1
Streptococcus_thermophilus_LMD-9 1
Streptococcus_salivarius_57.I 1
Streptococcus_gordonii_str._Challis_substr._CH1 1
Bacillus_cellulosilyticus_DSM_2522 0
Cyclobacterium_marinum_DSM_745 1
Odoribacter_splanchnicus_DSM_20712 1
Prevotella_ruminicola_23 0
Bacteroides_helcogenes_P_36-108 1
Fibrobacter_succinogenes_subsp._succinogenes_S85 0
Spirochaeta_smaragdinae_DSM_11293 0
Sphaerochaeta_pleomorpha_str._Grapes 1
Sphaerochaeta_globus_str._Buddy 0
Sphaerochaeta_coccoides_DSM_17374 1
Spirochaeta_caldaria_DSM_7334 0
Treponema_brennaborense_DSM_12168 1
Treponema_paraluiscuniculi_Cuniculi_A 1
Treponema_succinifaciens_DSM_2489 1
Treponema_pallidum_subsp._pallidum_SS14 2
Treponema_denticola_ATCC_35405 1
Spirochaeta_thermophila_DSM_6192 0
Desulfurispirillum_indicum_S5 0
Mesotoga_prima_MesG1.Ag.4.2 1
Thermotoga_neapolitana_DSM_4359 1
Dictyoglomus_turgidum_DSM_6724 0
Dictyoglomus_thermophilum_H-6-12 0
Candidatus_Solibacter_usitatus_Ellin6076 0
Leptospirillum_ferrooxidans_C2-3 0
Desulfarculus_baarsii_DSM_2075 0
Desulfococcus_oleovorans_Hxd3 0
Desulfohalobium_retbaense_DSM_5692 1
Desulfovibrio_piezophilus 0
Desulfovibrio_magneticus_RS-1 0
Desulfovibrio_salexigens_DSM_2638 0
Desulfovibrio_desulfuricans_subsp._desulfuricans_str._ATCC_27774 1
Desulfovibrio_africanus_str._Walvis_Bay 0
Haliangium_ochraceum_DSM_14365 1
Sorangium_cellulosum_'So_ce_56' 1
Anaeromyxobacter_sp._Fw109-5 0
Anaeromyxobacter_dehalogenans_2CP-1 0
Stigmatella_aurantiaca_DW4/3-1 0
Corallococcus_coralloides_DSM_2259 0
Myxococcus_xanthus_DK_1622 0
Myxococcus_fulvus_HW-1 0
Dechloromonas_aromatica_RCB 2
Azoarcus_sp._KH32C 1
Azoarcus_sp._BH72 1
Dechlorosoma_suillum_PS 1
Laribacter_hongkongensis_HLHK9 1
Candidatus_Accumulibacter_phosphatis_clade_IIA_str._UW-1 1
Methylibium_petroleiphilum_PM1 1
Thiomonas_arsenitoxydans 2
Thiomonas_intermedia_K12 2
Rubrivivax_gelatinosus_IL144 1
Leptothrix_cholodnii_SP-6 1
Burkholderia_xenovorans_LB400 1
Ralstonia_eutropha_JMP134 1
Cupriavidus_taiwanensis_LMG_19424 1
Cupriavidus_metallidurans_CH34 1
Cupriavidus_necator_N-1 1
Ralstonia_eutropha_H16 1
Burkholderia_pseudomallei_1106a 1
Burkholderia_mallei_SAVP1 1
Verminephrobacter_eiseniae_EF01-2 1
Alicycliphilus_denitrificans_K601 1
Ramlibacter_tataouinensis_TTB310 1
Delftia_sp._Cs1-4 1
Delftia_acidovorans_SPH-1 1
Polaromonas_sp._JS666 1
Polaromonas_naphthalenivorans_CJ2 2
Variovorax_paradoxus_S110 1
Rhodoferax_ferrireducens_T118 1
Acidovorax_ebreus_TPSY 1
Acidovorax_sp._KKS102 1
Acidovorax_sp._JS42 1
Acidovorax_citrulli_AAC00-1 1
Acidovorax_avenae_subsp._avenae_ATCC_19860 2
Comamonas_testosteroni_CNB-2 2
Collimonas_fungivorans_Ter331 1
Herbaspirillum_seropedicae_SmR1 2
Pusillimonas_sp._T7-7 1
Advenella_kashmirensis_WT001 0
Bordetella_petrii_DSM_12804 1
Bordetella_avium_197N 1
Bordetella_bronchiseptica_RB50 1
Achromobacter_xylosoxidans_A8 1
Achromobacter_xylosoxidans 1
Methylotenera_versatilis_301 1
Methylovorus_sp._MP688 1
Methylovorus_glucosetrophus_SIP3-4 1
Parvularcula_bermudensis_HTCC2503 1
Phenylobacterium_zucineum_HLK1 0
Dinoroseobacter_shibae_DFL_12 1
Phaeobacter_gallaeciensis_2.10 1
Pseudovibrio_sp._FO-BEG1 1
Jannaschia_sp._CCS1 1
Ruegeria_sp._TM1040 1
Ruegeria_pomeroyi_DSS-3 2
Roseobacter_litoralis_Och_149 1
Roseobacter_denitrificans_OCh_114 2
Rhodobacter_sphaeroides_ATCC_17029 1
Rhodobacter_capsulatus_SB_1003 1
Paracoccus_denitrificans_PD1222 1
Tistrella_mobilis_KA081020-065 1
Magnetospirillum_magneticum_AMB-1 1
Azospirillum_sp._B510 1
Azospirillum_brasilense_Sp245 1
Gluconacetobacter_xylinus_NBRC_3288 1
Granulibacter_bethesdensis_CGDNIH1 1
Acidiphilium_multivorum_AIU301 1
Acidiphilium_cryptum_JF-5 1
Gluconobacter_oxydans_621H 1
Acetobacter_pasteurianus_IFO_3283-01 1
Polymorphum_gilvum_SL003B-26A1 1
Xanthobacter_autotrophicus_Py2 1
Azorhizobium_caulinodans_ORS_571 0
Methylobacterium_chloromethanicum_CM4 1
Methylobacterium_extorquens_AM1 1
Methylobacterium_sp._4-46 1
Methylobacterium_populi_BJ001 1
Methylobacterium_nodulans_ORS_2060 1
Methylobacterium_radiotolerans_JCM_2831 1
Agrobacterium_tumefaciens_str._C58 0
Agrobacterium_radiobacter_K84 3
Agrobacterium_vitis_S4 3
Mesorhizobium_opportunistum_WSM2075 1
Mesorhizobium_ciceri_biovar_biserrulae_WSM1271 1
Mesorhizobium_loti_MAFF303099 1
Hyphomicrobium_sp._MC1 1
Hyphomicrobium_denitrificans_ATCC_51888 2
Bradyrhizobium_japonicum_USDA_110 1
Bradyrhizobium_sp._ORS_278 1
Saccharophagus_degradans_2-40 1
Teredinibacter_turnerae_T7901 1
Cellvibrio_japonicus_Ueda107 0
Vibrio_furnissii_NCTC_11218 0
Rhodanobacter_denitrificans 0
Halothiobacillus_neapolitanus_c2 0
Xenorhabdus_bovienii_SS-2004 0
Xenorhabdus_nematophila_ATCC_19061 0
Salmonella_enterica_subsp._enterica_serovar_Paratyphi_C_strain_RKS4594 0
Azotobacter_vinelandii_DJ 4
Pseudomonas_sp._TKP 3
Pseudomonas_brassicacearum_subsp._brassicacearum_NFM421 2
Pseudomonas_syringae_pv._tomato_str._DC3000 1
Pseudomonas_putida_F1 2
Pseudomonas_protegens_Pf-5 1
Pseudomonas_fluorescens_SBW25 3
Acinetobacter_oleivorans_DR1 0
Acinetobacter_sp._ADP1 0
Nitrosopumilus_maritimus_SCM1 0
Candidatus_Korarchaeum_cryptofilum_OPF8 1
Pyrolobus_fumarii_1A 1
Hyperthermus_butylicus_DSM_5456 1
Thermogladius_cellulolyticus_1633 2
Ignisphaera_aggregans_DSM_17230 1
Aeropyrum_pernix_K1 1
Ignicoccus_hospitalis_KIN4/I 1
Thermosphaera_aggregans_DSM_11486 2
Staphylothermus_hellenicus_DSM_12710 1
Staphylothermus_marinus_F1 1
Desulfurococcus_mucosus_DSM_2162 1
Sulfolobus_solfataricus_P2 1
Thermofilum_sp._1910b 1
Pyrobaculum_calidifontis_JCM_11548 1
Pyrobaculum_arsenaticum_DSM_13514 1
Pyrobaculum_oguniense_TE7 1
Thermoproteus_neutrophilus_V24Sta 1
Pyrobaculum_aerophilum_str._IM2 1
Pyrobaculum_islandicum_DSM_4184 1
Methanoregula_boonei_6A8 1
Methanospirillum_hungatei_JF-1 1
Ferroglobus_placidus_DSM_10642 1
Archaeoglobus_profundus_DSM_5631 2
Archaeoglobus_veneficus_SNP6 1
Archaeoglobus_fulgidus_DSM_4304 1
Thermococcus_onnurineus_NA1 1
Thermococcus_gammatolerans_EJ3 1
Thermococcus_sibiricus_MM_739 1
Thermococcus_barophilus_MP 2
Pyrococcus_furiosus_COM1 1
Natronomonas_pharaonis_DSM_2160 0

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Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   96
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   4
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   2
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   3
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   3
Batrachochytrium_dendrobatidis_JEL423_ 2
Batrachochytrium_dendrobatidis_JAM81_ 2
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   1
Hordeum_vulgare_22   (Domesticated barley)   10
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   2
Trypanosoma_brucei_Lister_427_v4.1 0
Oscillatoria_nigro-viridis_PCC_7112 0
Oscillatoria_acuminata_PCC_6304 0
Arthrospira_platensis_NIES-39 0
Cyanothece_sp._PCC_7425 0
Mycoplasma_bovis_Hubei-1 0
Mycoplasma_bovis_PG45 0
Mycoplasma_agalactiae 0
Mycoplasma_hyorhinis_SK76 1
Mycoplasma_hyorhinis_MCLD 1
Mycoplasma_hyorhinis_HUB-1 1
Mycoplasma_hyorhinis_DBS_1050 1
Frankia_sp._EuI1c 0
Frankia_sp._CcI3 1
Nocardiopsis_alba_ATCC_BAA-2165 1
Streptomyces_rapamycinicus_NRRL_5491 0
Streptomyces_davawensis_JCM_4913 0
Streptomyces_fulvissimus_DSM_40593 0
Streptomyces_venezuelae_ATCC_10712 1
Streptomyces_collinus_Tu_365 1
Streptomyces_cattleya_NRRL_8057_=_DSM_46488 0
Streptomyces_hygroscopicus_subsp._jinggangensis_TL01 0
Saccharothrix_espanaensis_DSM_44229 0
Amycolatopsis_mediterranei_RB 0
Amycolatopsis_mediterranei_S699 0
Amycolatopsis_mediterranei_S699 0
Amycolatopsis_orientalis_HCCB10007 0
Nocardia_brasiliensis_ATCC_700358 0
Mycobacterium_tuberculosis_CAS/NITR204 1
Mycobacterium_tuberculosis_str._Haarlem/NITR202 1
Leifsonia_xyli_subsp._cynodontis_DSM_46306 0
Bifidobacterium_longum_NCC2705 0
Bifidobacterium_longum_DJO10A 0
Bifidobacterium_longum_subsp._infantis_157F 0
Bifidobacterium_longum_subsp._infantis_ATCC_15697_=_JCM_1222 0
Bifidobacterium_longum_subsp._infantis_ATCC_15697_=_JCM_1222 0
Bifidobacterium_longum_subsp._longum_KACC_91563 0
Bifidobacterium_longum_subsp._longum_BBMN68 0
Bifidobacterium_longum_subsp._longum_F8 0
Bifidobacterium_longum_subsp._longum_JCM_1217 0
Bifidobacterium_thermophilum_RBL67 0
Bifidobacterium_animalis_subsp._animalis_ATCC_25527 0
Bifidobacterium_animalis_subsp._lactis_Bl12 0
Bifidobacterium_animalis_subsp._lactis_B420 0
Bifidobacterium_animalis_subsp._lactis_BLC1 0
Bifidobacterium_animalis_subsp._lactis_CNCM_I-2494 0
Bifidobacterium_animalis_subsp._lactis_Bi-07 0
Bifidobacterium_animalis_subsp._lactis_V9 0
Bifidobacterium_animalis_subsp._lactis_DSM_10140 0
Bifidobacterium_animalis_subsp._lactis_BB-12 0
Bifidobacterium_animalis_subsp._lactis_AD011 0
Bifidobacterium_breve_UCC2003 0
Bifidobacterium_bifidum_PRL2010 0
Bifidobacterium_bifidum_BGN4 0
Deinococcus_peraridilitoris_DSM_19664 0
Eubacterium_siraeum_V10Sc8a 0
Clostridium_thermocellum_DSM_1313 0
Ruminococcus_champanellensis_18P13 0
Desulfosporosinus_meridiei_DSM_13257 1
Desulfitobacterium_dichloroeliminans_LMG_P-21439 1
Desulfitobacterium_hafniense_DCB-2 1
Desulfotomaculum_gibsoniae_DSM_7213 0
Clostridium_saccharolyticum_Clostridium_cf._saccharolyticum_K10 1
Roseburia_intestinalis_XB6B4 0
Streptococcus_gallolyticus_subsp._gallolyticus_ATCC_BAA-2069 1
Streptococcus_gallolyticus_subsp._gallolyticus_ATCC_43143 1
Streptococcus_lutetiensis_033 1
Streptococcus_thermophilus_MN-ZLW-002 1
Streptococcus_thermophilus_JIM_8232 1
Streptococcus_thermophilus_ND03 1
Streptococcus_thermophilus_CNRZ1066 1
Streptococcus_thermophilus_LMG_18311 1
Streptococcus_salivarius_CCHSS3 1
Streptococcus_salivarius_JIM8777 1
Thermobacillus_composti_KWC4 0
Amphibacillus_xylanus_NBRC_15112 0
Bacillus_coagulans_36D1 0
Fibrobacter_succinogenes_subsp._succinogenes_S85 0
Treponema_pedis_str._T_A4 1
Treponema_pallidum_str._Fribourg-Blanc 1
Treponema_pallidum_subsp._pertenue_str._Gauthier 1
Treponema_pallidum_subsp._pertenue_str._CDC2 1
Treponema_pallidum_subsp._pertenue_str._SamoaD 1
Treponema_pallidum_subsp._pallidum_str._Mexico_A 1
Treponema_pallidum_subsp._pallidum_str._Chicago 1
Treponema_pallidum_subsp._pallidum_DAL-1 1
Treponema_pallidum_subsp._pallidum_str._Nichols 1
Spirochaeta_thermophila_DSM_6578 0
Leptospirillum_ferriphilum_ML-04 0
Desulfovibrio_hydrothermalis_AM13_=_DSM_14728 0
Desulfovibrio_vulgaris_RCH1 1
Desulfovibrio_vulgaris_str._Hildenborough 1
Desulfovibrio_gigas_DSM_1382_=_ATCC_19364 1
Desulfovibrio_desulfuricans_ND132 0
Sorangium_cellulosum_So0157-2 3
Anaeromyxobacter_sp._K 0
Anaeromyxobacter_dehalogenans_2CP-C 0
Myxococcus_stipitatus_DSM_14675 0
Burkholderia_phenoliruptrix_BR3459a 1
Pandoraea_pnomenusa_3kgm 1
Burkholderia_sp._KJ006 1
Burkholderia_pseudomallei_NCTC_13179 1
Burkholderia_pseudomallei_BPC006 1
Burkholderia_pseudomallei_668 1
Burkholderia_pseudomallei_1710b 1
Burkholderia_pseudomallei_K96243 1
Burkholderia_mallei_NCTC_10229 1
Burkholderia_mallei_NCTC_10247 1
Candidatus_Symbiobacter_mobilis_Comamonadaceae_bacterium_CR 1
Alicycliphilus_denitrificans_BC 1
Variovorax_paradoxus_B4 1
Variovorax_paradoxus_EPS 2
Bordetella_bronchiseptica_MO149 1
Bordetella_bronchiseptica_253 1
Achromobacter_xylosoxidans_NBRC_15126_=_ATCC_27061 1
Phaeobacter_gallaeciensis_DSM_17395 1
Phaeobacter_gallaeciensis_DSM_26640 1
Leisingera_methylohalidivorans_DSM_14336 2
Octadecabacter_antarcticus_307 1
Rhodobacter_sphaeroides_KD131 1
Rhodobacter_sphaeroides_ATCC_17025 1
Rhodobacter_sphaeroides_2.4.1 1
Paracoccus_aminophilus_JCM_7686 1
Acetobacter_pasteurianus_386B 1
Acetobacter_pasteurianus_IFO_3283-12 1
Acetobacter_pasteurianus_IFO_3283-01-42C 1
Acetobacter_pasteurianus_IFO_3283-32 1
Acetobacter_pasteurianus_IFO_3283-26 1
Acetobacter_pasteurianus_IFO_3283-22 1
Acetobacter_pasteurianus_IFO_3283-07 1
Acetobacter_pasteurianus_IFO_3283-03 1
Methylobacterium_extorquens_DM4 1
Methylobacterium_extorquens_PA1 1
Sinorhizobium_fredii_HH103 1
Rhizobium_etli_bv._mimosae_str._Mim1 1
Rhizobium_tropici_CIAT_899 2
Mesorhizobium_australicum_WSM2073 1
Hyphomicrobium_nitrativorans_NL23 1
Hyphomicrobium_denitrificans_1NES1 2
Bradyrhizobium_sp._BTAi1 2
Bradyrhizobium_oligotrophicum_S58 1
Vibrio_nigripulchritudo_VibrioScope 1
Alcanivorax_dieselolei_B5 1
Salmonella_enterica_subsp._enterica_serovar_Pullorum_str._S06004 0
Azotobacter_vinelandii_CA6 4
Azotobacter_vinelandii_CA 4
Pseudomonas_syringae_pv._phaseolicola_1448A 1
Pseudomonas_putida_DOT-T1E 2
Pseudomonas_putida_ND6 2
Pseudomonas_putida_KT2440 2
Pseudomonas_protegens_CHA0 1
Pseudomonas_fluorescens_F113 2
Aeropyrum_camini_SY1_=_JCM_12091 1
Sulfolobus_islandicus_HVE10/4 0
Thermococcus_sp._CL1 1
Thermococcus_litoralis_DSM_5473 1
Pyrococcus_furiosus_DSM_3638 1

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Longest transcript per gene
Genome     Number
Homo_sapiens_69_37   (Human)   0
Pan_troglodytes_69_2.1.4   (Chimpanzee)   3
Gorilla_gorilla_69_3.1   (Western gorilla)   2
Pongo_abelii_69_2   (Sumatran orangutan)   0
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   6
Macaca_mulatta_69_1   (Rhesus monkey)   4
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   3
Otolemur_garnettii_69_3   (Small-eared galago)   6
Microcebus_murinus_69_1   (Gray mouse lemur)   4
Rattus_norvegicus_69_3.4   (Norway rat)   35
Mus_musculus_69_38   (House mouse)   8
Dipodomys_ordii_69_1   (Ord's kangaroo rat)   1
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   3
Cavia_porcellus_69_3   (Domestic guinea pig)   47
Oryctolagus_cuniculus_69_2   (Rabbit)   58
Ochotona_princeps_69   (American pika)   2
Tupaia_belangeri_69   (Northern tree shrew)   3
Sus_scrofa_69_10.2   (Pig)   9
Bos_taurus_69_3.1   (Cattle)   3
Vicugna_pacos_69_1   (Alpaca)   2
Tursiops_truncatus_69_1   (Bottlenose dolphin)   0
Mustela_putorius_furo_69_1.0   (Domestic ferret)   2
Ailuropoda_melanoleuca_69_1   (Giant panda)   4
Canis_familiaris_69_3.1   (Dog)   0
Felis_catus_69   (Domestic cat)   6
Equus_caballus_69_2   (Horse)   5
Myotis_lucifugus_69_2.0   (Little brown bat)   5
Pteropus_vampyrus_69_1   (Large flying fox)   2
Sorex_araneus_69_1   (European shrew)   2
Erinaceus_europaeus_69   (Western European hedgehog)   3
Procavia_capensis_69_1   (Cape rock hyrax)   1
Loxodonta_africana_69_3   (African savanna elephant)   9
Echinops_telfairi_69   (Small Madagascar hedgehog)   4
Dasypus_novemcinctus_69_2   (Nine-banded armadillo)   3
Choloepus_hoffmanni_69_1   (Hoffmann's two-fingered sloth)   4
Macropus_eugenii_69_1.0   (Tammar wallaby)   4
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   24
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   66
Ornithorhynchus_anatinus_69_5   (Platypus)   57
Petromyzon_marinus_69_7.0   (Sea lamprey)   6
Meleagris_gallopavo_69_2   (Turkey)   5
Gallus_gallus_69_2   (Chicken)   4
Taeniopygia_guttata_69_3.2.4   (Zebra finch)   4
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   2
Anolis_carolinensis_69_2.0   (Green anole)   34
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   176
Latimeria_chalumnae_69_1   (Coelacanth)   22
Gadus_morhua_69_1   (Atlantic cod)   14
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   13
Takifugu_rubripes_69_4   (Torafugu)   8
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   6
Oryzias_latipes_69_1   (Japanese medaka)   10
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   8
Oreochromis_niloticus_69_1.0   (Nile tilapia)   10
Danio_rerio_69_9   (Zebrafish)   6
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   4
Ciona_intestinalis_69   (Vase tunicate)   4
Drosophila_melanogaster_69_5   (Fruit fly)   1
Caenorhabditis_elegans_69_215   (Roundworm)   1
Arabidopsis_thaliana_10   (Thale cress)   0

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Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   12
Homo_sapiens__(NCBI_version)   (Human)   3
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   18
Loa_loa_v3.3_(Request)   (Eye worm)   2
Wuchereria_bancrofti_v1.0_(Request)   (Agent of lymphatic filariasis)   3
Brugia_malayi_v1.0_(Duplicate)   (Agent of lymphatic filariasis)   1
Lotus_japonicus__(Early_assembly) 1
Malus_x_domestica_(Duplicate)   (Apple)   1
Ricinus_communis__(Early_assembly)   (Castor bean)   0
Nicotiana_benthamiana_0.4.4_(Early_draft) 0
NCBI_plasmid_sequences_(Plasmids) 10
PDB_chains_(SCOP_1.75)_(PDB) 1
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 14
Protein_Data_Bank_(all_PDB_sequenc) 46
UniProt__viral_sequences_(Viral) 0
Protozoadb_2010_08_(Protozoadb) 1
TargetDB__(Targets) 9
STRING_v9.0.5_(STRING) 762
Uniprot_2018_03_genome 21498
NCBI_viral_sequences_(Viral) 0
NCBI_2017_08_genome 9132

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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.