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Domain combinations for _gap_,82199,81822 superfamilies in groups of genomes

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

82199 - SET domain
81822 - RuBisCo LSMT C-terminal, substrate-binding 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)   1
Pan_troglodytes_76_2.1.4   (Chimpanzee)   0
Gorilla_gorilla_76_3.1   (Western gorilla)   1
Pongo_abelii_76_2   (Sumatran orangutan)   0
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   0
Papio_anubis_76   (Olive baboon)   0
Macaca_mulatta_76_1   (Rhesus monkey)   1
Callithrix_jacchus_76_3.2.1   (White-tufted-ear marmoset)   0
Otolemur_garnettii_76_3   (Small-eared galago)   0
Microcebus_murinus_76_1   (Gray mouse lemur)   2
Rattus_norvegicus_76_5.0   (Norway rat)   1
Mus_musculus_76_38   (House mouse)   1
Dipodomys_ordii_76_1   (Ord's kangaroo rat)   2
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   2
Cavia_porcellus_76_3   (Domestic guinea pig)   1
Oryctolagus_cuniculus_76_2   (Rabbit)   1
Ochotona_princeps_76   (American pika)   0
Tupaia_belangeri_76   (Northern tree shrew)   0
Sus_scrofa_76_10.2   (Pig)   2
Bos_taurus_76_3.1   (Cattle)   0
Ovis_aries_76_3.1   (Sheep)   1
Vicugna_pacos_76_1   (Alpaca)   0
Tursiops_truncatus_76_1   (Bottlenose dolphin)   1
Mustela_putorius_furo_76_1.0   (Domestic ferret)   0
Ailuropoda_melanoleuca_76_1   (Giant panda)   1
Canis_familiaris_76_3.1   (Dog)   1
Felis_catus_76_6.2   (Domestic cat)   0
Equus_caballus_76_2   (Horse)   0
Myotis_lucifugus_76_2.0   (Little brown bat)   0
Pteropus_vampyrus_76_1   (Large flying fox)   2
Erinaceus_europaeus_76   (Western European hedgehog)   1
Procavia_capensis_76_1   (Cape rock hyrax)   2
Loxodonta_africana_76_3   (African savanna elephant)   1
Echinops_telfairi_76   (Small Madagascar hedgehog)   1
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   0
Choloepus_hoffmanni_76_1   (Hoffmann's two-fingered sloth)   1
Macropus_eugenii_76_1.0   (Tammar wallaby)   1
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   0
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   1
Petromyzon_marinus_76_7.0   (Sea lamprey)   2
Meleagris_gallopavo_76_2   (Turkey)   0
Gallus_gallus_76_4   (Chicken)   0
Anas_platyrhynchos_76_1.0   (Mallard)   1
Taeniopygia_guttata_76_3.2.4   (Zebra finch)   0
Ficedula_albicollis_76_1.0   (Collared flycatcher)   1
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   0
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   0
Latimeria_chalumnae_76_1   (Coelacanth)   2
Lepisosteus_oculatus_76   (Spotted gar)   0
Gadus_morhua_76_1   (Atlantic cod)   1
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   0
Takifugu_rubripes_76_4   (Torafugu)   0
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   1
Oryzias_latipes_76_1   (Japanese medaka)   1
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   0
Poecilia_formosa_76   (Amazon molly)   0
Oreochromis_niloticus_76_1.0   (Nile tilapia)   1
Danio_rerio_76_9   (Zebrafish)   0
Ciona_intestinalis_76   (Vase tunicate)   1
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   0
Octopus_bimaculoides_280 1
Lottia_gigantea_   (Owl limpet)   1
Helobdella_robusta_ 0
Capitella_sp._I_ 1
Danaus_plexippus_OGS1.0   (Monarch butterfly)   1
Heliconius_melpomene_   (Postman butterfly)   1
Lucilia_cuprina   (Australian sheep blowfly)   1
Drosophila_grimshawi_1.3 1
Drosophila_willistoni_1.3 1
Drosophila_pseudoobscura_2.13 1
Drosophila_persimilis_1.3 1
Drosophila_yakuba_1.3 1
Drosophila_sechellia_1.3 1
Drosophila_melanogaster_76_5   (Fruit fly)   1
Drosophila_erecta_1.3 1
Drosophila_ananassae_1.3 0
Drosophila_virilis_1.2 1
Drosophila_mojavensis_1.3 1
Anopheles_gambiae_49_3j   (African malaria mosquito)   1
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   1
Acyrthosiphon_pisum_   (Pea aphid)   1
Daphnia_pulex_   (Common water flea)   1
Tetranychus_urticae_   (Two-spotted spider mite)   1
Hymenolepis_microstoma_ 1
Echinococcus_multilocularis_ 1
Echinococcus_granulosus_ 1
Acropora_digitifera_v1.0 1
Nematostella_vectensis_1.0   (Starlet sea anemone)   1
Amphimedon_queenslandica 1
Capsaspora_owczarzaki_ATCC_30864_ 5
Cronartium_quercuum_f._sp._fusiforme_G11_v1.0 1
Rhodotorula_graminis_WP1_v1.0 1
Chaetomium_globosum_CBS_148.51_ 1
Neurospora_tetrasperma_ 1
Neurospora_discreta_FGSC_8579_ 1
Neurospora_crassa_OR74A_ 1
Cryphonectria_parasitica_   (Chestnut blight fungus)   1
Allomyces_macrogynus_ATCC_38327_ 0
Spizellomyces_punctatus_DAOM_BR117_ 0
Dictyostelium_discoideum 2
Dictyostelium_purpureum_ 3
Selaginella_moellendorffii_ 1
Pinus_taeda   (Loblolly pine)   1
Eucalyptus_grandis_v201   (Rose gum)   4
Theobroma_cacao_B97-61/B2_v1   (Cacao)   3
Gossypium_raimondii_v221 20
Citrus_clementina_v165 5
Citrus_sinensis_v154   (Sweet orange)   20
Thellungiella_halophila_v173 5
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   4
Capsella_rubella_v183 5
Arabidopsis_lyrata_   (Lyrate rockcress)   5
Arabidopsis_thaliana_10   (Thale cress)   6
Carica_papaya_   (Papaya)   4
Medicago_truncatula_   (Barrel medic)   5
Phaseolus_vulgaris_v186   (French bean)   6
Glycine_max_v109   (Soybean)   8
Cucumis_sativus_v122   (Cucumber)   10
Fragaria_vesca_   (Wild strawberry)   2
Malus_domestica_v196   (Apple)   6
Prunus_persica_v139   (Peach)   5
Linum_usitatissimum_v200   (Flax)   6
Manihot_esculenta_v147   (Cassava)   4
Populus_trichocarpa_v156   (Black cottonwood)   6
Vitis_vinifera_   (Wine grape)   5
Mimulus_guttatus_v140   (Spotted monkey flower)   7
Solanum_lycopersicum_v.2.3   (Tomato)   5
Solanum_tuberosum_   (Potato)   8
Actinidia_chinensis_Hongyang_ 4
Aquilegia_coerulea_v195 14
Triticum_urartu_22 1
Triticum_aestivum_22   (Bread wheat)   6
Aegilops_tauschii_22 1
Brachypodium_distachyon_   (Stiff brome)   6
Oryza_barthii_22   (African wild rice)   5
Oryza_meridionalis_22 4
Oryza_glumaepatula_22 7
Oryza_glaberrima   (African rice)   4
Oryza_punctata_22 5
Oryza_nivara_22 6
Oryza_brachyantha_22   (Malo sina)   2
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   5
Oryza_sativa_v193   (Rice)   5
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   4
Panicum_virgatum_v202   (Switchgrass)   8
Setaria_italica_v164   (Foxtail millet)   9
Zea_mays_subsp._mays_   (Maize)   5
Zea_mays_v181   (Maize)   5
Sorghum_bicolor_   (Sorghum)   5
Musa_balbisiana   (Balbis banana)   2
Musa_acuminata_22   (Wild Malaysian banana)   4
Amborella_trichopoda_22 4
Physcomitrella_patens 2
Coccomyxa_subellipsoidea_sp._C-169_v2 2
Asterochloris_sp._Cgr/DA1pho_v1.0 2
Chlorella_variabilis_sp._NC64A_ 2
Chlorella_vulgaris_ 1
Volvox_carteri_f._nagariensis_ 4
Volvox_carteri_v199 3
Chlamydomonas_reinhardtii_4.0 2
Ostreococcus_sp._RCC809_ 3
Ostreococcus_lucimarinus_CCE9901_ 4
Ostreococcus_tauri_ 3
Bathycoccus_prasinos_ 6
Micromonas_sp._RCC299_ 4
Micromonas_pusilla_CCMP1545_v3.0 6
Cyanidioschyzon_merolae_strain_10D_22 3
Cyanidioschyzon_merolae 3
Porphyridium_purpureum_02_2012 2
Thecamonas_trahens_ATCC_50062_ 3
Bigelowiella_natans_CCMP2755_22 5
Leishmania_mexicana_2.4 1
Leishmania_major_strain_Friedlin_ 1
Leishmania_infantum_JPCM5_2.4 1
Leishmania_braziliensis_MHOM/BR/75/M2904_2.4 1
Trypanosoma_cruzi_strain_CL_Brener 1
Ectocarpus_siliculosus 2
Aureococcus_anophagefferens_ 1
Albugo_laibachii_22 2
Pythium_arrhenomanes_ATCC_12531_22 1
Pythium_ultimum_v1.7-2 2
Pythium_aphanidermatum_DAOM_BR444_22 3
Pythium_irregulare_DAOM_BR486_22 1
Pythium_vexans_DAOM_BR484_22 3
Phytophthora_ramorum_1.1   (Sudden oak death agent)   2
Phytophthora_sojae_1.1 3
Phytophthora_infestans_T30-4_ 1
Phytophthora_capsici_ 1
Hyaloperonospora_arabidopsidis_22 1
Phaeodactylum_tricornutumCCAP_1055/1 1
Fragilariopsis_cylindrus 0
Thalassiosira_pseudonana_CCMP1335 2
Paramecium_tetraurelia_ 3
Tetrahymena_thermophila_SB210_1_ 2
Ichthyophthirius_multifiliis_strain_G5_ 2
Symbiodinium_minutum_clade_B1_v1.2 3
Naegleria_gruberi_ 1
Guillardia_theta_CCMP2712_v1.0_ 1

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Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   0
Drosophila_melanogaster_FlyBase_5.12_(FlyBase)   (Fruit fly)   1
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   2
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   1
Batrachochytrium_dendrobatidis_JEL423_ 1
Batrachochytrium_dendrobatidis_JAM81_ 0
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   5
Hordeum_vulgare_22   (Domesticated barley)   2
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   3

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

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Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   1
Homo_sapiens__(NCBI_version)   (Human)   1
Mus_musculus_63_37__(longest_transcript_per_gene)_(Duplicate)   (House mouse)   1
Picea_sitchensis__(Incomplete)   (Sitka spruce)   1
Malus_x_domestica_(Duplicate)   (Apple)   6
Ricinus_communis__(Early_assembly)   (Castor bean)   3
Nicotiana_benthamiana_0.4.4_(Early_draft) 5
Solanum_pimpinellifolium_A-1.0_(Early_draft)   (Currant tomato)   5
Solanum_lycopersicum_v2.3_(Early_assembly)   (Tomato)   5
Phoenix_dactylifera__(Early_draft)   (Date palm)   1
Protein_Data_Bank_(all_PDB_sequenc) 1
TargetDB__(Targets) 1
Protozoadb_2010_08_(Protozoadb) 6
STRING_v9.0.5_(STRING) 81
Uniprot_2018_03_genome 5796
NCBI_2017_08_genome 943

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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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