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  Home > SCOP hierarchy > Domain combination - 88645

Domain combinations for 88645 superfamilies in groups of genomes

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

88645 - ssDNA viruses

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)   0
Pan_troglodytes_76_2.1.4   (Chimpanzee)   0
Rattus_norvegicus_76_5.0   (Norway rat)   0
Oryctolagus_cuniculus_76_2   (Rabbit)   0
Loxodonta_africana_76_3   (African savanna elephant)   0
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   0
Lepisosteus_oculatus_76   (Spotted gar)   0
Danio_rerio_76_9   (Zebrafish)   0
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   0
Strongylocentrotus_purpuratus_v3.1   (Purple sea urchin)   0
Crassostrea_gigas_22   (Pacific oyster)   0
Linepithema_humile_v1.1   (Argentine ant)   1
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   2
Atta_cephalotes_v1.1 0
Drosophila_pseudoobscura_2.13 0
Megaselia_scalaris_22 0
Aedes_aegypti_55_(Not_maintained)   (Yellow fever 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
Rhodnius_prolixus_22 1
Daphnia_pulex_   (Common water flea)   0
Ixodes_scapularis__(Preliminary)   (Black-legged tick)   1
Pristionchus_pacificus_ 0
Caenorhabditis_japonica_ 0
Schistosoma_mansoni_ 0
Acropora_digitifera_v1.0 0
Amphimedon_queenslandica 0
Trichoplax_adhaerens_ 0
Sphaeroforma_arctica_JP610_ 0
Phycomyces_blakesleeanus_ 0
Melampsora_laricis-populina_ 0
Sphaerobolus_stellatus_v1.0 0
Scleroderma_citrinum_Foug_A_v1.0 0
Amanita_muscaria_Koide_v1.0   (Fly agaric)   0
Heterobasidion_annosum_ 2
Tulasnella_calospora_AL13/4D_v1.0 0
Postia_placenta_ 0
Apiospora_montagnei_NRRL_25634_v1.0 0
Magnaporthe_poae_ATCC_64411_22 0
Magnaporthe_grisea_70-15_ 0
Neurospora_tetrasperma_ 0
Neurospora_crassa_OR74A_ 0
Acremonium_alcalophilumv_1.0 0
Fusarium_graminearum_ 0
Nectria_haematococca_mpVI_ 0
Trichoderma_citrinoviride_v1.0 0
Botrytis_cinerea_B05.10_ 0
Cochliobolus_lunatus_m118_v2.0 0
Pyrenophora_tritici-repentis_ 0
Paracoccidioides_brasiliensis_Pb18_ 0
Arthroderma_benhamiae_CBS_112371_ 0
Trichophyton_rubrum_CBS_118892_ 0
Penicillium_chrysogenum_Wisconsin_54-1255_ 0
Penicillium_chrysogenum_v1.0 0
Aspergillus_acidus_v1.0 0
Aspergillus_fumigatus_Af293 0
Aspergillus_nidulans_FGSC_A4_ 0
Aspergillus_sydowii_v1.0 0
Aspergillus_versicolor_v1.0 0
Aspergillus_glaucus 0
Neosartorya_fischeri_NRRL_181_ 0
Aspergillus_terreus_NIH2624_ 0
Aspergillus_oryzae_RIB40_ 0
Aspergillus_flavus_NRRL3357_ 0
Aspergillus_clavatus_NRRL_1_ 0
Lodderomyces_elongisporus_NRRL_YB-4239_ 0
Debaromyces_hansenii 0
Pichia_pastoris_GS115_ 0
Vanderwaltozyma_polyspora_DSM_70294_ 0
Kluyveromyces_thermotolerans_CBS_6340 0
Kluyveromyces_waltii 0
Saccharomyces_mikatae_MIT 0
Saccharomyces_paradoxus_MIT 0
Saccharomyces_cerevisiae_76   (Baker's yeast)   0
Saccharomyces_bayanus_MIT 0
Catenaria_anguillulae_PL171_v1.0 0
Dictyostelium_purpureum_ 0
Entamoeba_dispar_1.2 0
Pinus_taeda   (Loblolly pine)   0
Picea_abies   (Norway spruce)   1
Gossypium_raimondii_v221 0
Thellungiella_halophila_v173 0
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   0
Capsella_rubella_v183 1
Arabidopsis_thaliana_10   (Thale cress)   0
Medicago_truncatula_   (Barrel medic)   0
Glycine_max_v109   (Soybean)   1
Fragaria_vesca_   (Wild strawberry)   1
Malus_domestica_v196   (Apple)   0
Prunus_persica_v139   (Peach)   0
Linum_usitatissimum_v200   (Flax)   0
Manihot_esculenta_v147   (Cassava)   0
Populus_trichocarpa_v156   (Black cottonwood)   0
Mimulus_guttatus_v140   (Spotted monkey flower)   0
Solanum_tuberosum_   (Potato)   0
Actinidia_chinensis_Hongyang_ 0
Aquilegia_coerulea_v195 1
Triticum_urartu_22 0
Triticum_aestivum_22   (Bread wheat)   1
Aegilops_tauschii_22 1
Brachypodium_distachyon_   (Stiff brome)   1
Oryza_barthii_22   (African wild rice)   1
Oryza_meridionalis_22 1
Oryza_glumaepatula_22 1
Oryza_punctata_22 0
Oryza_nivara_22 1
Oryza_brachyantha_22   (Malo sina)   1
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   1
Oryza_sativa_v193   (Rice)   1
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   2
Panicum_virgatum_v202   (Switchgrass)   2
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)   0
Musa_acuminata_22   (Wild Malaysian banana)   0
Amborella_trichopoda_22 0
Physcomitrella_patens 0
Chlorella_vulgaris_ 0
Ostreococcus_sp._RCC809_ 0
Bigelowiella_natans_CCMP2755_22 0
Cyanophora_paradoxa_ 0
Pythium_ultimum_v1.7-2 0
Pythium_irregulare_DAOM_BR486_22 0
Phytophthora_sojae_1.1 0
Phytophthora_capsici_ 0
Hyaloperonospora_arabidopsidis_22 0
Fragilariopsis_cylindrus 0
Paramecium_tetraurelia_ 0
Tetrahymena_thermophila_SB210_1_ 0
Ichthyophthirius_multifiliis_strain_G5_ 0
Cryptosporidium_hominis 0
Cryptosporidium_parvum_Iowa_II 0
Theileria_parva__ 0
Theileria_annulata 0
Plasmodium_falciparum_3D7_ 0
Plasmodium_yoelii_ssp._yoelii_1_ 0
Naegleria_gruberi_ 0
Trichomonas_vaginalis_ 0
Eggerthella_sp._YY7918 0
Propionibacterium_propionicum_F0230a 0
Propionibacterium_freudenreichii_subsp._shermanii_CIRM-BIA1 0
Arthrobacter_chlorophenolicus_A6 0
Meiothermus_silvanus_DSM_9946 0
Acetobacterium_woodii_DSM_1030 0
Eubacterium_limosum_KIST612 0
Eubacterium_rectale_ATCC_33656 0
Alkaliphilus_metalliredigens_QYMF 0
Lactobacillus_kefiranofaciens_ZW3 0
Lactobacillus_acidophilus_30SC 0
Streptococcus_uberis_0140J 0
Streptococcus_pneumoniae_P1031 0
Bacillus_amyloliquefaciens_FZB42 0
Chlorobium_limicola_DSM_245 0
Flexibacter_litoralis_DSM_6794 0
Leadbetterella_byssophila_DSM_17132 0
Cytophaga_hutchinsonii_ATCC_33406 0
Sphingobacterium_sp._21 0
Zunongwangia_profunda_SM-A87 0
Maribacter_sp._HTCC2170 0
Chlamydophila_abortus_S26/3 0
Chlamydia_psittaci_01DC11 0
Thermosipho_africanus_TCF52B 0
Nautilia_profundicola_AmH 0
Desulfotalea_psychrophila_LSv54 0
Desulfovibrio_alaskensis_G20 0
Geobacter_bemidjiensis_Bem 0
Myxococcus_fulvus_HW-1 0
Burkholderia_xenovorans_LB400 0
Cupriavidus_metallidurans_CH34 0
Burkholderia_sp._RPE64 0
Burkholderia_ambifaria_AMMD 0
Burkholderia_vietnamiensis_G4 0
Polaromonas_sp._JS666 0
Bordetella_pertussis_Tohama_I 0
Bordetella_parapertussis_12822 0
Bordetella_bronchiseptica_RB50 0
Methylovorus_sp._MP688 0
Caulobacter_segnis_ATCC_21756 0
Phenylobacterium_zucineum_HLK1 0
Sphingopyxis_alaskensis_RB2256 0
Mesorhizobium_opportunistum_WSM2075 0
Methylocella_silvestris_BL2 0
Cellvibrio_japonicus_Ueda107 0
Shewanella_oneidensis_MR-1 0
Shewanella_baltica_OS185 0
Shewanella_frigidimarina_NCIMB_400 0
Alteromonas_macleodii_str._'Deep_ecotype' 0
Marinomonas_mediterranea_MMB-1 0
Photorhabdus_asymbiotica 0
Edwardsiella_tarda_EIB202 0
Enterobacteriaceae_bacterium_strain_FGI_57 0
Candidatus_Caldiarchaeum_subterraneum 0
Metallosphaera_sedula_DSM_5348 0
Pyrobaculum_oguniense_TE7 0
Methanocella_conradii_HZ254 0
Methanosarcina_mazei_Go1 0
Methanohalophilus_mahii_DSM_5219 0
Pyrococcus_sp._ST04 0
Haloferax_volcanii_DS2 0
Halobacterium_salinarum_R1 0
Halobacterium_sp._NRC-1 0

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Strains
Genome     Number
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   0
Cryptococcus_neoformans_var._grubii_H99_ 0
Paracoccidioides_brasiliensis_Pb01_ 0
Paracoccidioides_brasiliensis_Pb03_ 0
Histoplasma_capsulatum_H143 0
Histoplasma_capsulatum_H88 0
Aspergillus_fumigatus_A1163_ 0
Saccharomyces_cerevisiae_UC5 0
Saccharomyces_cerevisiae_PW5 0
Saccharomyces_cerevisiae_FL100 0
Saccharomyces_cerevisiae_CLIB324 0
Saccharomyces_cerevisiae_CBS7960 0
Saccharomyces_cerevisiae_YJM269 0
Saccharomyces_cerevisiae_T7 0
Saccharomyces_cerevisiae_FostersO 0
Saccharomyces_cerevisiae_LalvinQA23 0
Saccharomyces_cerevisiae_Sigma1278b 0
Saccharomyces_cerevisiae_W303 0
Saccharomyces_cerevisiae_JAY291 0
Saccharomyces_cerevisiae_YPS163 0
Saccharomyces_cerevisiae_Y10 0
Saccharomyces_cerevisiae_YJM789_ 0
Saccharomyces_cerevisiae_YJM789 0
Saccharomyces_cerevisiae_RM11-1a 0
Saccharomyces_cerevisiae_RM11-1a_ 0
Saccharomyces_cerevisiae_SGD_(SGD)   (Baker's yeast)   0
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   0
Hordeum_vulgare_22   (Domesticated barley)   1
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   1
Cyanothece_sp._PCC_7425 0
Stanieria_cyanosphaera_PCC_7437 0
Mycobacterium_abscessus_subsp._bolletii_50594 0
Dehalococcoides_mccartyi_BTF08 0
Dehalococcoides_sp._GT 0
Halobacteroides_halobius_DSM_5150 0
Enterococcus_faecium_DO 0
Lactobacillus_johnsonii_NCC_533 0
Streptococcus_pneumoniae_A026 0
Streptococcus_pneumoniae_ST556 0
Streptococcus_pneumoniae_SPNA45 0
Streptococcus_pneumoniae_SPN994039 0
Streptococcus_pneumoniae_SPN994038 0
Streptococcus_pneumoniae_SPN034183 0
Streptococcus_pneumoniae_SPN034156 0
Streptococcus_pneumoniae_INV104 0
Streptococcus_pneumoniae_INV200 0
Streptococcus_pneumoniae_OXC141 0
Streptococcus_pneumoniae_gamPNI0373 0
Streptococcus_pneumoniae_AP200 0
Streptococcus_pneumoniae_ATCC_700669 0
Streptococcus_pneumoniae_TCH8431/19A 0
Streptococcus_pneumoniae_CGSP14 0
Streptococcus_pneumoniae_G54 0
Streptococcus_pneumoniae_JJA 0
Streptococcus_pneumoniae_70585 0
Streptococcus_pneumoniae_Hungary19A-6 0
Streptococcus_pneumoniae_Taiwan19F-14 0
Streptococcus_pneumoniae_D39 0
Streptococcus_pneumoniae_670-6B 0
Streptococcus_pneumoniae_R6 0
Streptococcus_pneumoniae_TIGR4 0
Streptococcus_agalactiae_ILRI112 0
Bacillus_amyloliquefaciens_subsp._plantarum_sequencing 0
Bacillus_amyloliquefaciens_subsp._plantarum_AS43.3 0
Bacillus_amyloliquefaciens_subsp._plantarum_YAU_B9601-Y2 0
Bacillus_amyloliquefaciens_subsp._plantarum_UCMB5113 0
Bacillus_amyloliquefaciens_subsp._plantarum_UCMB5036 0
Bacillus_amyloliquefaciens_subsp._plantarum_CAU_B946 0
Bacillus_amyloliquefaciens_LFB112 0
Bacillus_amyloliquefaciens_CC178 0
Bacillus_amyloliquefaciens_Y2 0
Bacillus_amyloliquefaciens_IT-45 0
Bacillus_amyloliquefaciens_DSM_7 0
Bacillus_toyonensis_BCT-7112 0
Bacillus_thuringiensis_serovar_konkukian_str._97-27 0
Bacillus_cereus_AH820 0
Bacillus_cereus_Q1 0
Bacteroides_xylanisolvens_XB1A 0
Chlamydophila_pneumoniae_AR39 1
Chlamydia_psittaci_01DC12 0
Chlamydia_psittaci_WC 0
Chlamydia_psittaci_M56 0
Chlamydia_psittaci_WS/RT/E30 0
Chlamydia_psittaci_VS225 0
Chlamydia_psittaci_MN 0
Chlamydia_psittaci_GR9 0
Chlamydia_psittaci_84/55 0
Chlamydia_psittaci_08DC60 0
Chlamydia_psittaci_02DC15 0
Chlamydia_psittaci_C19/98 0
Chlamydia_psittaci_NJ1 0
Chlamydia_psittaci_CP3 0
Chlamydophila_psittaci_RD1 0
Chlamydia_psittaci_Mat116 0
Chlamydophila_psittaci_6BC 0
Chlamydophila_psittaci_6BC 0
Fusobacterium_nucleatum_subsp._animalis_4_8 0
Burkholderia_sp._YI23 0
Bordetella_pertussis_CS 0
Bordetella_parapertussis_18323 0
Bordetella_parapertussis_Bpp5 0
Bordetella_bronchiseptica_MO149 0
Bordetella_bronchiseptica_253 0
Rhodobacter_sphaeroides_ATCC_17025 0
Mesorhizobium_australicum_WSM2073 0
Shewanella_baltica_OS678 0
Shewanella_baltica_OS223 0
Shewanella_baltica_OS195 0
Coxiella_burnetii_RSA_331 0
Edwardsiella_tarda_FL6-60 0
Pantoea_ananatis_LMG_5342 0
Pantoea_ananatis_PA13 0
Pseudomonas_putida_DOT-T1E 0
Pseudomonas_mendocina_NK-01 0
Acinetobacter_junii__SH205 0
Methanomethylovorans_hollandica_DSM_15978 0
Methanosarcina_mazei_Tuc01 0

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Longest transcript per gene
Genome     Number
Pan_troglodytes_69_2.1.4   (Chimpanzee)   0
Oryctolagus_cuniculus_69_2   (Rabbit)   0
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   0
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   0
Saccharomyces_cerevisiae_69_4   (Baker's yeast)   0
Arabidopsis_thaliana_10   (Thale cress)   0

Others
Genome     Number
Homo_sapiens_75_37_(old_version_GRC)   (Human)   0
Heliconius_numata__(Incomplete) 0
Brugia_malayi_v1.0_(Duplicate)   (Agent of lymphatic filariasis)   0
Moniliophthora_perniciosa_FA553__(Genome_survey) 0
Lotus_japonicus__(Early_assembly) 0
Malus_x_domestica_(Duplicate)   (Apple)   0
NCBI_plasmid_sequences_(Plasmids) 2
Protozoadb_2010_08_(Protozoadb) 0
STRING_v9.0.5_(STRING) 7
PDB_chains_(SCOP_1.75)_(PDB) 16
NCBI_viral_sequences_(Viral) 58
Protein_Data_Bank_(all_PDB_sequenc) 480
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 921
NCBI_2017_08_genome 1806
TargetDB__(Targets) 0
UniProt__viral_sequences_(Viral) 1420
Uniprot_2018_03_genome 6037

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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.