SUPERFAMILY 1.75 HMM library and genome assignments server

SUPERFAMILY 2 can be accessed from supfam.org. Please contact us if you experience any problems.

  Home > SCOP hierarchy > Domain combination - 54236,_gap_,50156,_gap_,46785,_gap_

Domain combinations for 54236,_gap_,50156,_gap_,46785,_gap_ superfamilies in groups of genomes

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

54236 - Ubiquitin-like
50156 - PDZ domain-like
46785 - "Winged helix" DNA-binding domain

Phylogenetic distribution

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

Jump to [ Top of page · Domain combinations in individual genomes ]

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.

Jump to [ Top of page · Domain combinations in groups of genomes ]

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)   2
Pongo_abelii_76_2   (Sumatran orangutan)   3
Nomascus_leucogenys_76_1.0   (Northern white-cheeked gibbon)   4
Papio_anubis_76   (Olive baboon)   3
Macaca_mulatta_76_1   (Rhesus monkey)   1
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)   3
Mus_musculus_76_38   (House mouse)   8
Ictidomys_tridecemlineatus_76_2   (Thirteen-lined ground squirrel)   3
Heterocephalus_glaber_v1.7-2   (Naked mole-rat)   2
Cavia_porcellus_76_3   (Domestic guinea pig)   3
Oryctolagus_cuniculus_76_2   (Rabbit)   2
Sus_scrofa_76_10.2   (Pig)   2
Bos_taurus_76_3.1   (Cattle)   3
Ovis_aries_76_3.1   (Sheep)   3
Tursiops_truncatus_76_1   (Bottlenose dolphin)   2
Mustela_putorius_furo_76_1.0   (Domestic ferret)   3
Ailuropoda_melanoleuca_76_1   (Giant panda)   4
Canis_familiaris_76_3.1   (Dog)   4
Felis_catus_76_6.2   (Domestic cat)   3
Equus_caballus_76_2   (Horse)   2
Myotis_lucifugus_76_2.0   (Little brown bat)   1
Pteropus_vampyrus_76_1   (Large flying fox)   3
Sorex_araneus_76_1   (European shrew)   1
Procavia_capensis_76_1   (Cape rock hyrax)   1
Loxodonta_africana_76_3   (African savanna elephant)   2
Dasypus_novemcinctus_76_2   (Nine-banded armadillo)   4
Macropus_eugenii_76_1.0   (Tammar wallaby)   2
Sarcophilus_harrisii_76_7.0   (Tasmanian devil)   1
Monodelphis_domestica_76_5   (Gray short-tailed opossum)   1
Anas_platyrhynchos_76_1.0   (Mallard)   1
Ficedula_albicollis_76_1.0   (Collared flycatcher)   1
Pelodiscus_sinensis_76_1.0   (Chinese soft-shelled turtle)   1
Anolis_carolinensis_76_2.0   (Green anole)   1
Xenopus_laevis_   (African clawed frog)   7
Xenopus_tropicalis_76_4.2   (Tropical clawed frog)   2
Latimeria_chalumnae_76_1   (Coelacanth)   1
Lepisosteus_oculatus_76   (Spotted gar)   2
Gadus_morhua_76_1   (Atlantic cod)   2
Tetraodon_nigroviridis_76_8   (Spotted green pufferfish)   4
Takifugu_rubripes_76_4   (Torafugu)   9
Gasterosteus_aculeatus_76_1   (Three-spined stickleback)   5
Oryzias_latipes_76_1   (Japanese medaka)   3
Xiphophorus_maculatus_76_4.4.2   (Southern platyfish)   3
Poecilia_formosa_76   (Amazon molly)   3
Oreochromis_niloticus_76_1.0   (Nile tilapia)   6
Astyanax_mexicanus_76   (Mexican tetra)   4
Danio_rerio_76_9   (Zebrafish)   5
Oikopleura_dioica 1
Ciona_savignyi_76_2.0   (Pacific transparent sea squirt)   1
Ciona_intestinalis_76   (Vase tunicate)   1
Adineta_vaga 6
Crassostrea_gigas_22   (Pacific oyster)   1
Lottia_gigantea_   (Owl limpet)   1
Capitella_sp._I_ 1
Danaus_plexippus_OGS1.0   (Monarch butterfly)   1
Nasonia_vitripennis_   (Jewel wasp)   1
Harpegnathos_saltator_v3.3   (Jerdon's jumping ant)   1
Linepithema_humile_v1.1   (Argentine ant)   1
Pogonomyrmex_barbatus_v1.2   (Red harvester ant)   1
Solenopsis_invicta_v.2.2.3   (Red fire ant)   1
Acromyrmex_echinatior_v3.8   (Panamanian leafcutter ant)   1
Camponotus_floridanus_v3.3   (Florida carpenter ant)   1
Lucilia_cuprina   (Australian sheep blowfly)   1
Aedes_aegypti_55_(Not_maintained)   (Yellow fever mosquito)   1
Culex_pipiens_quinquefasciatus_   (Southern house mosquito)   1
Anopheles_darlingi_22   (American malaria mosquito)   1
Anopheles_gambiae_49_3j   (African malaria mosquito)   1
Tribolium_castaneum_3.0   (Red flour beetle)   1
Pediculus_humanus_corporis__(Early_assembly)   (Human body louse)   1
Acyrthosiphon_pisum_   (Pea aphid)   1
Rhodnius_prolixus_22 1
Strigamia_maritima_22 1
Meloidogyne_incognita_   (Southern root-knot nematode)   2
Onchocerca_volvulus_22 1
Brugia_malayi_WS250   (Agent of lymphatic filariasis)   1
Caenorhabditis_japonica_ 1
Caenorhabditis_brenneri_ 1
Caenorhabditis_remanei_ 1
Caenorhabditis_elegans_76_235   (Roundworm)   3
Caenorhabditis_briggsae_2 1
Hymenolepis_microstoma_ 0
Echinococcus_multilocularis_ 2
Echinococcus_granulosus_ 2
Taenia_solium_   (Pork tapeworm)   1
Schistosoma_mansoni_ 1
Nematostella_vectensis_1.0   (Starlet sea anemone)   1
Hydra_vulgaris 1
Amphimedon_queenslandica 1

Jump to [ Top of page · Domain combinations in groups of genomes · Domain combinations in individual genomes ]

Strains
Genome     Number
Xenopus_(Silurana)_tropicalis_v7.1_(annotation_v7.2)   (Tropical clawed frog)   8
Anopheles_gambiae_VectorBase_AgamP3.6__(VectorBase)   (African malaria mosquito)   2
Ascaris_suum_Victoria/Ghent_   (Pig roundworm)   1
Caenorhabditis_elegans_WormBase_WS218__(WormBase)   (Roundworm)   3

Longest transcript per gene
Genome     Number
Homo_sapiens_69_37   (Human)   3
Pan_troglodytes_69_2.1.4   (Chimpanzee)   2
Gorilla_gorilla_69_3.1   (Western gorilla)   2
Pongo_abelii_69_2   (Sumatran orangutan)   3
Nomascus_leucogenys_69_1.0   (Northern white-cheeked gibbon)   3
Macaca_mulatta_69_1   (Rhesus monkey)   1
Callithrix_jacchus_69_3.2.1   (White-tufted-ear marmoset)   2
Otolemur_garnettii_69_3   (Small-eared galago)   3
Microcebus_murinus_69_1   (Gray mouse lemur)   1
Rattus_norvegicus_69_3.4   (Norway rat)   3
Mus_musculus_69_38   (House mouse)   3
Ictidomys_tridecemlineatus_69_2   (Thirteen-lined ground squirrel)   3
Cavia_porcellus_69_3   (Domestic guinea pig)   3
Oryctolagus_cuniculus_69_2   (Rabbit)   2
Sus_scrofa_69_10.2   (Pig)   2
Bos_taurus_69_3.1   (Cattle)   3
Tursiops_truncatus_69_1   (Bottlenose dolphin)   2
Mustela_putorius_furo_69_1.0   (Domestic ferret)   3
Ailuropoda_melanoleuca_69_1   (Giant panda)   3
Canis_familiaris_69_3.1   (Dog)   3
Felis_catus_69   (Domestic cat)   1
Equus_caballus_69_2   (Horse)   2
Myotis_lucifugus_69_2.0   (Little brown bat)   1
Pteropus_vampyrus_69_1   (Large flying fox)   3
Sorex_araneus_69_1   (European shrew)   1
Procavia_capensis_69_1   (Cape rock hyrax)   1
Loxodonta_africana_69_3   (African savanna elephant)   2
Macropus_eugenii_69_1.0   (Tammar wallaby)   2
Sarcophilus_harrisii_69_7.0   (Tasmanian devil)   1
Monodelphis_domestica_69_5   (Gray short-tailed opossum)   1
Gallus_gallus_69_2   (Chicken)   1
Pelodiscus_sinensis_69_1.0   (Chinese soft-shelled turtle)   1
Anolis_carolinensis_69_2.0   (Green anole)   1
Xenopus_tropicalis_69_4.2   (Tropical clawed frog)   2
Latimeria_chalumnae_69_1   (Coelacanth)   1
Gadus_morhua_69_1   (Atlantic cod)   2
Tetraodon_nigroviridis_69_8   (Spotted green pufferfish)   3
Takifugu_rubripes_69_4   (Torafugu)   3
Gasterosteus_aculeatus_69_1   (Three-spined stickleback)   4
Oryzias_latipes_69_1   (Japanese medaka)   3
Xiphophorus_maculatus_69_4.4.2   (Southern platyfish)   3
Oreochromis_niloticus_69_1.0   (Nile tilapia)   4
Danio_rerio_69_9   (Zebrafish)   5
Ciona_savignyi_69_2.0   (Pacific transparent sea squirt)   1
Ciona_intestinalis_69   (Vase tunicate)   1
Caenorhabditis_elegans_69_215   (Roundworm)   1

Jump to [ Top of page · Domain combinations in groups of genomes · Domain combinations in individual genomes ]

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)   3
Loa_loa_v3.3_(Request)   (Eye worm)   1
Brugia_malayi_v1.0_(Duplicate)   (Agent of lymphatic filariasis)   1
STRING_v9.0.5_(STRING) 67
Uniprot_2018_03_genome 12920
NCBI_2017_08_genome 1249
TargetDB__(Targets) 3

Jump to [ Top of page · Domain combinations in groups of genomes · Domain combinations in individual genomes ]
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.

Please send feedback, comments or questions to superfamily@cs.bris.ac.uk or use the feedback form.

© Copyright 2013 The SUPERFAMILY authors and Julian Gough.