SUPERFAMILY 1.75 HMM library and genome assignments server

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Domain combinations for DNA-binding pseudobarrel domain superfamily in groups of 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.


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Domain combinations in individual genomes

Click on a genome below to view all domain combinations containing a DNA-binding pseudobarrel domain domain in that genome.

Complete genomes
Genome     Number   Proteins
Selaginella_moellendorffii_ 61 54
Pinus_taeda   (Loblolly pine)   54 49
Picea_abies   (Norway spruce)   29 27
Eucalyptus_grandis_v201   (Rose gum)   189 148
Theobroma_cacao_B97-61/B2_v1   (Cacao)   150 125
Gossypium_raimondii_v221 404 319
Citrus_clementina_v165 159 123
Citrus_sinensis_v154   (Sweet orange)   172 150
Thellungiella_halophila_v173 198 126
Brassica_rapa_Chiifu-401_1.2   (Field mustard)   346 211
Capsella_rubella_v183 179 122
Arabidopsis_lyrata_   (Lyrate rockcress)   225 140
Arabidopsis_thaliana_10   (Thale cress)   224 149
Carica_papaya_   (Papaya)   75 59
Medicago_truncatula_   (Barrel medic)   363 273
Phaseolus_vulgaris_v186   (French bean)   133 99
Glycine_max_v109   (Soybean)   186 164
Cucumis_sativus_v122   (Cucumber)   105 89
Fragaria_vesca_   (Wild strawberry)   202 132
Malus_domestica_v196   (Apple)   188 146
Prunus_persica_v139   (Peach)   143 114
Linum_usitatissimum_v200   (Flax)   224 162
Manihot_esculenta_v147   (Cassava)   184 148
Populus_trichocarpa_v156   (Black cottonwood)   212 195
Vitis_vinifera_   (Wine grape)   61 50
Mimulus_guttatus_v140   (Spotted monkey flower)   118 99
Solanum_lycopersicum_v.2.3   (Tomato)   164 113
Solanum_tuberosum_   (Potato)   226 171
Actinidia_chinensis_Hongyang_ 150 115
Aquilegia_coerulea_v195 183 147
Triticum_urartu_22 181 115
Triticum_aestivum_22   (Bread wheat)   237 190
Aegilops_tauschii_22 232 142
Brachypodium_distachyon_   (Stiff brome)   128 95
Oryza_barthii_22   (African wild rice)   177 124
Oryza_meridionalis_22 193 117
Oryza_glumaepatula_22 181 126
Oryza_glaberrima   (African rice)   109 80
Oryza_punctata_22 172 112
Oryza_nivara_22 190 137
Oryza_brachyantha_22   (Malo sina)   96 77
Oryza_sativa_ssp._japonica_5.0   (Japanese rice)   173 134
Oryza_sativa_v193   (Rice)   168 132
Phyllostachys_heterocyclavar._pubescens   (Kikko-chiku)   91 82
Panicum_virgatum_v202   (Switchgrass)   293 217
Setaria_italica_v164   (Foxtail millet)   153 114
Zea_mays_subsp._mays_   (Maize)   157 141
Zea_mays_v181   (Maize)   171 153
Sorghum_bicolor_   (Sorghum)   129 94
Musa_balbisiana   (Balbis banana)   117 112
Musa_acuminata_22   (Wild Malaysian banana)   109 107
Amborella_trichopoda_22 54 49
Physcomitrella_patens 68 53
Coccomyxa_subellipsoidea_sp._C-169_v2 4 4
Asterochloris_sp._Cgr/DA1pho_v1.0 3 3
Chlorella_variabilis_sp._NC64A_ 8 8
Chlorella_vulgaris_ 4 4
Volvox_carteri_f._nagariensis_ 1 1
Chlamydomonas_reinhardtii_4.0 2 2
Micromonas_sp._RCC299_ 1 1
Micromonas_pusilla_CCMP1545_v3.0 2 2
Eubacterium_rectale_ATCC_33656 1 1
Bacteroides_fragilis_YCH46 1 1
Treponema_succinifaciens_DSM_2489 1 1
Geobacter_lovleyi_SZ 1 1
Thauera_sp._MZ1T 1 1
Acidiphilium_cryptum_JF-5 1 1
Edwardsiella_ictaluri_93-146 1 1
Rahnella_aquatilis_CIP_78.65_=_ATCC_33071 1 1
Serratia_proteamaculans_568 1 1
Erwinia_pyrifoliae_Ep1/96 1 1
Citrobacter_koseri_ATCC_BAA-895 1 1

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Strains
Genome     Number   Proteins
Theobroma_cacao_Matina_1-6_v0.9   (Cacao)   140 116
Hordeum_vulgare_22   (Domesticated barley)   308 227
Oryza_sativa_ssp._Indica_(Subspecies)   (Long-grained rice)   135 95
Leptospirillum_ferriphilum_ML-04 1 1
Neisseria_meningitidis_WUE_2594 1 1
Neisseria_meningitidis_M04-240196 1 1
Neisseria_meningitidis_M01-240149 1 1
Neisseria_meningitidis_NZ-05/33 1 1
Neisseria_meningitidis_053442 1 1
Neisseria_meningitidis_Z2491 1 1
Neisseria_meningitidis_H44/76 1 1
Neisseria_meningitidis_alpha710 1 1
Neisseria_meningitidis_MC58 1 1
Taylorella_equigenitalis_14/56 1 1
Erwinia_pyrifoliae_DSM_12163 1 1
Cronobacter_sakazakii_CMCC_45402 1 1
Salmonella_enterica_subsp._arizonae_serovar_62:z4,z23:--_str._RSK2980 1 1
Salmonella_enterica_subsp._enterica_serovar_Schwarzengrund_str._CVM19633 1 1
Salmonella_enterica_subsp._enterica_serovar_Paratyphi_B_str._SPB7 1 1
Salmonella_enterica_subsp._enterica_serovar_Heidelberg_str._41578 1 1
Escherichia_coli_O7:K1_str._CE10 1 1
Escherichia_coli_IAI39 1 1
Pseudomonas_putida_GB-1 1 1

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Longest transcript per gene
Genome     Number   Proteins
Arabidopsis_thaliana_10   (Thale cress)   188 121

Others
Genome     Number   Proteins
Lotus_japonicus__(Early_assembly) 83 76
Malus_x_domestica_(Duplicate)   (Apple)   188 146
Ricinus_communis__(Early_assembly)   (Castor bean)   89 70
Nicotiana_benthamiana_0.4.4_(Early_draft) 217 160
Solanum_pimpinellifolium_A-1.0_(Early_draft)   (Currant tomato)   157 111
Solanum_lycopersicum_v2.3_(Early_assembly)   (Tomato)   164 113
Phoenix_dactylifera__(Early_draft)   (Date palm)   47 39
NCBI_plasmid_sequences_(Plasmids) 34 34
PDB_chains_(SCOP_1.75)_(PDB) 3 3
TargetDB__(Targets) 78 63
Protein_Data_Bank_(all_PDB_sequenc) 27 27
SCOP2_SCOPe_CATH_ECOD_(all_domain_sequ) 28 28
STRING_v9.0.5_(STRING) 1243 923
Uniprot_2018_03_genome 19880 14856
NCBI_2017_08_genome 21482 16439

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