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  Home > Genomes > Solanum pimpinellifolium A-1.0 > DNA-binding pseudobarrel domain domains


DNA-binding pseudobarrel domain superfamily domain assignments
in
Solanum pimpinellifolium A-1.0

Assignment details

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Solanum pimpinellifolium A-1.0 (Early draft) has 157 significant domains in 111 proteins.

     

Sequence ID   Evalue   Region   Family  
Sopim00g011550.0.1   1.29e-19   13-110   B3 DNA binding domain  
Sopim00g011660.0.1   8.24e-16   208-298   B3 DNA binding domain  
  0.000000000000922   13-97   B3 DNA binding domain  
Sopim00g057280.0.1   2.75e-21   16-115   B3 DNA binding domain  
Sopim00g196060.0.1   0.00000000641   17-57   B3 DNA binding domain  
Sopim01g015210.0.1   3.92e-18   4-102   B3 DNA binding domain  
  0.0000000000104   179-272   B3 DNA binding domain  
Sopim01g034190.0.1   0.00000000177   3-57   B3 DNA binding domain  
Sopim01g060370.0.1   0.0000000000667   14-74   B3 DNA binding domain  
Sopim01g079560.0.1   2.35e-16   11-106   B3 DNA binding domain  
Sopim01g081400.0.1   0.0000000000000471   43-142   B3 DNA binding domain  
Sopim01g095880.0.1   4.32e-16   61-163   B3 DNA binding domain  
Sopim01g096070.0.1   1.16e-39   107-244   B3 DNA binding domain  
Sopim01g096790.0.1   0.000000000018   7-74   B3 DNA binding domain  
Sopim01g103050.0.1   1.44e-43   117-257   B3 DNA binding domain  
Sopim01g106230.0.1   1.18e-20   5-98   B3 DNA binding domain  
  7.65e-17   227-328   B3 DNA binding domain  
Sopim01g106250.0.1   1.18e-20   5-98   B3 DNA binding domain  
  7.65e-17   227-328   B3 DNA binding domain  
Sopim01g108120.0.1   1.24e-21   59-155   B3 DNA binding domain  
Sopim01g108130.0.1   3.92e-22   120-218   B3 DNA binding domain  
Sopim01g108140.0.1   1.02e-23   122-220   B3 DNA binding domain  
Sopim01g108930.0.1   5.69e-23   175-272   B3 DNA binding domain  
  4.71e-20   11-105   B3 DNA binding domain  
Sopim01g108940.0.1   6.47e-17   5-99   B3 DNA binding domain  
  0.0000000000000726   231-313   B3 DNA binding domain  
Sopim01g108950.0.1   1.39e-17   5-99   B3 DNA binding domain  
  8.24e-17   236-331   B3 DNA binding domain  
Sopim01g109030.0.1   0.00000000000053   110-194   B3 DNA binding domain  
Sopim02g021250.0.1   0.0000133   67-96   B3 DNA binding domain  
Sopim02g026080.0.1   7.26e-19   5-98   B3 DNA binding domain  
  0.00000000000137   235-322   B3 DNA binding domain  
Sopim02g032070.0.1   8.63e-19   5-74   B3 DNA binding domain  
Sopim02g032210.0.1   0.000000294   182-294   B3 DNA binding domain  
Sopim02g032220.0.1   0.00000000785   175-288   B3 DNA binding domain  
Sopim02g032270.0.1   0.0000000116   154-267   B3 DNA binding domain  
Sopim02g037530.0.1   3.79e-49   112-257   B3 DNA binding domain  
Sopim02g055370.0.1   8.04e-18   3-97   B3 DNA binding domain  
Sopim02g065310.0.1   4.9e-21   107-209   B3 DNA binding domain  
Sopim02g065340.0.1   0.00000000000000844   172-273   B3 DNA binding domain  
  0.000000000000334   6-101   B3 DNA binding domain  
Sopim02g065350.0.1   9.42e-23   223-315   B3 DNA binding domain  
  4.12e-19   19-114   B3 DNA binding domain  
Sopim02g077560.0.1   5.89e-40   157-264   B3 DNA binding domain  
Sopim02g079020.0.1   1.31e-19   318-416   B3 DNA binding domain  
Sopim02g081780.0.1   2.94e-16   189-283   B3 DNA binding domain  
  0.000000000000184   6-106   B3 DNA binding domain  
Sopim02g090170.0.1   9.02e-21   22-123   B3 DNA binding domain  
  6.67e-19   253-342   B3 DNA binding domain  
Sopim02g090710.0.1   9.61e-22   160-258   B3 DNA binding domain  
Sopim02g093660.0.1   0.00000000981   72-151   B3 DNA binding domain  
  0.0000373   235-309   B3 DNA binding domain  
Sopim02g094460.0.1   6.67e-20   72-167   B3 DNA binding domain  
Sopim03g007140.0.1   2.55e-22   29-124   B3 DNA binding domain  
  0.000000000706   374-460   B3 DNA binding domain  
Sopim03g031970.0.1   7.06e-49   111-256   B3 DNA binding domain  
Sopim03g042500.0.1   0.000000000000334   9-95   B3 DNA binding domain  
Sopim03g042510.0.1   1.29e-19   13-110   B3 DNA binding domain  
Sopim03g043580.0.1   2.75e-19   13-110   B3 DNA binding domain  
  5.3e-16   221-311   B3 DNA binding domain  
Sopim03g044110.0.1   2.94e-18   13-110   B3 DNA binding domain  
  2.55e-17   221-311   B3 DNA binding domain  
Sopim03g083110.0.1   1.18e-27   169-256   B3 DNA binding domain  
Sopim03g111410.0.1   4.12e-19   22-118   B3 DNA binding domain  
  0.000000412   269-335   B3 DNA binding domain  
Sopim03g111500.0.1   3.34e-22   22-119   B3 DNA binding domain  
  0.00000000392   420-491   B3 DNA binding domain  
Sopim03g118290.0.1   3.01e-40   142-275   B3 DNA binding domain  
Sopim03g119560.0.1   0.000000318   120-234   B3 DNA binding domain  
Sopim04g007000.0.1   1.83e-29   201-296   B3 DNA binding domain  
Sopim04g015500.0.1   3.34e-24   40-141   B3 DNA binding domain  
Sopim04g064830.0.1   1.35e-17   153-241   B3 DNA binding domain  
  3.53e-16   13-108   B3 DNA binding domain  
Sopim04g079130.0.1   1.26e-24   119-217   B3 DNA binding domain  
Sopim04g079590.0.1   8.24e-25   242-344   B3 DNA binding domain  
  1.49e-23   3-102   B3 DNA binding domain  
  4.9e-23   456-556   B3 DNA binding domain  
Sopim04g081240.0.1   3.4e-47   134-276   B3 DNA binding domain  
Sopim05g009790.0.1   8.89e-32   205-304   B3 DNA binding domain  
Sopim05g017740.0.1   0.00000000000000726   5-107   B3 DNA binding domain  
Sopim05g041100.0.1   0.0000000000000334   6-85   B3 DNA binding domain  
Sopim05g047460.0.1   6.15e-41   121-259   B3 DNA binding domain  
Sopim05g056040.0.1   6.02e-28   124-232   B3 DNA binding domain  
Sopim06g007530.0.1   1.24e-24   135-237   B3 DNA binding domain  
Sopim06g034140.0.1   1.63e-24   79-175   B3 DNA binding domain  
Sopim06g073980.0.1   0.00000000000235   85-181   B3 DNA binding domain  
Sopim06g074160.0.1   7.65e-19   8-107   B3 DNA binding domain  
  1.77e-16   154-249   B3 DNA binding domain  
Sopim06g075150.0.1   7.59e-28   93-205   B3 DNA binding domain  
Sopim06g082520.0.1   2.22e-21   314-418   B3 DNA binding domain  
Sopim06g083590.0.1   1.57e-21   444-538   B3 DNA binding domain  
Sopim06g083600.0.1   8.83e-23   482-575   B3 DNA binding domain  
Sopim07g017470.0.1   0.000000000000216   13-73   B3 DNA binding domain  
Sopim07g019480.0.1   0.00000000114   2-56   B3 DNA binding domain  
Sopim07g042260.0.1   8.76e-43   116-255   B3 DNA binding domain  
Sopim07g043620.0.1   1.7e-48   115-259   B3 DNA binding domain  
Sopim07g054630.0.1   7.46e-26   284-384   B3 DNA binding domain  
  3.73e-16   11-103   B3 DNA binding domain  
Sopim08g006130.0.1   0.00000243   143-257   B3 DNA binding domain  
Sopim08g006190.0.1   2.55e-19   296-390   B3 DNA binding domain  
  4.9e-18   427-523   B3 DNA binding domain  
  5.69e-17   4-95   B3 DNA binding domain  
  0.0000000000000647   151-243   B3 DNA binding domain  
Sopim08g006200.0.1   2.94e-20   461-556   B3 DNA binding domain  
  2.35e-18   4-98   B3 DNA binding domain  
  7.85e-17   320-412   B3 DNA binding domain  
  0.00000000000000216   181-275   B3 DNA binding domain  
Sopim08g006210.0.1   1.31e-19   293-389   B3 DNA binding domain  
  3.73e-19   4-97   B3 DNA binding domain  
  1.96e-18   157-248   B3 DNA binding domain  
Sopim08g006220.0.1   1.96e-19   5-98   B3 DNA binding domain  
  1.08e-18   148-239   B3 DNA binding domain  
Sopim08g006230.0.1   4.12e-17   41-122   B3 DNA binding domain  
  4.12e-16   158-245   B3 DNA binding domain  
  0.00000000000000106   250-333   B3 DNA binding domain  
Sopim08g006240.0.1   2.16e-19   4-98   B3 DNA binding domain  
  7.85e-19   153-248   B3 DNA binding domain  
  0.00000000000000112   385-477   B3 DNA binding domain  
  0.00000000000000157   276-367   B3 DNA binding domain  
Sopim08g006260.0.1   1.12e-18   8-102   B3 DNA binding domain  
  7.06e-17   137-226   B3 DNA binding domain  
Sopim08g006270.0.1   1.04e-19   45-137   B3 DNA binding domain  
Sopim08g006280.0.1   3.53e-17   134-232   B3 DNA binding domain  
  0.000000000000687   449-544   B3 DNA binding domain  
  0.0000000000235   8-99   B3 DNA binding domain  
Sopim08g006490.0.1   5.3e-19   5-102   B3 DNA binding domain  
  0.0000000000000122   158-257   B3 DNA binding domain  
Sopim08g008380.0.1   9.94e-23   121-252   B3 DNA binding domain  
Sopim08g013690.0.1   1.02e-31   50-159   B3 DNA binding domain  
Sopim08g013700.0.1   9.29e-32   52-161   B3 DNA binding domain  
Sopim08g029090.0.1   4.71e-20   479-579   B3 DNA binding domain  
  3.34e-19   3-96   B3 DNA binding domain  
Sopim08g068540.0.1   3.73e-23   267-362   B3 DNA binding domain  
  6.08e-16   11-103   B3 DNA binding domain  
Sopim08g075900.0.1   0.000000432   152-249   B3 DNA binding domain  
Sopim08g082630.0.1   2.22e-40   109-245   B3 DNA binding domain  
Sopim08g083400.0.1   2.09e-29   47-152   B3 DNA binding domain  
Sopim09g007810.0.1   4.32e-29   116-223   B3 DNA binding domain  
Sopim09g010230.0.1   3.53e-30   57-173   B3 DNA binding domain  
Sopim09g059560.0.1   0.0000451   24-86   B3 DNA binding domain  
Sopim10g053890.0.1   1.8e-19   23-121   B3 DNA binding domain  
Sopim10g075030.0.1   2.22e-19   319-421   B3 DNA binding domain  
Sopim10g083210.0.1   1.09e-30   44-151   B3 DNA binding domain  
Sopim10g086130.0.1   1.7e-28   114-222   B3 DNA binding domain  
Sopim11g013480.0.1   8.37e-30   104-219   B3 DNA binding domain  
Sopim11g044510.0.1   0.0000000314   252-355   B3 DNA binding domain  
  0.0000000667   131-235   B3 DNA binding domain  
  0.0000000902   4-105   B3 DNA binding domain  
Sopim11g045450.0.1   0.00000000000000235   2-96   B3 DNA binding domain  
  0.000000294   228-291   B3 DNA binding domain  
Sopim11g069190.0.1   1.31e-43   168-292   B3 DNA binding domain  
Sopim11g069500.0.1   4.71e-29   109-214   B3 DNA binding domain  
Sopim12g006340.0.1   2.62e-29   113-188   B3 DNA binding domain  
Sopim12g006350.0.1   2.35e-28   113-186   B3 DNA binding domain  
Sopim12g007300.0.1   9.29e-18   128-224   B3 DNA binding domain  
Sopim12g042070.0.1   4.19e-40   124-257   B3 DNA binding domain  
Sopim12g098460.0.1   1.23e-22   37-123   B3 DNA binding domain  
 
Weak hits:
Sopim00g016470.0.1   0.0141   12-60   B3 DNA binding domain  
Sopim02g062880.0.1   0.002   22-78   B3 DNA binding domain  

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View all assignments containing a DNA-binding pseudobarrel domain domain in each group of genomes.

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Select to display   Genome       Domains   Proteins
No Yes ALL   57946 57946
No Yes Selaginella moellendorffii   61 54
No Yes Pinus taeda Loblolly pine 54 49
No Yes Picea abies Norway spruce 29 27
No Yes Eucalyptus grandis v201 Rose gum 189 148
No Yes Theobroma cacao B97-61/B2 v1 Cacao 150 125
No Yes Gossypium raimondii v221   404 319
No Yes Citrus clementina v165   159 123
No Yes Citrus sinensis v154 Sweet orange 172 150
No Yes Thellungiella halophila v173   198 126
No Yes Brassica rapa Chiifu-401 1.2 Field mustard 346 211
No Yes Capsella rubella v183   179 122
No Yes Arabidopsis lyrata Lyrate rockcress 225 140
No Yes Arabidopsis thaliana 10 Thale cress 224 149
No Yes Carica papaya Papaya 75 59
No Yes Medicago truncatula Barrel medic 363 273
No Yes Phaseolus vulgaris v186 French bean 133 99
No Yes Glycine max v109 Soybean 186 164
No Yes Cucumis sativus v122 Cucumber 105 89
No Yes Fragaria vesca Wild strawberry 202 132
No Yes Malus domestica v196 Apple 188 146
No Yes Prunus persica v139 Peach 143 114
No Yes Linum usitatissimum v200 Flax 224 162
No Yes Manihot esculenta v147 Cassava 184 148
No Yes Populus trichocarpa v156 Black cottonwood 212 195
No Yes Vitis vinifera Wine grape 61 50
No Yes Mimulus guttatus v140 Spotted monkey flower 118 99
No Yes Solanum lycopersicum v.2.3 Tomato 164 113
No Yes Solanum tuberosum Potato 226 171
No Yes Actinidia chinensis Hongyang   150 115
No Yes Aquilegia coerulea v195   183 147
No Yes Triticum urartu 22   181 115
No Yes Triticum aestivum 22 Bread wheat 237 190
No Yes Aegilops tauschii 22   232 142
No Yes Brachypodium distachyon Stiff brome 128 95
No Yes Oryza barthii 22 African wild rice 177 124
No Yes Oryza meridionalis 22   193 117
No Yes Oryza glumaepatula 22   181 126
No Yes Oryza glaberrima African rice 109 80
No Yes Oryza punctata 22   172 112
No Yes Oryza nivara 22   190 137
No Yes Oryza brachyantha 22 Malo sina 96 77
No Yes Oryza sativa ssp. japonica 5.0 Japanese rice 173 134
No Yes Oryza sativa v193 Rice 168 132
No Yes Phyllostachys heterocyclavar. pubescens Kikko-chiku 91 82
No Yes Panicum virgatum v202 Switchgrass 293 217
No Yes Setaria italica v164 Foxtail millet 153 114
No Yes Zea mays subsp. mays Maize 157 141
No Yes Zea mays v181 Maize 171 153
No Yes Sorghum bicolor Sorghum 129 94
No Yes Musa balbisiana Balbis banana 117 112
No Yes Musa acuminata 22 Wild Malaysian banana 109 107
No Yes Amborella trichopoda 22   54 49
No Yes Physcomitrella patens   68 53
No Yes Coccomyxa subellipsoidea sp. C-169 v2   4 4
No Yes Asterochloris sp. Cgr/DA1pho v1.0   3 3
No Yes Chlorella variabilis sp. NC64A   8 8
No Yes Chlorella vulgaris   4 4
No Yes Volvox carteri f. nagariensis   1 1
No Yes Chlamydomonas reinhardtii 4.0   2 2
No Yes Micromonas sp. RCC299   1 1
No Yes Micromonas pusilla CCMP1545 v3.0   2 2
No Yes Eubacterium rectale ATCC 33656   1 1
No Yes Bacteroides fragilis YCH46   1 1
No Yes Treponema succinifaciens DSM 2489   1 1
No Yes Geobacter lovleyi SZ   1 1
No Yes Thauera sp. MZ1T   1 1
No Yes Acidiphilium cryptum JF-5   1 1
No Yes Edwardsiella ictaluri 93-146   1 1
No Yes Rahnella aquatilis CIP 78.65 = ATCC 33071   1 1
No Yes Serratia proteamaculans 568   1 1
No Yes Erwinia pyrifoliae Ep1/96   1 1
No Yes Citrobacter koseri ATCC BAA-895   1 1
No Yes Theobroma cacao Matina 1-6 v0.9 Cacao 140 116
No Yes Hordeum vulgare 22 Domesticated barley 308 227
No Yes Oryza sativa ssp. Indica (Subspecies) Long-grained rice 135 95
No Yes Leptospirillum ferriphilum ML-04   1 1
No Yes Neisseria meningitidis WUE 2594   1 1
No Yes Neisseria meningitidis M04-240196   1 1
No Yes Neisseria meningitidis M01-240149   1 1
No Yes Neisseria meningitidis NZ-05/33   1 1
No Yes Neisseria meningitidis 053442   1 1
No Yes Neisseria meningitidis Z2491   1 1
No Yes Neisseria meningitidis H44/76   1 1
No Yes Neisseria meningitidis alpha710   1 1
No Yes Neisseria meningitidis MC58   1 1
No Yes Taylorella equigenitalis 14/56   1 1
No Yes Erwinia pyrifoliae DSM 12163   1 1
No Yes Cronobacter sakazakii CMCC 45402   1 1
No Yes Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980   1 1
No Yes Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633   1 1
No Yes Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7   1 1
No Yes Salmonella enterica subsp. enterica serovar Heidelberg str. 41578   1 1
No Yes Escherichia coli O7:K1 str. CE10   1 1
No Yes Escherichia coli IAI39   1 1
No Yes Pseudomonas putida GB-1   1 1
No Yes Lotus japonicus (Early assembly)   83 76
No Yes Malus x domestica (Duplicate) Apple 188 146
No Yes Ricinus communis (Early assembly) Castor bean 89 70
No Yes Nicotiana benthamiana 0.4.4 (Early draft)   217 160
No Yes Solanum pimpinellifolium A-1.0 (Early draft) Currant tomato 157 111
No Yes Solanum lycopersicum v2.3 (Early assembly) Tomato 164 113
No Yes Phoenix dactylifera (Early draft) Date palm 47 39
No Yes Arabidopsis thaliana 10 Thale cress 188 121
No Yes 4_050719Q (meta-genome)   1 1
No Yes Activated sludge plasmid pool Visp-2009 (Newbler) (meta-genome)   2 2
No Yes Air microbial communities Singapore indoor air filters 1 (meta-genome)   2 2
No Yes Combined (meta-genome)   1 1
No Yes Cyphomyrmex longiscapus fungus garden (meta-genome)   3 3
No Yes Dendroctonus ponderosae fungus gallery (Hybrid pine) (MPB hybrid gallery) (meta-genome)   1 1
No Yes Dump top (Dump top) (meta-genome)   1 1
No Yes Endophytic microbiome from Rice (meta-genome)   3 3
No Yes Fungus garden combined (combined) (meta-genome)   1 1
No Yes Fungus garden microbial communities from Atta colombica in Panama, sample from fungus garden bottom (Fungus garden bottom) (meta-genome)   1 1
No Yes Fungus garden microbial communities from Atta colombica in Panama, sample from fungus garden top (meta-genome)   2 2
No Yes Guerrero Negro salt ponds hypersaline mat 03(I) (meta-genome)   1 1
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP15 from Mushroom Spring (meta-genome)   1 1
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP16 from Fairy Spring Red Layer (meta-genome)   1 1
No Yes Macropus eugenii forestomach microbiome from Canberra, Australia, sample Macropus_eugenii_combined (meta-genome)   1 1
No Yes Maize field bulk soil microbial communities from University of Illinois Energy Farm, Urbana, IL (Bulk soil sample from field growing corn (Zea may (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment combined (v2) (meta-genome)   3 3
No Yes Methylotrophic community from Lake Washington sediment Formaldehyde enrichment (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment Methane enrichment (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment Methylamine enrichment (meta-genome)   1 1
No Yes NCBI 2017_08 genome   21482 16439
No Yes Oak Ridge Pristine Groundwater FRC FW301 (meta-genome)   1 1
No Yes STRING v9.0.5 (STRING)   1243 923
No Yes Switchgrass rhizosphere microbial community from Michigan, US, sample from East Lansing bulk soil (meta-genome)   1 1
No Yes Uniprot 2018_03 genome   19880 14856
No Yes Wastewater Terephthalate-degrading communities from Bioreactor (meta-genome)   2 2
No Yes Global Ocean Sampling Expedition (GOS)   2 2
No Yes NCBI plasmid sequences (Plasmids)   34 34
No Yes PDB chains (SCOP 1.75) (PDB)   3 3
No Yes Protein Data Bank (all PDB sequenc)   27 27
No Yes SCOP2 SCOPe CATH ECOD (all domain sequ)   28 28
No Yes TargetDB (Targets)   78 63
No Yes The Salmonella enterica Pan-genome (meta-genome)   4 4

Jump to [ Top of page · Assignment details · Add assignments from groups of genomes · Add assignments from 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.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.