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Pyruvate phosphate dikinase, central domain family domain assignments
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PDB chains (SCOP 1.75)

Assignment details

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PDB chains (SCOP 1.75) (PDB) has 9 significant domains in 9 proteins.

     

Sequence ID   Superfamily evalue   Family evalue   Region   Closest structure  
1dikA   1.39e-36   0.000000745   379-508   1kbl A:377-509  
1ggoA   8.78e-36   0.000000745   378-507   1kbl A:377-509  
1h6zA   4.03e-36   0.00000185   415-537   1h6z A:406-537  
1jdeA   1.39e-36   0.000000745   378-507   1kbl A:377-509  
1kblA   1.39e-36   0.000000745   378-507   1kbl A:377-509  
1vbgA   1.02e-37   0.000000864   390-514   1vbg A:383-517  
2dikA   1.39e-36   0.000000745   378-507   1kbl A:377-509  
2fm4A   5.2e-38   0.00000143   5-125   1kbl A:377-509  
2r82A   1.39e-36   0.000000745   379-508   1kbl A:377-509  

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Select to display   Genome       Domains   Proteins
No Yes ALL   15659 15659
No Yes Selaginella moellendorffii   2 2
No Yes Pinus taeda Loblolly pine 1 1
No Yes Picea abies Norway spruce 1 1
No Yes Eucalyptus grandis v201 Rose gum 2 2
No Yes Theobroma cacao B97-61/B2 v1 Cacao 2 2
No Yes Gossypium raimondii v221   1 1
No Yes Citrus clementina v165   1 1
No Yes Citrus sinensis v154 Sweet orange 1 1
No Yes Thellungiella halophila v173   1 1
No Yes Brassica rapa Chiifu-401 1.2 Field mustard 2 2
No Yes Capsella rubella v183   1 1
No Yes Arabidopsis lyrata Lyrate rockcress 1 1
No Yes Arabidopsis thaliana 10 Thale cress 6 6
No Yes Carica papaya Papaya 1 1
No Yes Medicago truncatula Barrel medic 1 1
No Yes Phaseolus vulgaris v186 French bean 2 2
No Yes Glycine max v109 Soybean 3 3
No Yes Cucumis sativus v122 Cucumber 1 1
No Yes Fragaria vesca Wild strawberry 1 1
No Yes Malus domestica v196 Apple 5 5
No Yes Prunus persica v139 Peach 1 1
No Yes Linum usitatissimum v200 Flax 2 2
No Yes Manihot esculenta v147 Cassava 1 1
No Yes Populus trichocarpa v156 Black cottonwood 2 2
No Yes Vitis vinifera Wine grape 1 1
No Yes Mimulus guttatus v140 Spotted monkey flower 2 2
No Yes Solanum lycopersicum v.2.3 Tomato 1 1
No Yes Solanum tuberosum Potato 3 3
No Yes Actinidia chinensis Hongyang   3 3
No Yes Aquilegia coerulea v195   1 1
No Yes Triticum urartu 22   1 1
No Yes Aegilops tauschii 22   1 1
No Yes Brachypodium distachyon Stiff brome 1 1
No Yes Oryza barthii 22 African wild rice 2 2
No Yes Oryza meridionalis 22   2 2
No Yes Oryza glumaepatula 22   2 2
No Yes Oryza glaberrima African rice 1 1
No Yes Oryza punctata 22   4 4
No Yes Oryza nivara 22   4 4
No Yes Oryza brachyantha 22 Malo sina 2 2
No Yes Oryza sativa ssp. japonica 5.0 Japanese rice 5 5
No Yes Oryza sativa v193 Rice 5 5
No Yes Phyllostachys heterocyclavar. pubescens Kikko-chiku 3 3
No Yes Panicum virgatum v202 Switchgrass 3 3
No Yes Setaria italica v164 Foxtail millet 6 6
No Yes Zea mays subsp. mays Maize 5 5
No Yes Zea mays v181 Maize 5 5
No Yes Sorghum bicolor Sorghum 1 1
No Yes Musa balbisiana Balbis banana 3 3
No Yes Musa acuminata 22 Wild Malaysian banana 3 3
No Yes Amborella trichopoda 22   1 1
No Yes Physcomitrella patens   1 1
No Yes Chlorella variabilis sp. NC64A   1 1
No Yes Volvox carteri f. nagariensis   2 2
No Yes Volvox carteri v199   2 2
No Yes Chlamydomonas reinhardtii 4.0   2 2
No Yes Ostreococcus sp. RCC809   2 2
No Yes Ostreococcus lucimarinus CCE9901   2 2
No Yes Ostreococcus tauri   1 1
No Yes Micromonas sp. RCC299   2 2
No Yes Micromonas pusilla CCMP1545 v3.0   2 2
No Yes Bigelowiella natans CCMP2755 22   1 1
No Yes Leishmania mexicana 2.4   1 1
No Yes Leishmania major strain Friedlin   1 1
No Yes Leishmania infantum JPCM5 2.4   1 1
No Yes Leishmania braziliensis MHOM/BR/75/M2904 2.4   1 1
No Yes Trypanosoma vivax   1 1
No Yes Trypanosoma cruzi strain CL Brener   1 1
No Yes Trypanosoma congolense 2.4   1 1
No Yes Trypanosoma brucei gambiense v4.1   1 1
No Yes Trypanosoma brucei TREU927 v4.1   1 1
No Yes Ectocarpus siliculosus   1 1
No Yes Pythium vexans DAOM BR484 22   1 1
No Yes Phytophthora ramorum 1.1 Sudden oak death agent 2 2
No Yes Phytophthora sojae 1.1   2 2
No Yes Phytophthora infestans T30-4   1 1
No Yes Phytophthora capsici   1 1
No Yes Thalassiosira pseudonana CCMP1335   1 1
No Yes Paramecium tetraurelia   1 1
No Yes Guillardia theta CCMP2712 v1.0   1 1
No Yes Kribbella flavida DSM 17836   1 1
No Yes Sphaerobacter thermophilus DSM 20745   1 1
No Yes Anaerococcus prevotii DSM 20548   1 1
No Yes Finegoldia magna ATCC 29328   1 1
No Yes Erysipelothrix rhusiopathiae str. Fujisawa   1 1
No Yes Clostridiales genomosp. BVAB3 str. UPII9-5   1 1
No Yes Clostridium clariflavum DSM 19732   1 1
No Yes Eubacterium siraeum   1 1
No Yes Clostridium thermocellum ATCC 27405   1 1
No Yes Faecalibacterium prausnitzii   1 1
No Yes Ruminococcus sp.   1 1
No Yes Ruminococcus bromii   1 1
No Yes Ruminococcus albus 7   1 1
No Yes Oscillibacter valericigenes Sjm18-20   1 1
No Yes butyrate-producing bacterium SS3/4   1 1
No Yes butyrate-producing bacterium SM4/1   1 1
No Yes Thermincola potens JR   1 1
No Yes Desulfotomaculum acetoxidans DSM 771   1 1
No Yes Acetobacterium woodii DSM 1030   1 1
No Yes Eubacterium eligens ATCC 27750   1 1
No Yes Eubacterium limosum KIST612   1 1
No Yes Clostridium difficile 630   1 1
No Yes Clostridium sticklandii DSM 519   1 1
No Yes Filifactor alocis ATCC 35896   1 1
No Yes Clostridium saccharolyticum WM1   1 1
No Yes Clostridium phytofermentans ISDg   1 1
No Yes Clostridium lentocellum DSM 5427   1 1
No Yes [Ruminococcus] obeum   1 1
No Yes [Ruminococcus] torques   1 1
No Yes Eubacterium rectale M104/1   1 1
No Yes Eubacterium rectale ATCC 33656   1 1
No Yes Coprococcus sp. ART55/1   1 1
No Yes Roseburia hominis A2-183   1 1
No Yes Roseburia intestinalis   1 1
No Yes Butyrivibrio proteoclasticus B316   1 1
No Yes Butyrivibrio fibrisolvens   1 1
No Yes Alkaliphilus oremlandii OhILAs   1 1
No Yes Alkaliphilus metalliredigens QYMF   1 1
No Yes Candidatus Arthromitus sp. SFB-mouse-Japan   1 1
No Yes Clostridium novyi NT   1 1
No Yes Clostridium ljungdahlii DSM 13528   1 1
No Yes Clostridium kluyveri DSM 555   1 1
No Yes Clostridium beijerinckii NCIMB 8052   1 1
No Yes Clostridium tetani E88   1 1
No Yes Clostridium perfringens ATCC 13124   1 1
No Yes Clostridium cellulovorans 743B   1 1
No Yes Clostridium botulinum A str. ATCC 3502   1 1
No Yes Mahella australiensis 50-1 BON   1 1
No Yes Caldicellulosiruptor obsidiansis OB47   1 1
No Yes Caldicellulosiruptor kronotskyensis 2002   1 1
No Yes Caldicellulosiruptor hydrothermalis 108   1 1
No Yes Caldicellulosiruptor owensensis OL   1 1
No Yes Caldicellulosiruptor lactoaceticus 6A   1 1
No Yes Caldicellulosiruptor kristjanssonii 177R1B   1 1
No Yes Caldicellulosiruptor saccharolyticus DSM 8903   1 1
No Yes Caldicellulosiruptor bescii DSM 6725   1 1
No Yes Thermoanaerobacterium xylanolyticum LX-11   1 1
No Yes Thermoanaerobacterium thermosaccharolyticum DSM 571   1 1
No Yes Thermoanaerobacter tengcongensis MB4   1 1
No Yes Carboxydothermus hydrogenoformans Z-2901   1 1
No Yes Thermoanaerobacter mathranii subsp. mathranii str. A3   1 1
No Yes Thermoanaerobacter pseudethanolicus ATCC 33223   1 1
No Yes Thermoanaerobacter sp. X514   1 1
No Yes Thermoanaerobacter italicus Ab9   1 1
No Yes Thermoanaerobacter wiegelii Rt8.B1   1 1
No Yes Thermoanaerobacter brockii subsp. finnii Ako-1   1 1
No Yes Acetohalobium arabaticum DSM 5501   1 1
No Yes Halanaerobium hydrogeniformans   2 2
No Yes Halanaerobium praevalens DSM 2228   1 1
No Yes Tetragenococcus halophilus NBRC 12172   1 1
No Yes Enterococcus sp. 7L76   1 1
No Yes Enterococcus faecalis 62   1 1
No Yes Lactobacillus casei ATCC 334   1 1
No Yes Lactobacillus rhamnosus Lc 705   1 1
No Yes Lactobacillus sakei subsp. sakei 23K   1 1
No Yes Lactococcus garvieae ATCC 49156   1 1
No Yes Streptococcus sp. I-P16   1 1
No Yes Streptococcus intermedius JTH08   1 1
No Yes Streptococcus dysgalactiae subsp. equisimilis GGS_124   1 1
No Yes Streptococcus uberis 0140J   1 1
No Yes Streptococcus parauberis KCTC 11537   1 1
No Yes Streptococcus parasanguinis ATCC 15912   1 1
No Yes Streptococcus sanguinis SK36   1 1
No Yes Streptococcus gordonii str. Challis substr. CH1   1 1
No Yes Paenibacillus mucilaginosus 3016   1 1
No Yes Listeria welshimeri serovar 6b str. SLCC5334   1 1
No Yes Listeria innocua Clip11262   1 1
No Yes Listeria seeligeri serovar 1/2b str. SLCC3954   1 1
No Yes Listeria monocytogenes serotype 4b str. CLIP 80459   1 1
No Yes Listeria ivanovii subsp. ivanovii PAM 55   1 1
No Yes Macrococcus caseolyticus JCSC5402   1 1
No Yes Staphylococcus pseudintermedius HKU10-03   1 1
No Yes Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305   1 1
No Yes Staphylococcus lugdunensis HKU09-01   1 1
No Yes Staphylococcus haemolyticus JCSC1435   1 1
No Yes Staphylococcus epidermidis RP62A   1 1
No Yes Staphylococcus carnosus subsp. carnosus TM300   1 1
No Yes Candidatus Cloacamonas acidaminovorans   1 1
No Yes Melioribacter roseus P3M   1 1
No Yes Pelodictyon phaeoclathratiforme BU-1   1 1
No Yes Chloroherpeton thalassium ATCC 35110   1 1
No Yes Haliscomenobacter hydrossis DSM 1100   1 1
No Yes Rhodothermus marinus DSM 4252   1 1
No Yes Parabacteroides distasonis ATCC 8503   1 1
No Yes Tannerella forsythia ATCC 43037   1 1
No Yes Paludibacter propionicigenes WB4   1 1
No Yes Odoribacter splanchnicus DSM 20712   1 1
No Yes Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2   1 1
No Yes Bacteroides sp. CF50   1 1
No Yes Prevotella melaninogenica ATCC 25845   1 1
No Yes Prevotella intermedia 17   1 1
No Yes Prevotella denticola F0289   1 1
No Yes Prevotella ruminicola 23   1 1
No Yes Porphyromonas asaccharolytica DSM 20707   1 1
No Yes Porphyromonas gingivalis ATCC 33277   1 1
No Yes Alistipes finegoldii DSM 17242   1 1
No Yes Bacteroides salanitronis DSM 18170   1 1
No Yes Bacteroides helcogenes P 36-108   1 1
No Yes Bacteroides vulgatus ATCC 8482   1 1
No Yes Bacteroides thetaiotaomicron VPI-5482   1 1
No Yes Bacteroides fragilis YCH46   1 1
No Yes Maribacter sp. HTCC2170   1 1
No Yes Robiginitalea biformata HTCC2501   1 1
No Yes Muricauda ruestringensis DSM 13258   1 1
No Yes Ornithobacterium rhinotracheale DSM 15997   1 1
No Yes Rhodopirellula baltica SH 1   1 1
No Yes Opitutus terrae PB90-1   1 1
No Yes Fretibacterium fastidiosum   1 1
No Yes Brachyspira murdochii DSM 12563   1 1
No Yes Brachyspira intermedia PWS/A   1 1
No Yes Brachyspira pilosicoli 95/1000   1 1
No Yes Brachyspira hyodysenteriae WA1   1 1
No Yes Spirochaeta smaragdinae DSM 11293   1 1
No Yes Treponema denticola ATCC 35405   1 1
No Yes Desulfurispirillum indicum S5   1 1
No Yes Calditerrivibrio nitroreducens DSM 19672   1 1
No Yes Denitrovibrio acetiphilus DSM 12809   1 1
No Yes Deferribacter desulfuricans SSM1   1 1
No Yes Flexistipes sinusarabici DSM 4947   1 1
No Yes Thermovibrio ammonificans HB-1   1 1
No Yes Elusimicrobium minutum Pei191   1 1
No Yes Candidatus Chloracidobacterium thermophilum B   1 1
No Yes Thermodesulfovibrio yellowstonii DSM 11347   1 1
No Yes Sebaldella termitidis ATCC 33386   1 1
No Yes Ilyobacter polytropus DSM 2926   1 1
No Yes candidate division SR1 bacterium RAAC1_SR1_1   1 1
No Yes Bacteriovorax marinus SJ   1 1
No Yes Bdellovibrio bacteriovorus HD100   1 1
No Yes Desulfarculus baarsii DSM 2075   1 1
No Yes Syntrophobacter fumaroxidans MPOB   1 1
No Yes Desulfotalea psychrophila LSv54   1 1
No Yes Desulfatibacillum alkenivorans AK-01   1 1
No Yes Desulfobacterium autotrophicum HRM2   1 1
No Yes Geobacter daltonii FRC-32   1 1
No Yes Geobacter sp. M21   1 1
No Yes Geobacter uraniireducens Rf4   1 1
No Yes Geobacter lovleyi SZ   1 1
No Yes Geobacter bemidjiensis Bem   1 1
No Yes Geobacter sulfurreducens KN400   1 1
No Yes Geobacter metallireducens GS-15   1 1
No Yes Pelobacter propionicus DSM 2379   1 1
No Yes Pelobacter carbinolicus DSM 2380   1 1
No Yes Sorangium cellulosum 'So ce 56'   1 1
No Yes Candidatus Accumulibacter phosphatis clade IIA str. UW-1   1 1
No Yes Rubrivivax gelatinosus IL144   1 1
No Yes Sideroxydans lithotrophicus ES-1   1 1
No Yes Magnetococcus marinus MC-1   1 1
No Yes Parvularcula bermudensis HTCC2503   1 1
No Yes Brevundimonas subvibrioides ATCC 15264   1 1
No Yes Caulobacter sp. K31   1 1
No Yes Caulobacter crescentus NA1000   1 1
No Yes Caulobacter segnis ATCC 21756   1 1
No Yes Sphingopyxis alaskensis RB2256   1 1
No Yes Novosphingobium sp. PP1Y   2 2
No Yes Novosphingobium aromaticivorans DSM 12444   1 1
No Yes Sphingobium japonicum UT26S   1 1
No Yes Sphingobium chlorophenolicum L-1   1 1
No Yes Maricaulis maris MCS10   1 1
No Yes Rhodospirillum photometricum DSM 122   1 1
No Yes Tistrella mobilis KA081020-065   1 1
No Yes Magnetospirillum magneticum AMB-1   1 1
No Yes Azospirillum lipoferum 4B   1 1
No Yes Azospirillum sp. B510   1 1
No Yes Azospirillum brasilense Sp245   1 1
No Yes Gluconacetobacter xylinus NBRC 3288   1 1
No Yes Gluconacetobacter diazotrophicus PAl 5   1 1
No Yes Acidiphilium multivorum AIU301   1 1
No Yes Acidiphilium cryptum JF-5   1 1
No Yes Polymorphum gilvum SL003B-26A1   1 1
No Yes Micavibrio aeruginosavorus ARL-13   1 1
No Yes alpha proteobacterium HIMB5   1 1
No Yes Candidatus Pelagibacter sp. IMCC9063   1 1
No Yes Wolbachia endosymbiont of Culex quinquefasciatus Pel   1 1
No Yes Starkeya novella DSM 506   1 1
No Yes Xanthobacter autotrophicus Py2   1 1
No Yes Azorhizobium caulinodans ORS 571   1 1
No Yes Methylobacterium chloromethanicum CM4   1 1
No Yes Methylobacterium extorquens AM1   1 1
No Yes Methylobacterium sp. 4-46   1 1
No Yes Methylobacterium populi BJ001   1 1
No Yes Methylobacterium nodulans ORS 2060   1 1
No Yes Methylobacterium radiotolerans JCM 2831   1 1
No Yes Parvibaculum lavamentivorans DS-1   1 1
No Yes Ochrobactrum anthropi ATCC 49188   1 1
No Yes Brucella microti CCM 4915   1 1
No Yes Brucella pinnipedialis B2/94   1 1
No Yes Brucella canis ATCC 23365   1 1
No Yes Brucella suis ATCC 23445   1 1
No Yes Brucella melitensis ATCC 23457   1 1
No Yes Brucella ovis ATCC 25840   1 1
No Yes Brucella abortus S19   1 1
No Yes Sinorhizobium fredii NGR234   1 1
No Yes Sinorhizobium medicae WSM419   1 1
No Yes Sinorhizobium meliloti AK83   2 2
No Yes Agrobacterium radiobacter K84   1 1
No Yes Methylocella silvestris BL2   1 1
No Yes Beijerinckia indica subsp. indica ATCC 9039   1 1
No Yes Rhodomicrobium vannielii ATCC 17100   1 1
No Yes Oligotropha carboxidovorans OM4   1 1
No Yes Rhodopseudomonas palustris BisA53   1 1
No Yes Nitrobacter winogradskyi Nb-255   1 1
No Yes Nitrobacter hamburgensis X14   1 1
No Yes Bradyrhizobium japonicum USDA 110   1 1
No Yes Bradyrhizobium sp. ORS 278   1 1
No Yes Methylocystis sp. SC2   1 1
No Yes Bartonella tribocorum CIP 105476   1 1
No Yes Bartonella clarridgeiae 73   1 1
No Yes Bartonella henselae str. Houston-1   1 1
No Yes Bartonella grahamii as4aup   1 1
No Yes Bartonella quintana str. Toulouse   1 1
No Yes Bartonella bacilliformis KC583   1 1
No Yes Psychromonas ingrahamii 37   1 1
No Yes Francisella noatunensis subsp. orientalis str. Toba 04   1 1
No Yes Francisella sp. TX077308   1 1
No Yes Francisella philomiragia subsp. philomiragia ATCC 25017   1 1
No Yes Francisella tularensis subsp. tularensis WY96-3418   1 1
No Yes Francisella cf. novicida 3523   1 1
No Yes Francisella novicida U112   1 1
No Yes Fervidicoccus fontis Kam940   1 1
No Yes Methanococcoides burtonii DSM 6242   1 1
No Yes Methanohalophilus mahii DSM 5219   1 1
No Yes Theobroma cacao Matina 1-6 v0.9 Cacao 2 2
No Yes Oryza sativa ssp. Indica (Subspecies) Long-grained rice 2 2
No Yes Trypanosoma brucei Lister 427 v4.1   1 1
No Yes [Eubacterium] cylindroides [Eubacterium] cylindroides T2-87   1 1
No Yes Erysipelothrix rhusiopathiae SY1027   1 1
No Yes Eubacterium siraeum V10Sc8a   1 1
No Yes Clostridium thermocellum DSM 1313   1 1
No Yes [Clostridium] stercorarium Clostridiu subsp. stercorarium DSM 8532   1 1
No Yes Faecalibacterium prausnitzii L2-6   1 1
No Yes Ruminococcus champanellensis 18P13   1 1
No Yes Clostridium difficile BI1   1 1
No Yes Clostridium difficile R20291   1 1
No Yes Clostridium difficile CD196   1 1
No Yes Clostridium saccharolyticum Clostridium cf. saccharolyticum K10   1 1
No Yes Roseburia intestinalis XB6B4   1 1
No Yes Candidatus Arthromitus sp. SFB-rat-Yit   1 1
No Yes Candidatus Arthromitus sp. SFB-mouse-Yit   1 1
No Yes Clostridium sp. SY8519   1 1
No Yes Clostridium saccharobutylicum DSM 13864   1 1
No Yes Clostridium autoethanogenum DSM 10061   1 1
No Yes Clostridium saccharoperbutylacetonicum N1-4(HMT)   1 1
No Yes Clostridium kluyveri NBRC 12016   1 1
No Yes Clostridium tetani genome 12124569   1 1
No Yes Clostridium perfringens SM101   1 1
No Yes Clostridium perfringens str. 13   1 1
No Yes Clostridium pasteurianum BC1   1 1
No Yes Clostridium botulinum H04402 065   1 1
No Yes Clostridium botulinum F str. 230613   1 1
No Yes Clostridium botulinum F str. Langeland   1 1
No Yes Clostridium botulinum E3 str. Alaska E43   1 1
No Yes Clostridium botulinum B1 str. Okra   1 1
No Yes Clostridium botulinum Ba4 str. 657   1 1
No Yes Clostridium botulinum A2 str. Kyoto   1 1
No Yes Clostridium botulinum A3 str. Loch Maree   1 1
No Yes Clostridium botulinum A str. Hall   1 1
No Yes Clostridium botulinum A str. ATCC 19397   1 1
No Yes Thermoanaerobacterium saccharolyticum JW/SL-YS485   1 1
No Yes Thermoanaerobacterium thermosaccharolyticum M0795   1 1
No Yes Thermacetogenium phaeum DSM 12270   1 1
No Yes Thermoanaerobacter sp. X513   1 1
No Yes Enterococcus casseliflavus EC20   1 1
No Yes Enterococcus faecalis str. Symbioflor 1   1 1
No Yes Enterococcus faecalis D32   1 1
No Yes Enterococcus faecalis OG1RF   1 1
No Yes Enterococcus faecalis V583   1 1
No Yes Lactobacillus paracasei subsp. paracasei 8700:2   1 1
No Yes Lactobacillus casei LOCK919   1 1
No Yes Lactobacillus casei W56   1 1
No Yes Lactobacillus casei LC2W   1 1
No Yes Lactobacillus casei BD-II   1 1
No Yes Lactobacillus casei BL23   1 1
No Yes Lactobacillus casei str. Zhang   1 1
No Yes Lactobacillus rhamnosus LOCK908   1 1
No Yes Lactobacillus rhamnosus LOCK900   1 1
No Yes Lactobacillus rhamnosus ATCC 8530   1 1
No Yes Lactobacillus rhamnosus GG   1 1
No Yes Lactobacillus rhamnosus GG   1 1
No Yes Lactococcus garvieae Lg2   1 1
No Yes Streptococcus constellatus subsp. pharyngis C1050   1 1
No Yes Streptococcus constellatus subsp. pharyngis C818   1 1
No Yes Streptococcus constellatus subsp. pharyngis C232   1 1
No Yes Streptococcus anginosus C238   1 1
No Yes Streptococcus anginosus C1051   1 1
No Yes Streptococcus dysgalactiae subsp. equisimilis 167   1 1
No Yes Streptococcus dysgalactiae subsp. equisimilis AC-2713   1 1
No Yes Streptococcus dysgalactiae subsp. equisimilis ATCC 12394   1 1
No Yes Streptococcus dysgalactiae subsp. equisimilis RE378   1 1
No Yes Streptococcus iniae SF1   1 1
No Yes Streptococcus parasanguinis FW213   1 1
No Yes Paenibacillus mucilaginosus KNP414   1 1
No Yes Paenibacillus mucilaginosus K02   1 1
No Yes Paenibacillus larvae subsp. larvae DSM 25430   1 1
No Yes Listeria monocytogenes EGD sequence   1 1
No Yes Listeria monocytogenes serotype 4b str. LL195   1 1
No Yes Listeria monocytogenes 07PF0776   1 1
No Yes Listeria monocytogenes M7   1 1
No Yes Listeria monocytogenes J1-220   1 1
No Yes Listeria monocytogenes J1816   1 1
No Yes Listeria monocytogenes SLCC2376   1 1
No Yes Listeria monocytogenes SLCC5850   1 1
No Yes Listeria monocytogenes ATCC 19117   1 1
No Yes Listeria monocytogenes L312   1 1
No Yes Listeria monocytogenes SLCC2479   1 1
No Yes Listeria monocytogenes SLCC7179   1 1
No Yes Listeria monocytogenes SLCC2540   1 1
No Yes Listeria monocytogenes SLCC2378   1 1
No Yes Listeria monocytogenes serotype 1/2b str. SLCC2755   1 1
No Yes Listeria monocytogenes serotype 1/2c str. SLCC2372   1 1
No Yes Listeria monocytogenes serotype 7 str. SLCC2482   1 1
No Yes Listeria monocytogenes 08-5578   1 1
No Yes Listeria monocytogenes 08-5923   1 1
No Yes Listeria monocytogenes L99   1 1
No Yes Listeria monocytogenes HCC23   1 1
No Yes Listeria monocytogenes 10403S   1 1
No Yes Listeria monocytogenes J0161   1 1
No Yes Listeria monocytogenes Finland 1998   1 1
No Yes Listeria monocytogenes FSL R2-561   1 1
No Yes Listeria monocytogenes serotype 4b str. F2365   1 1
No Yes Listeria monocytogenes EGD-e   1 1
No Yes Staphylococcus pseudintermedius ED99   1 1
No Yes Staphylococcus pasteuri SP1   1 1
No Yes Staphylococcus lugdunensis N920143   1 1
No Yes Staphylococcus warneri SG1   1 1
No Yes Staphylococcus epidermidis ATCC 12228   1 1
No Yes Chlorobium phaeobacteroides BS1   1 1
No Yes Rhodothermus marinus SG0.5JP17-172   1 1
No Yes Prevotella sp. oral taxon 299 str. F0039   1 1
No Yes Prevotella dentalis DSM 3688   1 1
No Yes Porphyromonas gingivalis TDC60   1 1
No Yes Porphyromonas gingivalis W83   1 1
No Yes Alistipes shahii WAL 8301   1 1
No Yes Bacteroides xylanisolvens XB1A   1 1
No Yes Bacteroides fragilis 638R   1 1
No Yes Bacteroides fragilis NCTC 9343   1 1
No Yes Brachyspira pilosicoli WesB   1 1
No Yes Brachyspira pilosicoli B2904   1 1
No Yes Bdellovibrio exovorus JSS   1 1
No Yes Bdellovibrio bacteriovorus str. Tiberius   1 1
No Yes Geobacter sp. M18   1 1
No Yes Geobacter sulfurreducens PCA   1 1
No Yes Sorangium cellulosum So0157-2   1 1
No Yes Sulfuricella denitrificans skB26   1 1
No Yes Caulobacter crescentus CB15   1 1
No Yes Magnetospirillum gryphiswaldense MSR-1 v2   1 1
No Yes Gluconacetobacter diazotrophicus PAl 5   1 1
No Yes Micavibrio aeruginosavorus EPB   1 1
No Yes Candidatus Pelagibacter ubique HTCC1062   1 1
No Yes Wolbachia endosymbiont of Drosophila simulans wNo   1 1
No Yes Methylobacterium extorquens DM4   1 1
No Yes Methylobacterium extorquens PA1   1 1
No Yes Brucella ceti TE10759-12   1 1
No Yes Brucella canis HSK A52141   1 1
No Yes Brucella suis VBI22   1 1
No Yes Brucella suis 1330   1 1
No Yes Brucella suis 1330   1 1
No Yes Brucella melitensis NI   1 1
No Yes Brucella melitensis M5-90   1 1
No Yes Brucella melitensis M28   1 1
No Yes Brucella melitensis bv. 1 str. 16M   1 1
No Yes Brucella abortus A13334   1 1
No Yes Brucella melitensis biovar Abortus 2308   1 1
No Yes Brucella abortus bv. 1 str. 9-941   1 1
No Yes Sinorhizobium fredii USDA 257   1 1
No Yes Sinorhizobium fredii HH103   1 1
No Yes Sinorhizobium meliloti 2011   1 1
No Yes Sinorhizobium meliloti GR4   1 1
No Yes Sinorhizobium meliloti Rm41   1 1
No Yes Sinorhizobium meliloti SM11   1 1
No Yes Sinorhizobium meliloti BL225C   1 1
No Yes Sinorhizobium meliloti 1021   1 1
No Yes Rhizobium tropici CIAT 899   1 1
No Yes Mesorhizobium australicum WSM2073   1 1
No Yes Hyphomicrobium nitrativorans NL23   1 1
No Yes Oligotropha carboxidovorans OM5   1 1
No Yes Oligotropha carboxidovorans OM5   1 1
No Yes Rhodopseudomonas palustris DX-1   1 1
No Yes Rhodopseudomonas palustris TIE-1   1 1
No Yes Rhodopseudomonas palustris HaA2   1 1
No Yes Rhodopseudomonas palustris BisB5   1 1
No Yes Rhodopseudomonas palustris BisB18   1 1
No Yes Rhodopseudomonas palustris CGA009   1 1
No Yes Bradyrhizobium sp. S23321   1 1
No Yes Bradyrhizobium sp. BTAi1   1 1
No Yes Bradyrhizobium oligotrophicum S58   1 1
No Yes Bradyrhizobium japonicum USDA 6   1 1
No Yes Bartonella australis Aust/NH1   1 1
No Yes Bartonella vinsonii subsp. berkhoffii str. Winnie   1 1
No Yes Bartonella quintana RM-11   1 1
No Yes Francisella noatunensis subsp. orientalis LADL--07-285A   1 1
No Yes Francisella tularensis subsp. mediasiatica FSC147   1 1
No Yes Francisella tularensis subsp. holarctica F92   1 1
No Yes Francisella tularensis subsp. holarctica FTNF002-00   1 1
No Yes Francisella tularensis subsp. holarctica OSU18   1 1
No Yes Francisella tularensis subsp. holarctica LVS   1 1
No Yes Francisella tularensis subsp. holarctica FSC200   1 1
No Yes Francisella tularensis subsp. tularensis TIGB03   1 1
No Yes Francisella tularensis subsp. tularensis TI0902   1 1
No Yes Francisella tularensis subsp. tularensis NE061598   1 1
No Yes Francisella tularensis subsp. tularensis FSC198   1 1
No Yes Francisella tularensis subsp. tularensis SCHU S4   1 1
No Yes Francisella cf. novicida Fx1   1 1
No Yes Methanomethylovorans hollandica DSM 15978   1 1
No Yes Lotus japonicus (Early assembly)   1 1
No Yes Malus x domestica (Duplicate) Apple 5 5
No Yes Nicotiana benthamiana 0.4.4 (Early draft)   2 2
No Yes Solanum pimpinellifolium A-1.0 (Early draft) Currant tomato 1 1
No Yes Solanum lycopersicum v2.3 (Early assembly) Tomato 1 1
No Yes Phoenix dactylifera (Early draft) Date palm 1 1
No Yes Arabidopsis thaliana 10 Thale cress 1 1
No Yes 4_050719Q (meta-genome)   2 2
No Yes 4_Deep_abyss (meta-genome)   1 1
No Yes 5_050719P (meta-genome)   1 1
No Yes 7_Oxygen_minimum_layer (meta-genome)   1 1
No Yes Air microbial communities Singapore indoor air filters 1 (meta-genome)   1 1
No Yes Air microbial communities Singapore indoor air filters 2 (meta-genome)   1 1
No Yes Cyphomyrmex longiscapus fungus garden (meta-genome)   1 1
No Yes Dump top (Dump top) (meta-genome)   1 1
No Yes Fossil microbial community from Whale Fall at Santa Cruz Basin of the Pacific Ocean Sample #1 (meta-genome)   5 5
No Yes Fossil microbial community from Whale Fall at Santa Cruz Basin of the Pacific Ocean Sample #2 (meta-genome)   1 1
No Yes Freshwater propionate enrichment of Brocadia fulgida (meta-genome)   2 2
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 top (meta-genome)   1 1
No Yes Groundwater dechlorinating community (KB-1) from synthetic mineral medium in Toronto, ON, sample from Site contaminated with chlorinated ethenes   2 2
No Yes Guerrero Negro salt ponds hypersaline mat 08(T) (meta-genome)   1 1
No Yes Hindgut microbiome of Nasutitermes sp. (Costa Rica) (meta-genome)   4 4
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP15 from Mushroom Spring (meta-genome)   2 2
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP16 from Fairy Spring Red Layer (meta-genome)   2 2
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP17 from Obsidian Pool Prime (meta-genome)   3 3
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP20 from Bath Lake Vista Annex - Purple-Sulfur Mats (meta-genome)   1 1
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP5 from Bath Lake Vista Annex (meta-genome)   1 1
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP6 from White Creek Site 3 (meta-genome)   1 1
No Yes Human Gut Community Subject 7 (meta-genome)   5 5
No Yes Human Gut Community Subject 8 (meta-genome)   3 3
No Yes Macropus eugenii forestomach microbiome from Canberra, Australia, sample Macropus_eugenii_combined (meta-genome)   4 4
No Yes Marine anammox bioreactor enriched for Scalindua species (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment combined (v2) (meta-genome)   2 2
No Yes Methylotrophic community from Lake Washington sediment Formate enrichment (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment Methanol enrichment (meta-genome)   1 1
No Yes Mouse Gut Community lean3 (meta-genome)   1 1
No Yes Mouse Gut Community ob1 (meta-genome)   1 1
No Yes NCBI 2017_08 genome   9297 9297
No Yes Oak Ridge Pristine Groundwater FRC FW301 (meta-genome)   5 5
No Yes Protozoadb 2010_08 (Protozoadb)   7 7
No Yes simHC - Simulated High Complexity Metagenome (meta-genome)   2 2
No Yes simLC - Simulated Low Complexity Metagenome (meta-genome)   3 3
No Yes simMC - Simulated Medium Complexity Metagenome (meta-genome)   2 2
No Yes Sludge/Australian, Phrap Assembly (meta-genome)   1 1
No Yes Sludge/US, Jazz Assembly (meta-genome)   1 1
No Yes Sludge/US, Phrap Assembly (meta-genome)   2 2
No Yes Soil microbial communities from Minnesota Farm (meta-genome)   7 7
No Yes Soil microbial communities from sample at FACE Site 1 Maryland Estuary CO2- (Maryland Estuary ambient) (meta-genome)   2 2
No Yes Soil microbial communities from sample at FACE Site 4 Nevada Test Site Crust CO2- (meta-genome)   3 3
No Yes Soil microbial communities from sample at FACE Site 5 Oak Ridge CO2+ (Oak Ridge elevated CO2) (meta-genome)   1 1
No Yes Soil microbial communities from sample at FACE Site 5 Oak Ridge CO2- (Oak Ridge ambient) (meta-genome)   2 2
No Yes Soil microbial community from bioreactor at Alameda Naval Air Station, CA, contaminated with Chloroethene, Sample 196 (meta-genome)   3 3
No Yes STRING v9.0.5 (STRING)   187 187
No Yes Switchgrass rhizosphere microbial community from Michigan, US, sample from East Lansing bulk soil (meta-genome)   2 2
No Yes Termite Protist Endosymbiont Community (meta-genome)   1 1
No Yes Uniprot 2018_03 genome   4707 4707
No Yes Wastewater Terephthalate-degrading communities from Bioreactor (meta-genome)   4 4
No Yes Global Ocean Sampling Expedition (GOS)   242 242
No Yes NCBI plasmid sequences (Plasmids)   3 3
No Yes NCBI viral sequences (Viral)   1 1
No Yes PDB chains (SCOP 1.75) (PDB)   9 9
No Yes Protein Data Bank (all PDB sequenc)   20 20
No Yes SCOP2 SCOPe CATH ECOD (all domain sequ)   52 52
No Yes TargetDB (Targets)   2 2

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.