ROCON documentation |
> Q9YBD5^.^11^105^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^SPARSE^61.50^0.000e+00^4.000e-10 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > Q9YBD5^.^95^135^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^SPARSE^11.50^0.000e+00^4.000e-5 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > Q9YBD5^.^181^235^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^SPARSE^161.50^0.000e+00^4.000e-5 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > O26938^.^11^101^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^81.90^0.000e+00^3.000e-16 VKPIKNGTVIDHITANRSLNVLNILGLPDGRSKVTVAMNMDSSQLGSKDIVKIENRELKPSEVDQIALIAPRATINIVRDYKIVEKAKVRL > Q8Z130^.^8^99^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^181.00^0.000e+00^0.000e+00 VEAIKCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLTDEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP > Q7MX57^.^8^99^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^80.80^0.000e+00^7.000e-16 VAAIRNGIVIDHIPPTKLFKVATLLQLDDLDKRITIGNNLRSRSHGSKGVIKIEDKTFEEEELNRIALIAPNVRLNIIRDYEVVEKRQVEVP > Q8TVB1^.^7^98^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^72.70^0.000e+00^2.000e-13 VKRIEMGTVLDHLPPGTAPQIMRILDIDPTETTLLVAINVESSKMGRKDILKIEGKILSEEEANKVALVAPNATVNIVRDYSVAEKFQVKPP > P96175^.^8^99^SCOP^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^107.00^0.000e+00^7.000e-24 VEAICNGYVIDHIPSGQGVKILRLFSLTDTKQRVTVGFNLPSHDGTTKDLIKVENTEITKSQANQLALLAPNATVNIIENFKVTDKHSLALP |
> Q9YBD5^.^11^105^SCOP^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^61.50^0.000e+00^4.000e-10 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > Q9UX07^.^12^104^SCOP^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^65.80^0.000e+00^2.000e-11 VSKIRNGTVIDHIPAGRALAVLRILGIRGSEGYRVALVMNVESKKIGRKDIVKIEDRVIDEKEASLITLIAPSATINIIRDYVVTEKRHLEVP > Q9KP65^.^9^100^SCOP^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^128.00^0.000e+00^3.000e-30 VEAIKNGTVIDHIPAKVGIKVLKLFDMHNSAQRVTIGLNLPSSALGSKDLLKIENVFISEAQANKLALYAPHATVNQIENYEVVKKLALQLP > Q9K1K9^.^8^99^SCOP^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^101.00^0.000e+00^5.000e-22 VEAIEKGTVIDHIPAGRGLTILRQFKLLHYGNAVTVGFNLPSKTQGSKDIIKIKGVCLDDKAADRLALFAPEAVVNTIDNFKVVQKRHLNLP > Q9JWY6^.^8^99^SCOP^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^98.90^0.000e+00^2.000e-21 VEAIEKGTVIDHIPAGRGLTILRQFKLLHYGNAVTVGFNLPSKTQGSKDIIKIKGVCLDDKAADRLALFAPEAVVNTIDHFKVVQKRHLNLP > Q9HKM3^.^7^99^SCOP^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^79.60^0.000e+00^2.000e-15 ISKIRDGTVIDHVPSGKGIRVIGVLGVHEDVNYTVSLAIHVPSNKMGFKDVIKIENRFLDRNELDMISLIAPNATISIIKNYEISEKFQVELP > Q9HHN3^.^9^101^SCOP^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^78.50^0.000e+00^4.000e-15 VSKIQAGTVIDHIPAGQALQVLQILGTNGASDDQITVGMNVTSERHHRKDIVKIEGRELSQDEVDVLSLIAPDATINIVRDYEVDEKRRVDRP > Q97FS4^.^4^93^SCOP^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^49.20^0.000e+00^2.000e-06 INSIKNGIVIDHIKAGHGIKIYNYLKLGEAEFPTALIMNAISKKNKAKDIIKIENVMDLDLAVLGFLDPNITVNIIEDEKIRQKIQLKLP > Q97B28^.^8^100^SCOP^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^79.20^0.000e+00^2.000e-15 ISKIKDGTVIDHIPSGKALRVLSILGIRDDVDYTVSVGMHVPSSKMEYKDVIKIENRSLDKNELDMISLTAPNATISIIKNYEISEKFKVELP > Q970X3^.^11^101^SCOP^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^78.50^0.000e+00^3.000e-15 VSKIKNGTVIDHIPAGRALAVLRILKIAEGYRIALVMNVESKKMGKKDIVKIENKEVDEKEANLITLIAPTATINIIRDYEVVEKKKLKIP > Q8ZTG2^.^7^99^SCOP^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^66.10^0.000e+00^2.000e-11 VSKIENGTVIDHIPAGRALTVLRILGISGKEGLRVALVMNVESKKLGKKDIVKIEGRELTPEEVNIISAVAPTATINIIRNFAVVKKFKVTPP > Q8ZB38^.^9^100^SCOP^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^156.00^0.000e+00^1.000e-38 VEAIKCGTVIDHIPAQIGFKLLSLFKLTATDQRITIGLNLPSKRSGRKDLIKIENTFLTEQQANQLAMYAPDATVNRIDNYEVVKKLTLSLP > Q8Z130^.^8^99^SCOP^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^181.00^0.000e+00^0.000e+00 VEAIKCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLTDEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP > Q8U374^.^6^99^SCOP^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^92.00^0.000e+00^3.000e-19 VSAIKEGTVIDHIPAGKGLKVIQILGLGELKNGGAVLLAMNVPSKKLGRKDIVKVEGKFLSEEEVNKIALVAPTATVNIIREYKVVEKFKVEIP > Q8TVB1^.^7^98^SCOP^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^72.70^0.000e+00^2.000e-13 VKRIEMGTVLDHLPPGTAPQIMRILDIDPTETTLLVAINVESSKMGRKDILKIEGKILSEEEANKVALVAPNATVNIVRDYSVAEKFQVKPP > Q8THL3^.^9^100^SCOP^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^69.20^0.000e+00^2.000e-12 IQAIENGTVIDHITAGQALNVLRILRISSAFRATVSFVMNAPGARGKKDVVKIEGKELSVEELNRIALISPKATINIIRDFEVVQKNKVVLP > Q8PXK6^.^9^100^SCOP^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^62.70^0.000e+00^2.000e-10 VQAIESGTVIDHIKSGQALNVLRILGISSAFRATISFVMNAPGAGGKKDVVKIEGKELSVEELNRIALISPKATINIIRDFVVVQKNNVVLP > Q8K9H8^.^8^99^SCOP^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^146.00^0.000e+00^1.000e-35 VEAIKSGSVIDHIPAHIGFKLLSLFRFTETEKRITIGLNLPSQKLDKKDIIKIENTFLSDDQINQLAIYAPCATVNYIEKYNLVGKIFPSLP > Q8DCF7^.^9^100^SCOP^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^127.00^0.000e+00^9.000e-30 VEAIKNGTVIDHIPAQVGIKVLKLFDMHNSSQRVTIGLNLPSSALGNKDLLKIENVFINEEQASKLALYAPHATVNQIEDYQVVKKLALELP > Q8D1W6^.^9^100^SCOP^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^123.00^0.000e+00^1.000e-28 VEAIFGGTVIDHIPAQVGLKLLSLFKWLHTKERITMGLNLPSNQQKKKDLIKLENVLLNEDQANQLSIYAPLATVNQIKNYIVIKKQKLKLP > Q8A9S4^.^10^101^SCOP^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^63.80^0.000e+00^9.000e-11 VAALKNGTVIDHIPSEKLFTVVQLLGVEQMKCNITIGFNLDSKKLGKKGIIKIADKFFCDEEINRISVVAPYVKLNIIRDYEVVEKKEVRMP > Q891I9^.^4^94^SCOP^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^52.30^0.000e+00^2.000e-07 ITSIKDGIVIDHIKSGYGIKIFNYLNLKNVEYSVALIMNVFSSKLGKKDIIKIANKEIDIDFTVLGLIDPTITINIIEDEKIKEKLNLELP > Q87LF7^.^9^100^SCOP^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^130.00^0.000e+00^7.000e-31 VEAIKNGTVIDHIPAQIGIKVLKLFDMHNSSQRVTIGLNLPSSALGHKDLLKIENVFINEEQASKLALYAPHATVNQIENYEVVKKLALELP > Q83IL8^.^8^99^SCOP^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^189.00^0.000e+00^0.000e+00 VEAIKRGTVIDHIPAQIGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLSEEQVDQLALYAPQATVNRIDNYEVVGKSRPSLP > Q7P144^.^7^98^SCOP^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^128.00^0.000e+00^3.000e-30 VEALKQGTVIDHIPAGEGVKILRLFKLTETGERVTVGLNLVSRHMGSKDLIKVENVALTEEQANELALFAPKATVNVIDNFEVVKKHKLTLP > Q7MZ14^.^9^100^SCOP^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^150.00^0.000e+00^6.000e-37 VEAIRCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSNRLGKKDLIKIENTFLTEQQANQLAMYAPNATVNCIENYEVVKKLPINLP > Q7MX57^.^8^99^SCOP^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^80.80^0.000e+00^7.000e-16 VAAIRNGIVIDHIPPTKLFKVATLLQLDDLDKRITIGNNLRSRSHGSKGVIKIEDKTFEEEELNRIALIAPNVRLNIIRDYEVVEKRQVEVP > Q7MHF0^.^9^100^SCOP^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^127.00^0.000e+00^8.000e-30 VEAIKNGTVIDHIPAQVGIKVLKLFDMHNSSQRVTIGLNLPSSALGNKDLLKIENVFINEEQASKLALYAPHATVNQIEDYQVVKKLALELP > Q58801^.^9^99^SCOP^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^61.50^0.000e+00^5.000e-10 VKKITNGTVIDHIDAGKALMVFKVLNVPKETSVMIAINVPSKKKGKKDILKIEGIELKKEDVDKISLISPDVTINIIRNGKVVEKLKPQIP > P96175^.^8^99^SCOP^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^107.00^0.000e+00^7.000e-24 VEAICNGYVIDHIPSGQGVKILRLFSLTDTKQRVTVGFNLPSHDGTTKDLIKVENTEITKSQANQLALLAPNATVNIIENFKVTDKHSLALP > P96111^.^375^472^SCOP^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^47.30^0.000e+00^9.000e-06 GIKPIENGTVIDHIAKGKTPEEIYSTILKIRKILRLYDVDSADGIFRSSDGSFKGYISLPDRYLSKKEIKKLSAISPNTTVNIIKNSTVVEKYRIKLP > P77919^.^6^99^SCOP^.^6^Class 1^.^.^Fold 2^Superfamily 1^Family 2^PSIBLAST^93.50^0.000e+00^1.000e-19 VSAIKEGTVIDHIPAGKGLKVIEILKLGKLTNGGAVLLAMNVPSKKLGRKDIVKVEGRFLSEEEVNKIALVAPNATVNIIRDYKVVEKFKVEVP > P74766^.^12^104^SCOP^.^6^Class 1^.^.^Fold 2^Superfamily 1^Family 2^PSIBLAST^74.20^0.000e+00^7.000e-14 VSKIKNGTVIDHIPAGRAFAVLNVLGIKGHEGFRIALVINVDSKKMGKKDIVKIEDKEISDTEANLITLIAPTATINIVREYEVVKKTKLEVP > P57451^.^8^99^SCOP^.^7^Class 1^.^.^Fold 2^Superfamily 2^Family 1^PSIBLAST^143.00^0.000e+00^1.000e-34 VEAIKSGSVIDHIPEYIGFKLLSLFRFTETEKRITIGLNLPSKKLGRKDIIKIENTFLSDEQINQLAIYAPHATVNYINEYNLVRKVFPTLP > P19936^.^8^99^SCOP^.^7^Class 1^.^.^Fold 2^Superfamily 2^Family 1^PSIBLAST^159.00^0.000e+00^1.000e-39 VEAIKCGTVIDHIPAQIGFKLLTLFKLTATDQRITIGLNLPSNELGRKDLIKIENTFLTEQQANQLAMYAPKATVNRIDNYEVVRKLTLSLP > P08421^.^8^99^SCOP^.^7^Class 1^.^.^Fold 2^Superfamily 2^Family 1^PSIBLAST^183.00^0.000e+00^0.000e+00 VEAIKCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLTEEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP > P00478^.^8^99^SCOP^.^8^Class 1^.^.^Fold 2^Superfamily 2^Family 2^PSIBLAST^191.00^0.000e+00^0.000e+00 VEAIKRGTVIDHIPAQIGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLSEDQVDQLALYAPQATVNRIDNYEVVGKSRPSLP > O58452^.^6^99^SCOP^.^8^Class 1^.^.^Fold 2^Superfamily 2^Family 2^PSIBLAST^94.30^0.000e+00^6.000e-20 VSAIKEGTVIDHIPAGKGLKVIEILGLSKLSNGGSVLLAMNVPSKKLGRKDIVKVEGKFLSEEEVNKIALVAPTATVNIIRNYKVVEKFKVEVP > O30129^.^6^98^SCOP^.^9^Class 2^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^79.60^0.000e+00^2.000e-15 VSKIKEGTVIDHINAGKALLVLKILKIQPGTDLTVSMAMNVPSSKMGKKDIVKVEGMFIRDEELNKIALISPNATINLIRDYEIERKFKVSPP > O26938^.^11^101^SCOP^.^10^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^81.90^0.000e+00^3.000e-16 VKPIKNGTVIDHITANRSLNVLNILGLPDGRSKVTVAMNMDSSQLGSKDIVKIENRELKPSEVDQIALIAPRATINIVRDYKIVEKAKVRL |
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Figure 1 Excerpt of DHF file (hit sequences)
> Q9YBD5^.^11^105^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^SPARSE^61.50^0.000e+00^4.000e-10 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > Q9YBD5^.^95^135^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^SPARSE^11.50^0.000e+00^4.000e-5 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > Q9YBD5^.^181^235^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^SPARSE^161.50^0.000e+00^4.000e-5 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > O26938^.^11^101^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^81.90^0.000e+00^3.000e-16 VKPIKNGTVIDHITANRSLNVLNILGLPDGRSKVTVAMNMDSSQLGSKDIVKIENRELKPSEVDQIALIAPRATINIVRDYKIVEKAKVRL > Q8Z130^.^8^99^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^181.00^0.000e+00^0.000e+00 VEAIKCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLTDEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP > Q7MX57^.^8^99^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^80.80^0.000e+00^7.000e-16 VAAIRNGIVIDHIPPTKLFKVATLLQLDDLDKRITIGNNLRSRSHGSKGVIKIEDKTFEEEELNRIALIAPNVRLNIIRDYEVVEKRQVEVP > Q8TVB1^.^7^98^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^72.70^0.000e+00^2.000e-13 VKRIEMGTVLDHLPPGTAPQIMRILDIDPTETTLLVAINVESSKMGRKDILKIEGKILSEEEANKVALVAPNATVNIVRDYSVAEKFQVKPP > P96175^.^8^99^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^107.00^0.000e+00^7.000e-24 VEAICNGYVIDHIPSGQGVKILRLFSLTDTKQRVTVGFNLPSHDGTTKDLIKVENTEITKSQANQLALLAPNATVNIIENFKVTDKHSLALP |
> Q9YBD5^.^11^105^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^61.50^0.000e+00^4.000e-10 VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGYRWRIAVVINAESSKLGRKDILKIEGYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP > Q9UX07^.^12^104^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^65.80^0.000e+00^2.000e-11 VSKIRNGTVIDHIPAGRALAVLRILGIRGSEGYRVALVMNVESKKIGRKDIVKIEDRVIDEKEASLITLIAPSATINIIRDYVVTEKRHLEVP > Q9KP65^.^9^100^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^128.00^0.000e+00^3.000e-30 VEAIKNGTVIDHIPAKVGIKVLKLFDMHNSAQRVTIGLNLPSSALGSKDLLKIENVFISEAQANKLALYAPHATVNQIENYEVVKKLALQLP > Q9K1K9^.^8^99^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^101.00^0.000e+00^5.000e-22 VEAIEKGTVIDHIPAGRGLTILRQFKLLHYGNAVTVGFNLPSKTQGSKDIIKIKGVCLDDKAADRLALFAPEAVVNTIDNFKVVQKRHLNLP > Q9JWY6^.^8^99^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^98.90^0.000e+00^2.000e-21 VEAIEKGTVIDHIPAGRGLTILRQFKLLHYGNAVTVGFNLPSKTQGSKDIIKIKGVCLDDKAADRLALFAPEAVVNTIDHFKVVQKRHLNLP > Q9HKM3^.^7^99^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^79.60^0.000e+00^2.000e-15 ISKIRDGTVIDHVPSGKGIRVIGVLGVHEDVNYTVSLAIHVPSNKMGFKDVIKIENRFLDRNELDMISLIAPNATISIIKNYEISEKFQVELP > Q9HHN3^.^9^101^.^1^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^78.50^0.000e+00^4.000e-15 VSKIQAGTVIDHIPAGQALQVLQILGTNGASDDQITVGMNVTSERHHRKDIVKIEGRELSQDEVDVLSLIAPDATINIVRDYEVDEKRRVDRP > Q97FS4^.^4^93^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^49.20^0.000e+00^2.000e-06 INSIKNGIVIDHIKAGHGIKIYNYLKLGEAEFPTALIMNAISKKNKAKDIIKIENVMDLDLAVLGFLDPNITVNIIEDEKIRQKIQLKLP > Q97B28^.^8^100^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^79.20^0.000e+00^2.000e-15 ISKIKDGTVIDHIPSGKALRVLSILGIRDDVDYTVSVGMHVPSSKMEYKDVIKIENRSLDKNELDMISLTAPNATISIIKNYEISEKFKVELP > Q970X3^.^11^101^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^78.50^0.000e+00^3.000e-15 VSKIKNGTVIDHIPAGRALAVLRILKIAEGYRIALVMNVESKKMGKKDIVKIENKEVDEKEANLITLIAPTATINIIRDYEVVEKKKLKIP > Q8ZTG2^.^7^99^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^66.10^0.000e+00^2.000e-11 VSKIENGTVIDHIPAGRALTVLRILGISGKEGLRVALVMNVESKKLGKKDIVKIEGRELTPEEVNIISAVAPTATINIIRNFAVVKKFKVTPP > Q8ZB38^.^9^100^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^156.00^0.000e+00^1.000e-38 VEAIKCGTVIDHIPAQIGFKLLSLFKLTATDQRITIGLNLPSKRSGRKDLIKIENTFLTEQQANQLAMYAPDATVNRIDNYEVVKKLTLSLP > Q8Z130^.^8^99^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^181.00^0.000e+00^0.000e+00 VEAIKCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLTDEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP > Q8U374^.^6^99^.^2^Class 1^.^.^Fold 1^Superfamily 1^Family 2^PSIBLAST^92.00^0.000e+00^3.000e-19 VSAIKEGTVIDHIPAGKGLKVIQILGLGELKNGGAVLLAMNVPSKKLGRKDIVKVEGKFLSEEEVNKIALVAPTATVNIIREYKVVEKFKVEIP > Q8TVB1^.^7^98^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^72.70^0.000e+00^2.000e-13 VKRIEMGTVLDHLPPGTAPQIMRILDIDPTETTLLVAINVESSKMGRKDILKIEGKILSEEEANKVALVAPNATVNIVRDYSVAEKFQVKPP > Q8THL3^.^9^100^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^69.20^0.000e+00^2.000e-12 IQAIENGTVIDHITAGQALNVLRILRISSAFRATVSFVMNAPGARGKKDVVKIEGKELSVEELNRIALISPKATINIIRDFEVVQKNKVVLP > Q8PXK6^.^9^100^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^62.70^0.000e+00^2.000e-10 VQAIESGTVIDHIKSGQALNVLRILGISSAFRATISFVMNAPGAGGKKDVVKIEGKELSVEELNRIALISPKATINIIRDFVVVQKNNVVLP > Q8K9H8^.^8^99^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^146.00^0.000e+00^1.000e-35 VEAIKSGSVIDHIPAHIGFKLLSLFRFTETEKRITIGLNLPSQKLDKKDIIKIENTFLSDDQINQLAIYAPCATVNYIEKYNLVGKIFPSLP > Q8DCF7^.^9^100^.^3^Class 1^.^.^Fold 1^Superfamily 2^Family 1^PSIBLAST^127.00^0.000e+00^9.000e-30 VEAIKNGTVIDHIPAQVGIKVLKLFDMHNSSQRVTIGLNLPSSALGNKDLLKIENVFINEEQASKLALYAPHATVNQIEDYQVVKKLALELP > Q8D1W6^.^9^100^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^123.00^0.000e+00^1.000e-28 VEAIFGGTVIDHIPAQVGLKLLSLFKWLHTKERITMGLNLPSNQQKKKDLIKLENVLLNEDQANQLSIYAPLATVNQIKNYIVIKKQKLKLP > Q8A9S4^.^10^101^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^63.80^0.000e+00^9.000e-11 VAALKNGTVIDHIPSEKLFTVVQLLGVEQMKCNITIGFNLDSKKLGKKGIIKIADKFFCDEEINRISVVAPYVKLNIIRDYEVVEKKEVRMP > Q891I9^.^4^94^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^52.30^0.000e+00^2.000e-07 ITSIKDGIVIDHIKSGYGIKIFNYLNLKNVEYSVALIMNVFSSKLGKKDIIKIANKEIDIDFTVLGLIDPTITINIIEDEKIKEKLNLELP > Q87LF7^.^9^100^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^130.00^0.000e+00^7.000e-31 VEAIKNGTVIDHIPAQIGIKVLKLFDMHNSSQRVTIGLNLPSSALGHKDLLKIENVFINEEQASKLALYAPHATVNQIENYEVVKKLALELP > Q83IL8^.^8^99^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^189.00^0.000e+00^0.000e+00 VEAIKRGTVIDHIPAQIGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLSEEQVDQLALYAPQATVNRIDNYEVVGKSRPSLP > Q7P144^.^7^98^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^128.00^0.000e+00^3.000e-30 VEALKQGTVIDHIPAGEGVKILRLFKLTETGERVTVGLNLVSRHMGSKDLIKVENVALTEEQANELALFAPKATVNVIDNFEVVKKHKLTLP > Q7MZ14^.^9^100^.^4^Class 1^.^.^Fold 1^Superfamily 2^Family 2^PSIBLAST^150.00^0.000e+00^6.000e-37 VEAIRCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSNRLGKKDLIKIENTFLTEQQANQLAMYAPNATVNCIENYEVVKKLPINLP > Q7MX57^.^8^99^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^80.80^0.000e+00^7.000e-16 VAAIRNGIVIDHIPPTKLFKVATLLQLDDLDKRITIGNNLRSRSHGSKGVIKIEDKTFEEEELNRIALIAPNVRLNIIRDYEVVEKRQVEVP > Q7MHF0^.^9^100^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^127.00^0.000e+00^8.000e-30 VEAIKNGTVIDHIPAQVGIKVLKLFDMHNSSQRVTIGLNLPSSALGNKDLLKIENVFINEEQASKLALYAPHATVNQIEDYQVVKKLALELP > Q58801^.^9^99^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^61.50^0.000e+00^5.000e-10 VKKITNGTVIDHIDAGKALMVFKVLNVPKETSVMIAINVPSKKKGKKDILKIEGIELKKEDVDKISLISPDVTINIIRNGKVVEKLKPQIP > P96175^.^8^99^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^107.00^0.000e+00^7.000e-24 VEAICNGYVIDHIPSGQGVKILRLFSLTDTKQRVTVGFNLPSHDGTTKDLIKVENTEITKSQANQLALLAPNATVNIIENFKVTDKHSLALP > P96111^.^375^472^.^5^Class 1^.^.^Fold 2^Superfamily 1^Family 1^PSIBLAST^47.30^0.000e+00^9.000e-06 GIKPIENGTVIDHIAKGKTPEEIYSTILKIRKILRLYDVDSADGIFRSSDGSFKGYISLPDRYLSKKEIKKLSAISPNTTVNIIKNSTVVEKYRIKLP > P77919^.^6^99^.^6^Class 1^.^.^Fold 2^Superfamily 1^Family 2^PSIBLAST^93.50^0.000e+00^1.000e-19 VSAIKEGTVIDHIPAGKGLKVIEILKLGKLTNGGAVLLAMNVPSKKLGRKDIVKVEGRFLSEEEVNKIALVAPNATVNIIRDYKVVEKFKVEVP > P74766^.^12^104^.^6^Class 1^.^.^Fold 2^Superfamily 1^Family 2^PSIBLAST^74.20^0.000e+00^7.000e-14 VSKIKNGTVIDHIPAGRAFAVLNVLGIKGHEGFRIALVINVDSKKMGKKDIVKIEDKEISDTEANLITLIAPTATINIVREYEVVKKTKLEVP > P57451^.^8^99^.^7^Class 1^.^.^Fold 2^Superfamily 2^Family 1^PSIBLAST^143.00^0.000e+00^1.000e-34 VEAIKSGSVIDHIPEYIGFKLLSLFRFTETEKRITIGLNLPSKKLGRKDIIKIENTFLSDEQINQLAIYAPHATVNYINEYNLVRKVFPTLP > P19936^.^8^99^.^7^Class 1^.^.^Fold 2^Superfamily 2^Family 1^PSIBLAST^159.00^0.000e+00^1.000e-39 VEAIKCGTVIDHIPAQIGFKLLTLFKLTATDQRITIGLNLPSNELGRKDLIKIENTFLTEQQANQLAMYAPKATVNRIDNYEVVRKLTLSLP > P08421^.^8^99^.^7^Class 1^.^.^Fold 2^Superfamily 2^Family 1^PSIBLAST^183.00^0.000e+00^0.000e+00 VEAIKCGTVIDHIPAQVGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLTEEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP > P00478^.^8^99^.^8^Class 1^.^.^Fold 2^Superfamily 2^Family 2^PSIBLAST^191.00^0.000e+00^0.000e+00 VEAIKRGTVIDHIPAQIGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLSEDQVDQLALYAPQATVNRIDNYEVVGKSRPSLP > O58452^.^6^99^.^8^Class 1^.^.^Fold 2^Superfamily 2^Family 2^PSIBLAST^94.30^0.000e+00^6.000e-20 VSAIKEGTVIDHIPAGKGLKVIEILGLSKLSNGGSVLLAMNVPSKKLGRKDIVKVEGKFLSEEEVNKIALVAPTATVNIIRNYKVVEKFKVEVP > O30129^.^6^98^.^9^Class 2^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^79.60^0.000e+00^2.000e-15 VSKIKEGTVIDHINAGKALLVLKILKIQPGTDLTVSMAMNVPSSKMGKKDIVKVEGMFIRDEELNKIALISPNATINLIRDYEIERKFKVSPP > O26938^.^11^101^.^54894^Class 1^.^.^Fold 1^Superfamily 1^Family 1^PSIBLAST^81.90^0.000e+00^3.000e-16 VKPIKNGTVIDHITANRSLNVLNILGLPDGRSKVTVAMNMDSSQLGSKDIVKIENRELKPSEVDQIALIAPRATINIVRDYKIVEKAKVRL |
> RELATED 8 ; ROC 2 CROSS Q8Z130 8 99 UNKNOWN Q9YBD5 181 235 FALSE P96175 8 99 TRUE O26938 11 101 FALSE Q7MX57 8 99 CROSS Q8TVB1 7 98 TRUE Q9YBD5 11 105 TRUE Q9YBD5 95 135 |
Qualifier | Type | Description | Allowed values | Default | ||||
---|---|---|---|---|---|---|---|---|
Standard (Mandatory) qualifiers | ||||||||
[-hitsinfile] (Parameter 1) |
infile | This option specifies the location of the DHF file (domain hits file) (input). A 'domain hits file' contains database hits (sequences) with domain classification information, in the DHF format (FASTA or EMBL-like). The hits are relatives to a SCOP or CATH family and are found from a search of a sequence database. Files containing hits retrieved by PSIBLAST are generated by using SEQSEARCH, hits retrieved by a sparse protein signatare by using SIGSCAN or various types of HMM and profile by using LIBSCAN. | Input file | Required | ||||
[-validinfile] (Parameter 2) |
infile | This option specifies the name of domain families file (input). A 'domain families file' contains sequence relatives (hits) for each of a number of different SCOP or CATH families found from searching a sequence database, e.g. by using SEQSEARCH (psiblast). The file contains the collated search results for the indvidual families; only those hits of unambiguous family assignment are included. Hits of ambiguous family assignment are assigned as relatives to a SCOP or CATH superfamily or fold instead and are collated into a 'domain ambiguities file'. The domain families and ambiguities files are generated by using SEQSORT and use the same format as a DHF file (domain hits file). | Input file | Required | ||||
-thresh | integer | This option specifies the overlap threshold for hits. This is the minimum length (residues) of overlap required for two hits with the accession number to be counted as the same hit. The accession number of the hit, and the start and end point respectively of the hit relative to full length sequence are provided in the lists of hits in the DHF input file. The overlap is determined from the start and end points of the hit. For example two hits with the start and end points of 1-100 and 91-190 respectively are considered to be the same hit if they have the same accession numbers and the overlap threshold is 10 or less. | Any integer value | 10 | ||||
-mode | list | This option specifies the classification scheme to use. See ROCON on-line documentation for more information. |
|
1 | ||||
[-hitsoutfile] (Parameter 3) |
outfile | This option specifies the name of the hits files (output). A 'hits file'contains a list of hits (e.g. from a prediction method) that are classified and rank-ordered on the basis of score, p-value, E-value etc. The files generated by using SIGSCAN and LIBSCAN will contain the results of a search of a discriminating element (e.g. hidden Markov model, profile or signature) against a sequence database. The ROCPLOT application is run on the files to perform Receiver Operator Characteristic (ROC) analysis on the hits. | Output file | <*>.rocon | ||||
Additional (Optional) qualifiers | ||||||||
(none) | ||||||||
Advanced (Unprompted) qualifiers | ||||||||
(none) | ||||||||
Associated qualifiers | ||||||||
"-hitsoutfile" associated outfile qualifiers | ||||||||
-odirectory3 -odirectory_hitsoutfile |
string | Output directory | Any string | |||||
General qualifiers | ||||||||
-auto | boolean | Turn off prompts | Boolean value Yes/No | N | ||||
-stdout | boolean | Write first file to standard output | Boolean value Yes/No | N | ||||
-filter | boolean | Read first file from standard input, write first file to standard output | Boolean value Yes/No | N | ||||
-options | boolean | Prompt for standard and additional values | Boolean value Yes/No | N | ||||
-debug | boolean | Write debug output to program.dbg | Boolean value Yes/No | N | ||||
-verbose | boolean | Report some/full command line options | Boolean value Yes/No | Y | ||||
-help | boolean | Report command line options and exit. More information on associated and general qualifiers can be found with -help -verbose | Boolean value Yes/No | N | ||||
-warning | boolean | Report warnings | Boolean value Yes/No | Y | ||||
-error | boolean | Report errors | Boolean value Yes/No | Y | ||||
-fatal | boolean | Report fatal errors | Boolean value Yes/No | Y | ||||
-die | boolean | Report dying program messages | Boolean value Yes/No | Y | ||||
-version | boolean | Report version number and exit | Boolean value Yes/No | N |
% rocon Generates a hits file from comparing two DHF files Domain hits file: rocon/rocon.dhf Domain families file: rocon.valid Overlap threshold for hits. [10]: 10 Classification scheme to use 1 : Family classification scheme 2 : (Not yet available) Select number. [1]: 1 Hits output file [hits.dhf]: rocon.hits |
Go to the input files for this example
Go to the output files for this example
FILE TYPE | FORMAT | DESCRIPTION | CREATED BY | SEE ALSO |
Domain hits file | DHF format (FASTA-like). | Database hits (sequences) with domain classification information. The hits are relatives to a SCOP or CATH family (or other node in the structural hierarchies) and are found from a search of a sequence database. | SEQSEARCH (hits retrieved by PSIBLAST) | N.A. |
Hits file | Text file of classified hits | A list of hits (e.g. from a prediction method) that are classified and rank-ordered on the basis of score, p-value, E-value etc. | SIGSCAN and LIBSCAN (hits from searches of a discriminating element (hidden Markov model, profile or signature) against a sequence database). | ROCPLOT is run on the files to perform Receiver Operator Characteristic (ROC) analysis on the hits. |
Domain families & ambiguities file | DHF format (FASTA-like). | Contains sequence relatives (hits) for each of a number of different SCOP or CATH families found from PSIBLAST searches of a sequence database. The file contains the collated search results for the indvidual families; only those hits of unambiguous family assignment are included. Hits of ambiguous family assignment are assigned as relatives to a SCOP or CATH superfamily or fold instead and are collated into a 'domain ambiguities file'. | SEQSORT | N.A. |
> Q9WVI4^.^513^667^SCOP^.^55074^CLASS^ARCHITECTURE^TOPOLOGY^FOLD^SUPERFAMILY^FAMILY^PSIBLAST^113.00^0.000e+00^2.000e-25 RKFDDVTMLFSDIVGFTAICAQCTPMQVISMLNELYTRFDHQCGFLDIYKVETIGDAYCVASGLHRKSLCHAKPIALMALKMMELSEEVLTPDGRPIQMRIGIHSG |
CLASS | FOLD | SUPERFAMILY | FAMILY | CLASSIFICATION |
Not available | Not available | Not available | Not available | UNKNOWN |
Different | Different | Different | Different | FALSE |
Same | Different | Different | Different | FALSE |
Same | Same | Different | Different | CROSS |
Same | Same | Same | Different | CROSS |
Same | Same | Same | Same | TRUE |
Program name | Description |
---|---|
cathparse | Generates DCF file from raw CATH files |
domainalign | Generate alignments (DAF file) for nodes in a DCF file |
domainnr | Removes redundant domains from a DCF file |
domainrep | Reorder DCF file to identify representative structures |
domainseqs | Adds sequence records to a DCF file |
domainsse | Add secondary structure records to a DCF file |
helixturnhelix | Identify nucleic acid-binding motifs in protein sequences |
libgen | Generate discriminating elements from alignments |
matgen3d | Generate a 3D-1D scoring matrix from CCF files |
pepcoil | Predicts coiled coil regions in protein sequences |
rocplot | Performs ROC analysis on hits files |
scopparse | Generate DCF file from raw SCOP files |
seqalign | Extend alignments (DAF file) with sequences (DHF file) |
seqfraggle | Removes fragment sequences from DHF files |
seqsort | Remove ambiguous classified sequences from DHF files |
seqwords | Generates DHF files from keyword search of UniProt |
ssematch | Search a DCF file for secondary structure matches |
See also http://emboss.sourceforge.net/