Query 005638
Match_columns 686
No_of_seqs 222 out of 420
Neff 5.4
Searched_HMMs 46136
Date Thu Mar 28 11:28:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005638.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005638hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1038 Mitochondrial/chloropl 100.0 9E-151 2E-155 1262.7 50.8 624 40-686 146-786 (1088)
2 PHA00452 T3/T7-like RNA polyme 100.0 9E-122 2E-126 1064.7 51.7 495 139-686 3-507 (807)
3 COG5108 RPO41 Mitochondrial DN 100.0 1E-115 3E-120 955.8 39.3 516 142-686 250-784 (1117)
4 PF14700 RPOL_N: DNA-directed 100.0 3.5E-51 7.5E-56 433.0 20.6 303 143-466 1-318 (318)
5 PF00940 RNA_pol: DNA-dependen 100.0 3.3E-35 7.1E-40 322.5 7.7 97 588-686 1-97 (405)
6 PF07739 TipAS: TipAS antibiot 40.7 30 0.00066 31.2 3.4 56 136-191 13-71 (118)
7 PF08849 DUF1819: Putative inn 34.6 73 0.0016 32.0 5.4 29 322-350 133-161 (189)
8 TIGR00250 RNAse_H_YqgF RNAse H 18.8 80 0.0017 30.0 2.2 27 659-685 39-65 (130)
9 PF10827 DUF2552: Protein of u 12.8 1.1E+02 0.0024 26.7 1.2 50 581-632 28-77 (79)
10 PF11848 DUF3368: Domain of un 12.7 1.6E+02 0.0034 23.2 2.0 32 451-482 15-46 (48)
No 1
>KOG1038 consensus Mitochondrial/chloroplast DNA-directed RNA polymerase RPO41, provides primers for DNA replication-initiation [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=8.6e-151 Score=1262.74 Aligned_cols=624 Identities=55% Similarity=0.924 Sum_probs=559.8
Q ss_pred cCCCCCCccccccccccccccccCCCCCccCCCCccccccccccchhhhhhc---ccccCchHHHHHHHHHHHhhcccc-
Q 005638 40 LDSSCPLLGFRRTSFLSSQKSNLGQSNFTQSIYPFGVLTSRSYASAAEAIAS---ESELSGSEEVQELIDQFNEKGVSI- 115 (686)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~- 115 (686)
..++++..|+++..+++-.| +|.+...+.+| ..+||+-+++..-+ +.+++..+++.+++++|.++....
T Consensus 146 ~~~p~~~~~~~~~~~l~~~n------sF~~~~~~l~G-~~~g~s~a~e~~~~~~~~~~s~~~~~~~~~~~~m~ke~~~~~ 218 (1088)
T KOG1038|consen 146 LVSPEHVRGIRQLLGLNNIN------SFPHSSEVLSG-LIKGSSLAGESENPTDQEGDSSNKQEINELVTKMEKEGNSLN 218 (1088)
T ss_pred ccCchhhhhhHHhhccchhh------cccchhhhhhc-ccccchHHHHHhCcccccccccchhhHHHHHhHhhhhhhhhh
Confidence 35677788888888877666 45566666666 67888444455444 334445789999999999988431
Q ss_pred ----ccccccccccccccccCCChH-HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhcccCCCChh-HHHHHHHHHH
Q 005638 116 ----LDSSSMLDKQPKKKGTGMGTA-KYYMLKRRQIKIETEAWEQAAKEYQ-DLLADMCEQKLAPNLPY-VKSLFLGWFE 188 (686)
Q Consensus 116 ----~~~~~~~~~~~~~~~~~~~~~-~~~~l~eRQ~~lE~~a~~~a~~r~r-~~~~~~~~~g~a~~~p~-~~~ll~~W~~ 188 (686)
.......+...+.+..++|.. +|-.+.+||..+|+++|++|+++|+ ++..+||+..+++++|| +++++++||+
T Consensus 219 ~~~~~~~~~~~~~~lk~v~k~~~~~~d~~~l~~Rq~~~e~~~~e~a~e~~k~el~~~~c~~~l~~~lp~~lk~lf~~W~~ 298 (1088)
T KOG1038|consen 219 QISSKFLEESRDLPLKAVRKGFGDFKDFFNLDRRQVKLETEAWERAAEEWKIELESDMCEGSLAPNLPYNLKSLFLGWFK 298 (1088)
T ss_pred HHHHHHHHHHhcccHHHHHHhccchHhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhcccccchHHHHHHHHHHH
Confidence 122222234445677788877 8999999999999999999999999 88899999999999999 9999999999
Q ss_pred HHHHHHHHHHHHhhhc--cCccccccccccCCchhHHHHHHHHHHHHHhcCC--CCchHHHHHHHHHHHHHHHHHHHHHH
Q 005638 189 PLRDAIAKDQATAQDK--WKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNA--GEVRVVQAACQIGEAIENEARIQSFF 264 (686)
Q Consensus 189 ~L~~~I~~e~~~~~~~--~~r~~y~p~L~~l~pe~lA~Iti~~~l~~l~~~~--~~~~v~~la~~IG~aVE~E~~~~~~~ 264 (686)
+|+++|++|++.++.. +.|..|+|||++||++++|+|||+++|+++|+|+ +++++++++.+||++||+|+|++.++
T Consensus 299 ~l~~ai~ee~n~~r~~~~~~r~~Y~p~L~lL~a~k~aviti~el~~ll~tg~~~~~~~v~~aa~~~G~aveqe~ri~~~l 378 (1088)
T KOG1038|consen 299 PLRDAIKEEINLLRALVRKGRLNYAPFLKLLDADKMAVITIHELMGLLMTGGETGGVRVVQAAKSLGRAVEQEFRIEQFL 378 (1088)
T ss_pred HHHHHHHHHHHHHHHHHhcCccccchHHHhcChhhHHHHHHHHHHhhhccCCCccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999998875 8899999999999999999999999999999987 89999999999999999999999998
Q ss_pred HhhhhcccCCCCCCCCCCCCCCChHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCCCCCCCHHHHHHHHHHHHHHHH
Q 005638 265 KSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLM 344 (686)
Q Consensus 265 ~~~kk~~~~~~~~~~~~~~l~~~~~~~~k~~~~lrk~~~~l~k~~~~~~~~~~~~~~~~~~~W~~~~~~kVG~~Li~~L~ 344 (686)
++..|++... .....++....+++++.++++.++.+....+..+....+|+..++++||++|+++||
T Consensus 379 q~~~k~~~~~-------------~~~~~ke~~~~~~~v~~l~~~~k~~~~~~~~~~~~~~~pWp~~v~~kvGs~L~~lL~ 445 (1088)
T KOG1038|consen 379 QRKTKNKAGD-------------SYCELKELGKSRKEVRQLVQNLKLSQRLSGPESHLSEKPWPSAVQAKVGSRLIELLM 445 (1088)
T ss_pred HHHhhcccch-------------HHHHHHHhhcccHHHHHHHHHHHHHHHhcccccccccCCccHHHHHHHHHHHHHHHH
Confidence 8754333221 112235667778889999998888888877777677889999999999999999999
Q ss_pred HHccccCCCCCCCCCCCCccCceEEEeeeeeecccCCeEEEEEEeCHHHHHHHHhccccccCCCCceeeCCcCcccCCCc
Q 005638 345 ETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRG 424 (686)
Q Consensus 345 ~~~~i~~~~~~~~~~~~~~~PAF~h~~~~~~~~~~~~k~~gvi~~~~~v~~~l~~~~~~~~~~~lPMlvpPkpW~~~~~G 424 (686)
++++|+++.++..++.++.+|||+|+|+ +.+..+.+++||+|+|||.+..+|++.+.++.++++||||||+||+++++|
T Consensus 446 ~~aki~~~~~~~~~~~~~~~paf~h~f~-~~n~~~~~~~~g~ie~~pll~r~leks~~~~~~~~vPMLvpPkpWt~~~~G 524 (1088)
T KOG1038|consen 446 QVAKIQVPADQPDTKLPDERPAFVHTFQ-VTNGQKGGRKYGVIECHPLLSRGLEKSALHFVPPLVPMLVPPKPWTGYDSG 524 (1088)
T ss_pred HHhcCCCcccCcCcCccccchhhhhhee-eecccccceeeeeeecCHHHHHHhhhhhccccccccccccCCCCCCCCCCC
Confidence 9999999999988889999999999999 444444588999999999999999999989999999999999999999999
Q ss_pred cccccCcceeecCcchhhHHHH-HcCCCCChhHHHHHHHhhcCccceechhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 005638 425 GHFFLPSYVMRTHGARQQRETI-KMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEK 503 (686)
Q Consensus 425 GYL~~~~~l~R~~~~~~q~~~l-~~~~~~~l~~v~~aLN~Lq~t~WrIN~~VL~vi~~~w~~g~~i~~l~~~~~~p~P~~ 503 (686)
|||++|+++||++++++|..|+ ++.+.+++++||+|||.||+||||||++||||+.++|++||.+.++|++.+.|+|++
T Consensus 525 gyl~~~s~lmRt~g~~~Q~~~llkas~~~~l~~v~daL~~LG~t~WrVN~rvldvV~riw~~Gg~~~~~v~r~~~~lP~~ 604 (1088)
T KOG1038|consen 525 GYLFLPSYLMRTHGAKEQVDYLLKASPPGQLDPVFDALDTLGNTKWRVNRRVLDVVIRIWQNGGCFLLIVPREDVPLPPK 604 (1088)
T ss_pred ceEecchhhhhcCCcHHHHHHHHhcCChhhhHHHHHHHHHhcCCCeeecchHHHHHHHHHhcCCCccCCCCCCCCCCCCC
Confidence 9999999999999999999865 455788999999999999999999999999999999999999999999999999999
Q ss_pred C-CCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHhccCCCceeeccccCCCCccccCCCCCCCCccccchhh
Q 005638 504 P-NTDDETEIKKWKWKVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGV 582 (686)
Q Consensus 504 p-~~~d~~~~~~wk~~~~~~~~~~~~~~S~R~~~~~~L~vA~~f~d~~~fYfPhnlDFRGR~YP~~p~Ln~qGsDl~RsL 582 (686)
| ..+|+++++.|+++.+.+.+.++++||+|||++|+|+||++|+|+ .||||||||||||+||+||||||+|||+||||
T Consensus 605 P~~s~dp~~~~~wk~e~k~~~k~~~e~HS~RCD~~ykLsvAr~~~de-~Fy~PHNmDFRGRaYP~~PHlNHLgsDlcRgl 683 (1088)
T KOG1038|consen 605 PTLSEDPAELKAWKWEVKKAQKVNRERHSLRCDAEYKLSVARKMKDE-EFYYPHNMDFRGRAYPLPPHLNHLGSDLCRGL 683 (1088)
T ss_pred CCCCcChHHHHHhHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhccC-eeecCcccCcCCccCCCCchhcccchHHHHHH
Confidence 9 678999999999999999999999999999999999999999998 59999999999999999999999999999999
Q ss_pred eecccCCcCchhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhHHHHHHhccCCCCcchhhhcCCCHHHHHHHHHHHHH
Q 005638 583 LEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSE 662 (686)
Q Consensus 583 L~FaegkpLG~~Gl~WLkIhlAN~~g~G~DK~s~~eR~~wv~~n~~~I~dsA~dPl~g~~wW~~Ad~PwQfLA~C~El~~ 662 (686)
|+||+|||||.+||+|||||+||+|| |+||+|+++|++|+++|+++|+|||++||+|++||++|||||||||+||||++
T Consensus 684 LeF~~GkPLG~sGL~WLKIHlaNL~~-g~~kl~~~~RlAF~E~hl~DI~DSAd~PLtG~rWW~~AedPfQ~LA~C~elae 762 (1088)
T KOG1038|consen 684 LEFAEGKPLGPSGLRWLKIHLANLYA-GVDKLSLRDRLAFTEEHLDDIFDSADRPLTGRRWWLKAEDPFQCLAACMELAE 762 (1088)
T ss_pred HHHhcCCcCCccchhHHHHHHHHHhc-ccccccHHHHHHHHHHHHHHHhhcccCCCcccchhhcCCChHHHHHHHHHHHH
Confidence 99999999999999999999999997 99999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCCCCccccCCcccccCCCC
Q 005638 663 ALRSPSPESTISHIPVHMVFSVFT 686 (686)
Q Consensus 663 a~~s~~P~~y~S~lPVhqDGSCsg 686 (686)
|++++||+.|+|||||||||||||
T Consensus 763 a~RspdPeayiSH~PIHQDGSCNG 786 (1088)
T KOG1038|consen 763 ALRSPDPEAYISHIPIHQDGSCNG 786 (1088)
T ss_pred HHcCCCHHHHHhcCCcccCCCcch
Confidence 999999999999999999999998
No 2
>PHA00452 T3/T7-like RNA polymerase
Probab=100.00 E-value=9e-122 Score=1064.66 Aligned_cols=495 Identities=28% Similarity=0.467 Sum_probs=434.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHHhhhccCccccccccccCC
Q 005638 139 YMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLP 218 (686)
Q Consensus 139 ~~l~eRQ~~lE~~a~~~a~~r~r~~~~~~~~~g~a~~~p~~~~ll~~W~~~L~~~I~~e~~~~~~~~~r~~y~p~L~~l~ 218 (686)
.+|.+||++||++++++|++||++++++|+++|+++++|+++++|.+||++|+++|+++++.+++++.++.|+|||+++|
T Consensus 3 ~~l~~rQ~~lE~~~~~~a~~r~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~L~~~~ 82 (807)
T PHA00452 3 EDLAAEQLQLEEEAYGEGEERFRKALERQLEAGEADDNPVARRLLATLLPPVAEAIDAWKEEYKKRGRAAKARGLLRLVD 82 (807)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhhHHHHHcCC
Confidence 46889999999999999999999999999999999999999999999999999999999999877788999999999999
Q ss_pred chhHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCChHHhHHHHHHH
Q 005638 219 ADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKL 298 (686)
Q Consensus 219 pe~lA~Iti~~~l~~l~~~~~~~~v~~la~~IG~aVE~E~~~~~~~~~~kk~~~~~~~~~~~~~~l~~~~~~~~k~~~~l 298 (686)
||+||+|||+++|++++++ ++.++++++++||+|||+|++++.++++.++.+++. ....+
T Consensus 83 ~d~lA~Iti~~~l~~l~~~-~~~~~~~~~~~iG~aie~E~r~~~~~~~~~~~~~~~-------------------~~~~~ 142 (807)
T PHA00452 83 PEVLAVITLKVTLDMLLSK-ETPTAQAVATAIGRAIEDEIRFGRIEDLNPKYFKKV-------------------VEYLK 142 (807)
T ss_pred HHHHHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHHHHHHHHhChHHHHHH-------------------HHHHH
Confidence 9999999999999999984 567999999999999999999999987765432210 01122
Q ss_pred HHHHHHHHHHHH-HHHHHhhhhCCCCCCCCCHHHHHHHHHHHHHHHHHHc-cccCCCCCCCCCCCCccCceEEEeeeeee
Q 005638 299 KKRVTSLIKKQK-LQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETA-YIQPPVDQLGDSPPDIRPAFVHTLKSFTK 376 (686)
Q Consensus 299 rk~~~~l~k~~~-~~~~~~~~~~~~~~~~W~~~~~~kVG~~Li~~L~~~~-~i~~~~~~~~~~~~~~~PAF~h~~~~~~~ 376 (686)
+++.+...++.+ .+.+.+.+..+ ++.+|+.+++++||++|+++|++++ .++++.. .
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~W~~~~~~kvG~~Ll~~l~~~a~~~~~~~~-------------------~-- 200 (807)
T PHA00452 143 RSRTGSVYHIAFMMVVEADMVLLG-EWDPWPKEDYIHVGKWLLEALIESTGLVELVRH-------------------T-- 200 (807)
T ss_pred hcccchHHHHHHHHHHHHHhhhcc-CCCCCCHHHHHHHHHHHHHHHHHhhCceeeeec-------------------c--
Confidence 233344333322 33444444433 4889999999999999999999996 5543211 0
Q ss_pred cccCCeEEEEEEeCHHHHHHHHhccccc--cCC-CCceeeCCcCcccCCCccccccC---cceeecCcchhhHHHHHcCC
Q 005638 377 EALKGRRYGVIECDPLVRKGLEKTGRHM--IIP-YMPMLVPPLNWRGYNRGGHFFLP---SYVMRTHGARQQRETIKMTP 450 (686)
Q Consensus 377 ~~~~~k~~gvi~~~~~v~~~l~~~~~~~--~~~-~lPMlvpPkpW~~~~~GGYL~~~---~~l~R~~~~~~q~~~l~~~~ 450 (686)
..++++++|+|++||.+.+.+++...++ ..| +|||||||+||+++.+||||+.+ +..||+++...+..+.
T Consensus 201 ~~~~~~~~g~i~~~~~~~~~l~~~~~~~~~~~p~~lPMlvpP~pW~~~~~GGyl~~~~~~~~~~~~~~~~~~~~~~---- 276 (807)
T PHA00452 201 GGNGGKDHEYLELSEEAVELLQDIAAAAAGISPMYQPMVVPPKPWTSIVGGGYHTEGRRPLAPLVRKTKKALRRYR---- 276 (807)
T ss_pred cCCCCceeeEEEeCHHHHHHHHhhhhhhhhcCcccCceeccCcccCCCCCCCceeccccccceeEecCHHHHHHHH----
Confidence 1234678899999999999998875432 244 99999999999999999999853 5678887766555443
Q ss_pred CCChhHHHHHHHhhcCccceechhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCC--CCHHHHHHHHHHHHHHHHHHhh
Q 005638 451 RSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEKPNT--DDETEIKKWKWKVKTAKKQNSE 528 (686)
Q Consensus 451 ~~~l~~v~~aLN~Lq~t~WrIN~~VL~vi~~~w~~g~~i~~l~~~~~~p~P~~p~~--~d~~~~~~wk~~~~~~~~~~~~ 528 (686)
.++|+.||++||+||+|||+||++||+||+++|++| .++++|+..+.|+|++|++ .+++++++|+++++++++++++
T Consensus 277 ~~~l~~v~~aLN~Lg~t~w~IN~~vl~v~~~~~~~~-~~~~~~~~~~~~~P~~P~~~~~~~~~~~~wk~~~~~~~~~~~~ 355 (807)
T PHA00452 277 QKQMPEVYKAVNALQNTAWRINKDVLAVVNEVVNWG-PVGDVLGIPRRPLPPKPEFLDENEEAFKAWKRAAAAWYTKEKE 355 (807)
T ss_pred hhhhHHHHHHHHHHhcCCceecHHHHHHHHHHHhcC-CcccCCCCCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHHHH
Confidence 379999999999999999999999999999999999 8888888888889988875 4568899999999999999999
Q ss_pred hhhhhhhHHHHHHHHHhccCCCceeeccccCCCCccccCCCCCCCCccccchhheecccCCcCchhhHHHHHHHHHHhhc
Q 005638 529 KHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYA 608 (686)
Q Consensus 529 ~~S~R~~~~~~L~vA~~f~d~~~fYfPhnlDFRGR~YP~~p~Ln~qGsDl~RsLL~FaegkpLG~~Gl~WLkIhlAN~~g 608 (686)
+||+||+++++|+||++|+|++.||||||+|||||+|| +|||||||+|+|||||+||+|+|||++|++|||||+||+|
T Consensus 356 ~~S~r~~~~~~l~iA~~f~~~~~fYfP~n~DfRGR~Yp-~~~ln~qg~Dl~RsLL~Fa~gkpLG~~Gl~WLkih~AN~~- 433 (807)
T PHA00452 356 RVSKRRRLEFMLRVANKFADYKAIYFPYNMDWRGRVYA-VSMLNPQGSDLQKALLRFAEGKPLGKRGLYWLKVHGANCY- 433 (807)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCceeccccccCCCCCCC-CCCCCCCCchHHHHHHHhcCCCCCChhHHHHHHHHHHHHh-
Confidence 99999999999999999999889999999999999999 9999999999999999999999999999999999999999
Q ss_pred CCCCCCCHHHHHHHHHHhHHHHHHhccCCCCcchhhhcCCCHHHHHHHHHHHHHHhcCCCCCCccccCCcccccCCCC
Q 005638 609 GGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSVFT 686 (686)
Q Consensus 609 ~G~DK~s~~eR~~wv~~n~~~I~dsA~dPl~g~~wW~~Ad~PwQfLA~C~El~~a~~s~~P~~y~S~lPVhqDGSCsg 686 (686)
|+||+||+||++||++|+++|++||+|||+|. ||++||+||||||+|+||++|+++++ +|+|||||||||||||
T Consensus 434 -G~dK~s~~eR~~wv~~n~~~I~~~A~dPl~~~-ww~~Ad~P~qfLA~c~El~~a~~~~~--~~~s~lPI~qDgSCnG 507 (807)
T PHA00452 434 -GVDKVTFDERAAWVDENHDNILAAAEDPLNNT-WWAEADSPLCFLAACFEYAAAVHSGT--SYVSGLPVAMDGTCSG 507 (807)
T ss_pred -CCCcCCHHHHHHHHHHHHHHHHHHHhCcCCch-hhhcCCCHHHHHHHHHHHHHHHhCCC--ccccccccccCCcccH
Confidence 89999999999999999999999999999988 99999999999999999999999887 9999999999999998
No 3
>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]
Probab=100.00 E-value=1.2e-115 Score=955.82 Aligned_cols=516 Identities=30% Similarity=0.539 Sum_probs=447.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHH-hh---------hccCccccc
Q 005638 142 KRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQAT-AQ---------DKWKHMTYA 211 (686)
Q Consensus 142 ~eRQ~~lE~~a~~~a~~r~r~~~~~~~~~g~a~~~p~~~~ll~~W~~~L~~~I~~e~~~-~~---------~~~~r~~y~ 211 (686)
.+||..||..++..|.|.|+..++...++|-..--.-+.+.++.||..+..+.++|+.. .. +.+.|..|+
T Consensus 250 ~~rqk~le~~ai~~a~E~wk~~~e~~~~rg~~~~eKN~~~~~~swy~~i~~l~keeI~~l~e~l~~~~sl~K~~~rl~yg 329 (1117)
T COG5108 250 TERQKWLEKSAIALAEEMWKAGIERFEKRGEKNREKNAEASNLSWYRMIIHLHKEEIAGLLEALLAEASLGKAGKRLTYG 329 (1117)
T ss_pred HHHHHHHHHhHHHHHHHHHHhhHHHHHhccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccCeeccc
Confidence 36899999999999999999999999988864333446889999999999999988874 22 134689999
Q ss_pred cccccCCchhHHHHHHHHHHHHHhcCC--CCchHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCChH
Q 005638 212 PYFNNLPADMMAVITMHKLVGLLMTNA--GEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPE 289 (686)
Q Consensus 212 p~L~~l~pe~lA~Iti~~~l~~l~~~~--~~~~v~~la~~IG~aVE~E~~~~~~~~~~kk~~~~~~~~~~~~~~l~~~~~ 289 (686)
|||++++++++|+|||+++++++.+++ .|+|++.+...+|++||+|++.++|....++.++...++ ++
T Consensus 330 pyLkl~d~~k~a~lTi~el~~l~s~~~~~~gmr~t~l~i~lg~~vE~Ef~seq~~~~e~~ay~d~~kk---------~p- 399 (1117)
T COG5108 330 PYLKLADLDKVAHLTIRELFDLVSMRRYDRGMRLTPLSIRLGAMVEDEFFSEQFKGHEKDAYEDARKK---------IP- 399 (1117)
T ss_pred cceeccCcccchhhhHHHHHHhhccccccccceeehhHHHHHHHHHHHHHHHHHhhhhhHHHHHHhhc---------Ch-
Confidence 999999999999999999999998876 789999999999999999999998876655433221110 00
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCCCCCCCHHHHHHHHHHHHHHHHHHccccCCCCCCC--CCCCCccCce
Q 005638 290 KLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLG--DSPPDIRPAF 367 (686)
Q Consensus 290 ~~~k~~~~lrk~~~~l~k~~~~~~~~~~~~~~~~~~~W~~~~~~kVG~~Li~~L~~~~~i~~~~~~~~--~~~~~~~PAF 367 (686)
+..++.+.+ .+. -.+........|.+|++++++|||++++.+|+++++|.+...+.. .......|||
T Consensus 400 ------~~f~~aV~n----~rs-~tr~~~~~~~~~~~Wpq~i~akvGsv~l~lll~vaki~v~~id~~t~~~l~ge~~af 468 (1117)
T COG5108 400 ------EQFHNAVHN----KRS-MTRHAKHKGAEWQDWPQDIKAKVGSVALCLLLSVAKIEVKLIDIATEQTLKGEFEAF 468 (1117)
T ss_pred ------HHHHHHHHH----HHh-hhhhhhhcCcchhcChHHHHHHhhHHHHHHHHHhhhheeEeeechhhchhhhhHHHH
Confidence 111122221 110 011111223678899999999999999999999999998776633 3345789999
Q ss_pred EEEeeeeeecccCCeEEEEEEeCHHHHHHHHhccc--cccCCCCceeeCCcCcccCCCccccccCcceeecCcchhhHHH
Q 005638 368 VHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGR--HMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRET 445 (686)
Q Consensus 368 ~h~~~~~~~~~~~~k~~gvi~~~~~v~~~l~~~~~--~~~~~~lPMlvpPkpW~~~~~GGYL~~~~~l~R~~~~~~q~~~ 445 (686)
.|+|++. +|+++|||..|..+...+.+..+ ++.+.+|||||||+||+++..|||++....++|..++.+|-+|
T Consensus 469 ~h~yqyh-----Ng~kigvv~~h~tl~~ll~~~~~~a~l~PqlLPmLV~PkPWtsw~~GGY~y~r~~llRlk~t~eqv~y 543 (1117)
T COG5108 469 RHSYQYH-----NGTKIGVVATHETLDWLLTENSRLAPLSPQLLPMLVPPKPWTSWFRGGYWYGRVRLLRLKKTGEQVRY 543 (1117)
T ss_pred HHhhhhc-----CCceeEEEeeHHHHHHHhhcccccCCCChhhhccccCCCCCcCcccCceeeccceeeeecCcHHHHHH
Confidence 9999864 68999999999998877766543 2333489999999999999999999999999999999999999
Q ss_pred HHcC-CCCChhHHHHHHHhhcCccceechhHHHHHHHHHhcCCCCCCCCCCCC-CCCCC-CCCCCCHHHHHHHHHHHHHH
Q 005638 446 IKMT-PRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQED-VPLPE-KPNTDDETEIKKWKWKVKTA 522 (686)
Q Consensus 446 l~~~-~~~~l~~v~~aLN~Lq~t~WrIN~~VL~vi~~~w~~g~~i~~l~~~~~-~p~P~-~p~~~d~~~~~~wk~~~~~~ 522 (686)
+..+ ..+||++||++||.||+|||+||.+|++|+.++|++|..+..||.+.+ .-+|+ ++.+.+|+++..|+-+.+.+
T Consensus 544 l~~asengd~d~vy~~in~lg~t~W~iN~rvf~V~~~~Wn~ge~fl~IP~a~d~~~~Pp~p~~~~~P~~~~~Wk~~rkti 623 (1117)
T COG5108 544 LLMASENGDMDKVYHSINALGNTAWSINHRVFEVMASLWNNGETFLCIPQADDMWLAPPMPREDMSPEEFSRWKSERKTI 623 (1117)
T ss_pred HHHhhhcCChHHHHHHHHHhccCchhhhHHHHHHHHHHHhCCCceeccCchhccccCCCCCcccCCHHHHHHHHHHHHHH
Confidence 8766 478999999999999999999999999999999999999999998764 33444 45678999999999999999
Q ss_pred HHHHhhhhhhhhhHHHHHHHHHhccCCCceeeccccCCCCccccCCCCCCCCccccchhheecccCCcCchhhHHHHHHH
Q 005638 523 KKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIH 602 (686)
Q Consensus 523 ~~~~~~~~S~R~~~~~~L~vA~~f~d~~~fYfPhnlDFRGR~YP~~p~Ln~qGsDl~RsLL~FaegkpLG~~Gl~WLkIh 602 (686)
...++..+|+||+++|+|+||++|.|+ +|||||+||||||+||+|+||||||+|.|||||.||.|||||++|++|||||
T Consensus 624 a~~~~~a~S~RcdfnykLeiAraFl~E-kfYFPH~lDFRGRaYpls~hlnh~gnD~srGLL~F~~gkplgp~Gl~WLkiH 702 (1117)
T COG5108 624 AEANARAVSKRCDFNYKLEIARAFLDE-KFYFPHQLDFRGRAYPLSLHLNHQGNDASRGLLQFANGKPLGPEGLDWLKIH 702 (1117)
T ss_pred HHhhhhhhhhhcchHHHHHHHHHhccC-ccccccccccCcccccCccccccccchhhhhHHHhhcCCcCCcchhhHHHHH
Confidence 999999999999999999999999996 8999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCCCCCCCHHHHHHHHHHhHHHHHHhccCCCCcchhhhcCCCHHHHHHHHHHHHHHhcCCCCCCccccCCccccc
Q 005638 603 LANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVF 682 (686)
Q Consensus 603 lAN~~g~G~DK~s~~eR~~wv~~n~~~I~dsA~dPl~g~~wW~~Ad~PwQfLA~C~El~~a~~s~~P~~y~S~lPVhqDG 682 (686)
+||+| |+||+||.+|++||++|+.+|+|||+|||+|++||+.||+|||.||+||||.++++++||++|+||+||||||
T Consensus 703 lanLf--GvdK~~~~~Rvafv~~n~qei~dSAenPldgnrwW~tAdkPwQALA~CFE~~e~v~~gd~e~fiSH~PvqqDG 780 (1117)
T COG5108 703 LANLF--GVDKCSMNERVAFVMANQQEILDSAENPLDGNRWWLTADKPWQALAFCFEWQEYVAEGDHEAFISHLPVQQDG 780 (1117)
T ss_pred hhccc--CcccCcHHHHHHHHHhhHHHHHhhccCCCCCCcchhcCCChHHHHHHHHHHHHHHhcCChHHhhhcCcccccC
Confidence 99999 8999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCC
Q 005638 683 SVFT 686 (686)
Q Consensus 683 SCsg 686 (686)
||||
T Consensus 781 TCNG 784 (1117)
T COG5108 781 TCNG 784 (1117)
T ss_pred ccch
Confidence 9998
No 4
>PF14700 RPOL_N: DNA-directed RNA polymerase N-terminal; PDB: 3SPA_A 1CEZ_A 1H38_B 1S77_D 1QLN_A 1S0V_D 3E2E_A 2PI4_A 3E3J_B 1S76_D ....
Probab=100.00 E-value=3.5e-51 Score=432.98 Aligned_cols=303 Identities=32% Similarity=0.544 Sum_probs=220.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHHhh----hccCccccccccccCC
Q 005638 143 RRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQ----DKWKHMTYAPYFNNLP 218 (686)
Q Consensus 143 eRQ~~lE~~a~~~a~~r~r~~~~~~~~~g~a~~~p~~~~ll~~W~~~L~~~I~~e~~~~~----~~~~r~~y~p~L~~l~ 218 (686)
+||++||+++++.|+++|++..+++.++|.+++++++++++.+|+++|+++|+++++.+. ..+.++.|+|||+.||
T Consensus 1 ~rQ~~lE~~~~~~a~~r~~~~~~~~~~~g~~~~~~~~~~l~~~w~~~L~~~i~~~~~~~~~~~~~~~~~~~~~p~L~~l~ 80 (318)
T PF14700_consen 1 ERQLELEEESYEAARERWREEFEKAQKRGRASSLPYLQALMWQWYEPLAEAIQEEQEKLKASSKKRGRRAAYGPFLKLLP 80 (318)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGCCCCCHHHHHHHHHHHHHHHHHHHHHHH--HCCCTT--HCCHHCCTS-
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhccCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCcchHHHHHHcCC
Confidence 689999999999999999999999999999999999999999999999999999999875 3567999999999999
Q ss_pred chhHHHHHHHHHHHHHhcCC---CCchHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCChHHhHHHH
Q 005638 219 ADMMAVITMHKLVGLLMTNA---GEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQ 295 (686)
Q Consensus 219 pe~lA~Iti~~~l~~l~~~~---~~~~v~~la~~IG~aVE~E~~~~~~~~~~kk~~~~~~~~~~~~~~l~~~~~~~~k~~ 295 (686)
||++|+|||+++|+++++++ +++++++++.+||++||+|++++.+.+..++.+....+.... .....
T Consensus 81 ~e~lA~Iti~~~l~~~~~~~~~~~g~~~~~~~~~IG~aVe~E~~~~~~~~~~~~~~~~~~~~~~~--~~~~~-------- 150 (318)
T PF14700_consen 81 PEKLAVITIREVLNLLSSSEGYSKGMKLTRLAIAIGRAVEQEYRFQQLEKAEPKYYKKLKKNFKK--KRSKS-------- 150 (318)
T ss_dssp HHHHHHHHHHHHHHHHTTSSSE----EHHHHHHHHHHHHHHHHHHHHHHHCHCCCCCCHHHHCHC--CSTSC--------
T ss_pred HHHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--cccch--------
Confidence 99999999999999999543 567999999999999999999998877644322110000000 00000
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhCCCCCC--CCCHHHHHHHHHHHHHHHHHHccccCCCCCCCCCCCCccCceEEEeee
Q 005638 296 EKLKKRVTSLIKKQKLQQVRGIVKGHVDSK--PWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKS 373 (686)
Q Consensus 296 ~~lrk~~~~l~k~~~~~~~~~~~~~~~~~~--~W~~~~~~kVG~~Li~~L~~~~~i~~~~~~~~~~~~~~~PAF~h~~~~ 373 (686)
..++.+...++..........+ ...+. +|+..++++||++|+++|+++++|+++..+... ...+|||+|+|++
T Consensus 151 -~~~r~~~~~~~~~~~~~~~~~~--~~~~~~~~W~~~~~~~vG~~Ll~~l~~~~~i~~~~~~~~~--~~~~paf~~~~~~ 225 (318)
T PF14700_consen 151 -QQKRHVWQLLKNRKDSSGKPSL--EEEWSDSPWPSDIRAKVGSFLLELLMETAKIPVERKDPET--SEEQPAFYHSYRY 225 (318)
T ss_dssp -HHCHHHHHHHHHHHSHSS-STT--T-TCCC--SCHHHHHHHHHHHHHHHHHCTCEEEEEESTT-------BSEEEEE--
T ss_pred -hhHHHHHHHHHHHHHhcccccc--ccccccCCCCHHHHHHHHHHHHHHHHhheeeccccCCccc--cccccchhhhhcc
Confidence 0001222222222111111111 12343 499999999999999999999999887743222 6789999999985
Q ss_pred eeecccCCeEEEEEEeCHHHHHHHHhcccc-----ccCCCCceeeCCcCcccCCCccccccCcceeecCcchhhHHHH-H
Q 005638 374 FTKEALKGRRYGVIECDPLVRKGLEKTGRH-----MIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETI-K 447 (686)
Q Consensus 374 ~~~~~~~~k~~gvi~~~~~v~~~l~~~~~~-----~~~~~lPMlvpPkpW~~~~~GGYL~~~~~l~R~~~~~~q~~~l-~ 447 (686)
. +++++|+|++||.+.+.+...... ..+.+|||||||+||+++++||||+.++++||+++. .|..++ +
T Consensus 226 ~-----~~~~~g~i~~~~~~~~~l~~~~~~~~~~~~~~~~lPMlvpP~PW~~~~~GGYl~~~~~l~R~~~~-~~~~~~~~ 299 (318)
T PF14700_consen 226 R-----KGKKVGVIKPHPELVKLLSDEPEKSLLQATFPRYLPMLVPPKPWTSPNDGGYLLSPTPLMRTKDS-EQQQYLKK 299 (318)
T ss_dssp ------TTT-EEEEEE-HHHHHHHHHHCH---CCCCCCCCS-BSS--EEECCTCCEESSSSSEBSEE-STT-HHCHHHHH
T ss_pred c-----cCceEEEEeeCHHHHHHHHhhhhhhhhhhcccccCcCCCCCCCCcCCCcceeeeeCchhhcccch-hhHHHHHH
Confidence 3 478889999999999999886541 124599999999999999999999999999999887 444454 4
Q ss_pred cCCCCChhHHHHHHHhhcC
Q 005638 448 MTPRSQLEPVFQALDTLGS 466 (686)
Q Consensus 448 ~~~~~~l~~v~~aLN~Lq~ 466 (686)
+...++|+.||+|||+||+
T Consensus 300 ~~~~~~l~~v~~~Ln~Lg~ 318 (318)
T PF14700_consen 300 ALRRGDLDPVFDALNALGS 318 (318)
T ss_dssp TTTCCGGHHHHHHHHHHHT
T ss_pred HccccchHHHHHHHHHhcC
Confidence 5578899999999999996
No 5
>PF00940 RNA_pol: DNA-dependent RNA polymerase; InterPro: IPR002092 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The phage-type enzymes are family of single chain polymerases found in bacteriophages and mitochondria [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3SPA_A 1CEZ_A 1H38_B 1S77_D 1QLN_A 1S0V_D 3E2E_A 2PI4_A 3E3J_B 1S76_D ....
Probab=100.00 E-value=3.3e-35 Score=322.51 Aligned_cols=97 Identities=54% Similarity=1.021 Sum_probs=91.2
Q ss_pred CCcCchhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhHHHHHHhccCCCCcchhhhcCCCHHHHHHHHHHHHHHhcCC
Q 005638 588 GHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSP 667 (686)
Q Consensus 588 gkpLG~~Gl~WLkIhlAN~~g~G~DK~s~~eR~~wv~~n~~~I~dsA~dPl~g~~wW~~Ad~PwQfLA~C~El~~a~~s~ 667 (686)
|||||++|++|||||+||+| |+||+||+||++||++|+++|+++|+||+++..||.+||+||||||+|+||++|++++
T Consensus 1 ~kpLg~~gl~wLki~~An~~--G~dK~s~~eR~~wv~~n~~~I~~~a~~P~~~~~~w~~Ad~P~qfLA~c~e~~~~~~~~ 78 (405)
T PF00940_consen 1 GKPLGERGLDWLKIHGANLF--GLDKLSFDERIKWVDDNLDDILDSAEDPLDGEEWWLKADKPWQFLAACFELAKALRSG 78 (405)
T ss_dssp -EE-CCCHHHHHHHHHHHHC--T-TTSTHHHHHHHHHHCHHHHHHHHHTTTTC-TGGGGSSSHHHHHHHHHHHHHHHCCC
T ss_pred CCCCcHhHHHHHHHHHHHhh--CCCCCCHHHHHHHHHHHHHHHHHHhhCcccchHHHhcCCcHHHHHHHHHHHHHHHhcC
Confidence 79999999999999999999 8999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccCCcccccCCCC
Q 005638 668 SPESTISHIPVHMVFSVFT 686 (686)
Q Consensus 668 ~P~~y~S~lPVhqDGSCsg 686 (686)
||++|+||+||||||||||
T Consensus 79 ~~~~~~s~lPV~~DgSCsG 97 (405)
T PF00940_consen 79 NPEEFVSHLPVHQDGSCSG 97 (405)
T ss_dssp SGCCSEE-SEEEEEBSTHH
T ss_pred CchheeecceeeecCcccH
Confidence 9999999999999999998
No 6
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=40.71 E-value=30 Score=31.20 Aligned_cols=56 Identities=27% Similarity=0.578 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhcccCCCChhHHHHHHHHHHHHH
Q 005638 136 AKYYMLKRRQIKIETEAWEQAAKEYQDLLAD---MCEQKLAPNLPYVKSLFLGWFEPLR 191 (686)
Q Consensus 136 ~~~~~l~eRQ~~lE~~a~~~a~~r~r~~~~~---~~~~g~a~~~p~~~~ll~~W~~~L~ 191 (686)
..|....++...+..+.++....+|.+++.+ +.+.|+.++.+-++.++.+|+.-+.
T Consensus 13 ~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~l~~~~~~g~~p~s~evq~l~~~~~~~~~ 71 (118)
T PF07739_consen 13 EAYAESEERLASLSKEEWQELQKEWDELFAELAALMEEGVDPDSPEVQELAERWMELIN 71 (118)
T ss_dssp --------------------TTHHHHHHHHHHHHHHHHT--TT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHHHHHH
Confidence 5556666666666666666666667655544 4667888999999999999999766
No 7
>PF08849 DUF1819: Putative inner membrane protein (DUF1819); InterPro: IPR014948 These proteins are functionally uncharacterised. Several are annotated as putative inner membrane proteins. ; PDB: 3BHW_A.
Probab=34.64 E-value=73 Score=31.95 Aligned_cols=29 Identities=17% Similarity=0.429 Sum_probs=22.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHcccc
Q 005638 322 VDSKPWGQDALVKVGCRLIQLLMETAYIQ 350 (686)
Q Consensus 322 ~~~~~W~~~~~~kVG~~Li~~L~~~~~i~ 350 (686)
.....|+..++-||++.+..+|.+++.+.
T Consensus 133 ~~i~~WSdsT~~Kl~~~~~~~L~eaGlL~ 161 (189)
T PF08849_consen 133 PEIASWSDSTIKKLRQVLFRILREAGLLE 161 (189)
T ss_dssp TTS----HHHHHHHHHHHHHHHHHTTSBS
T ss_pred CcccccCHHHHHHHHHHHHHHHHHcCCcc
Confidence 55678999999999999999999999884
No 8
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=18.83 E-value=80 Score=30.04 Aligned_cols=27 Identities=19% Similarity=0.293 Sum_probs=20.1
Q ss_pred HHHHHhcCCCCCCccccCCcccccCCC
Q 005638 659 NLSEALRSPSPESTISHIPVHMVFSVF 685 (686)
Q Consensus 659 El~~a~~s~~P~~y~S~lPVhqDGSCs 685 (686)
.|.+.++.-+|..++-++|.++|||=|
T Consensus 39 ~l~~~i~~~~~~~iVvGlP~~~dG~~~ 65 (130)
T TIGR00250 39 RIEELLKEWTPDKIVVGLPLNMDGTEG 65 (130)
T ss_pred HHHHHHHHcCCCEEEEeccCCCCcCcC
Confidence 344444445688999999999999854
No 9
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=12.82 E-value=1.1e+02 Score=26.66 Aligned_cols=50 Identities=14% Similarity=0.195 Sum_probs=29.5
Q ss_pred hheecccCCcCchhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhHHHHHH
Q 005638 581 GVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFD 632 (686)
Q Consensus 581 sLL~FaegkpLG~~Gl~WLkIhlAN~~g~G~DK~s~~eR~~wv~~n~~~I~d 632 (686)
|||..+-|-+-...-=-||--. -=.|- -..-.++|+.++|+.+|++.|-|
T Consensus 28 sLLHWSi~G~~~~~kDVWLLQd-EmTFe-t~eF~tld~Ai~Wi~e~M~~iTd 77 (79)
T PF10827_consen 28 SLLHWSIAGAESVKKDVWLLQD-EMTFE-TQEFPTLDLAIAWIGEHMPHITD 77 (79)
T ss_pred eeeeeeeccccccccceEEEec-ceeEe-ecccccHHHHHHHHHhcccchhc
Confidence 5777766544333222254211 11221 23457889999999999999876
No 10
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=12.71 E-value=1.6e+02 Score=23.24 Aligned_cols=32 Identities=25% Similarity=0.378 Sum_probs=26.9
Q ss_pred CCChhHHHHHHHhhcCccceechhHHHHHHHH
Q 005638 451 RSQLEPVFQALDTLGSTKWRVNKRILGVIDRM 482 (686)
Q Consensus 451 ~~~l~~v~~aLN~Lq~t~WrIN~~VL~vi~~~ 482 (686)
.+-++.+-.+|+.|+...|+|++++++-+.+.
T Consensus 15 ~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~ 46 (48)
T PF11848_consen 15 RGLISEVKPLLDRLQQAGFRISPKLIEEILRR 46 (48)
T ss_pred cCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence 34566788889999999999999999988764
Done!