Query 036741
Match_columns 1030
No_of_seqs 248 out of 444
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 05:02:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036741.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036741hhsearch_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 2E-254 3E-259 2175.7 74.6 988 12-1030 58-1088(1088)
2 PHA00452 T3/T7-like RNA polyme 100.0 4E-208 8E-213 1861.6 83.5 787 190-1030 3-807 (807)
3 COG5108 RPO41 Mitochondrial DN 100.0 1E-196 2E-201 1649.1 60.6 803 194-1030 251-1117(1117)
4 PF00940 RNA_pol: DNA-dependen 100.0 1E-122 3E-127 1057.2 20.2 388 638-1030 1-405 (405)
5 PF14700 RPOL_N: DNA-directed 100.0 1.1E-47 2.5E-52 425.9 24.6 305 194-516 1-318 (318)
6 smart00482 POLAc DNA polymeras 92.0 0.28 6E-06 52.6 5.9 180 726-968 15-202 (206)
7 COG5108 RPO41 Mitochondrial DN 88.2 0.28 6E-06 59.8 2.2 75 797-875 860-934 (1117)
8 cd08637 DNA_pol_A_pol_I_C Poly 85.1 3.6 7.8E-05 48.2 9.2 209 709-985 140-358 (377)
9 cd08638 DNA_pol_A_theta DNA po 84.0 3.3 7.3E-05 48.4 8.3 200 725-987 140-354 (373)
10 PRK14975 bifunctional 3'-5' ex 82.3 2.6 5.7E-05 51.8 6.9 193 726-984 326-527 (553)
11 PF00476 DNA_pol_A: DNA polyme 77.3 1.5 3.2E-05 51.4 2.4 196 725-985 155-362 (383)
12 PRK05755 DNA polymerase I; Pro 77.0 7.8 0.00017 50.3 8.9 209 709-985 640-858 (880)
13 TIGR00593 pola DNA polymerase 76.6 10 0.00022 49.3 9.8 196 726-985 659-865 (887)
14 cd08640 DNA_pol_A_plastid_like 73.7 11 0.00023 44.4 8.1 212 726-985 120-349 (371)
15 cd08642 DNA_pol_A_pol_I_A Poly 71.4 19 0.00042 42.5 9.5 173 726-972 171-344 (378)
16 cd08643 DNA_pol_A_pol_I_B Poly 71.3 16 0.00034 43.9 8.9 198 726-987 188-406 (429)
17 cd08639 DNA_pol_A_Aquificae_li 63.9 26 0.00057 40.5 8.5 188 726-983 104-300 (324)
18 cd06444 DNA_pol_A Family A pol 43.1 78 0.0017 36.9 8.0 109 725-875 103-215 (347)
19 PF07739 TipAS: TipAS antibiot 40.7 33 0.00073 32.7 3.9 56 187-242 13-71 (118)
20 cd08641 DNA_pol_gammaA Pol gam 40.4 1.3E+02 0.0028 36.2 9.1 99 694-825 118-228 (425)
21 PF08849 DUF1819: Putative inn 20.0 2E+02 0.0044 30.4 5.8 28 371-398 133-160 (189)
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=1.5e-254 Score=2175.73 Aligned_cols=988 Identities=58% Similarity=0.921 Sum_probs=890.5
Q ss_pred cccCCCCCcccccCCCCCCCCCCccCCCCCccchhhHHHHHHHH------hhhcccCCCcccccccc--ccC---ccccc
Q 036741 12 ANKFDHLPVCYYNHNNYNNNKPTIRFPSPEKISSVMWRNVAKQA------ISLHLKKPFSRAYSFLG--ISQ---DSILR 80 (1030)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~--~~~---~~~~~ 80 (1030)
.+.++++++-| |-++.-++....+|..++-.||+|+..++ .++.. ..++.++.-+| .+. +++|+
T Consensus 58 ~~~~~~~~~~~----~~~~~~~~q~~~~~~~~~l~~~~~~l~~s~~~~t~~~~~~-~~l~~~s~t~~l~~~~~~i~~~~S 132 (1088)
T KOG1038|consen 58 LKGSQLLSPVY----NLYLMLFFQDEYFPLTISLPMWRNLLLKSFQNETMALRRH-AALNPSSTTLGLLDPVEAISGIFS 132 (1088)
T ss_pred hhhhhhhchhh----hhhhhhhccCCCcHHHHhhHHhhhhHHHHhhhhhHHHHhh-ccCCchhhcccccchhhcchhhhh
Confidence 55566666621 11123344477889999999999999999 77766 45443333222 222 55565
Q ss_pred c---ccc-ccccccCCCCcccccccccccccccccccCCCccccccCCCcccCCcccccccccccCCccccchhHHHHHH
Q 036741 81 D---KVK-FVCLDMVPRGIHEVGSGRIGEILNHEDYMGRTSFGVLKNDNFWCPRGYATVAEAVSSTDVEEDVSIVEEIQE 156 (1030)
Q Consensus 81 ~---~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 (1030)
- ... |. .....++.++.|+++..+++..|.|-+-. .++ .| ..+||+-++|..-+++.+.|++.-+++.+
T Consensus 133 ~~~~~lt~~~-~~~~~~p~~~~~~~~~~~l~~~nsF~~~~--~~l---~G-~~~g~s~a~e~~~~~~~~~~s~~~~~~~~ 205 (1088)
T KOG1038|consen 133 SLAKVLTTLR-HKLLVSPEHVRGIRQLLGLNNINSFPHSS--EVL---SG-LIKGSSLAGESENPTDQEGDSSNKQEINE 205 (1088)
T ss_pred hhhhhhHHHh-cccccCchhhhhhHHhhccchhhcccchh--hhh---hc-ccccchHHHHHhCcccccccccchhhHHH
Confidence 3 222 11 11245577788899888888777432111 111 24 67888555777889999988888899999
Q ss_pred HHHHHHHHHHh-------hcccCCCccchhhhcCCChh-HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhcccCCCC
Q 036741 157 LLQEMKKEEQR-------EGENGSGRNRRRVARGMGSG-KYRMLKMRQVKIETEAWEKAANEYR-ELLMDMCEQKLAPNL 227 (1030)
Q Consensus 157 ~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~l~~RQ~~lE~~~~~~a~~~~~-~~~~~~~~~g~a~~~ 227 (1030)
++++|.++... .....+....+.+..+++.. .|-.+.+||..+|.++|++|+++|+ ++..+||+..+++++
T Consensus 206 ~~~~m~ke~~~~~~~~~~~~~~~~~~~lk~v~k~~~~~~d~~~l~~Rq~~~e~~~~e~a~e~~k~el~~~~c~~~l~~~l 285 (1088)
T KOG1038|consen 206 LVTKMEKEGNSLNQISSKFLEESRDLPLKAVRKGFGDFKDFFNLDRRQVKLETEAWERAAEEWKIELESDMCEGSLAPNL 285 (1088)
T ss_pred HHhHhhhhhhhhhHHHHHHHHHHhcccHHHHHHhccchHhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhccccc
Confidence 99999999863 33333444445778888877 8999999999999999999999999 777899999999999
Q ss_pred hh-HHHHHHHHHHHHHHHHHHHHHHHHhc--ccccccccccccCCchhHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHH
Q 036741 228 PY-MKSLFLGWFEPLRDAIAKEQERCRMA--KHKVAYAPYFDQLPADMMAVITMHKLMGLLMTGGEHGRARVVQAACIIG 304 (1030)
Q Consensus 228 ~~-~~~ll~~w~~~l~~~I~~e~~~~~~~--~~r~~y~p~L~~L~pe~lA~Iti~~~l~~~~~~~~~~~~~v~~~~~~IG 304 (1030)
|+ +++++++||++|+++|++|++.++.. +.|..|+|||++||++++|+|||+++|+++++|++.+++++++++.+||
T Consensus 286 p~~lk~lf~~W~~~l~~ai~ee~n~~r~~~~~~r~~Y~p~L~lL~a~k~aviti~el~~ll~tg~~~~~~~v~~aa~~~G 365 (1088)
T KOG1038|consen 286 PYNLKSLFLGWFKPLRDAIKEEINLLRALVRKGRLNYAPFLKLLDADKMAVITIHELMGLLMTGGETGGVRVVQAAKSLG 365 (1088)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccchHHHhcChhhHHHHHHHHHHhhhccCCCccchhHHHHHHHHH
Confidence 99 99999999999999999999999875 8899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhcccccCcccccCCCcchhhHHHHHHHHHHHHHHHhhchHHHHHHhhCCCCCCCCCHHHHHHH
Q 036741 305 DAIEQEVRIHKFLEKTKKKNETKNKEDEEGDESNTVTTEQEKLRKKVTDLIKKQKLPAVRRIVKGQDDFKPWGQDARAKV 384 (1030)
Q Consensus 305 ~aVe~E~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~~~~kv 384 (1030)
++||+|+|++.++++..|++.-. .....++....++++..++++.++.+....+..++...+|+.+++++|
T Consensus 366 ~aveqe~ri~~~lq~~~k~~~~~---------~~~~~ke~~~~~~~v~~l~~~~k~~~~~~~~~~~~~~~pWp~~v~~kv 436 (1088)
T KOG1038|consen 366 RAVEQEFRIEQFLQRKTKNKAGD---------SYCELKELGKSRKEVRQLVQNLKLSQRLSGPESHLSEKPWPSAVQAKV 436 (1088)
T ss_pred HHHHHHHHHHHHHHHHhhcccch---------HHHHHHHhhcccHHHHHHHHHHHHHHHhcccccccccCCccHHHHHHH
Confidence 99999999999988765433211 112235667778888888888888887777776677899999999999
Q ss_pred HHHHHHHHHHHccccCCCCCCCCCCCCccCceEeeEeeeecccCCCCeeEEEEEeCHHHHHHHHhhhhccCCCCCCeeeC
Q 036741 385 GSRVIELLTQTAYIQSPADQLADAPPDIFPAFTHALRTVSKETKGGSKKYGVIECNPLVLKGLERTARHMVIPYMPMLVP 464 (1030)
Q Consensus 385 G~~Li~~l~~~~~i~~~~~~~~~~~~~~~paF~h~~~~~~~~~~~~~k~~gvi~~~~~~~~~l~~~~~~~~~~~lPMlvp 464 (1030)
|++|+++||++++|+++.+++.++.++..|||.|.|++. +. .+.+++||+|+|||.+..+|++.+.++.++++|||||
T Consensus 437 Gs~L~~lL~~~aki~~~~~~~~~~~~~~~paf~h~f~~~-n~-~~~~~~~g~ie~~pll~r~leks~~~~~~~~vPMLvp 514 (1088)
T KOG1038|consen 437 GSRLIELLMQVAKIQVPADQPDTKLPDERPAFVHTFQVT-NG-QKGGRKYGVIECHPLLSRGLEKSALHFVPPLVPMLVP 514 (1088)
T ss_pred HHHHHHHHHHHhcCCCcccCcCcCccccchhhhhheeee-cc-cccceeeeeeecCHHHHHHhhhhhccccccccccccC
Confidence 999999999999999999999888999999999999954 22 2378999999999999999999988899999999999
Q ss_pred CcCcccCCCccccccCcceeecCChhhhHHH-HhcCCCCChhHHHHHHHhhcCcccEecHHHHHHHHHHHHcCCCCCCCC
Q 036741 465 PVKWTGYDKGAHFFLPSYVMRTHGAKQQRDT-VKRTPKKQLEPVFEALDTLGNTKWRVNNRVLSVLDRIWSCGGRLADLV 543 (1030)
Q Consensus 465 P~pW~~~~~GGYL~~~s~l~R~~~~~~q~~~-l~~~~~~~l~~v~~aLN~Lqst~w~IN~~VL~vi~~~w~~g~~i~~l~ 543 (1030)
|+||+++++||||++++++||++++++|..+ +++.+.+++++||+|||.||+||||||++||||+.++|++||.+.+++
T Consensus 515 PkpWt~~~~Ggyl~~~s~lmRt~g~~~Q~~~llkas~~~~l~~v~daL~~LG~t~WrVN~rvldvV~riw~~Gg~~~~~v 594 (1088)
T KOG1038|consen 515 PKPWTGYDSGGYLFLPSYLMRTHGAKEQVDYLLKASPPGQLDPVFDALDTLGNTKWRVNRRVLDVVIRIWQNGGCFLLIV 594 (1088)
T ss_pred CCCCCCCCCCceEecchhhhhcCCcHHHHHHHHhcCChhhhHHHHHHHHHhcCCCeeecchHHHHHHHHHhcCCCccCCC
Confidence 9999999999999999999999999999885 555678899999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCC-CCccHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHhhcCCCceeeccccCCCCcccCCCCCCC
Q 036741 544 DRNDVPLPEKP-ETEDEAQLRKWQWKVRNVKKENRERHSQRCDIELKLSVARKMKDEEGFYYPHNVDFRGRAYPMHPYLN 622 (1030)
Q Consensus 544 ~~~~~plP~~p-~~~d~~~~~~wk~~~~~~~~~~~~~~s~R~~~~~~L~iA~~f~~~~~fYfP~nlDFRGR~Yp~~~~Ln 622 (1030)
++.+.|+|++| ..+|+.+++.|+++.+.+.+.++++||+|||++|+|+||++|+|+ .||||||||||||+||+|||||
T Consensus 595 ~r~~~~lP~~P~~s~dp~~~~~wk~e~k~~~k~~~e~HS~RCD~~ykLsvAr~~~de-~Fy~PHNmDFRGRaYP~~PHlN 673 (1088)
T KOG1038|consen 595 PREDVPLPPKPTLSEDPAELKAWKWEVKKAQKVNRERHSLRCDAEYKLSVARKMKDE-EFYYPHNMDFRGRAYPLPPHLN 673 (1088)
T ss_pred CCCCCCCCCCCCCCcChHHHHHhHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhccC-eeecCcccCcCCccCCCCchhc
Confidence 99999999999 678999999999999999999999999999999999999999998 5999999999999999999999
Q ss_pred CCCchhhhhhhhcccCcccCccchHHHHHHHHHhhcCCCCCCCHHHHHHHHHhhHHHHHHhhcCCCCcchhhhcCCChHH
Q 036741 623 HLGSDLCRGILEFAEGRTLGKSGLHWLKIHLANLYAGGVDKLSHEGRLAFTENHLDDIFDSADKPLEGRRWWLKAEDPFQ 702 (1030)
Q Consensus 623 ~qGsDl~RsLL~FaegkpLg~~Gl~WLkIhlAN~~g~G~DK~s~deRi~wv~~n~~~I~~sA~dPl~~~~wW~~Ad~PwQ 702 (1030)
|.|+|+|||||+||+|+|||++||+|||||+||+|| |+||+|+++|++|+++|+++|+|||++||+|++||++||||||
T Consensus 674 HLgsDlcRglLeF~~GkPLG~sGL~WLKIHlaNL~~-g~~kl~~~~RlAF~E~hl~DI~DSAd~PLtG~rWW~~AedPfQ 752 (1088)
T KOG1038|consen 674 HLGSDLCRGLLEFAEGKPLGPSGLRWLKIHLANLYA-GVDKLSLRDRLAFTEEHLDDIFDSADRPLTGRRWWLKAEDPFQ 752 (1088)
T ss_pred ccchHHHHHHHHHhcCCcCCccchhHHHHHHHHHhc-ccccccHHHHHHHHHHHHHHHhhcccCCCcccchhhcCCChHH
Confidence 999999999999999999999999999999999997 9999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCcccccccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhc
Q 036741 703 CLAVCINLTEALRSSSPETFISHIPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQR 782 (1030)
Q Consensus 703 fLA~C~El~~a~~~~~P~~y~S~lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~ 782 (1030)
|||+|||+++|++++||+.|+||+||||||||||||||||||||..||++|||+|+|+|||||++||..|.+.+++||++
T Consensus 753 ~LA~C~elaea~RspdPeayiSH~PIHQDGSCNGLQHYAALGrD~~GA~~VNLvpsdkPqDVYs~VA~~V~~~~k~DAe~ 832 (1088)
T KOG1038|consen 753 CLAACMELAEALRSPDPEAYISHIPIHQDGSCNGLQHYAALGRDSEGAAAVNLVPSDKPQDVYSAVAARVEKIMKQDAEK 832 (1088)
T ss_pred HHHHHHHHHHHHcCCCHHHHHhcCCcccCCCcchHHHHHHhcCccccchhccccCCCCchhHHHHHHHHHHHHHHHhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCchHHHHHHhhccCccccccccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHh
Q 036741 783 DPAVFPDALRAKLLLSQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQA 862 (1030)
Q Consensus 783 d~~~~~~~~~Ak~l~~~i~RKvVKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~ 862 (1030)
|+ .+|++|.+.||||||||||||+|||||++|||+||.++|++++.++|+.++|.+|+|++++||+||+|||.+
T Consensus 833 g~------e~Ak~L~~~V~RKvVKQTVMT~VYGVTyvGAR~QI~krL~e~~~f~d~~~v~~as~Yltk~tf~aLrEmF~~ 906 (1088)
T KOG1038|consen 833 GP------EVAKILKDQVTRKVVKQTVMTSVYGVTYVGARLQIKKRLKEIDDFPDEKEVFDASCYLTKKTFEALREMFTA 906 (1088)
T ss_pred Ch------HHHHHHHHHHhHHHhhhheeeeeeeeeEecHHHHHHHHhhhccCcchhHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 96 699999999999999999999999999999999999999999999999889999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEcCCCCeEEEeeccCcceEEEeeeEEEEEe-cC-CCcCCHHhhhccCCCcchhhhh
Q 036741 863 ARGIMSWLGECAKIIASENQPVRWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQ-RE-TEKVMVKRQRTAFPPNFVHSLD 940 (1030)
Q Consensus 863 A~~im~WL~~~A~~i~~~~~pV~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~-~~-~d~vd~rKq~~af~PNFIHSLD 940 (1030)
|+.||+||++||++|++++.||+||||+||||||||++.++++|+|.+|++++. .+ +++||.|||++|||||||||||
T Consensus 907 araIq~WlgecAklIs~~~~~V~WtTPLGLPVVQPYr~~~~~qirt~lQt~~~~~~d~~~~vn~rkQktaFPPNFIHSLD 986 (1088)
T KOG1038|consen 907 ARAIQDWLGECAKLISSENSPVEWTTPLGLPVVQPYRQEKKKQIRTGLQTLFLSPRDLTNKVNARKQKTAFPPNFIHSLD 986 (1088)
T ss_pred HHHHHHHHHHHHHHHhcCCCceEEecCCCCcccchhhhhhhhcccccceEEeecchhhccccchhhhhccCCCchhhccc
Confidence 999999999999999999999999999999999999999999999999999998 44 7899999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCcEEEeeccccCCCCChhHHHHHHHHHHHHhcCcchHHHHHHHHHH------------hCCCCCC
Q 036741 941 GSHMMMTAVACRKAGLTFAGVHDSYWTHACDVDEMNRILREKFVELYEMPIFENLLDSFQK------------SFPKLVF 1008 (1030)
Q Consensus 941 AsHmmlta~~~~~~gi~fa~VHDSFwTha~dvd~m~~ilRe~FV~Lys~~il~~l~e~f~~------------~~~~~~~ 1008 (1030)
||||||||++|.++||+||+|||||||||||||+||++|||+||+|||+|||++|+++|++ +|+.+.|
T Consensus 987 ~SHMmmTal~C~rqGl~FasVHDsyWTHAcDVd~MN~ilREqFV~Lhs~pIle~L~e~f~~ry~~~~~~~~~~s~l~l~f 1066 (1088)
T KOG1038|consen 987 GSHMMMTALACERQGLTFASVHDSYWTHACDVDVMNRILREQFVELHSQPILERLLESFEKRYKFKDSDFKNDSQLPLIF 1066 (1088)
T ss_pred chHHHHHHHHHHhcCCceeeeecchhccccchHHHHHHHHHHHHHHcccHHHHHHHHHHHHHhccccchhhhhccCCccC
Confidence 9999999999999999999999999999999999999999999999999999999999999 4566789
Q ss_pred CCCCCCCCCCcccccCCCCCCC
Q 036741 1009 PPLPERGDFDLREVLGSPYFFN 1030 (1030)
Q Consensus 1009 p~~P~~G~LDL~~Vl~S~YFF~ 1030 (1030)
||+|++|+|||+.||+|+||||
T Consensus 1067 pplP~rGdfDLk~Vl~S~YFFs 1088 (1088)
T KOG1038|consen 1067 PPLPKRGDFDLKKVLDSTYFFS 1088 (1088)
T ss_pred CCCCCCCCccHHHHhccccccC
Confidence 9999999999999999999997
No 2
>PHA00452 T3/T7-like RNA polymerase
Probab=100.00 E-value=3.7e-208 Score=1861.63 Aligned_cols=787 Identities=33% Similarity=0.570 Sum_probs=706.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccCC
Q 036741 190 RMLKMRQVKIETEAWEKAANEYRELLMDMCEQKLAPNLPYMKSLFLGWFEPLRDAIAKEQERCRMAKHKVAYAPYFDQLP 269 (1030)
Q Consensus 190 ~~l~~RQ~~lE~~~~~~a~~~~~~~~~~~~~~g~a~~~~~~~~ll~~w~~~l~~~I~~e~~~~~~~~~r~~y~p~L~~L~ 269 (1030)
.+|.+||++||++++++|++||++++++++++|+++++|++++++.+||++|+++|+++++.+++++.++.|+|||.++|
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 46889999999999999999999999999999999999999999999999999999999999877888999999999999
Q ss_pred chhHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccccCCCcchhhHHHHHHHH
Q 036741 270 ADMMAVITMHKLMGLLMTGGEHGRARVVQAACIIGDAIEQEVRIHKFLEKTKKKNETKNKEDEEGDESNTVTTEQEKLRK 349 (1030)
Q Consensus 270 pe~lA~Iti~~~l~~~~~~~~~~~~~v~~~~~~IG~aVe~E~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 (1030)
||++|+|||+++|++++++ ++.++++++.+||++||+|++++++++++++..... .....++
T Consensus 83 ~d~lA~Iti~~~l~~l~~~---~~~~~~~~~~~iG~aie~E~r~~~~~~~~~~~~~~~---------------~~~~~~~ 144 (807)
T PHA00452 83 PEVLAVITLKVTLDMLLSK---ETPTAQAVATAIGRAIEDEIRFGRIEDLNPKYFKKV---------------VEYLKRS 144 (807)
T ss_pred HHHHHHHHHHHHHHHHhcC---CCchHHHHHHHHHHHHHHHHHHHHHHHhChHHHHHH---------------HHHHHhc
Confidence 9999999999999999873 356899999999999999999999988776432211 0111222
Q ss_pred HHHHHHHhhc-hHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHc-cccCCCCCCCCCCCCccCceEeeEeeeeccc
Q 036741 350 KVTDLIKKQK-LPAVRRIVKGQDDFKPWGQDARAKVGSRVIELLTQTA-YIQSPADQLADAPPDIFPAFTHALRTVSKET 427 (1030)
Q Consensus 350 ~~~~~~~~~~-~~~~~~~~~~~~~~~~W~~~~~~kvG~~Li~~l~~~~-~i~~~~~~~~~~~~~~~paF~h~~~~~~~~~ 427 (1030)
+.+...++.+ .+.+++.+..+ ++.+|+.+++++||++|+++|++++ .++++.. ..
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~-~~~~W~~~~~~kvG~~Ll~~l~~~a~~~~~~~~----------------------~~ 201 (807)
T PHA00452 145 RTGSVYHIAFMMVVEADMVLLG-EWDPWPKEDYIHVGKWLLEALIESTGLVELVRH----------------------TG 201 (807)
T ss_pred ccchHHHHHHHHHHHHHhhhcc-CCCCCCHHHHHHHHHHHHHHHHHhhCceeeeec----------------------cc
Confidence 3333333222 23444444433 4889999999999999999999996 4433211 01
Q ss_pred CCCCeeEEEEEeCHHHHHHHHhhhhcc--CCC-CCCeeeCCcCcccCCCccccccC---cceeecCChhhhHHHHhcCCC
Q 036741 428 KGGSKKYGVIECNPLVLKGLERTARHM--VIP-YMPMLVPPVKWTGYDKGAHFFLP---SYVMRTHGAKQQRDTVKRTPK 501 (1030)
Q Consensus 428 ~~~~k~~gvi~~~~~~~~~l~~~~~~~--~~~-~lPMlvpP~pW~~~~~GGYL~~~---s~l~R~~~~~~q~~~l~~~~~ 501 (1030)
+++++++|+|.+||++++.+++....+ ..| +|||||||+||+++.+||||+.+ +..+|+++...+..+ ..
T Consensus 202 ~~~~~~~g~i~~~~~~~~~l~~~~~~~~~~~p~~lPMlvpP~pW~~~~~GGyl~~~~~~~~~~~~~~~~~~~~~----~~ 277 (807)
T PHA00452 202 GNGGKDHEYLELSEEAVELLQDIAAAAAGISPMYQPMVVPPKPWTSIVGGGYHTEGRRPLAPLVRKTKKALRRY----RQ 277 (807)
T ss_pred CCCCceeeEEEeCHHHHHHHHhhhhhhhhcCcccCceeccCcccCCCCCCCceeccccccceeEecCHHHHHHH----Hh
Confidence 234678899999999999999875432 344 99999999999999999999853 567888776655544 33
Q ss_pred CChhHHHHHHHhhcCcccEecHHHHHHHHHHHHcCCCCCCCCCCCCCCCCCCCCC--ccHHHHHHHHHHHHHHHHHHHHh
Q 036741 502 KQLEPVFEALDTLGNTKWRVNNRVLSVLDRIWSCGGRLADLVDRNDVPLPEKPET--EDEAQLRKWQWKVRNVKKENRER 579 (1030)
Q Consensus 502 ~~l~~v~~aLN~Lqst~w~IN~~VL~vi~~~w~~g~~i~~l~~~~~~plP~~p~~--~d~~~~~~wk~~~~~~~~~~~~~ 579 (1030)
++|+.||++||+||+|||+||++||+||+++|++| .++++|+..+.|+|++|++ ++++++++|++++++++++++++
T Consensus 278 ~~l~~v~~aLN~Lg~t~w~IN~~vl~v~~~~~~~~-~~~~~~~~~~~~~P~~P~~~~~~~~~~~~wk~~~~~~~~~~~~~ 356 (807)
T PHA00452 278 KQMPEVYKAVNALQNTAWRINKDVLAVVNEVVNWG-PVGDVLGIPRRPLPPKPEFLDENEEAFKAWKRAAAAWYTKEKER 356 (807)
T ss_pred hhhHHHHHHHHHHhcCCceecHHHHHHHHHHHhcC-CcccCCCCCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999999999999999999 8888888878888988865 45688999999999999999999
Q ss_pred hhhhhhHHHHHHHHHhhcCCCceeeccccCCCCcccCCCCCCCCCCchhhhhhhhcccCcccCccchHHHHHHHHHhhcC
Q 036741 580 HSQRCDIELKLSVARKMKDEEGFYYPHNVDFRGRAYPMHPYLNHLGSDLCRGILEFAEGRTLGKSGLHWLKIHLANLYAG 659 (1030)
Q Consensus 580 ~s~R~~~~~~L~iA~~f~~~~~fYfP~nlDFRGR~Yp~~~~Ln~qGsDl~RsLL~FaegkpLg~~Gl~WLkIhlAN~~g~ 659 (1030)
||+||+++++|++|++|+|++.||||||+|||||+|| +|||||||+|+|||||+||+|+|||++|++|||||+||+|
T Consensus 357 ~S~r~~~~~~l~iA~~f~~~~~fYfP~n~DfRGR~Yp-~~~ln~qg~Dl~RsLL~Fa~gkpLG~~Gl~WLkih~AN~~-- 433 (807)
T PHA00452 357 VSKRRRLEFMLRVANKFADYKAIYFPYNMDWRGRVYA-VSMLNPQGSDLQKALLRFAEGKPLGKRGLYWLKVHGANCY-- 433 (807)
T ss_pred HHHHHHHHHHHHHHHHhcCCCceeccccccCCCCCCC-CCCCCCCCchHHHHHHHhcCCCCCChhHHHHHHHHHHHHh--
Confidence 9999999999999999999889999999999999999 9999999999999999999999999999999999999999
Q ss_pred CCCCCCHHHHHHHHHhhHHHHHHhhcCCCCcchhhhcCCChHHHHHHHHHHHHHHhcCCCCcccccccccccCCCchhhH
Q 036741 660 GVDKLSHEGRLAFTENHLDDIFDSADKPLEGRRWWLKAEDPFQCLAVCINLTEALRSSSPETFISHIPVHQDGSCNGLQH 739 (1030)
Q Consensus 660 G~DK~s~deRi~wv~~n~~~I~~sA~dPl~~~~wW~~Ad~PwQfLA~C~El~~a~~~~~P~~y~S~lPV~qDGSCNGLQH 739 (1030)
|+||+||+||++||++|+++|+++|+|||+|. ||++||+||||||+|+||++|+++|+ +|+||||||||||||||||
T Consensus 434 G~dK~s~~eR~~wv~~n~~~I~~~A~dPl~~~-ww~~Ad~P~qfLA~c~El~~a~~~~~--~~~s~lPI~qDgSCnGlQH 510 (807)
T PHA00452 434 GVDKVTFDERAAWVDENHDNILAAAEDPLNNT-WWAEADSPLCFLAACFEYAAAVHSGT--SYVSGLPVAMDGTCSGLQH 510 (807)
T ss_pred CCCcCCHHHHHHHHHHHHHHHHHHHhCcCCch-hhhcCCCHHHHHHHHHHHHHHHhCCC--ccccccccccCCcccHHHH
Confidence 89999999999999999999999999999988 99999999999999999999999887 9999999999999999999
Q ss_pred HHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccccccceeeecccchh
Q 036741 740 YAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLVKQTVMTSVYGVTYI 819 (1030)
Q Consensus 740 yAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvVKqtVMT~vYGvT~~ 819 (1030)
|||||||.+||++|||+|+|+|||||+.||+.|.+.+++|+.++.+ .+....+++|..+||||+|||||||+|||||++
T Consensus 511 yAAL~rD~~ga~~VNL~p~d~p~DvY~~Va~~v~~~i~~d~~~~~~-~~~~~~~~~l~~~i~RkvvKqtVMT~vYGvT~~ 589 (807)
T PHA00452 511 FSAMLRDEVGGRAVNLLPSDKPQDIYGIVAEVVNEKLERDAINGTD-NTRALARLWLAYGITRSLTKRPVMTLPYGSTRF 589 (807)
T ss_pred HHHHhCCHHhHHHhCCCCCCCCccHHHHHHHHHHHHHHHHHhCCCc-chHHHHHHHHhCCCChhhcccccccceeCCchh
Confidence 9999999999999999999999999999999999999999876432 223344567888999999999999999999999
Q ss_pred hHHHHHHHHHhhcCCCCchhhh--hhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-cCCCcEEEEcCCCCeEEE
Q 036741 820 GARDQIKRRLKERGAPMEEAEL--FGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIA-SENQPVRWTTPLGLPVVQ 896 (1030)
Q Consensus 820 Gar~qI~~~L~~~g~~~d~~~~--~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~-~~~~pV~WtTPlGlpVvQ 896 (1030)
|+++||.++|+++|+..++... +.+++|+|++||+||+++|++|+.||+||++||++|+ +.+.||.||||+||||+|
T Consensus 590 g~~~qI~~~l~~~~~~~~~~~~~~~~~~~yla~~i~~ai~~~f~~a~~im~wL~~~a~~i~~~~~~pv~W~TP~GlpV~Q 669 (807)
T PHA00452 590 SCRDYILEDLLQPGIDEGDGAMFTNQAASYMAKLIWDAISETVPAAVEAMNWLQQAAKLLAAKGAEALHWTTPTGFPVWQ 669 (807)
T ss_pred hhHHHHHHHHHhcCCCcccchhhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCCEEEECCCCCEEEe
Confidence 9999999999998876554333 7899999999999999999999999999999999999 999999999999999999
Q ss_pred eeccCcceEEEeeeE---EEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHHHHHHcCC-cEEEeeccccCCCCCh
Q 036741 897 PYRKLGRHTVKTSLQ---ILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAVACRKAGL-TFAGVHDSYWTHACDV 972 (1030)
Q Consensus 897 ~Y~k~~~~~I~t~lq---~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~~~~~~gi-~fa~VHDSFwTha~dv 972 (1030)
||++.++++|+|.+| .+++..+++++|++||++|||||||||||||||||||++|.+.|+ +|++||||||||||||
T Consensus 670 ~Y~k~~~~~v~t~~~~~~~i~~~~~~~~~d~~Kq~~a~~PNFIHSLDAsHm~~t~~~~~~~g~~~fa~VHDsfwTha~dv 749 (807)
T PHA00452 670 EYRKPEEKRVRLRLMGVARVQLYVNTDTIDARKHASGIAPNFVHSLDASHLRLTVVACAEKGIESFAVIHDSFGTHAADA 749 (807)
T ss_pred eecCCCcEEEEEeeccceeEEeccCCCCCCHHHHhcccCCchhhhhhHHHHHHHHHHHHhcCCCcEEEeccCcccChhhH
Confidence 999999999999987 577778888999999999999999999999999999999999986 8999999999999999
Q ss_pred hHHHHHHHHHHHHhcCc-chHHHHHHHHHHhCCCCCCCCCCCCCCCCcccccCCCCCCC
Q 036741 973 DEMNRILREKFVELYEM-PIFENLLDSFQKSFPKLVFPPLPERGDFDLREVLGSPYFFN 1030 (1030)
Q Consensus 973 d~m~~ilRe~FV~Lys~-~il~~l~e~f~~~~~~~~~p~~P~~G~LDL~~Vl~S~YFF~ 1030 (1030)
|.|+++|||+||+|||+ |+|++|+++|..+| .+++|++|++|+|||++||+|+|||+
T Consensus 750 d~m~~~lRe~FV~lys~~~~L~~l~~~~~~~~-~~~~p~~P~~G~lDL~~Vl~S~yfF~ 807 (807)
T PHA00452 750 DNLHRAIRETFVEMYEENDVLADFADQFGDQL-QLKMPELPEKGSLDLEEVLDSDFFFC 807 (807)
T ss_pred HHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHh-hccCCCCCCCCCCCHHHHhCCCCCCC
Confidence 99999999999999999 99999999999999 67999999999999999999999996
No 3
>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]
Probab=100.00 E-value=9.9e-197 Score=1649.14 Aligned_cols=803 Identities=37% Similarity=0.630 Sum_probs=716.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHH-HH---------hccccccccc
Q 036741 194 MRQVKIETEAWEKAANEYRELLMDMCEQKLAPNLPYMKSLFLGWFEPLRDAIAKEQER-CR---------MAKHKVAYAP 263 (1030)
Q Consensus 194 ~RQ~~lE~~~~~~a~~~~~~~~~~~~~~g~a~~~~~~~~ll~~w~~~l~~~I~~e~~~-~~---------~~~~r~~y~p 263 (1030)
+||..||..+...|.+.|+..+++..++|--.--.-+.+.++.||..+..+.++|+.. .. +.+.|..|+|
T Consensus 251 ~rqk~le~~ai~~a~E~wk~~~e~~~~rg~~~~eKN~~~~~~swy~~i~~l~keeI~~l~e~l~~~~sl~K~~~rl~ygp 330 (1117)
T COG5108 251 ERQKWLEKSAIALAEEMWKAGIERFEKRGEKNREKNAEASNLSWYRMIIHLHKEEIAGLLEALLAEASLGKAGKRLTYGP 330 (1117)
T ss_pred HHHHHHHHhHHHHHHHHHHhhHHHHHhccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccCeecccc
Confidence 6899999999999999999999999998853333346788999999999999998874 22 1457999999
Q ss_pred ccccCCchhHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccccCCCcchhhHH
Q 036741 264 YFDQLPADMMAVITMHKLMGLLMTGGEHGRARVVQAACIIGDAIEQEVRIHKFLEKTKKKNETKNKEDEEGDESNTVTTE 343 (1030)
Q Consensus 264 ~L~~L~pe~lA~Iti~~~l~~~~~~~~~~~~~v~~~~~~IG~aVe~E~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~ 343 (1030)
||++++++++|+|||+++++++.+++.+.|||++.++..+|++||+|++.++|...+++.+....+. .
T Consensus 331 yLkl~d~~k~a~lTi~el~~l~s~~~~~~gmr~t~l~i~lg~~vE~Ef~seq~~~~e~~ay~d~~kk------------~ 398 (1117)
T COG5108 331 YLKLADLDKVAHLTIRELFDLVSMRRYDRGMRLTPLSIRLGAMVEDEFFSEQFKGHEKDAYEDARKK------------I 398 (1117)
T ss_pred ceeccCcccchhhhHHHHHHhhccccccccceeehhHHHHHHHHHHHHHHHHHhhhhhHHHHHHhhc------------C
Confidence 9999999999999999999999998888899999999999999999999998887665433211110 0
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHccccCCCCCCCC--CCCCccCceEeeEe
Q 036741 344 QEKLRKKVTDLIKKQKLPAVRRIVKGQDDFKPWGQDARAKVGSRVIELLTQTAYIQSPADQLAD--APPDIFPAFTHALR 421 (1030)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~~~~kvG~~Li~~l~~~~~i~~~~~~~~~--~~~~~~paF~h~~~ 421 (1030)
-+..++.+.+ .+ ...+.....+..|.+|+++++++||+.++.+|+.+++|.+...+... ......|||.|+|+
T Consensus 399 p~~f~~aV~n----~r-s~tr~~~~~~~~~~~Wpq~i~akvGsv~l~lll~vaki~v~~id~~t~~~l~ge~~af~h~yq 473 (1117)
T COG5108 399 PEQFHNAVHN----KR-SMTRHAKHKGAEWQDWPQDIKAKVGSVALCLLLSVAKIEVKLIDIATEQTLKGEFEAFRHSYQ 473 (1117)
T ss_pred hHHHHHHHHH----HH-hhhhhhhhcCcchhcChHHHHHHhhHHHHHHHHHhhhheeEeeechhhchhhhhHHHHHHhhh
Confidence 1122222222 11 01111222346789999999999999999999999999988766533 34578999999998
Q ss_pred eeecccCCCCeeEEEEEeCHHHHHHHHhhhhcc-CCC-CCCeeeCCcCcccCCCccccccCcceeecCChhhhHHHHhcC
Q 036741 422 TVSKETKGGSKKYGVIECNPLVLKGLERTARHM-VIP-YMPMLVPPVKWTGYDKGAHFFLPSYVMRTHGAKQQRDTVKRT 499 (1030)
Q Consensus 422 ~~~~~~~~~~k~~gvi~~~~~~~~~l~~~~~~~-~~~-~lPMlvpP~pW~~~~~GGYL~~~s~l~R~~~~~~q~~~l~~~ 499 (1030)
+ ++|+++|||..|..+...+.+..+.. ..| +|||||||+||+++.+|||++....++|..++.+|-+|+..+
T Consensus 474 y------hNg~kigvv~~h~tl~~ll~~~~~~a~l~PqlLPmLV~PkPWtsw~~GGY~y~r~~llRlk~t~eqv~yl~~a 547 (1117)
T COG5108 474 Y------HNGTKIGVVATHETLDWLLTENSRLAPLSPQLLPMLVPPKPWTSWFRGGYWYGRVRLLRLKKTGEQVRYLLMA 547 (1117)
T ss_pred h------cCCceeEEEeeHHHHHHHhhcccccCCCChhhhccccCCCCCcCcccCceeeccceeeeecCcHHHHHHHHHh
Confidence 7 47899999999999887776654321 234 899999999999999999999999999999999999888766
Q ss_pred -CCCChhHHHHHHHhhcCcccEecHHHHHHHHHHHHcCCCCCCCCCCCC-CCCCCC-CCCccHHHHHHHHHHHHHHHHHH
Q 036741 500 -PKKQLEPVFEALDTLGNTKWRVNNRVLSVLDRIWSCGGRLADLVDRND-VPLPEK-PETEDEAQLRKWQWKVRNVKKEN 576 (1030)
Q Consensus 500 -~~~~l~~v~~aLN~Lqst~w~IN~~VL~vi~~~w~~g~~i~~l~~~~~-~plP~~-p~~~d~~~~~~wk~~~~~~~~~~ 576 (1030)
..+||++||++||.||+|||+||.+|++|+.++|++|+.+..||.+.+ .-+|+. +.+.+|+++..|+-+.+.+...+
T Consensus 548 sengd~d~vy~~in~lg~t~W~iN~rvf~V~~~~Wn~ge~fl~IP~a~d~~~~Pp~p~~~~~P~~~~~Wk~~rktia~~~ 627 (1117)
T COG5108 548 SENGDMDKVYHSINALGNTAWSINHRVFEVMASLWNNGETFLCIPQADDMWLAPPMPREDMSPEEFSRWKSERKTIAEAN 627 (1117)
T ss_pred hhcCChHHHHHHHHHhccCchhhhHHHHHHHHHHHhCCCceeccCchhccccCCCCCcccCCHHHHHHHHHHHHHHHHhh
Confidence 468999999999999999999999999999999999999999998764 234444 45678999999999999999999
Q ss_pred HHhhhhhhhHHHHHHHHHhhcCCCceeeccccCCCCcccCCCCCCCCCCchhhhhhhhcccCcccCccchHHHHHHHHHh
Q 036741 577 RERHSQRCDIELKLSVARKMKDEEGFYYPHNVDFRGRAYPMHPYLNHLGSDLCRGILEFAEGRTLGKSGLHWLKIHLANL 656 (1030)
Q Consensus 577 ~~~~s~R~~~~~~L~iA~~f~~~~~fYfP~nlDFRGR~Yp~~~~Ln~qGsDl~RsLL~FaegkpLg~~Gl~WLkIhlAN~ 656 (1030)
+..+|+||+++|+|+||++|.|+ +|||||++|||||+||+|+||||||+|.|||||.||.|+|||++|++|||||+||+
T Consensus 628 ~~a~S~RcdfnykLeiAraFl~E-kfYFPH~lDFRGRaYpls~hlnh~gnD~srGLL~F~~gkplgp~Gl~WLkiHlanL 706 (1117)
T COG5108 628 ARAVSKRCDFNYKLEIARAFLDE-KFYFPHQLDFRGRAYPLSLHLNHQGNDASRGLLQFANGKPLGPEGLDWLKIHLANL 706 (1117)
T ss_pred hhhhhhhcchHHHHHHHHHhccC-ccccccccccCcccccCccccccccchhhhhHHHhhcCCcCCcchhhHHHHHhhcc
Confidence 99999999999999999999996 89999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCCCCHHHHHHHHHhhHHHHHHhhcCCCCcchhhhcCCChHHHHHHHHHHHHHHhcCCCCcccccccccccCCCch
Q 036741 657 YAGGVDKLSHEGRLAFTENHLDDIFDSADKPLEGRRWWLKAEDPFQCLAVCINLTEALRSSSPETFISHIPVHQDGSCNG 736 (1030)
Q Consensus 657 ~g~G~DK~s~deRi~wv~~n~~~I~~sA~dPl~~~~wW~~Ad~PwQfLA~C~El~~a~~~~~P~~y~S~lPV~qDGSCNG 736 (1030)
| |+||+||.+|++||++|+.+|+|||+||++|++||+.||+|||.||+||||.+++++|||++|+||+||||||||||
T Consensus 707 f--GvdK~~~~~Rvafv~~n~qei~dSAenPldgnrwW~tAdkPwQALA~CFE~~e~v~~gd~e~fiSH~PvqqDGTCNG 784 (1117)
T COG5108 707 F--GVDKCSMNERVAFVMANQQEILDSAENPLDGNRWWLTADKPWQALAFCFEWQEYVAEGDHEAFISHLPVQQDGTCNG 784 (1117)
T ss_pred c--CcccCcHHHHHHHHHhhHHHHHhhccCCCCCCcchhcCCChHHHHHHHHHHHHHHhcCChHHhhhcCcccccCccch
Confidence 9 89999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccccccceeeeccc
Q 036741 737 LQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLVKQTVMTSVYGV 816 (1030)
Q Consensus 737 LQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvVKqtVMT~vYGv 816 (1030)
||||||||+|++||++|||+|+|+|+|||..||..|+..++.+|+++. ..|+.|++++||+|||+||||+||||
T Consensus 785 LQhyaAlggD~eGa~qVNLvPSDkP~DvYa~VA~vv~~~L~~~AeagD------e~ak~lKDK~Tr~vVk~tvmtnvygv 858 (1117)
T COG5108 785 LQHYAALGGDEEGAAQVNLVPSDKPNDVYATVASVVIAKLRDIAEAGD------ETAKELKDKETRTVVKETVMTNVYGV 858 (1117)
T ss_pred HHHHHHhcCccccceeeeccCCCCchhHHHHHHHHHHHHHHHHHHhhh------hHHHHHhhhhhhhhhhhccccceeee
Confidence 999999999999999999999999999999999999999999998874 68999999999999999999999999
Q ss_pred chhhHHHHHHHHHhhcCCCCchh-hhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHc----------------
Q 036741 817 TYIGARDQIKRRLKERGAPMEEA-ELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIAS---------------- 879 (1030)
Q Consensus 817 T~~Gar~qI~~~L~~~g~~~d~~-~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~---------------- 879 (1030)
|++|++.||.++|... ..+.+ +....+.|+++.+|.++++.|.+|+.|++||.+|++.|..
T Consensus 859 tyvGat~qitk~l~~i--~g~~k~~~~d~~kyltk~vF~a~r~lF~~Ah~iqdwl~~c~~~i~~s~~~d~d~~~~k~gik 936 (1117)
T COG5108 859 TYVGATRQITKRLTLI--YGASKFDTVDPWKYLTKEVFPAERTLFAAAHFIQDWLWDCVGEIVVSAAGDMDWLQKKAGIK 936 (1117)
T ss_pred EEeehHHHHHHhcccc--cCchhccccCHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHhHHHHhcccchhHHHHHhccC
Confidence 9999999999998653 22222 3345679999999999999999999999999999998754
Q ss_pred --CCCcEEEEcCCCCeEEEeeccCcceEEEeeeEEEEEecC--CCcCCHHhhhccCCCcchhhhhhHHHHHHHHHHHHcC
Q 036741 880 --ENQPVRWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRE--TEKVMVKRQRTAFPPNFVHSLDGSHMMMTAVACRKAG 955 (1030)
Q Consensus 880 --~~~pV~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~--~d~vd~rKq~~af~PNFIHSLDAsHmmlta~~~~~~g 955 (1030)
+-.||+||||+|||||||||..+.++|.|.+|+|.|+.+ +.+||+|||.+||||||||||||+||.|||.+|.++|
T Consensus 937 ~de~~pViWtTplgLpivQpYr~~~~kq~etnlQtVfi~~~~a~~~v~~rkQ~sg~pPNfiHSlDA~HM~lt~~~C~~qg 1016 (1117)
T COG5108 937 ADESLPVIWTTPLGLPIVQPYRTSEQKQLETNLQTVFIQLDVASKKVDKRKQGSGIPPNFIHSLDAAHMQLTVSRCHDQG 1016 (1117)
T ss_pred cccccceeeccCCCCcccccchhhHHHHHHhhhheEEEeccccccccChhhccCCCCcchhhhccHHHHHHhHHHhhhcC
Confidence 247999999999999999999999999999999988865 5689999999999999999999999999999999999
Q ss_pred CcEEEeeccccCCCCChhHHHHHHHHHHHHhcCcchHHHHHHHHHHhCCC--------------------------CCCC
Q 036741 956 LTFAGVHDSYWTHACDVDEMNRILREKFVELYEMPIFENLLDSFQKSFPK--------------------------LVFP 1009 (1030)
Q Consensus 956 i~fa~VHDSFwTha~dvd~m~~ilRe~FV~Lys~~il~~l~e~f~~~~~~--------------------------~~~p 1009 (1030)
|.|++|||||||||||+|.||.+|||+||.||+.+++.+|.++|.+||.+ +++|
T Consensus 1017 i~Fa~vHDSYwTHA~d~d~Mn~~LRE~Fvklh~~~~vlrlk~EF~~ryk~~l~~~k~~ka~dedl~aklg~~t~ipl~lP 1096 (1117)
T COG5108 1017 IRFALVHDSYWTHAGDADAMNQFLREEFVKLHGDHDVLRLKAEFGRRYKGFLVSKKAIKANDEDLTAKLGEGTYIPLELP 1096 (1117)
T ss_pred CceeeeecchhccccCHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHhhchhhhhhhhccchHHHHhhcCCCCcccccCC
Confidence 99999999999999999999999999999999999999999999998742 3589
Q ss_pred CCCCCCCCCcccccCCCCCCC
Q 036741 1010 PLPERGDFDLREVLGSPYFFN 1030 (1030)
Q Consensus 1010 ~~P~~G~LDL~~Vl~S~YFF~ 1030 (1030)
|+|++|+|||..|++|.|||+
T Consensus 1097 plP~kG~lDls~vleS~yFFs 1117 (1117)
T COG5108 1097 PLPEKGSLDLSQVLESAYFFS 1117 (1117)
T ss_pred CCCCCCCccHHHHHhhhhccC
Confidence 999999999999999999997
No 4
>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=1.4e-122 Score=1057.21 Aligned_cols=388 Identities=56% Similarity=0.976 Sum_probs=339.8
Q ss_pred CcccCccchHHHHHHHHHhhcCCCCCCCHHHHHHHHHhhHHHHHHhhcCCCCcchhhhcCCChHHHHHHHHHHHHHHhcC
Q 036741 638 GRTLGKSGLHWLKIHLANLYAGGVDKLSHEGRLAFTENHLDDIFDSADKPLEGRRWWLKAEDPFQCLAVCINLTEALRSS 717 (1030)
Q Consensus 638 gkpLg~~Gl~WLkIhlAN~~g~G~DK~s~deRi~wv~~n~~~I~~sA~dPl~~~~wW~~Ad~PwQfLA~C~El~~a~~~~ 717 (1030)
|||||++|++|||||+||+| |+||+||+||++||++|+++|+++|+||+++.+||.+||+||||||+|+||+++++++
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 CCCcccccccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhh
Q 036741 718 SPETFISHIPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLL 797 (1030)
Q Consensus 718 ~P~~y~S~lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~ 797 (1030)
+|++|+||+|||||||||||||||||+||.+||++|||+|+++|+|||+.|++.|.+.+++++... .....+++++.
T Consensus 79 ~~~~~~s~lPV~~DgSCsGlQH~sal~rD~~ga~~vNLip~~~p~DiY~~V~~~v~~~l~~~~~~~---~~~~~~~~~l~ 155 (405)
T PF00940_consen 79 NPEEFVSHLPVHQDGSCSGLQHYSALLRDEVGAKAVNLIPSDKPQDIYSEVAEEVKKRLEEDADDA---EEDNSLAKWLK 155 (405)
T ss_dssp SGCCSEE-SEEEEEBSTHHHHHHHHHTT-HHHHHHTTSSSSSS---HHHHHHHHHHHHHHHHHHEH---HCCHHHHHHCC
T ss_pred CchheeecceeeecCcccHHHHHHHHccCHhhChhcCCCCCCCCCchHHHHHHHHHHHHHHhhccc---ccchHHHHHhc
Confidence 999999999999999999999999999999999999999999999999999999999999984210 11258899999
Q ss_pred ccCccccccccceeeecccchhhHHHHHHHHHhhcCCCC-chhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 036741 798 SQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGAPM-EEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKI 876 (1030)
Q Consensus 798 ~~i~RKvVKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~-d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~ 876 (1030)
.+|+||+|||+|||+|||||.+|+++||+++|++.+... +....+.++.|||+.|+++|+++|++|+.+|+||++||++
T Consensus 156 ~~i~Rk~vK~~vMT~~YG~T~~g~~~qi~~~l~~~~~~~~~~~~~~~~~~~la~~i~~~i~~~~~~a~~~m~wL~~~a~~ 235 (405)
T PF00940_consen 156 GGITRKLVKRPVMTIVYGVTFYGARDQIKEQLKEKGDEEEDKIESYKAAMYLAKIIFEAIKEVFPGARNIMDWLQEIAKI 235 (405)
T ss_dssp CT--HHHHHHHHHHHHHT-TCCHHHHHHHHHCHCHCCCTTTTTTHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHH
T ss_pred CCCChhhcccceEEeeeCcchhhHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999887544 3456788999999999999999999999999999999999
Q ss_pred HHcCCCcEEEEcCCCCeEEEeeccCcceEEEeeeEEEEEecC--CCcCCHHhhhccCCCcchhhhhhHHHHHHHHHHHHc
Q 036741 877 IASENQPVRWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRE--TEKVMVKRQRTAFPPNFVHSLDGSHMMMTAVACRKA 954 (1030)
Q Consensus 877 i~~~~~pV~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~--~d~vd~rKq~~af~PNFIHSLDAsHmmlta~~~~~~ 954 (1030)
+++++.||.|+||+||||+|+|++.++++|+|.++....... ...+|++||++||||||||||||||||||+.+|.+.
T Consensus 236 ~~~~~~pv~W~tP~Gl~V~Q~Y~~~~~~~i~~~~~~~~~~~~~~~~~~d~~Kq~~a~~PNFIHSlDAshl~~t~~~~~~~ 315 (405)
T PF00940_consen 236 IAKLNKPVSWTTPLGLPVVQPYRKSKKKRIKTYLQGVSRRRVIREDPVDKRKQKNAFAPNFIHSLDASHLMLTANACNKE 315 (405)
T ss_dssp HHCTCB-EEEEETTSEEEEE--EEESEEEEESSSTTTEEE--EEEEES-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHccCCcEEEECCCCCEEEecccccCceeeEeecceeEEeccCCCCCCCHHHHhcccCCchHhhHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999998764333322 234599999999999999999999999999999999
Q ss_pred CCcEEEeeccccCCCCChhHHHHHHHHHHHHhcCcchHHHHHHHHHHhCCC--------------CCCCCCCCCCCCCcc
Q 036741 955 GLTFAGVHDSYWTHACDVDEMNRILREKFVELYEMPIFENLLDSFQKSFPK--------------LVFPPLPERGDFDLR 1020 (1030)
Q Consensus 955 gi~fa~VHDSFwTha~dvd~m~~ilRe~FV~Lys~~il~~l~e~f~~~~~~--------------~~~p~~P~~G~LDL~ 1020 (1030)
|++|++||||||||||||+.|+++||++||+||++|+|++|+++|..++++ +.+|++|++|+|||+
T Consensus 316 ~~~f~~VHDsf~tha~~~~~L~~~lRe~Fv~lys~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~P~~G~ldl~ 395 (405)
T PF00940_consen 316 GIPFATVHDSFWTHACDVDTLNEILREQFVELYSPDILEDFAEDFKARLPDSYQNIWEKKNEFVPIKFPPLPERGDLDLN 395 (405)
T ss_dssp T--EEECTTEEEEEHHHHHHHHHHHHHHHHHHHHCTHHHHHHHHHHCCCTGGTTSHHHHH--HHCCCCHS-----S-SGG
T ss_pred CCeEEEEehhhhcCHHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHhhhhhccccccchhhhhccCCCCCCCCCccHH
Confidence 999999999999999999999999999999999999999999999999987 689999999999999
Q ss_pred cccCCCCCCC
Q 036741 1021 EVLGSPYFFN 1030 (1030)
Q Consensus 1021 ~Vl~S~YFF~ 1030 (1030)
+|++|+||||
T Consensus 396 ~V~~S~YfFs 405 (405)
T PF00940_consen 396 EVLKSEYFFS 405 (405)
T ss_dssp GGGG-TTTBB
T ss_pred HHhCCCCCCC
Confidence 9999999997
No 5
>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=1.1e-47 Score=425.85 Aligned_cols=305 Identities=33% Similarity=0.574 Sum_probs=220.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHHHH----hcccccccccccccCC
Q 036741 194 MRQVKIETEAWEKAANEYRELLMDMCEQKLAPNLPYMKSLFLGWFEPLRDAIAKEQERCR----MAKHKVAYAPYFDQLP 269 (1030)
Q Consensus 194 ~RQ~~lE~~~~~~a~~~~~~~~~~~~~~g~a~~~~~~~~ll~~w~~~l~~~I~~e~~~~~----~~~~r~~y~p~L~~L~ 269 (1030)
+||++||+++++.|+++|++..+++.++|.+++++++++++++|+++|+++|++|++.+. ..+.++.|+|||++||
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 699999999999999999999999999999999999999999999999999999999875 3567999999999999
Q ss_pred chhHHHHHHHHHHHHHhc-CCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCcccccCCCcchhhHHHHHHH
Q 036741 270 ADMMAVITMHKLMGLLMT-GGEHGRARVVQAACIIGDAIEQEVRIHKFLEKTKKKNETKNKEDEEGDESNTVTTEQEKLR 348 (1030)
Q Consensus 270 pe~lA~Iti~~~l~~~~~-~~~~~~~~v~~~~~~IG~aVe~E~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 (1030)
||++|+|||+++|+++++ ++.++++++++++.+||++||+|++++++.+..++.+........ ...... .. +
T Consensus 81 ~e~lA~Iti~~~l~~~~~~~~~~~g~~~~~~~~~IG~aVe~E~~~~~~~~~~~~~~~~~~~~~~-~~~~~~---~~---~ 153 (318)
T PF14700_consen 81 PEKLAVITIREVLNLLSSSEGYSKGMKLTRLAIAIGRAVEQEYRFQQLEKAEPKYYKKLKKNFK-KKRSKS---QQ---K 153 (318)
T ss_dssp HHHHHHHHHHHHHHHHTTSSSE----EHHHHHHHHHHHHHHHHHHHHHHHCHCCCCCCHHHHCH-CCSTSC---HH---C
T ss_pred HHHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hcccch---hh---H
Confidence 999999999999999984 445567899999999999999999999887765543311100000 000000 00 0
Q ss_pred HHHHHHHHhhchHHHHHHhhCCCCCC--CCCHHHHHHHHHHHHHHHHHHccccCCCCCCCCCCCCccCceEeeEeeeecc
Q 036741 349 KKVTDLIKKQKLPAVRRIVKGQDDFK--PWGQDARAKVGSRVIELLTQTAYIQSPADQLADAPPDIFPAFTHALRTVSKE 426 (1030)
Q Consensus 349 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~W~~~~~~kvG~~Li~~l~~~~~i~~~~~~~~~~~~~~~paF~h~~~~~~~~ 426 (1030)
+.+...++..+.......+ ...+. +|+..++++||++|+++|+++++|++...++.. ...+|||+|.|++.
T Consensus 154 r~~~~~~~~~~~~~~~~~~--~~~~~~~~W~~~~~~~vG~~Ll~~l~~~~~i~~~~~~~~~--~~~~paf~~~~~~~--- 226 (318)
T PF14700_consen 154 RHVWQLLKNRKDSSGKPSL--EEEWSDSPWPSDIRAKVGSFLLELLMETAKIPVERKDPET--SEEQPAFYHSYRYR--- 226 (318)
T ss_dssp HHHHHHHHHHHSHSS-STT--T-TCCC--SCHHHHHHHHHHHHHHHHHCTCEEEEEESTT-------BSEEEEE------
T ss_pred HHHHHHHHHHHHhcccccc--ccccccCCCCHHHHHHHHHHHHHHHHhheeeccccCCccc--cccccchhhhhccc---
Confidence 1111222111110000011 12344 499999999999999999999999987754322 67899999999863
Q ss_pred cCCCCeeEEEEEeCHHHHHHHHhhhhcc-----CCCCCCeeeCCcCcccCCCccccccCcceeecCChhhhHHH-HhcCC
Q 036741 427 TKGGSKKYGVIECNPLVLKGLERTARHM-----VIPYMPMLVPPVKWTGYDKGAHFFLPSYVMRTHGAKQQRDT-VKRTP 500 (1030)
Q Consensus 427 ~~~~~k~~gvi~~~~~~~~~l~~~~~~~-----~~~~lPMlvpP~pW~~~~~GGYL~~~s~l~R~~~~~~q~~~-l~~~~ 500 (1030)
+++++|+|++||.+.+.+....... .+.+|||||||+||+++++||||..++.+||+++. .|..+ .++..
T Consensus 227 ---~~~~~g~i~~~~~~~~~l~~~~~~~~~~~~~~~~lPMlvpP~PW~~~~~GGYl~~~~~l~R~~~~-~~~~~~~~~~~ 302 (318)
T PF14700_consen 227 ---KGKKVGVIKPHPELVKLLSDEPEKSLLQATFPRYLPMLVPPKPWTSPNDGGYLLSPTPLMRTKDS-EQQQYLKKALR 302 (318)
T ss_dssp ---TTT-EEEEEE-HHHHHHHHHHCH---CCCCCCCCS-BSS--EEECCTCCEESSSSSEBSEE-STT-HHCHHHHHTTT
T ss_pred ---cCceEEEEeeCHHHHHHHHhhhhhhhhhhcccccCcCCCCCCCCcCCCcceeeeeCchhhcccch-hhHHHHHHHcc
Confidence 4788899999999999998875421 24599999999999999999999999999999887 44444 44557
Q ss_pred CCChhHHHHHHHhhcC
Q 036741 501 KKQLEPVFEALDTLGN 516 (1030)
Q Consensus 501 ~~~l~~v~~aLN~Lqs 516 (1030)
.++|+.||+|||+||+
T Consensus 303 ~~~l~~v~~~Ln~Lg~ 318 (318)
T PF14700_consen 303 RGDLDPVFDALNALGS 318 (318)
T ss_dssp CCGGHHHHHHHHHHHT
T ss_pred ccchHHHHHHHHHhcC
Confidence 8899999999999996
No 6
>smart00482 POLAc DNA polymerase A domain.
Probab=91.97 E-value=0.28 Score=52.62 Aligned_cols=180 Identities=21% Similarity=0.205 Sum_probs=110.5
Q ss_pred ccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccc
Q 036741 726 IPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLV 805 (1030)
Q Consensus 726 lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvV 805 (1030)
+-|..|-|.==|=.+|.|.+|......-| ...|+|+.+|..+...-.++ .....|+..
T Consensus 15 ~lv~~DysqiElRilA~ls~D~~l~~~~~-----~g~D~h~~~A~~~~g~~~~~-----------------v~~~~R~~a 72 (206)
T smart00482 15 VLVSADYSQIELRILAHLSGDENLLEAFN-----NGGDIHSKTAAQVFGVPEEE-----------------VTKELRRAA 72 (206)
T ss_pred EEEEeeHHHHHHHHHHHHcCCHHHHHHHh-----cCCCHHHHHHHHHhCCChhh-----------------CCHHHHHHH
Confidence 57889999988999999999987766665 35699999887653221100 012469999
Q ss_pred cccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcEE
Q 036741 806 KQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIASENQPVR 885 (1030)
Q Consensus 806 KqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~~~~pV~ 885 (1030)
|+.+--..||.+..|..+++ |+ +.+ -|+.+.++..+.||+ +.+|.+++.....+.+.
T Consensus 73 K~~~~g~~YG~g~~~la~~l-------g~-s~~---------ea~~~~~~f~~~~p~---v~~~~~~~~~~a~~~g~--- 129 (206)
T smart00482 73 KAINFGIIYGMGAKGLAEQL-------GI-SEA---------EAKELIKAYFARFPG---VKRYIKRTLEEARRKGY--- 129 (206)
T ss_pred hHHHHHhhhccchhHHHHHc-------CC-CHH---------HHHHHHHHHHHHCcc---HHHHHHHHHHHHHhCCE---
Confidence 99999999999977766553 32 211 245666777777777 66788777666555542
Q ss_pred EEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHH-HH----HHcCC--c-
Q 036741 886 WTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAV-AC----RKAGL--T- 957 (1030)
Q Consensus 886 WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~-~~----~~~gi--~- 957 (1030)
.+|+.|-...-|-.. +.....+.+..-.+.|++=+=-|+=++..|. .+ .+.|+ .
T Consensus 130 v~t~~Gr~r~~~~~~------------------~~~~~~~~~~~r~a~N~~iQgsaAdi~k~am~~~~~~~~~~~~~~~~ 191 (206)
T smart00482 130 VTTLFGRRRYIPDID------------------SRNPVLRAAAERAAVNAPIQGSAADILKLAMIKMDEALKEKGLRARL 191 (206)
T ss_pred EEecCCCeeeCCCCC------------------CCCHHHHhHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHHhcCCCceE
Confidence 356666533222110 1112222222333678776666665544432 22 33343 3
Q ss_pred EEEeeccccCC
Q 036741 958 FAGVHDSYWTH 968 (1030)
Q Consensus 958 fa~VHDSFwTh 968 (1030)
.+.|||+....
T Consensus 192 vl~vHDElv~e 202 (206)
T smart00482 192 LLQVHDELVFE 202 (206)
T ss_pred EEeeceeEEee
Confidence 56699998654
No 7
>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]
Probab=88.16 E-value=0.28 Score=59.77 Aligned_cols=75 Identities=25% Similarity=0.414 Sum_probs=58.9
Q ss_pred hccCccccccccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 036741 797 LSQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAK 875 (1030)
Q Consensus 797 ~~~i~RKvVKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~ 875 (1030)
.-+++|++.|| ||.+||...+-..+.- ++|- +.+++-..++|.+|.++...+|++.+++...+..-|+|++..++
T Consensus 860 yvGat~qitk~--l~~i~g~~k~~~~d~~-kylt-k~vF~a~r~lF~~Ah~iqdwl~~c~~~i~~s~~~d~d~~~~k~g 934 (1117)
T COG5108 860 YVGATRQITKR--LTLIYGASKFDTVDPW-KYLT-KEVFPAERTLFAAAHFIQDWLWDCVGEIVVSAAGDMDWLQKKAG 934 (1117)
T ss_pred EeehHHHHHHh--cccccCchhccccCHH-HHHH-HhHhHHHHHHHHHHHHHHHHHHHHHhHHHHhcccchhHHHHHhc
Confidence 45899999999 9999998765333322 2221 12455556889999999999999999999999999999998775
No 8
>cd08637 DNA_pol_A_pol_I_C Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I (pol I) ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuc
Probab=85.15 E-value=3.6 Score=48.23 Aligned_cols=209 Identities=18% Similarity=0.233 Sum_probs=122.6
Q ss_pred HHHHHHhcCCCCcccccccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCc
Q 036741 709 NLTEALRSSSPETFISHIPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFP 788 (1030)
Q Consensus 709 El~~a~~~~~P~~y~S~lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~ 788 (1030)
+++.+...+ ++| .-|..|-|-==|=.+|.|.+|.....+.| ...|+|+.+|..+... +.+
T Consensus 140 ~~R~~f~~~--~G~---~lv~aDysqiElRilA~ls~D~~l~~~~~-----~g~Dih~~~A~~~~g~-------~~~--- 199 (377)
T cd08637 140 EIRKAFVAE--EGW---VLLSADYSQIELRILAHLSGDEALIEAFK-----NGEDIHTRTAAEVFGV-------PPE--- 199 (377)
T ss_pred hHHHheeCC--CCC---EEEEechhHhHHHHHHHHhCCHHHHHHHh-----cCCCHHHHHHHHHhCC-------Chh---
Confidence 456665532 343 68889998888889999999998877766 3579999988766321 000
Q ss_pred hHHHHHHhhccCccccccccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHH
Q 036741 789 DALRAKLLLSQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMS 868 (1030)
Q Consensus 789 ~~~~Ak~l~~~i~RKvVKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~ 868 (1030)
.. ..-.|+..|..+--..||.+..|...++ |+ +.+ -|+.+.+...+.||+ +..
T Consensus 200 --~v-----~~~~R~~aK~~~~g~~YG~g~~~la~~l-------g~-s~~---------eA~~~~~~f~~~~p~---v~~ 252 (377)
T cd08637 200 --EV-----TPEMRRIAKAVNFGIIYGISAFGLSQQL-------GI-SRK---------EAKEYIDRYFARYPG---VKE 252 (377)
T ss_pred --hC-----CHHHHhhhhHhhcchhcCcchhHHHHHc-------CC-CHH---------HHHHHHHHHHHHCcc---HHH
Confidence 00 0124999999999999999887766543 32 221 245566666777887 555
Q ss_pred HHHHHHHHHHcCCCcEEEEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHH
Q 036741 869 WLGECAKIIASENQPVRWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTA 948 (1030)
Q Consensus 869 WL~~~A~~i~~~~~pV~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta 948 (1030)
|...+...+...+- .+|+.|-...-|--. +.....+-+.--.+.|++=+=-|+=+|..+
T Consensus 253 ~~~~~~~~a~~~g~---v~t~~GRrr~~~~~~------------------~~~~~~r~~~~r~a~N~~iQGsaAdi~k~a 311 (377)
T cd08637 253 YMEETVEEAREKGY---VETLFGRRRYIPEIN------------------SKNRNVRAFAERIAINTPIQGTAADIIKLA 311 (377)
T ss_pred HHHHHHHHHHHcCc---EEccCCCEEeCCccc------------------CCcHHHhhHHHHhHhcccchhHHHHHHHHH
Confidence 66666655544431 245555422211100 001111111112367877666666554443
Q ss_pred H-----HHHHcCC--c-EEEeeccccCC--CCChhHHHHHHHHHHHH
Q 036741 949 V-----ACRKAGL--T-FAGVHDSYWTH--ACDVDEMNRILREKFVE 985 (1030)
Q Consensus 949 ~-----~~~~~gi--~-fa~VHDSFwTh--a~dvd~m~~ilRe~FV~ 985 (1030)
. .+...|+ . +..|||+.... ..+++...+++++.+-+
T Consensus 312 m~~~~~~l~~~~~~~~lvl~vHDEl~~ev~~~~~~~~~~~l~~~M~~ 358 (377)
T cd08637 312 MIRVHKALKEEGLKARMLLQVHDELVFEVPEEELEEVAALVKEEMEN 358 (377)
T ss_pred HHHHHHHHHhcCCCeEEEeeEeeeeeEecCHHHHHHHHHHHHHHHhh
Confidence 2 2333443 3 55699998755 35566667777776533
No 9
>cd08638 DNA_pol_A_theta DNA polymerase theta is a low-fidelity family A enzyme implicated in translesion synthesis and in somatic hypermutation. DNA polymerase theta is a low-fidelity family A enzyme implicated in translesion synthesis (TLS) and in somatic hypermutation (SHM). DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Pol theta is an exception among family A polymerases and generates processive single base substitutions. Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I (pol I) ,mitochondri
Probab=84.04 E-value=3.3 Score=48.44 Aligned_cols=200 Identities=22% Similarity=0.214 Sum_probs=122.0
Q ss_pred cccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCcccc
Q 036741 725 HIPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKL 804 (1030)
Q Consensus 725 ~lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKv 804 (1030)
++-|..|-|-==|=.+|.|.+|+....+.| .-.|||+.+|..+...- . .. ...-.|+.
T Consensus 140 ~~lv~~DysqiElRvlA~ls~D~~l~~~~~-----~g~Dih~~~A~~~~g~~-------~-----~~-----v~~~~R~~ 197 (373)
T cd08638 140 RVLLSADYSQLELRILAHLSGDPALIELLN-----SGGDVFKMIAAQWLGKP-------V-----EE-----VTDEERQQ 197 (373)
T ss_pred CEEEEechhhhHHHHHHHHhCCHHHHHHHh-----cCCCHHHHHHHHHhCCC-------h-----hh-----CCHHHHHH
Confidence 368899999999999999999998777765 25799999887663210 0 00 01236999
Q ss_pred ccccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcE
Q 036741 805 VKQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIASENQPV 884 (1030)
Q Consensus 805 VKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~~~~pV 884 (1030)
.|..+--..||.+..|...++ |+ +.+ -|+.+.+...+.||+. ..|.+.+.....+.| .|
T Consensus 198 aK~~~fg~~YG~g~~~La~~l-------~~-s~~---------eA~~~i~~f~~~~p~v---~~~~~~~~~~a~~~g-~v 256 (373)
T cd08638 198 AKQLVYGILYGMGAKSLAEQL-------GV-SEE---------EAKQFIESFKNAYPGV---RRFIRETIERARRNG-FV 256 (373)
T ss_pred HhHHHHhhHhCCcHHHHHHHh-------CC-CHH---------HHHHHHHHHHHHCccH---HHHHHHHHHHHHHcC-cE
Confidence 999999999999999887654 32 211 2456667777788874 566665555444332 22
Q ss_pred EEEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHH-HHH----H------
Q 036741 885 RWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAV-ACR----K------ 953 (1030)
Q Consensus 885 ~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~-~~~----~------ 953 (1030)
+|+.|-...-|--... ....+-+.--.+.|++=+==|+=+|..|. .+. .
T Consensus 257 --~T~~GRrr~~p~~~~~------------------~~~~~~~~~r~a~N~~iQGsaAdi~K~ami~i~~~l~~~~~~~~ 316 (373)
T cd08638 257 --ETLTGRRRYLPEINSG------------------NSSERAQAERQAVNTVIQGSAADIMKIAMINIHEKLHSLLPNLP 316 (373)
T ss_pred --EccCCCEEeCCCCCCC------------------CHHHHHHHHHHHhchhhhhHHHHHHHHHHHHHHHHHHhhccccc
Confidence 3555544322211110 11112222335668777666665554432 222 2
Q ss_pred -cCCc-EEEeeccccC--CCCChhHHHHHHHHHHHHhc
Q 036741 954 -AGLT-FAGVHDSYWT--HACDVDEMNRILREKFVELY 987 (1030)
Q Consensus 954 -~gi~-fa~VHDSFwT--ha~dvd~m~~ilRe~FV~Ly 987 (1030)
.+.. ...|||+... +..+++.+.++|++.+-.-.
T Consensus 317 ~~~~~lvl~VHDEl~~ev~~~~~~~~~~~i~~~Me~~~ 354 (373)
T cd08638 317 AGRARLVLQIHDELLFEVPESDVDEVARIIKRSMENAA 354 (373)
T ss_pred CCCeEEEEEEccEEEEEeCHHHHHHHHHHHHHHHhCcc
Confidence 1222 5569999764 55667777788888774443
No 10
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional
Probab=82.34 E-value=2.6 Score=51.76 Aligned_cols=193 Identities=21% Similarity=0.164 Sum_probs=120.2
Q ss_pred ccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccc
Q 036741 726 IPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLV 805 (1030)
Q Consensus 726 lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvV 805 (1030)
.-|..|-|.==+=.+|.|.+|....++.| .-.|+|+.+|..+-.. +.+ . .-.|+..
T Consensus 326 ~lv~aDysqiElRvlA~ls~D~~l~~~~~-----~g~Dih~~~A~~~~~~-------~~~-----~-------~~~R~~a 381 (553)
T PRK14975 326 KLVVADASQIELRVLAAYSGDERMIEAFR-----TGGDLHRLTASVGFGK-------PEE-----E-------KEERALA 381 (553)
T ss_pred EEEEechhhhHHHHHHHHcCCHHHHHHHh-----cCCCHHHHHHHHHhCC-------Ccc-----c-------hhHHHHH
Confidence 67899999999999999999999887776 3679999998877211 110 0 3459999
Q ss_pred cccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcEE
Q 036741 806 KQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIASENQPVR 885 (1030)
Q Consensus 806 KqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~~~~pV~ 885 (1030)
|..+--.+||.+..|..+++. .. + -|+.+.+...+.||+ +..|++.+.+...+.| .|
T Consensus 382 K~~~~g~~YG~g~~~l~~~~~-~~--------~---------ea~~~~~~~~~~~p~---v~~~~~~~~~~a~~~g-~v- 438 (553)
T PRK14975 382 KAANFGAIYGATSKGLQEYAK-NY--------G---------EAARLLERLRRAYPR---AVGWVERAAREGERGG-VV- 438 (553)
T ss_pred HHHHHHhhhCCcHHHHHHHcC-CH--------H---------HHHHHHHHHHHHCcc---HHHHHHHHHHHHHHCC-eE-
Confidence 999999999999998887753 11 1 234566666677776 6677777776655442 22
Q ss_pred EEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHH-HHHH-----cCCc-E
Q 036741 886 WTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAV-ACRK-----AGLT-F 958 (1030)
Q Consensus 886 WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~-~~~~-----~gi~-f 958 (1030)
+|.+|=...=|- ........+.+..-++.|++=+==|+=++..|. .+.+ .+.. +
T Consensus 439 -~T~~GR~~~~~~------------------~~~~~~~~~~~~~r~a~N~~iQGsaAdi~k~am~~~~~~l~~~~~~~lv 499 (553)
T PRK14975 439 -RTLLGRTSPPPG------------------FAWRARRRARSRGRFTRNFPVQGTAADWAKLALALLRRRLAEGLDAELV 499 (553)
T ss_pred -ECCCCCeecCCC------------------ccccChhHHhHhhhhhcCccchhHHHHHHHHHHHHHHHHHhhcCCcEEE
Confidence 355543221100 000111222223334679966655555554433 2222 2333 5
Q ss_pred EEeeccccCCC--CChhHHHHHHHHHHH
Q 036741 959 AGVHDSYWTHA--CDVDEMNRILREKFV 984 (1030)
Q Consensus 959 a~VHDSFwTha--~dvd~m~~ilRe~FV 984 (1030)
..|||....+. .+++.+.++|++.+-
T Consensus 500 l~vHDEl~~e~~~~~~~~~~~~i~~~M~ 527 (553)
T PRK14975 500 FFVHDEVVVECPEEEAEEVAAAIEEAME 527 (553)
T ss_pred EEecceeEEEecHHHHHHHHHHHHHHHH
Confidence 56999988764 445566667766653
No 11
>PF00476 DNA_pol_A: DNA polymerase family A; InterPro: IPR001098 Synonym(s): DNA nucleotidyltransferase (DNA-directed) DNA-directed DNA polymerases(2.7.7.7 from EC) are the key enzymes catalysing the accurate replication of DNA. They require either a small RNA molecule or a protein as a primer for the de novo synthesis of a DNA chain. A number of polymerases belong to this family [, , ].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A ....
Probab=77.29 E-value=1.5 Score=51.37 Aligned_cols=196 Identities=22% Similarity=0.215 Sum_probs=117.3
Q ss_pred cccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCcccc
Q 036741 725 HIPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKL 804 (1030)
Q Consensus 725 ~lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKv 804 (1030)
++-|..|.|-==|=.+|.|.+|.....+.+ ...|+|..+|..+...-.. . .....|+.
T Consensus 155 ~~lv~aD~sqiElRvlA~ls~D~~l~~~~~-----~g~D~h~~~a~~~~~~~~~---~--------------v~~~~R~~ 212 (383)
T PF00476_consen 155 YVLVSADYSQIELRVLAHLSGDENLIEAFR-----NGEDIHTETASDIFGKPYE---E--------------VTKEERQK 212 (383)
T ss_dssp EEEEEEEESSHHHHHHHHHHTHHHHHHHHH-----TTCCHHHHHHHHHTTCHGG---G--------------TTHHHHHH
T ss_pred ceeeeeehhhhhHHHHHHhcccHHHHHhhc-----ccccHHHHHHHHhcCCCcc---c--------------cchhhHHH
Confidence 467888998888889999999997655554 4579999887765322110 0 13457999
Q ss_pred ccccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcE
Q 036741 805 VKQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIASENQPV 884 (1030)
Q Consensus 805 VKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~~~~pV 884 (1030)
.|..+--..||.+..|..+++. ++.+ -|+.+.++..+.||+ +..|..++.......+ .|
T Consensus 213 aK~~~~g~~YG~g~~~la~~l~--------~s~~---------eA~~~~~~f~~~~p~---v~~~~~~~~~~a~~~g-~v 271 (383)
T PF00476_consen 213 AKTVNFGLIYGMGAKGLAEQLG--------ISEE---------EAKELIDAFFEAFPG---VKKWMERVKKRARENG-YV 271 (383)
T ss_dssp HHHHHHHHHTT-THHHHHHHHT--------SCHH---------HHHHHHHHHHHHSHH---HHHHHHHHHHHHHHHS-EE
T ss_pred HhHHHHhhhhccCHHHHHHHcc--------CCHH---------HHHHHHHHHHHhCch---HHHHHHHHHHHHhcCC-eE
Confidence 9999999999999888877664 2222 345677777778887 4555555544333221 12
Q ss_pred EEEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhh--hccCCCcchhhhhhHHHHHHHH-----HHHHcCC-
Q 036741 885 RWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQ--RTAFPPNFVHSLDGSHMMMTAV-----ACRKAGL- 956 (1030)
Q Consensus 885 ~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq--~~af~PNFIHSLDAsHmmlta~-----~~~~~gi- 956 (1030)
+|..|-.- .+.. .+..+.... .--.+.|++=+-=|+=++..+. .+.+.|+
T Consensus 272 --~t~~gr~r-------------------~~p~-~~~~~~~~~~~~~r~a~N~~iQgsaAdi~k~am~~i~~~l~~~~~~ 329 (383)
T PF00476_consen 272 --ETLFGRRR-------------------YLPN-IDSRNKSLRASAERQAVNTPIQGSAADIMKLAMIRIHEALREKGLG 329 (383)
T ss_dssp --ECTTSSEE-------------------ECGG-GGSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S
T ss_pred --EEeccccc-------------------cCCc-hhcccchhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCcC
Confidence 34544322 1111 011122111 1112667766655554443322 2344544
Q ss_pred --cEEEeeccccC--CCCChhHHHHHHHHHHHH
Q 036741 957 --TFAGVHDSYWT--HACDVDEMNRILREKFVE 985 (1030)
Q Consensus 957 --~fa~VHDSFwT--ha~dvd~m~~ilRe~FV~ 985 (1030)
-+..|||++.. +...++....+|++.+..
T Consensus 330 ~~l~l~VHDEli~ev~~~~~~~v~~~l~~~M~~ 362 (383)
T PF00476_consen 330 ARLVLQVHDELIFEVPEDEAEEVAEILKEIMEN 362 (383)
T ss_dssp EEEEEEESSEEEEEEEGGGHHHHHHHHHHHHHT
T ss_pred ceeEEEEcCeeheeecHhHHHHHHHHHHHHHHh
Confidence 36679999875 456678888888877654
No 12
>PRK05755 DNA polymerase I; Provisional
Probab=76.98 E-value=7.8 Score=50.33 Aligned_cols=209 Identities=18% Similarity=0.222 Sum_probs=123.4
Q ss_pred HHHHHHhcCCCCcccccccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCc
Q 036741 709 NLTEALRSSSPETFISHIPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFP 788 (1030)
Q Consensus 709 El~~a~~~~~P~~y~S~lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~ 788 (1030)
+++++... |++| .-|..|-|+==|-.+|.|.+|.....+.| .-.|+|+.+|..+...-.++.
T Consensus 640 ~iR~~f~~--~~G~---~lv~~DysqiElRilA~ls~D~~l~~~~~-----~g~Dih~~~A~~~~~~~~~~v-------- 701 (880)
T PRK05755 640 RIRKAFVA--PEGY---KLLSADYSQIELRILAHLSGDEGLIEAFA-----EGEDIHTATASEVFGVPLEEV-------- 701 (880)
T ss_pred hhhheEec--CCCC---EEEEechhhhHHHHHHHHcCCHHHHHHHh-----cCCCHHHHHHHHHhCCChhhC--------
Confidence 35555543 3454 67889999999999999999998777665 346999988876533210000
Q ss_pred hHHHHHHhhccCccccccccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHH
Q 036741 789 DALRAKLLLSQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMS 868 (1030)
Q Consensus 789 ~~~~Ak~l~~~i~RKvVKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~ 868 (1030)
..-.|+..|..+--..||.+..|...++ |+ +.+ -|+.+.+...+.||+ +.+
T Consensus 702 ---------~~~~R~~aK~~~fg~~YG~g~~~la~~l-------~i-s~~---------eA~~~~~~~~~~~p~---v~~ 752 (880)
T PRK05755 702 ---------TSEQRRRAKAINFGIIYGMSAFGLAQQL-------GI-SRK---------EAKEYIDRYFERYPG---VKE 752 (880)
T ss_pred ---------CHHHHHHHHHHhcchhhCCChHHHHHHc-------CC-CHH---------HHHHHHHHHHHHCcc---HHH
Confidence 0124999999999999999988776543 32 211 245566666777777 566
Q ss_pred HHHHHHHHHHcCCCcEEEEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHH
Q 036741 869 WLGECAKIIASENQPVRWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTA 948 (1030)
Q Consensus 869 WL~~~A~~i~~~~~pV~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta 948 (1030)
|+..+.......| .| .|..|-.+.=|- + . +.....+.+.--.+.|++=+==|+=++..|
T Consensus 753 ~~~~~~~~a~~~g-~v--~t~~GR~r~~p~--------------~--~--~~~~~~~~~~~r~a~N~~iQgsaAdi~k~a 811 (880)
T PRK05755 753 YMERTVEQAREKG-YV--ETLFGRRRYLPD--------------I--N--SRNGNRRAFAERAAINAPIQGSAADIIKLA 811 (880)
T ss_pred HHHHHHHHHHHcC-CE--ECCCCCeEeCCc--------------c--c--CCCHHHHHHHHHHHhhhhhhhHHHHHHHHH
Confidence 7777766655443 22 355554221110 0 0 001111111122356777555455444332
Q ss_pred H-----HHHHcCC---cEEEeeccccC--CCCChhHHHHHHHHHHHH
Q 036741 949 V-----ACRKAGL---TFAGVHDSYWT--HACDVDEMNRILREKFVE 985 (1030)
Q Consensus 949 ~-----~~~~~gi---~fa~VHDSFwT--ha~dvd~m~~ilRe~FV~ 985 (1030)
. +..+.|+ -...|||+..- +...++.+..++++.+-.
T Consensus 812 m~~~~~~l~~~~~~~~l~l~vHDel~~ev~~~~~~~~~~~~~~~me~ 858 (880)
T PRK05755 812 MIRVDKALKEEGLKSRMLLQVHDELVFEVPEDELEEVKKLVKEVMEN 858 (880)
T ss_pred HHHHHHHHHhcCCCceEEEEEcceeEEEeCHHHHHHHHHHHHHHHhC
Confidence 2 2334464 36679999875 445567777777776543
No 13
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=76.64 E-value=10 Score=49.33 Aligned_cols=196 Identities=17% Similarity=0.201 Sum_probs=119.6
Q ss_pred ccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccc
Q 036741 726 IPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLV 805 (1030)
Q Consensus 726 lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvV 805 (1030)
.-|..|-|-==|-.+|.|.+|....++.| .-.|||+..|..+-..-.++ . ..-.|...
T Consensus 659 ~lv~aDySQIELRilAhls~D~~Li~af~-----~g~DiH~~tA~~~fg~~~e~------------v-----t~~~R~~A 716 (887)
T TIGR00593 659 LLISADYSQIELRVLAHLSQDENLIEAFQ-----NGEDIHTETASRLFGVEIED------------V-----TPNMRRIA 716 (887)
T ss_pred eEEEechhHhHHHHHHHHcCCHHHHHHHh-----cCCChHHHHHHHHhCCChhh------------C-----CHHHHhhh
Confidence 46777878777888899999998766654 34699998887764321000 0 11249999
Q ss_pred cccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcEE
Q 036741 806 KQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIASENQPVR 885 (1030)
Q Consensus 806 KqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~~~~pV~ 885 (1030)
|...--.+||.+.+|.+.++ |+ +.+ -|+.+.+..-+.||+ +.+|+.++.....+.|- |
T Consensus 717 K~infGiiYG~g~~~La~~l-------~i-s~~---------eA~~~i~~yf~~yp~---v~~~~~~~~~~a~~~Gy-v- 774 (887)
T TIGR00593 717 KTINFGVVYGMSAFGLAQEL-------GI-SRK---------EAKEFIERYFARYPG---VKDYIENTVEEARKKGY-V- 774 (887)
T ss_pred hHhhcCcccccchhHHHHHc-------CC-CHH---------HHHHHHHHHHHHCcc---HHHHHHHHHHHHHHcCc-E-
Confidence 99999999999999887654 32 211 244555566667776 67788777776655541 2
Q ss_pred EEcCCCCeEEEeeccCcceEEEeeeEEEEEecC-CCcCCHHhhhccCCCcchhhhhhHHHHHHHH-----HHHHcCC--c
Q 036741 886 WTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRE-TEKVMVKRQRTAFPPNFVHSLDGSHMMMTAV-----ACRKAGL--T 957 (1030)
Q Consensus 886 WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~-~d~vd~rKq~~af~PNFIHSLDAsHmmlta~-----~~~~~gi--~ 957 (1030)
+|..|-.- .+..- +.....|.+.--.+.|.+=+==|+=+|..|. ++.+.|+ .
T Consensus 775 -~Tl~GRrr-------------------~lp~i~s~n~~~r~~aeR~A~N~~iQGsAADi~K~Ami~v~~~l~~~~~~~~ 834 (887)
T TIGR00593 775 -ETLFGRRR-------------------YIPDINSRNRNVREAAERMAINAPIQGSAADIMKIAMIKLDKRLKERKLKAR 834 (887)
T ss_pred -EecCCCEe-------------------eCCCccccchhhHhHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHhcCCCeE
Confidence 45555211 01100 0111122222335678877766665554432 3455674 3
Q ss_pred -EEEeeccccC--CCCChhHHHHHHHHHHHH
Q 036741 958 -FAGVHDSYWT--HACDVDEMNRILREKFVE 985 (1030)
Q Consensus 958 -fa~VHDSFwT--ha~dvd~m~~ilRe~FV~ 985 (1030)
+..|||.... +...++.+..++++.+-.
T Consensus 835 lvlqVHDElv~Evp~~~~~~v~~~l~~~Me~ 865 (887)
T TIGR00593 835 LLLQVHDELIFEAPEEEAEEVAALVKEVMEH 865 (887)
T ss_pred EEeeEceEeeeecCHHHHHHHHHHHHHHHHh
Confidence 4569999765 446677788888887754
No 14
>cd08640 DNA_pol_A_plastid_like DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication. DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including
Probab=73.66 E-value=11 Score=44.42 Aligned_cols=212 Identities=17% Similarity=0.104 Sum_probs=121.1
Q ss_pred ccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhc--------CCCCCchHHHHHHhh
Q 036741 726 IPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQR--------DPAVFPDALRAKLLL 797 (1030)
Q Consensus 726 lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~--------d~~~~~~~~~Ak~l~ 797 (1030)
.-|..|-|-==|-.+|.|.+|+....+.| .-.|||+..|..+-.....+..+ +....+....+. .
T Consensus 120 ~lv~aDySQiElRvlA~lS~D~~Li~af~-----~g~DiH~~tA~~if~~~~e~v~~~~~~~~~~~~~~~~~~~~~~--~ 192 (371)
T cd08640 120 TLIVADYSQLELRLLAHMTRCKSMIEAFN-----AGGDFHSRTASGMYPHVAEAVANGEVLLEWKSEGKPPAPLLKD--K 192 (371)
T ss_pred EEEEechhhhhHHHHHHHcCCHHHHHHHH-----cCCCHHHHHHHHHhCCCHHHhcccccccccccccccccccccc--c
Confidence 46889999999999999999998877765 34699999887664332221110 000000000000 0
Q ss_pred ccCccccccccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 036741 798 SQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKII 877 (1030)
Q Consensus 798 ~~i~RKvVKqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i 877 (1030)
..-.|+..|...--.+||.+..|...++ |+ +.+ -|+.+.+...+.||+ +..|.+++....
T Consensus 193 ~~~~R~~AK~infGi~YG~g~~~La~~l-------gi-s~~---------eA~~~i~~f~~~fP~---v~~~~~~~~~~a 252 (371)
T cd08640 193 FKSERRKAKVLNFSIAYGKTAHGLAKDW-------KV-KLK---------EAERTVDAWYSDRPE---VEQWQKKTKKEA 252 (371)
T ss_pred cHHHHHHHHHHHHHHHhccchhHHHHHc-------CC-CHH---------HHHHHHHHHHHHCcc---HHHHHHHHHHHH
Confidence 1345999999999999999998887643 33 211 245566677777887 567777776655
Q ss_pred HcCCCcEEEEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHH-HHH----
Q 036741 878 ASENQPVRWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAV-ACR---- 952 (1030)
Q Consensus 878 ~~~~~pV~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~-~~~---- 952 (1030)
.+.| .| +|++|-...=|--.+. + ...+.+.--.+-|++=+==|+=++..|. .+.
T Consensus 253 ~~~G-yv--~T~~GRrr~lp~i~s~-----------------~-~~~~~~~eR~avN~~IQGsAADI~K~Ami~i~~~l~ 311 (371)
T cd08640 253 RERG-YT--RTLLGRYRYLPDIKSR-----------------N-RKKRGHAERAAINTPIQGSAADIAMKAMLRIYRNLR 311 (371)
T ss_pred HHcC-cE--EccCCCEEECCCcccc-----------------c-HhhhhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHh
Confidence 4443 22 3566553221110000 0 0001111112557776666666655443 222
Q ss_pred --HcCCc-EEEeeccccCC--CCChhHHHHHHHHHHHH
Q 036741 953 --KAGLT-FAGVHDSYWTH--ACDVDEMNRILREKFVE 985 (1030)
Q Consensus 953 --~~gi~-fa~VHDSFwTh--a~dvd~m~~ilRe~FV~ 985 (1030)
..|.. +..|||+.+.. ...++....+|++.+.+
T Consensus 312 ~~~~~~~lvlqVHDElv~evp~~~~~~~~~~v~~~Me~ 349 (371)
T cd08640 312 LKRLGWKLLLQIHDEVILEGPEEKADEALKIVKDCMEN 349 (371)
T ss_pred hccCCceEEEEEcceeEEEcCHHHHHHHHHHHHHHHHh
Confidence 23444 46699998864 44555666777776644
No 15
>cd08642 DNA_pol_A_pol_I_A Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuclease. P
Probab=71.39 E-value=19 Score=42.48 Aligned_cols=173 Identities=14% Similarity=0.037 Sum_probs=103.8
Q ss_pred ccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccc
Q 036741 726 IPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLV 805 (1030)
Q Consensus 726 lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvV 805 (1030)
.-|..|-|.==|-.+|.|.+|+..-++-| ...|||...|..+-..=.++. -...--|...
T Consensus 171 ~lvsaDySQIElRVLAhlS~D~~li~af~-----~g~Dih~~tAs~if~vp~e~~---------------~v~~~~R~~A 230 (378)
T cd08642 171 RFIVSDFSAIEARVIAWLAGEQWRLDVFA-----THGKIYEASASQMFGVPVEKI---------------GKNSHLRQKG 230 (378)
T ss_pred EEEEecHHHHHHHHHHHHhCCHHHHHHHh-----cCCChHHHHHHHHhCCChhhc---------------ccCHHHHHHh
Confidence 45899999999999999999998766665 578999999888743210000 0112358899
Q ss_pred cccceeeecccchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcEE
Q 036741 806 KQTVMTSVYGVTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIASENQPVR 885 (1030)
Q Consensus 806 KqtVMT~vYGvT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~~~~pV~ 885 (1030)
|...--++||.+.+|.+..-.. +.|+..++ |+.+.++..+.||+.+..|.=.++.++...+.+. |.
T Consensus 231 K~vnfGiiYG~g~~~L~~~aa~---~lgis~~E----------A~~~i~~yf~~yP~v~~~~~~~~~~~~~a~~~g~-v~ 296 (378)
T cd08642 231 KVAELALGYGGSVGALKAMGAL---EMGLTEDE----------LPGIVDAWRNANPNIVKLWWDVDKAAKKAVKERK-TV 296 (378)
T ss_pred hhhhccceeccchHHHHHhhhh---hcCCCHHH----------HHHHHHHHHHHCccHHHHHHHHHHHHHHHHHcCc-eE
Confidence 9999999999999886321111 22432221 2445555667777754433333333544434432 22
Q ss_pred EEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHHHHHHcCCc-EEEeecc
Q 036741 886 WTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAVACRKAGLT-FAGVHDS 964 (1030)
Q Consensus 886 WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~~~~~~gi~-fa~VHDS 964 (1030)
.. -+|. .=|-|..-=|-.|-+.-+.+.+.|.. +..|||.
T Consensus 297 t~------------------------------------g~r~----~~n~IQGtAADi~k~Ami~l~~~g~~ivLqVHDE 336 (378)
T cd08642 297 KL------------------------------------GGKL----VENIVQAIARDCLAEAMLRLEKAGYDIVMHVHDE 336 (378)
T ss_pred ee------------------------------------hHhh----hhcccchhHHHHHHHHHHHHHhcCCeEEEEECce
Confidence 11 0111 11445544344444444456667775 4569999
Q ss_pred ccCCCCCh
Q 036741 965 YWTHACDV 972 (1030)
Q Consensus 965 FwTha~dv 972 (1030)
...+..+.
T Consensus 337 lv~Evp~~ 344 (378)
T cd08642 337 VVIEVPEG 344 (378)
T ss_pred eEEeeccc
Confidence 99998874
No 16
>cd08643 DNA_pol_A_pol_I_B Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuclease. Pol I uses its 5
Probab=71.32 E-value=16 Score=43.90 Aligned_cols=198 Identities=16% Similarity=0.022 Sum_probs=116.7
Q ss_pred ccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccc
Q 036741 726 IPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLV 805 (1030)
Q Consensus 726 lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvV 805 (1030)
+-|..|.|.==|-.+|.|.+|..++..+.... -.|+++..|..+ +...|+..
T Consensus 188 ~lv~aDySQiELRiLAhls~d~~~~~l~~~~~---~~DiH~~ta~~~-------------------------g~~~R~~A 239 (429)
T cd08643 188 SLVGADASGLELRCLAHYLARYDGGAYTRKVL---GGDIHWANAQAM-------------------------GLLSRDGA 239 (429)
T ss_pred EEEEecHHHHHHHHHHHHhcccchHHHHhhhc---ccchhHHHHHHh-------------------------ChHHHhhh
Confidence 57888998888888999999876666555322 348877655431 11469999
Q ss_pred cccceeeecccchhhHHHHHHHHHhhcC-C---CC---chhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 036741 806 KQTVMTSVYGVTYIGARDQIKRRLKERG-A---PM---EEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIA 878 (1030)
Q Consensus 806 KqtVMT~vYGvT~~Gar~qI~~~L~~~g-~---~~---d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~ 878 (1030)
|...--.+||.+..|.+.++.-..++-. . ++ +......++..-++.+.+..-+.||+.. .|++++-....
T Consensus 240 K~i~fGiiYG~g~~~La~~lg~~~~eA~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~f~~~~P~v~---~~~~~~~~~a~ 316 (429)
T cd08643 240 KTFIYAFLYGAGDEKLGQIVGDDLRTAKNLNAEWPQTKKGTIKKIADKAKGRVVRANFLKGLPALG---KLIKKVKEAAK 316 (429)
T ss_pred HHHHHHHHHCCChhHHHHHhCCCHHHHHhhhhcccccccchhhhhhhhhhHHHHHHHHHHhCccHH---HHHHHHHHHHH
Confidence 9999999999999999888642222110 0 00 0000011223334555566666677644 45555544433
Q ss_pred cCCCcEEEEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHH-----HHHH
Q 036741 879 SENQPVRWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAV-----ACRK 953 (1030)
Q Consensus 879 ~~~~pV~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~-----~~~~ 953 (1030)
+.+ . .+|..|-... + . +.+ .+-|++=+==|+-+|..|. .+.+
T Consensus 317 ~~G-y--v~tl~GRrr~----------~---------~------~~r-----~A~Nt~iQGsAADi~K~Ami~i~~~l~~ 363 (429)
T cd08643 317 KRG-H--LVGLDGRRIR----------V---------R------SAH-----AALNTLLQSAGAILMKKWLVLLDDELTA 363 (429)
T ss_pred hCC-c--eeCCCCCccc----------C---------c------hHH-----HHhChhhhhHHHHHHHHHHHHHHHHHHh
Confidence 332 1 2455553211 0 0 011 1456666655665554442 2334
Q ss_pred cC----Cc---EEEeeccc--cCCCCChhHHHHHHHHHHHHhc
Q 036741 954 AG----LT---FAGVHDSY--WTHACDVDEMNRILREKFVELY 987 (1030)
Q Consensus 954 ~g----i~---fa~VHDSF--wTha~dvd~m~~ilRe~FV~Ly 987 (1030)
.| .. ++.|||.. =++..+++.+.+++++++..-.
T Consensus 364 ~g~~~~~~~~lvlqVHDElv~ev~~~~ae~v~~~v~~~Me~a~ 406 (429)
T cd08643 364 KGGVWGGDFEYCAWVHDEVQIECRKGIAEEVGKIAVEAAEKAG 406 (429)
T ss_pred cCCCcCCCeEEEEEEccceEEEeCHHHHHHHHHHHHHHHHHhh
Confidence 44 32 46699998 7788889999999999886653
No 17
>cd08639 DNA_pol_A_Aquificae_like Phylum Aquificae Pol A is different from Escherichia coli Pol A by three signature sequences. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuclease. Pol I uses its 5' nucleas
Probab=63.93 E-value=26 Score=40.47 Aligned_cols=188 Identities=19% Similarity=0.161 Sum_probs=110.0
Q ss_pred ccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccc
Q 036741 726 IPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLV 805 (1030)
Q Consensus 726 lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvV 805 (1030)
.-|..|-|.==+=.+|.|.+|.....+.| ...|+|+.+|..+...- .+ .. ..-.|+..
T Consensus 104 ~lv~aDysqiElRilA~ls~D~~l~~~~~-----~g~Dih~~~A~~~~g~~-------~~-----~v-----~~~~R~~a 161 (324)
T cd08639 104 KLIIADYSQIELRIAAEISGDERMISAYQ-----KGEDLHRLTASLITGKP-------IE-----EI-----TKEERQLA 161 (324)
T ss_pred EEEEechhhhHHHHHHHHhCCHHHHHHHh-----cCCCHhHHHHHHHhCCC-------hh-----hC-----CHHHHHHh
Confidence 68899999999999999999998877765 35699999887663210 00 00 11249999
Q ss_pred cccceeeecccchhhHHHHHHHHHhhcCC-CCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCCcE
Q 036741 806 KQTVMTSVYGVTYIGARDQIKRRLKERGA-PMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAKIIASENQPV 884 (1030)
Q Consensus 806 KqtVMT~vYGvT~~Gar~qI~~~L~~~g~-~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~~i~~~~~pV 884 (1030)
|..+--..||.+..|..+++.... |. ++.+ -|+.+.+...+.||+ +.+|..+.- +.. ..
T Consensus 162 K~~~fg~~YG~g~~~L~~~l~~~~---g~~~s~~---------eA~~~~~~f~~~~p~---v~~~~~~~~---a~~--~g 221 (324)
T cd08639 162 KAVNFGLIYGMSAKGLREYARTNY---GVEMSLE---------EAEKFRESFFFFYKG---ILRWHHRLK---AKG--PI 221 (324)
T ss_pred hhHHHHHHhCCchHHHHHHHhhhc---CcCCCHH---------HHHHHHHHHHHhChh---HHHHHHHHH---Hhh--cC
Confidence 999999999999999998875322 22 1211 133344444555655 456665422 221 23
Q ss_pred EEEcCCCCeEEEeeccCcceEEEeeeEEEEEecCCCcCCHHhhhccCCCcchhhhhhHHHHHHHH-HHH----HcCCc-E
Q 036741 885 RWTTPLGLPVVQPYRKLGRHTVKTSLQILTLQRETEKVMVKRQRTAFPPNFVHSLDGSHMMMTAV-ACR----KAGLT-F 958 (1030)
Q Consensus 885 ~WtTPlGlpVvQ~Y~k~~~~~I~t~lq~~~l~~~~d~vd~rKq~~af~PNFIHSLDAsHmmlta~-~~~----~~gi~-f 958 (1030)
..+|+.|-...-+ ....--+.|++=+==|+=++..|. .+. ..+.. .
T Consensus 222 ~v~Tl~GRrr~~~----------------------------~~~~r~avN~~IQGsaADi~K~ami~i~~~l~~~~~~lv 273 (324)
T cd08639 222 EVRTLLGRRRVFE----------------------------YFTFTEALNYPIQGTGADILKLALALLVDRLKDLDAKIV 273 (324)
T ss_pred eEECCCCCeeccc----------------------------chhhhhHhhhhhhhHHHHHHHHHHHHHHHHHhcCCCeEE
Confidence 4567777432210 000111556665555555554433 222 23554 4
Q ss_pred EEeeccccCCC--CChhHHHHHHHHHH
Q 036741 959 AGVHDSYWTHA--CDVDEMNRILREKF 983 (1030)
Q Consensus 959 a~VHDSFwTha--~dvd~m~~ilRe~F 983 (1030)
..|||+..... ..++...+++++.+
T Consensus 274 l~VHDElv~ev~~~~~~~~~~~i~~~M 300 (324)
T cd08639 274 LCVHDEIVLEVPEDEAEEAKKILESSM 300 (324)
T ss_pred eeeceeeeeecCHHHHHHHHHHHHHHH
Confidence 56999988664 33444445555544
No 18
>cd06444 DNA_pol_A Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication. DNA polymerase family A, 5'-3' polymerase domain. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified into six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class X), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerases are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I, mitochondrial polymerase gamma, and several bacteriophage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic polymerase I (pol I) has two functional domains located on the same polypeptide; a 5'-
Probab=43.08 E-value=78 Score=36.94 Aligned_cols=109 Identities=21% Similarity=0.244 Sum_probs=72.5
Q ss_pred cccccccCCCchhhHHHHhhCCcccccccccCCCCCcchhhhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCcccc
Q 036741 725 HIPVHQDGSCNGLQHYAALGRDTLGAAAVNLVAREKPADVYSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKL 804 (1030)
Q Consensus 725 ~lPV~qDGSCNGLQHyAAL~rD~~Ga~~VNLip~d~P~DvYs~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKv 804 (1030)
+.-|..|-|.==|=.+|.|++|..+..+-+ .-.|+|+.+|..+-.. + .....|+.
T Consensus 103 ~~lv~aDysqiElRilA~ls~D~~l~~~f~-----~g~Dih~~~A~~~~~~--------~------------v~~~~R~~ 157 (347)
T cd06444 103 WTLVVADASQLELRVLAALSGDEALAEAFG-----RGGDLYTATASAMFGV--------P------------VGGGERQH 157 (347)
T ss_pred CEEEEechhHHHHHHHHHHhCCHHHHHHHh-----cCCCHHHHHHHHHhCC--------C------------CCHHHHHH
Confidence 368899999999999999999998876533 3469999888776311 0 12456999
Q ss_pred ccccceeeecc----cchhhHHHHHHHHHhhcCCCCchhhhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 036741 805 VKQTVMTSVYG----VTYIGARDQIKRRLKERGAPMEEAELFGASCYAAKVTLTALGEMFQAARGIMSWLGECAK 875 (1030)
Q Consensus 805 VKqtVMT~vYG----vT~~Gar~qI~~~L~~~g~~~d~~~~~~~a~ylak~i~~ai~e~f~~A~~im~WL~~~A~ 875 (1030)
.|..+--..|| .+..|..++ + |+..+ -|+.+.+...+.||+....++...+.++
T Consensus 158 AK~~~fg~~YG~~~~~g~~~L~~~----~---~is~~----------ea~~~~~~f~~~~p~v~~~~~~~~~~a~ 215 (347)
T cd06444 158 AKIANLGAMYGATSGISARLLAQL----R---RISTK----------EAAALIELFFSRFPAFPKAMEYVEDAAR 215 (347)
T ss_pred HHHHHHHHHhCCchhhhHHHHHHH----h---CCCHH----------HHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 99999999999 555544433 2 22211 1334556666777876655555544443
No 19
>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=40.68 E-value=33 Score=32.73 Aligned_cols=56 Identities=23% Similarity=0.526 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhcccCCCChhHHHHHHHHHHHHH
Q 036741 187 GKYRMLKMRQVKIETEAWEKAANEYRELLMD---MCEQKLAPNLPYMKSLFLGWFEPLR 242 (1030)
Q Consensus 187 ~~~~~l~~RQ~~lE~~~~~~a~~~~~~~~~~---~~~~g~a~~~~~~~~ll~~w~~~l~ 242 (1030)
..|.+..+|...+..+.++....+|.+++.+ +.+.|+.++.+-++.++.+|++.+.
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 6666666666667777777777777766554 4566888999999999999999766
No 20
>cd08641 DNA_pol_gammaA Pol gammaA is a family A polymerase that is responsible for DNA replication and repair in mitochondria. DNA polymerase gamma (Pol gamma), 5'-3' polymerase domain (Pol gammaA). Pol gammaA is a family A polymerase that is responsible for DNA replication and repair in mitochondria. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified into six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class X), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerases are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I, mitochondrial polymerase gammaA, and several bacteriophage polymerases including those from odd-nu
Probab=40.42 E-value=1.3e+02 Score=36.18 Aligned_cols=99 Identities=20% Similarity=0.171 Sum_probs=60.2
Q ss_pred hhcCCChHHHHHHHHHHHHHHhcCCCCcccccccccccCCCchhhHHHHhhCCcccc-----ccc--ccCCC--CCcchh
Q 036741 694 WLKAEDPFQCLAVCINLTEALRSSSPETFISHIPVHQDGSCNGLQHYAALGRDTLGA-----AAV--NLVAR--EKPADV 764 (1030)
Q Consensus 694 W~~Ad~PwQfLA~C~El~~a~~~~~P~~y~S~lPV~qDGSCNGLQHyAAL~rD~~Ga-----~~V--NLip~--d~P~Dv 764 (1030)
|+.|.+|-- ...=-|++.+..- |.+| .=|.-|.|===|-. |+|.+|...+ .+- =++.+ ..-.||
T Consensus 118 W~tas~~~~-~~iG~eiR~aF~a--p~G~---~lVgADySQiELRi-A~lsgD~~l~~~~~~~AF~~~~l~g~k~~g~DI 190 (425)
T cd08641 118 WLTASNAKK-NRVGSELKAMVQA--PPGY---SFVGADVDSQELWI-ASVLGDAHFGGIHGATAIGWMTLQGKKSEGTDL 190 (425)
T ss_pred ccccCCCCc-chhhHHHHhheec--CCCC---EEEEEchhHHHHHH-HHHcCCHhhhhccccchhhhhhhcccccCCCCH
Confidence 555444422 1234677777763 3454 47888888777765 8899998765 222 01122 345677
Q ss_pred hhHHHHHHHHHHHHhhhcCCCCCchHHHHHHhhccCccccccccceeeecccc---hhhHHHHH
Q 036741 765 YSGIAARVLVIIQRDAQRDPAVFPDALRAKLLLSQVDRKLVKQTVMTSVYGVT---YIGARDQI 825 (1030)
Q Consensus 765 Ys~Va~~V~~~i~~da~~d~~~~~~~~~Ak~l~~~i~RKvVKqtVMT~vYGvT---~~Gar~qI 825 (1030)
|+..|.. -+++|...|-..--.+||.+ .+|...|+
T Consensus 191 H~~TA~i--------------------------~gisR~~AK~~NfG~IYG~g~~~a~~L~~~l 228 (425)
T cd08641 191 HSKTASI--------------------------LGISRDHAKVFNYGRIYGAGQPFAERLLMQF 228 (425)
T ss_pred HHHHHHH--------------------------hCCCHHHhHHHHHHHHHCCCchhhHHHHHHh
Confidence 7755431 14679999988889999998 34444443
No 21
>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=20.05 E-value=2e+02 Score=30.44 Aligned_cols=28 Identities=11% Similarity=0.411 Sum_probs=22.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHccc
Q 036741 371 DDFKPWGQDARAKVGSRVIELLTQTAYI 398 (1030)
Q Consensus 371 ~~~~~W~~~~~~kvG~~Li~~l~~~~~i 398 (1030)
.....|+..++-|+++.+..+|.+.+.+
T Consensus 133 ~~i~~WSdsT~~Kl~~~~~~~L~eaGlL 160 (189)
T PF08849_consen 133 PEIASWSDSTIKKLRQVLFRILREAGLL 160 (189)
T ss_dssp TTS----HHHHHHHHHHHHHHHHHTTSB
T ss_pred CcccccCHHHHHHHHHHHHHHHHHcCCc
Confidence 5567999999999999999999999887
Done!