Query psy7582
Match_columns 661
No_of_seqs 184 out of 2232
Neff 7.6
Searched_HMMs 46136
Date Fri Aug 16 22:07:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7582.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7582hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0214|consensus 100.0 9E-142 2E-146 1160.5 37.7 623 2-660 1-650 (1141)
2 PRK08565 DNA-directed RNA poly 100.0 3E-121 6E-126 1091.7 53.3 583 6-633 1-613 (1103)
3 PRK09606 DNA-directed RNA poly 100.0 1E-104 3E-109 883.5 43.3 464 3-507 2-492 (494)
4 KOG0216|consensus 100.0 6E-104 1E-108 856.6 30.4 575 5-640 4-639 (1111)
5 KOG0215|consensus 100.0 3E-101 6E-106 832.6 30.1 589 4-634 44-669 (1153)
6 COG0085 RpoB DNA-directed RNA 100.0 7.5E-97 2E-101 844.9 32.5 556 3-648 11-607 (1060)
7 CHL00001 rpoB RNA polymerase b 100.0 4.4E-79 9.5E-84 716.2 33.8 480 14-593 10-547 (1070)
8 TIGR02013 rpoB DNA-directed RN 100.0 1.2E-77 2.6E-82 707.8 34.4 515 6-621 7-607 (1065)
9 PRK00405 rpoB DNA-directed RNA 100.0 8.8E-76 1.9E-80 695.5 40.6 402 7-494 15-511 (1112)
10 cd00653 RNA_pol_B_RPB2 RNA pol 100.0 2.1E-76 4.6E-81 693.8 34.7 354 19-487 1-381 (866)
11 CHL00207 rpoB RNA polymerase b 100.0 1.2E-69 2.6E-74 633.2 29.9 521 13-622 4-587 (1077)
12 PRK14844 bifunctional DNA-dire 100.0 1.4E-64 3E-69 609.1 27.2 533 10-623 23-752 (2836)
13 PRK09603 bifunctional DNA-dire 100.0 8.9E-63 1.9E-67 595.6 29.5 535 7-622 15-744 (2890)
14 PF04563 RNA_pol_Rpb2_1: RNA p 100.0 7.7E-42 1.7E-46 339.4 12.5 149 18-180 1-149 (203)
15 PF04565 RNA_pol_Rpb2_3: RNA p 100.0 2E-29 4.2E-34 204.0 4.4 66 422-487 1-68 (68)
16 PRK07225 DNA-directed RNA poly 99.8 1.5E-20 3.3E-25 211.5 9.4 114 517-659 3-116 (605)
17 TIGR03670 rpoB_arch DNA-direct 99.8 2.6E-20 5.7E-25 209.3 9.2 110 521-659 1-110 (599)
18 PF04561 RNA_pol_Rpb2_2: RNA p 99.8 1.7E-18 3.8E-23 170.0 10.7 172 181-368 1-184 (190)
19 PF04566 RNA_pol_Rpb2_4: RNA p 99.7 1.5E-18 3.3E-23 137.7 6.3 63 521-584 1-63 (63)
20 KOG0215|consensus 99.3 8.9E-14 1.9E-18 153.4 -4.7 501 5-580 99-639 (1153)
21 PF04567 RNA_pol_Rpb2_5: RNA p 98.7 3.2E-09 6.9E-14 79.9 0.3 29 632-660 1-29 (48)
22 PF06883 RNA_pol_Rpa2_4: RNA p 97.8 1.8E-05 3.9E-10 61.8 3.9 49 528-577 1-58 (58)
23 PF04567 RNA_pol_Rpb2_5: RNA p 96.7 0.00017 3.6E-09 54.3 -2.1 31 607-637 1-31 (48)
24 TIGR02013 rpoB DNA-directed RN 85.1 0.47 1E-05 58.4 2.0 20 639-658 479-498 (1065)
25 KOG0214|consensus 68.2 2.1 4.6E-05 50.3 0.8 33 606-638 621-653 (1141)
26 PF14251 DUF4346: Domain of un 62.4 4 8.7E-05 36.5 1.3 12 157-168 12-23 (119)
27 TIGR03670 rpoB_arch DNA-direct 58.7 2.1 4.6E-05 49.5 -1.4 27 612-638 88-114 (599)
28 PRK07225 DNA-directed RNA poly 53.5 2.8 6.1E-05 48.5 -1.5 26 612-637 94-119 (605)
29 COG0085 RpoB DNA-directed RNA 49.9 7.4 0.00016 47.5 1.1 30 629-659 569-598 (1060)
30 PRK08565 DNA-directed RNA poly 44.4 5.8 0.00013 49.5 -0.9 31 630-660 585-615 (1103)
31 PF04563 RNA_pol_Rpb2_1: RNA p 34.7 13 0.00028 36.9 -0.1 24 382-405 180-203 (203)
32 PF10385 RNA_pol_Rpb2_45: RNA 24.0 28 0.00062 28.0 0.2 18 640-657 12-29 (66)
33 PRK00405 rpoB DNA-directed RNA 21.8 35 0.00076 42.7 0.5 20 640-659 523-542 (1112)
No 1
>KOG0214|consensus
Probab=100.00 E-value=9.5e-142 Score=1160.45 Aligned_cols=623 Identities=74% Similarity=1.132 Sum_probs=573.8
Q ss_pred cccchhhhhhcccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCC
Q psy7582 2 WQEACWIVINAYFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEK 81 (661)
Q Consensus 2 ~~~~~~~~i~~~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~ 81 (661)
+|+++|.+|++||+.+||+++|++||+.|++.++++|+++.|+|+.+....+. .+...++.|+|+.|++.+|+..|.
T Consensus 1 ~qe~~w~vis~~f~ekglvrqQldsFdeFiq~~~qeiv~~~p~i~l~~~~qh~---~~~~~r~~l~f~qiylskP~~~e~ 77 (1141)
T KOG0214|consen 1 TQEDCWDVISAYFEEKGLVRQQLDSFDEFIQQTLQEIVADSPKIELQDEAQHT---QENPARYQLFFEQIYLSKPTHTES 77 (1141)
T ss_pred ChhHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHHHhcCCCceehhhhhhh---ccCccceEEEeeeEEEeccccccc
Confidence 47899999999999999999999999999999999999999999987655432 233467999999999999999999
Q ss_pred CCCCCCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCC
Q psy7582 82 DGSPSPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDP 161 (661)
Q Consensus 82 ~~~~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~ 161 (661)
||...+++|+|||+|++|||+||||++...+.....+....+..+|++|+||||+||.+|.|+++++++|.+++|||+|+
T Consensus 78 dg~~~~m~p~eARlrnLTYSspLyVd~~k~~~~~~~~~~~~~~qkvfIGkIPiMlrS~~C~l~~~~d~dl~~l~eCp~Dq 157 (1141)
T KOG0214|consen 78 DGSTSTMFPNEARLRNLTYSSPLYVDATKIVKTSRDEVEDMQEQKVFIGKIPIMLRSSYCLLSGLTDKDLTELGECPYDQ 157 (1141)
T ss_pred CCCccccCchhhHhhhcccccceEEEeEEEEeeccccccccccceeeEeccceeeehhhhhhcccchhhhhhccCCCcCC
Confidence 99999999999999999999999999998765443222223467899999999999999999999999999999999999
Q ss_pred CceEEEcCeeeEEEeeeeeecCeEEEEEecC-CceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEe
Q psy7582 162 GGYFIINGSEKVLIAQEKMATNTVYVFSMKD-SKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAIL 240 (661)
Q Consensus 162 GGYFIInG~EkVii~q~~~~~n~i~~~~~~~-~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~ 240 (661)
||||||||+|||+|+||++++|++|+++... +.+.|.++|||+.|.++++.+++|+++...+. .+..|.+.+
T Consensus 158 gGyfIINGseKVlIAQe~matn~vyvf~k~~p~~~ay~~EirS~le~~sR~~stl~v~~~ar~~-------~gq~i~~tl 230 (1141)
T KOG0214|consen 158 GGYFIINGSEKVLIAQEKMATNIVYVFKKAHPGTYAYTGEIRSCLERSSRFISTLSVNMDARAG-------KGQEIIATL 230 (1141)
T ss_pred CceEEEcCceeeeeehhhccCceEEEEecCCCCceeEeeeeehhhhccCCCcceeeeeeccccC-------CCceEEEEe
Confidence 9999999999999999999999999998776 77899999999999999999999998875432 256889999
Q ss_pred cccccccchhhHHHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhhhhccCHHHHHHHHHhcCCCCCCChhhhHHHHH
Q psy7582 241 PYIKQEIPIMIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEAFVIQEQNVALNFIGARGARPGVTKERRIKYAR 320 (661)
Q Consensus 241 ~~~~~~IP~~illkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~ 320 (661)
++.+++||+++|+||||+.+|+||++.|+|+++|.++.++++++++|++.+..+..||+|||++...++.++++.+++|+
T Consensus 231 pyikqeIPI~ilfrALG~v~dreILehIcYd~~D~em~e~lkpsieeafviq~qn~ALdfig~rga~~Gvtkekri~yak 310 (1141)
T KOG0214|consen 231 PYIKQEIPILILFRALGFVSDREILEHICYDFDDAEMFESLKPSIEEAFVIQEQNVALDFIGQRGACIGVTKEKRIKYAK 310 (1141)
T ss_pred eeecccCcEEEEehhhcCCccHHHHHhhcCCCCcHHHHHHhhhhhhhhhhhhhhHHHHHHHHhcCCCCCCCcchhhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999998888899999999999
Q ss_pred HHHHhccCCCCccCCccchhHHHHHHHHHHHHHhhccCCcCCCChHHH---------------HHH-----------HHH
Q psy7582 321 EILQKEMLPHVGVSDFCETKKAYFLGYMVHRLLLASLGRRELDDRDHY---------------VRM-----------YAQ 374 (661)
Q Consensus 321 ~~l~~~~l~Hig~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~---------------~k~-----------~~~ 374 (661)
++|++++|||++.....+++|++||+|||++|+.++.|++.+||+||| +|. ..+
T Consensus 311 diLqKe~lPhi~~~e~~etkKA~fLGYmi~rlll~aLgRr~~ddRDHfG~KRLDlaGpLLa~lfR~lf~~l~rd~~~~mQ 390 (1141)
T KOG0214|consen 311 EILQKELLPHVGLGEICETKKAYFLGYMVHRLLLAALGRRELDDRDHFGNKRLDLAGPLLAKLFRSLFAKLLRDVTRYMQ 390 (1141)
T ss_pred HHHHHHhccccccchhhhhhHHHHHHhhHHHHHHHHcCCCCccchhhccccchhhchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999988888999999999999999999999999999999 222 334
Q ss_pred HHHhhCCCCchHHHhhhhccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCCCCCCCCCCCCccc
Q psy7582 375 KFIDRGKDFNLELAIKTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNSPIGRDGKLAKPRQ 454 (661)
Q Consensus 375 ~~~~~~~~~~~~~~i~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~~~~~~~k~~~~R~ 454 (661)
+.++++..+++.-+++.++||++++|++|||||+..++.++.++||||||+|+||+++|||+||+++|.++++|.+.||+
T Consensus 391 k~le~~~dfni~~aika~iIt~gl~yslaTgnwgdq~ka~~~ragVsQVLnR~t~~sTLsHlRR~n~Pigr~GKlAkpRq 470 (1141)
T KOG0214|consen 391 KCLENGVDFNIELAIKAKIITNGLNYALATGNWGDQKKAMQGRAGVSQVLNRLNPLSTLSHLRRTNSPIGRTGKLAKPRQ 470 (1141)
T ss_pred HHHhcCccceEEEEEEeeeecccceeeeccCCccchhHHhhccccHHHHhccccHHHHHHHHhhcCCccccccccCCccc
Confidence 55567788898888999999999999999999987888888999999999999999999999999999999999999999
Q ss_pred cCCCcccccccCCCCCCcccccccccccceEEeecCCCchHHHHhhhhccccccccCccccccccccccCCeEEEeeCCh
Q psy7582 455 LHNTLWGMICPAETPEGAAVGLVKNLALMAYISVGSQPSPILEFLEEWSMENLEEIAPSAIADATKIFVNGCWVGIHRDP 534 (661)
Q Consensus 455 Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~ 534 (661)
|||||||++||+|||||++||||||||+||.|++|+.+.|+.++|++.||++++.+++..+.+.++||+||.|+|.+++|
T Consensus 471 lHnthwGmvCPaeTPEGqacGLVKNLSLmayIsvGS~~sPi~EfLeewgmE~le~~~ps~~~datkvfvNG~wvGlhrdp 550 (1141)
T KOG0214|consen 471 LHNSHWGMVCPAETPEGQACGLVKNLSLMAYISVGSLESPIVEFLEEWGMENLEEISPSPSPDATKVFVNGVWVGLHRDP 550 (1141)
T ss_pred cCcccceeeccccCCCcceeeccccceEEEEEecCCCccHHHHHHHHhchhhHhhcCCCcCCCceEEEEcccEEEecCCH
Confidence 99999999999999999999999999999999999999999999999999999999988888999999999999999999
Q ss_pred hhHHHHHHHHhhcCCcccceEEEEecCcCCceEEecCCCcccceeEEeeCCcccccHHHHHHhhhcccCCcCceEEeecc
Q psy7582 535 EQLMGTLRKLRRQMDIIVSEVSIIRDIRDREIRIHTDAGRICRPLLIAENGSLLLKKRHIDNLKERDYNNYGWQVLVQSG 614 (661)
Q Consensus 535 ~~~~~~lr~~rr~~~~i~~~v~~~~~~~~~~i~i~s~~gRl~RP~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~kg 614 (661)
+.++.+||.+||+ ..++.||++++|...++++||||+||+|||||+|+|+++.++++|+.+|++++
T Consensus 551 ~~l~~tlr~lRR~-~di~~Evs~vRDIr~kE~ri~tDaGR~~rPLliven~~l~~~k~hi~~L~~~~------------- 616 (1141)
T KOG0214|consen 551 EELVATLKRLRRQ-FDIIAEVSMVRDIRDKEIRIFTDAGRSLRPLLIVENAKLLIKKRHIRALKQSK------------- 616 (1141)
T ss_pred HHHHHHHHHHHHh-hccchhhhhhccccccceeeeeccCccccceEEEechhhhhhhHHHHHHhhCc-------------
Confidence 9999999999999 77777999999999999999999999999999999999999999999886521
Q ss_pred eeeeecccchhhhhhhhhhhhhccchhhccccceeeeeEEEeccCC
Q psy7582 615 VVEYIDTLEEETTMIAMWQVLVQSGVVEYIDTLEEETTMIAMSPRL 660 (661)
Q Consensus 615 ~Ie~ld~~E~~~~~ia~~~~~l~~g~~e~~d~eEeet~~i~m~~~~ 660 (661)
.+ -..|..++.+|++||+|+|||||+||||+|++
T Consensus 617 ------~~------~~~w~~lv~~G~ie~idteeEEtvmiam~~~d 650 (1141)
T KOG0214|consen 617 ------PN------EYRWAHLLSSGEVEYIDTEEEETVMIAMGPKD 650 (1141)
T ss_pred ------hh------hcchhhhccccceeeeccchhhhHHHhcCHHH
Confidence 11 25688999999999999999999999999874
No 2
>PRK08565 DNA-directed RNA polymerase subunit B; Provisional
Probab=100.00 E-value=2.9e-121 Score=1091.68 Aligned_cols=583 Identities=42% Similarity=0.672 Sum_probs=489.8
Q ss_pred hhhhhhcccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCCCCC
Q psy7582 6 CWIVINAYFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKDGSP 85 (661)
Q Consensus 6 ~~~~i~~~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~ 85 (661)
.|+++++||+.++|++|||+|||+|+++||++++++++|+++. +..+.|+|.++++++|++.++++..
T Consensus 1 ~~~li~~~~~~~~Lv~~qidSFn~Fi~~gL~~iv~~~~pI~~~------------~~~~~L~f~~i~l~~P~~~~~~~~~ 68 (1103)
T PRK08565 1 RWTVVEAYFKEKGLVRQHLDSYNDFIERGLQEIVDEFGEIKTE------------IPGLKIVLGKIRVGEPEIKEADGSE 68 (1103)
T ss_pred CchHHHHHhcccChHHHHHHHHHHHHHHhHHHHHHhcCCEEec------------CCCEEEEEEEEEECCCccccccccc
Confidence 4999999999999999999999999999999999999999652 4579999999999999998777667
Q ss_pred CCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCCceE
Q psy7582 86 SPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPGGYF 165 (661)
Q Consensus 86 ~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~GGYF 165 (661)
.+++|+|||+|++||+|+|+|++++... +. .....++++|+|||||+|++|||++++++||++.||||+|+||||
T Consensus 69 ~~l~P~ecR~r~lTYsa~l~v~i~~~~~--~~---~~~~~~v~iG~iPIMv~S~~C~L~~~s~~el~~~~E~p~D~GGYF 143 (1103)
T PRK08565 69 RPITPMEARLRNLTYAAPLYLTMIPVEN--GI---EYEPEEVKIGDLPIMVKSKICPLSGLSPDELIEIGEDPKDPGGYF 143 (1103)
T ss_pred CCCCHHHHHhcCCCcceEEEEEEEEEEC--Ce---eeEEEEEEeccCCeEeCCCcccCCCCCHHHHHhcCCCccCCCCeE
Confidence 8899999999999999999999998642 21 223458999999999999999999999999999999999999999
Q ss_pred EEcCeeeEEEeeeeeecCeEEEEEecC-CceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEecccc
Q psy7582 166 IINGSEKVLIAQEKMATNTVYVFSMKD-SKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILPYIK 244 (661)
Q Consensus 166 IInG~EkVii~q~~~~~n~i~~~~~~~-~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~~~~ 244 (661)
||||+||||++|+++++|++|++...+ +++.+.++++|.+... ...+.+++..+ +.++++++++.
T Consensus 144 IING~ERVI~~q~~~s~n~~~~~~~~~~~~~~~~a~i~s~~~~~---~~~~~l~~~~~-----------g~i~~~~~~~~ 209 (1103)
T PRK08565 144 IINGSERVIVSQEDLAPNRVLVDKGEAGSSITHTAKVISSRAGY---RAQVTVERRKD-----------GTIYVSFPAVP 209 (1103)
T ss_pred EECCcEEEEEEEEecCCCEEEEEEecCCCcceEEEEEEeccCCC---cceEEEEEecC-----------CeEEEEEcCcc
Confidence 999999999999999999998876554 3467778888765321 12333444322 24788998776
Q ss_pred cccchhhHHHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhhhhc-cCHHHHHHHHHhcCCCCCCChhhhHHHHHHHH
Q psy7582 245 QEIPIMIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEAFVI-QEQNVALNFIGARGARPGVTKERRIKYAREIL 323 (661)
Q Consensus 245 ~~IP~~illkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~-~t~~~al~yig~~~~~~~~~~~~~~~~~~~~l 323 (661)
.+||+++||||||..||+||++.++ .++.+.+.+..+++++..+ .|+++||.|||+++. +..+.+...+.|+++|
T Consensus 210 ~~IPi~illkALG~~sD~eI~~~i~---~~~~~~~~l~~~l~~~~~~~~t~~~al~~ig~~~~-~~~~~~~~~e~~~~~L 285 (1103)
T PRK08565 210 GKIPFVILMRALGLETDRDIVYAVS---LDPEIQQELLPSLEQASSIAATVEDALDYIGKRVA-IGQPREYRIERAEQIL 285 (1103)
T ss_pred cEeeHHHHHHHcCCCCHHHHHHHhc---ccHHHHHHHHHHHHHhhccccCHHHHHHHHHHhcc-CCCCCccHHHHHHHHH
Confidence 7899999999999999999999997 4556666677788776556 899999999999963 3333344668899999
Q ss_pred HhccCCCCccCCccchhHHHHHHHHHHHHHhhccCCcCCCChHHH---------------HHHHHHH-----------HH
Q psy7582 324 QKEMLPHVGVSDFCETKKAYFLGYMVHRLLLASLGRRELDDRDHY---------------VRMYAQK-----------FI 377 (661)
Q Consensus 324 ~~~~l~Hig~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~---------------~k~~~~~-----------~~ 377 (661)
++++|||+|....+..+|++||++|++||+.++.|.+.+||+||| +|..+++ .+
T Consensus 286 ~~~ll~Hig~~~~~~~~K~~~L~~Mi~kLl~l~~g~~~~DD~D~l~NKRv~l~G~Ll~~~fr~~l~~~~~~ik~~l~~~~ 365 (1103)
T PRK08565 286 DKYLLPHLGTSPEDRIKKAYFLGQMASKLLELYLGRREPDDKDHYANKRLRLAGDLLAELFRVAFKQLVKDLKYQLEKSY 365 (1103)
T ss_pred HhhCcccCCCcccchhHHHHHHHHHHHHHHhhhcCCCCCCCccccCCcEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999766555579999999999999999999999999999 2222222 11
Q ss_pred hhCCCCchHHHhhhhccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCCCCCCCCCCCCccccCC
Q psy7582 378 DRGKDFNLELAIKTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNSPIGRDGKLAKPRQLHN 457 (661)
Q Consensus 378 ~~~~~~~~~~~i~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~~~~~~~k~~~~R~Lhp 457 (661)
++.+.+++..+++.+.||++|++|||||||.+ |++|+||+|||+||+|+|||||||++++.+++|.++||+|||
T Consensus 366 ~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~------~~sGvSq~ldr~N~l~~lSh~Rrv~s~~~r~~~~~~vR~Lhp 439 (1103)
T PRK08565 366 ARGRKLDLRAIVRPDIITERIRHALATGNWVG------GRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHG 439 (1103)
T ss_pred hccccCCHHHhcccchhhHHHHHHHhcCcccc------CCcceEEecccCCHHHHHHHHhhccCCcccCCCCccccccCh
Confidence 23345566777777889999999999999963 889999999999999999999999999999999999999999
Q ss_pred CcccccccCCCCCCcccccccccccceEEeecCCCchHHHHhhhhccccccccCccccccccccccCCeEEEeeCChhhH
Q psy7582 458 TLWGMICPAETPEGAAVGLVKNLALMAYISVGSQPSPILEFLEEWSMENLEEIAPSAIADATKIFVNGCWVGIHRDPEQL 537 (661)
Q Consensus 458 s~wG~iCPveTPEG~~cGLv~~La~~a~Vs~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~ 537 (661)
|||||+||||||||++|||+||||++|+|+++.+..++.++|.++|+.++..+++......++|||||+|+|+++++..+
T Consensus 440 s~wG~iCPveTPEG~~cGLv~~LA~~a~It~~~~~~~i~~~l~~~G~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~l 519 (1103)
T PRK08565 440 TQWGRICPFETPEGPNCGLVKNLALMAQISVGVDEEEVEEILYELGVVPVEEAREEEYISWSRVYLNGRLIGYHPDGEEL 519 (1103)
T ss_pred hhccccCCCCCCCccccchhhhhhcccccccCCChHHHHHHHHHcCCCchhhcCcccCCCceEEEECCEEEEEECCHHHH
Confidence 99999999999999999999999999999988888899999999999988665554455668999999999999999999
Q ss_pred HHHHHHHhhcCCcccceEEEEecC--cCCceEEecCCCcccceeEEeeCCcccccHHHHHHhhhcccCCcCceEEeecce
Q psy7582 538 MGTLRKLRRQMDIIVSEVSIIRDI--RDREIRIHTDAGRICRPLLIAENGSLLLKKRHIDNLKERDYNNYGWQVLVQSGV 615 (661)
Q Consensus 538 ~~~lr~~rr~~~~i~~~v~~~~~~--~~~~i~i~s~~gRl~RP~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~kg~ 615 (661)
++.||.+||. |.++.+|+++++. .+++|+||||+||++|||++++++++.+++++++.++.+ ..+|++|+++|.
T Consensus 520 ~~~lR~~Rr~-g~i~~~v~I~~~~~~~~~~i~I~sd~GRl~RP~~~v~~g~~~~~~~~~~~l~~~---~~~~~~l~~~g~ 595 (1103)
T PRK08565 520 AEKIRELRRS-GKISDEVNVAYIETGEINEVYVNCDSGRVRRPLIVVENGKPKLTREHVEKLKKG---ELTFDDLVKMGV 595 (1103)
T ss_pred HHHHHHHhhc-CCCCCeEEEEEccccccceEEEecCCceeeeeEEEEecCceeccHHHHHHhhcc---ccchhhHhhcCc
Confidence 9999999999 9999999999987 889999999999999999999999999999988776321 224444444444
Q ss_pred eeeecccchhhhhhhhhh
Q psy7582 616 VEYIDTLEEETTMIAMWQ 633 (661)
Q Consensus 616 Ie~ld~~E~~~~~ia~~~ 633 (661)
|||||++||+++.||..+
T Consensus 596 iEyid~~Ee~~~~Ia~~~ 613 (1103)
T PRK08565 596 IEYLDAEEEENAYVALDP 613 (1103)
T ss_pred EEeeCHHHhcCcEEeccc
Confidence 444444444444444333
No 3
>PRK09606 DNA-directed RNA polymerase subunit B''; Validated
Probab=100.00 E-value=1.5e-104 Score=883.47 Aligned_cols=464 Identities=39% Similarity=0.663 Sum_probs=392.1
Q ss_pred ccchhhhhhcccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCC
Q psy7582 3 QEACWIVINAYFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKD 82 (661)
Q Consensus 3 ~~~~~~~i~~~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~ 82 (661)
++|.|+++++||++++|++|||+|||+|+++||++++++.+|+++.. +..+.|+|+++++++|++.+++
T Consensus 2 ~~~~~~~i~~~~~~~~lv~~qi~SFn~Fi~~gl~~ii~~~~~i~~~~-----------~~~~~l~~~~~~l~~P~~~~~~ 70 (494)
T PRK09606 2 MEDRRVLSDAYFKEHRLVRHHIDSYNDFVDNGLQKIIDEQGPIETEI-----------EDGVYVELGKIRVGKPVVKEAD 70 (494)
T ss_pred chHHHHHHHHHHCCCChHHHHHHHHHHHHHHhHHHHHHhcCCEEEec-----------CCcEEEEEEEEEECCCcccccC
Confidence 68899999999999999999999999999999999999999997532 2457899999999999987776
Q ss_pred CCCCCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCC
Q psy7582 83 GSPSPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPG 162 (661)
Q Consensus 83 ~~~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~G 162 (661)
+...+++|+|||+|++||+|+++|++.++.. +.. ...+++++|+|||||+|++|||++++++++++.||||+|+|
T Consensus 71 ~~~~~l~P~eaR~r~~TYs~~l~v~i~~~~~--~~~---~~~~~v~iG~iPiMv~S~~C~L~~~~~~~l~~~~E~~~d~G 145 (494)
T PRK09606 71 GSEREIYPMEARLRNLTYSAPLYLEMSPVEG--GEE---EEPEEVYIGELPVMVGSKICNLYGLSEEELIEVGEDPLDPG 145 (494)
T ss_pred CccccCCHHHHHhcCCCccceEEEEEEEEEC--CCc---eEEeeEEeccCCeEeccCcccCCCCCHHHHHhcCCCcCCCC
Confidence 6668899999999999999999999998642 221 13468999999999999999999999999999999999999
Q ss_pred ceEEEcCeeeEEEeeeeeecCeEEEEEecC-CceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEec
Q psy7582 163 GYFIINGSEKVLIAQEKMATNTVYVFSMKD-SKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILP 241 (661)
Q Consensus 163 GYFIInG~EkVii~q~~~~~n~i~~~~~~~-~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~ 241 (661)
|||||||+|||||+|++++||++|++..+. ++..+.++++|.... + .....+++..+ +.++++++
T Consensus 146 GyFIING~ErVi~~q~~~~~n~~~~~~~~~~~~~~~~~~i~s~~~~--~-~~~~~l~~~~~-----------g~i~~~~~ 211 (494)
T PRK09606 146 GYFIVNGSERVLMTLEDLAPNKILVEKDERYGDRIEVAKVFSQRRG--Y-RALVTVERNRD-----------GLLEVSFP 211 (494)
T ss_pred CeEEECCCeEEEEEEEeccCCeeEEEeccCCCccceEEEEEccccc--c-eeeEEEEEecC-----------CeEEEEEc
Confidence 999999999999999999999888877543 333477788774421 1 11222333322 24788998
Q ss_pred ccccccchhhHHHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhhhhccCHHHHHHHHHhcCCCCCCChhhhHHHHHH
Q psy7582 242 YIKQEIPIMIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEAFVIQEQNVALNFIGARGARPGVTKERRIKYARE 321 (661)
Q Consensus 242 ~~~~~IP~~illkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~~ 321 (661)
..+.+||++++|||||.+||+||++.+. .++++.+.+..++++. .+.++++||.|||+++. ++.+.+...+.|++
T Consensus 212 ~~~~~iPi~~llkALg~~sd~eI~~~i~---~~~~~~~~l~~~~~~~-~~~t~~~al~~ig~~~~-~~~~~~~~~~~~~~ 286 (494)
T PRK09606 212 SVPGSIPFVILMRALGLETDEEIVEAVS---DDPEIVKFMLENLEEA-EVDTQEEALEYIGKRVA-PGQTKEYRIKRAEY 286 (494)
T ss_pred CccccccHHHHHHHcCCCCHHHHHHHhC---CcHHHHHHHHHHHHhc-ccCCHHHHHHHHHHhcC-CCCCcchHHHHHHH
Confidence 8767899999999999999999999996 4455556666677664 47899999999999963 33334445678999
Q ss_pred HHHhccCCCCccCCccchhHHHHHHHHHHHHHhhccCCcCCCChHHH---------------HHHHHH-----------H
Q psy7582 322 ILQKEMLPHVGVSDFCETKKAYFLGYMVHRLLLASLGRRELDDRDHY---------------VRMYAQ-----------K 375 (661)
Q Consensus 322 ~l~~~~l~Hig~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~---------------~k~~~~-----------~ 375 (661)
+|++++|||+|....+...|++||++|++||++++.|.+.+||+||| +|..++ +
T Consensus 287 ~l~~~~l~hig~~~~~~~~K~~~L~~m~~kLl~~~~g~~~~Dd~D~l~nkRv~~~G~Ll~~~fr~~l~~~~~~~k~~l~~ 366 (494)
T PRK09606 287 VIDRYLLPHLGVEPEVRRAKAHYLGRMAEACFELALGRREEDDKDHYANKRLKLAGDLMEDLFRVAFNRLARDVKYQLER 366 (494)
T ss_pred HHHHhhhcccCCCcchhhHHHHHHHHHHHHHHHHhcCCCCCCCcccccCceeeccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999765445579999999999999999999999999999 222222 2
Q ss_pred HHhhCCCCchHHHhhhhccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCCCCCCCCCCCCcccc
Q psy7582 376 FIDRGKDFNLELAIKTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNSPIGRDGKLAKPRQL 455 (661)
Q Consensus 376 ~~~~~~~~~~~~~i~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~~~~~~~k~~~~R~L 455 (661)
...+.+..++..+++.+.||++|++|||||||++ +++|+||+|||+||+|++|||||||+++.++++.++||+|
T Consensus 367 ~~~~~~~~~~~~~~~~~~It~~l~~~~~TGnw~~------~~~glSq~ldr~N~la~lSh~Rrv~s~~~r~~~~~~vR~l 440 (494)
T PRK09606 367 ANMRNRELSIKTAVRSDVLTERLEHAMATGNWVG------GRTGVSQLLDRTDYMATLSHLRRVVSPLSRSQPHFEARDL 440 (494)
T ss_pred HHhcCCCCCHHHhcCchhhhHHHHHHhhcccccC------CCceEEEEccCCCHHHHhhHHHhccCCccccCcccccccc
Confidence 2223345567777887889999999999999964 6799999999999999999999999999999999999999
Q ss_pred CCCcccccccCCCCCCcccccccccccceEEeecCCCchHHHHhhhhccccc
Q psy7582 456 HNTLWGMICPAETPEGAAVGLVKNLALMAYISVGSQPSPILEFLEEWSMENL 507 (661)
Q Consensus 456 hps~wG~iCPveTPEG~~cGLv~~La~~a~Vs~~~~~~~i~~~l~~~g~~~~ 507 (661)
|||||||+||||||||+|||||||||++|+|+++.+..++.++|.++||.++
T Consensus 441 hps~~G~iCPveTPEG~~cGLv~~La~~a~V~~~~~~~~i~~~l~~lg~~~~ 492 (494)
T PRK09606 441 HPTQWGRICPSETPEGPNCGLVKNFAQMVEISTGEDEEEVKEILKELGVEPE 492 (494)
T ss_pred CcccceecccCcCCCCCcccHHHhhhceEEEeCCCChHHHHHHHHHCcCeeC
Confidence 9999999999999999999999999999999998888889999999999875
No 4
>KOG0216|consensus
Probab=100.00 E-value=6.1e-104 Score=856.56 Aligned_cols=575 Identities=23% Similarity=0.333 Sum_probs=463.4
Q ss_pred chhhhhhcccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCC--
Q psy7582 5 ACWIVINAYFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKD-- 82 (661)
Q Consensus 5 ~~~~~i~~~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~-- 82 (661)
..|+--+++-..++++++|++|||...+.|+....-+.+.... .....+++.++++++.|.+|.+....
T Consensus 4 ~~~k~~p~fp~l~~a~~pHi~sfnal~~~gll~~~v~~~~ek~---------~~~~g~kis~~ve~i~iakP~l~~~~~s 74 (1111)
T KOG0216|consen 4 NPPKDYPSFPELQDAASPHIDSFNALTNGGLLNAGVAGIAEKV---------PLKAGDKISMKVESIQIAKPMLSDKVHS 74 (1111)
T ss_pred CCcccCccchhhhhhhhhhhccccchhhhhHHHHHhhchhhhc---------ccccCCceeEEEEEEEecCCCCCccccc
Confidence 3577788888899999999999999998887655333221111 12245688999999999999997643
Q ss_pred CCCCCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCC
Q psy7582 83 GSPSPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPG 162 (661)
Q Consensus 83 ~~~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~G 162 (661)
...++++|.|||+|++||+|.+.|++.|.+++.. .......+|.+||||+|++|||+|++|+||++++|++.|+|
T Consensus 75 s~~r~lyPaEcRqR~~TY~Gkl~v~v~wsVNg~~-----~~~e~~dlG~vPIMlrSklChL~g~sp~eLV~hkEe~~EmG 149 (1111)
T KOG0216|consen 75 SDTRKLYPAECRQRGLTYKGKLVVRVSWSVNGGH-----VVIEKRDLGHVPIMLRSKLCHLNGASPKELVKHKEESSEMG 149 (1111)
T ss_pred cccccccchhHhhccceecceEEEEEEEEECCee-----eeeeeeecCccceEEeccccccCCCChHHHhhccCchhhcC
Confidence 3468999999999999999999999999886421 23467789999999999999999999999999999999999
Q ss_pred ceEEEcCeeeEEEeeeeeecCeEEEEE-----ecCCce-eEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEE
Q psy7582 163 GYFIINGSEKVLIAQEKMATNTVYVFS-----MKDSKY-AYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRI 236 (661)
Q Consensus 163 GYFIInG~EkVii~q~~~~~n~i~~~~-----~~~~~~-~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i 236 (661)
|||||||+||||++.+.+++|+++.+. ++...| .|.+.||||+++.+.. +..+||+.+|..
T Consensus 150 GYFIvNGIEKvIRmLIm~RRNHPiAiIR~Sfk~RG~~yS~yGVsmRcVReDqSsv--tn~LHYLnnGtv----------- 216 (1111)
T KOG0216|consen 150 GYFIVNGIEKVIRMLIMPRRNHPIAIIRPSFKDRGSSYSDYGVSMRCVREDQSSV--TNVLHYLNNGTV----------- 216 (1111)
T ss_pred cEEEEcChHHhhhhheeccCCCceEEechhhhhcCCCccccceEEEEeccccccc--eeEEEEecCCcE-----------
Confidence 999999999999999999999776643 333344 5788999999887654 556799988743
Q ss_pred EEEecccccc--cchhhHHHHcCCCChHHHHHHhccCC-CChHHHHhhhhhhhhh--hhccCHHHHHHHHHhcCCC--CC
Q psy7582 237 IAILPYIKQE--IPIMIVFRALGFVADRDILEHIIYDF-DDPEMMEMVKPSLDEA--FVIQEQNVALNFIGARGAR--PG 309 (661)
Q Consensus 237 ~~~~~~~~~~--IP~~illkALg~~sd~eI~~~i~~~~-~~~~~~~~l~~~~~~~--~~~~t~~~al~yig~~~~~--~~ 309 (661)
.++|.+++.+ +|++++||||-.+||+||++.+..+- .+..+.+.+..++.+. .+++||++|++|||+++.. +.
T Consensus 217 ~~~F~~rK~eylvPv~lILKAL~~tsDeEIf~~lv~g~~gdqfl~~rv~~mLr~v~ee~l~trtqcl~yLGs~FRaVl~~ 296 (1111)
T KOG0216|consen 217 MFRFSHRKREYLVPVVLILKALTNTTDEEIFEGLVGGDEGDQFLTSRVELMLREVQEENLFTRTQCLQYLGSRFRAVLDF 296 (1111)
T ss_pred EEEEEEeeeeehhhHHHHHHHHhccCHHHHHHHHhCCccCceeHHHHHHHHHHHHhhcccccHHHHHHHHhhhhhhhhcC
Confidence 4455555554 99999999999999999999987543 3444444444444332 3689999999999999752 33
Q ss_pred CChhhhHHHHHHHHHhccCCCCccCCccchhHHHHHHHHHHHHHhhccCCcCCCChHHH---------------HHHHHH
Q psy7582 310 VTKERRIKYAREILQKEMLPHVGVSDFCETKKAYFLGYMVHRLLLASLGRRELDDRDHY---------------VRMYAQ 374 (661)
Q Consensus 310 ~~~~~~~~~~~~~l~~~~l~Hig~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~---------------~k~~~~ 374 (661)
++.+.+.|+|+++|++|+|.|++.+ .+||.+|.+|+|||++++.|++.+||+|+. +|..++
T Consensus 297 v~~~~D~evg~fILr~~VlvHLd~~----~DKF~lLifmiqKL~slv~ge~~~dnpDs~q~qEil~~ghl~~~~LkEriE 372 (1111)
T KOG0216|consen 297 VPEQPDLEVGRFILREYVLVHLDSD----EDKFNLLIFMIQKLYSLVDGECTPDNPDSPQNQEILLPGHLYGSILKERIE 372 (1111)
T ss_pred CCCCchHHHHHHHHHhheEEEeccc----HHHHHHHHHHHHHHHHHhcCCcCCCCCCChhhhhcccccchHHHHHHHHHH
Confidence 4445688999999999999999642 379999999999999999999999999998 333222
Q ss_pred HH-----------Hhh-CCCCch------HHHhh--hhccccchhhhcccCcchhhhcc-ccccccceEEecccchhhhh
Q psy7582 375 KF-----------IDR-GKDFNL------ELAIK--TKIITDGLRYSLATGNWGDQKKA-HQARAGVSQVLNRLTFASSL 433 (661)
Q Consensus 375 ~~-----------~~~-~~~~~~------~~~i~--~~~it~~i~~~lsTGn~~~~~~~-~~~~~G~sq~l~r~N~l~~l 433 (661)
.. +.+ ....+. .+.+. ...|+++|+++|||||+.+..++ +||++|+|+++||+|++|++
T Consensus 373 e~l~~~~~~vr~~l~~~~~~~~~~~~~~i~~~~~r~~~~Ig~~me~fLsTGnl~s~sgldLqQ~sG~tv~AEriNf~Rfl 452 (1111)
T KOG0216|consen 373 EWLRFISAQVRRDLYKLGFKEDFLDISAIRKVFMRTNGNIGRKMEYFLSTGNLVSRSGLDLQQTSGYTVVAERINFYRFL 452 (1111)
T ss_pred HHHHHHHHHHHHHHHhhcCCchhHhHHHHHHHHhhccccHHHHHHHHHhcCCeeeccchhhHhhcCcEEehhhhhHHHHH
Confidence 22 222 222221 22222 24789999999999999877775 68999999999999999999
Q ss_pred hhccccCC-CCCCCCCCCCccccCCCcccccccCCCCCCcccccccccccceEEeecCC-CchHHHHhhhhccccccccC
Q psy7582 434 SHLRRVNS-PIGRDGKLAKPRQLHNTLWGMICPAETPEGAAVGLVKNLALMAYISVGSQ-PSPILEFLEEWSMENLEEIA 511 (661)
Q Consensus 434 Sh~Rrv~~-~~~~~~k~~~~R~Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs~~~~-~~~i~~~l~~~g~~~~~~~~ 511 (661)
||||.||| +|+.+++||++|||.|++|||+||||||||+||||+||||..|+|+...+ ...+.++|.++||.|.....
T Consensus 453 ShFRavhRGa~f~~mrTTtvRKLlPEsWGFlCPVHTPDG~PCGlLnH~t~~c~I~t~~dd~s~ip~~L~~~Gm~p~~~~~ 532 (1111)
T KOG0216|consen 453 SHFRAVHRGAFFAEMRTTTVRKLLPESWGFLCPVHTPDGAPCGLLNHMTRTCRIVTRPDDVSFIPSILFELGMVPSSHLV 532 (1111)
T ss_pred HHHHHHhcccchhheeehhhHhhCchhhcccccccCCCCCchhHHHhhhhheeEeecCcchhhhhHHHHhcCCCchhccc
Confidence 99999999 99999999999999999999999999999999999999999999997754 46899999999998865433
Q ss_pred ccccccccccccCCeEEEeeCCh--hhHHHHHHHHhhcC-Cccc--ceEEEE---ecCcCCceEEecCCCcccceeEEee
Q psy7582 512 PSAIADATKIFVNGCWVGIHRDP--EQLMGTLRKLRRQM-DIIV--SEVSII---RDIRDREIRIHTDAGRICRPLLIAE 583 (661)
Q Consensus 512 ~~~~~~~~~V~lnG~~iG~~~~~--~~~~~~lr~~rr~~-~~i~--~~v~~~---~~~~~~~i~i~s~~gRl~RP~l~~~ 583 (661)
... ...++|++||+++|+++.+ +.+++.||++|... +.++ .+|.++ .++++|++||+|++||++|||.++
T Consensus 533 ~~G-~~l~~VlldGk~vG~~s~~~a~~i~~~lR~~Kv~~p~~iP~~leIg~Vp~s~~gqyPglyi~s~~aR~~RpV~nl- 610 (1111)
T KOG0216|consen 533 EAG-EPLYPVLLDGKVVGWVSSPLAKKIVDYLRYYKVEAPAVIPNDLEIGYVPTSTNGQYPGLYIFSGPARMIRPVKNL- 610 (1111)
T ss_pred cCC-CceeEEEECCEEEEeeccHHHHHHHHHHHHHhhcCcccCCCcceEeeeecCCCCCCceeEEecCchhhhhehhcc-
Confidence 322 1467999999999999888 88999999998651 2333 455555 456899999999999999999875
Q ss_pred CCcccccHHHHHHhhhcccCCcCceEEeecceeeeecccchhhhhhhhhhhhhccch
Q psy7582 584 NGSLLLKKRHIDNLKERDYNNYGWQVLVQSGVVEYIDTLEEETTMIAMWQVLVQSGV 640 (661)
Q Consensus 584 ~~~~~~~~~~~~~l~~~~~~~~~~~~ll~kg~Ie~ld~~E~~~~~ia~~~~~l~~g~ 640 (661)
+| +-+|+|+..||....|+..+..+..|+
T Consensus 611 ----------------------~~------~~~e~iG~fEQvym~i~~~~~e~~~~v 639 (1111)
T KOG0216|consen 611 ----------------------SL------DSVEWIGPFEQVYMNIAIDPKEIFPDV 639 (1111)
T ss_pred ----------------------cc------CchhhcccHHHhhhhhccchhhcCCCc
Confidence 44 778899999999888898888777664
No 5
>KOG0215|consensus
Probab=100.00 E-value=2.6e-101 Score=832.63 Aligned_cols=589 Identities=36% Similarity=0.662 Sum_probs=497.0
Q ss_pred cchhhhhhcccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCCC
Q psy7582 4 EACWIVINAYFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKDG 83 (661)
Q Consensus 4 ~~~~~~i~~~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~~ 83 (661)
+|+|.|+++|++-+|||++|++|||+|++++++.+++.+..+. ++.++.+.+++.++.++.|.+.++.+
T Consensus 44 ~dk~~lvp~flkvkglvkqhldsfnyfv~~~ik~iv~an~~it-----------sd~dp~fylky~dirvg~Ps~~~~~~ 112 (1153)
T KOG0215|consen 44 EDKWQLVPAFLKVKGLVKQHLDSFNYFVDVDIKKIVKANQLIT-----------SDVDPSFYLKYLDIRVGKPSIEEGNN 112 (1153)
T ss_pred HHhHHhHHHHHhhhhHHHHHHhhhhhhhhhhHHHHHHhhcccC-----------cCcCchhhheeeeeeccCcchhhccc
Confidence 6899999999999999999999999999999999999987764 45678899999999999999987765
Q ss_pred CC-CCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCC
Q psy7582 84 SP-SPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPG 162 (661)
Q Consensus 84 ~~-~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~G 162 (661)
.. ..++|+|||+|++||+||++|++.++..+. ......|.+|++|+|++|++|+|++.++.++.+.+|||.|||
T Consensus 113 ~~~~~i~p~ecrlrd~tysa~i~vdieytrg~~-----~~~~~~v~igrmpimlrs~rcvl~~~~e~~~a~~~ecpldpg 187 (1153)
T KOG0215|consen 113 VTNDNITPHECRLRDMTYSAPIYVDIEYTRGRQ-----IIAKRDVIIGRMPIMLRSSKCVLRGKDEEELARLNECPLDPG 187 (1153)
T ss_pred cccccCCchheeehhhhcccceeEEEEEecCcc-----eEEecccccccchhhhhccccccCCccHHHHHHhccCCCCCC
Confidence 44 589999999999999999999999875321 234578999999999999999999999999999999999999
Q ss_pred ceEEEcCeeeEEEeeeeeecCeEEEEEecCCceeEEEEEEEe-ecCCCcCcceEEEEEEecCCccccccccccEEEEEec
Q psy7582 163 GYFIINGSEKVLIAQEKMATNTVYVFSMKDSKYAYKTEIRSC-LEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILP 241 (661)
Q Consensus 163 GYFIInG~EkVii~q~~~~~n~i~~~~~~~~~~~~~~~irs~-~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~ 241 (661)
||||++|.||||+.|++.+.|++.+...+.+...+.+ -|. .+.++ ++ .+++ ++ +.++++++
T Consensus 188 gyfiv~G~ekViLiqeqlsknrii~~~~k~~~~~~sv--tsst~e~ks---kt---~v~~------k~----~k~ylk~~ 249 (1153)
T KOG0215|consen 188 GYFIVKGTEKVILIQEQLSKNRIIVEEDKKGNLQASV--TSSTHERKS---KT---YVTT------KK----GKYYLKHN 249 (1153)
T ss_pred ceeEeccceeEEEehhhhhccCeeeccccCCcccccc--ccceeeecc---eE---EEEe------cc----ceeeeehh
Confidence 9999999999999999999999999755555443322 222 22221 11 1221 11 25778888
Q ss_pred ccccccchhhHHHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhh--hhccCHHHHHHHHHhcCCCCCCChhhhHHHH
Q psy7582 242 YIKQEIPIMIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEA--FVIQEQNVALNFIGARGARPGVTKERRIKYA 319 (661)
Q Consensus 242 ~~~~~IP~~illkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~--~~~~t~~~al~yig~~~~~~~~~~~~~~~~~ 319 (661)
....+||++++|||+|..+|+||.+.++ .+.++.+.+.+++++. ..++||.+||+|++.+.....-++....+.|
T Consensus 250 ~~~d~ipiviv~ka~g~~sd~ei~~~vg---~~~~y~~~~~~s~ee~~~~~v~tqqqal~y~~~kvk~~~~t~~~~~~e~ 326 (1153)
T KOG0215|consen 250 SFTDDIPIVIVLKAMGLESDQEIVQLVG---GDSKYQDIFAPSLEECVSLGVYTQQQALEYIGSKVKVKRGTTPTKDEEA 326 (1153)
T ss_pred hhhccCCEEEEEeeccccchHHHHHHhh---cchHHHHhhccchhhhhhhhhHHHHHHHHHhhheEEeccCCCCCchHHH
Confidence 8888999999999999999999999998 4777888888888886 5789999999999998432111223356789
Q ss_pred HHHHHhccCCCCccCCccchhHHHHHHHHHHHHHhhccCCcCCCChHHH----HH----------------------HHH
Q psy7582 320 REILQKEMLPHVGVSDFCETKKAYFLGYMVHRLLLASLGRRELDDRDHY----VR----------------------MYA 373 (661)
Q Consensus 320 ~~~l~~~~l~Hig~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~----~k----------------------~~~ 373 (661)
.++|...+++|+.+...+...|+.+++.|+|+++.+..+....||+|.+ +. ...
T Consensus 327 ~~~l~~~~lahv~v~~~~~r~K~~yi~~m~rr~~~a~l~~~~~ddrd~~gnkrlelagqllsllfeD~fk~~n~e~k~~~ 406 (1153)
T KOG0215|consen 327 LEVLSTTVLAHVPVPDLNFRMKAIYIGLMVRRVIQAMLNKLAMDDRDYVGNKRLELAGQLLSLLFEDLFKRFNSELKKNI 406 (1153)
T ss_pred HHHHHhhheeceeccCCCCcceeehHHHHHHHHHHHHhCcccccchhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999988888899999999999999999999999999998 11 111
Q ss_pred HHHHh---hCCCCchHHHh--hhhccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCCCCCCCCC
Q psy7582 374 QKFID---RGKDFNLELAI--KTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNSPIGRDGK 448 (661)
Q Consensus 374 ~~~~~---~~~~~~~~~~i--~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~~~~~~~k 448 (661)
++.+. +...+|+.+.+ +.+.||+++.+++||||| ++++|.|.+.|++||+.|++|.+.|.++.|++++|.+++|
T Consensus 407 dk~l~k~~ra~~fD~~~~~n~~~~~it~~l~ra~stgnw-~iKrfrmer~gvt~VlsrlSyisaLgmmtri~s~fektrk 485 (1153)
T KOG0215|consen 407 DKILKKPIRAQEFDALKHLNVRANMITSGLERAISTGNW-SIKRFRMERAGVTQVLSRLSYISALGMMTRINSQFEKTRK 485 (1153)
T ss_pred HHHhcchhhhhhhHHHHHHHHHHHHHHHHHHHHhhcCch-HHHHhhhhhccceeeehhhhhhhhhhhheehhhhheeehh
Confidence 11121 23345655555 567899999999999999 8999999999999999999999999999999999999999
Q ss_pred CCCccccCCCcccccccCCCCCCcccccccccccceEEeecCCCchHHHHhhhhccccccccCccccc--cccccccCCe
Q psy7582 449 LAKPRQLHNTLWGMICPAETPEGAAVGLVKNLALMAYISVGSQPSPILEFLEEWSMENLEEIAPSAIA--DATKIFVNGC 526 (661)
Q Consensus 449 ~~~~R~Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs~~~~~~~i~~~l~~~g~~~~~~~~~~~~~--~~~~V~lnG~ 526 (661)
..+||.|+|||||.+||+|||||+.|||+||||++++|++...+.|+...+..+|++.+..++..+.+ +.+.|||||.
T Consensus 486 vsgprSlq~sqwgmlcp~dtpegeacglvknlalmthittd~ee~pi~~~~~k~gv~di~~v~~~e~~~~~~~~v~Lng~ 565 (1153)
T KOG0215|consen 486 VSGPRSLQPSQWGMLCPSDTPEGEACGLVKNLALMTHITTDSEEKPILKLCYKLGVEDIHVVSGRELHTPDSFLVFLNGL 565 (1153)
T ss_pred ccCccccChhhcccccCCCCCCccccccccchHHHhcccCCCCcchhHHHHHHhcceeeeeecccccCCCceEEEEecce
Confidence 99999999999999999999999999999999999999999999999999999999998777777664 5588999999
Q ss_pred EEEeeCChhhHHHHHHHHhhcCCcccceEEEEecCcCCceEEecCCCcccceeEEeeCCcccccHHHHHHhhhcccCCcC
Q psy7582 527 WVGIHRDPEQLMGTLRKLRRQMDIIVSEVSIIRDIRDREIRIHTDAGRICRPLLIAENGSLLLKKRHIDNLKERDYNNYG 606 (661)
Q Consensus 527 ~iG~~~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~~~~~i~i~s~~gRl~RP~l~~~~~~~~~~~~~~~~l~~~~~~~~~ 606 (661)
++|.+..|+.++..+|.+||. |.+..+|+++.+.....++|-||+||+|||+++++++.+.+++.|++.+.++. -+
T Consensus 566 iig~~~~~~~~v~~~r~lrr~-G~i~~fvsv~~~~~q~~v~i~sdggr~crp~Iiv~~~~~~v~~~h~~el~~g~---r~ 641 (1153)
T KOG0215|consen 566 IIGITRRPQYFVNSFRRLRRK-GKIGEFVSVFTNTTQRCVYIASDGGRVCRPLIIVDNGRPRVKQHHMDELLDGK---RT 641 (1153)
T ss_pred eeccccchHHHHHHHHHHHHc-CcccceeeeeeeeeeEEEEEecCCCeEeeeEEEEeCCcchhhhhhHHHHHHhh---hh
Confidence 999999999999999999999 99999999998888899999999999999999999999999999988876542 24
Q ss_pred ceEEeecceeeeecccchhhhhhhhhhh
Q psy7582 607 WQVLVQSGVVEYIDTLEEETTMIAMWQV 634 (661)
Q Consensus 607 ~~~ll~kg~Ie~ld~~E~~~~~ia~~~~ 634 (661)
|++++..|+|||+|.+|++++.||..++
T Consensus 642 F~DFl~~glvEYLDVNEEND~~Ialye~ 669 (1153)
T KOG0215|consen 642 FDDFLKDGLIEYLDVNEENDSLIALYEE 669 (1153)
T ss_pred HHHHHHhchhheeecccccCceEEechh
Confidence 4455555555555555555544444443
No 6
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=100.00 E-value=7.5e-97 Score=844.93 Aligned_cols=556 Identities=30% Similarity=0.450 Sum_probs=450.8
Q ss_pred ccchhhhhhcccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCC
Q psy7582 3 QEACWIVINAYFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKD 82 (661)
Q Consensus 3 ~~~~~~~i~~~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~ 82 (661)
..+.|.+++++|+.++|+++|++|||+|+.+||++++++..||+- .+.++.|+|.+++++.|
T Consensus 11 ~r~~~~~i~~~~~~p~Lv~~QldSyn~ff~~gLq~i~~~i~PI~~------------~~~~~~Lef~~~~l~~p------ 72 (1060)
T COG0085 11 IRDSFGKIPEFLDLPNLVEIQLDSYNAFFLEGLQEVFREIFPIES------------YNGNTELEYGSYRLGEP------ 72 (1060)
T ss_pred cccchhhcccccCCccHHHHHHHHHHHHHHHHHHHHHHhcCceec------------CCCCEEEEEEEEEecCC------
Confidence 457999999999999999999999999999999999999999852 35689999999999998
Q ss_pred CCCCCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCC
Q psy7582 83 GSPSPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPG 162 (661)
Q Consensus 83 ~~~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~G 162 (661)
.+++|.|||+|++||+|||+|++++..+..++. .+.++|++|+||+|+ .|
T Consensus 73 ---~k~~p~EcR~R~lTYsapLyv~lrlv~~~~~e~---~k~~eV~iG~iPlMt------------------------~g 122 (1060)
T COG0085 73 ---PKFYPEECRLRGLTYSAPLYVKLRLVVNETGEE---IKEQEVYMGDIPLMT------------------------RG 122 (1060)
T ss_pred ---CCCCHHHHHhcCCccccceEEEEEEEECCcccc---cccceEEeccCcEec------------------------CC
Confidence 246999999999999999999999987544331 456899999999999 49
Q ss_pred ceEEEcCeeeEEEeeeeeecCeEEEEEec-CC-ceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEe
Q psy7582 163 GYFIINGSEKVLIAQEKMATNTVYVFSMK-DS-KYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAIL 240 (661)
Q Consensus 163 GYFIInG~EkVii~q~~~~~n~i~~~~~~-~~-~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~ 240 (661)
|||||||+||||++|+++|||+++..+.. ++ ++.+.+.+ .|.++.|+.+..+ .++ .+++++
T Consensus 123 GyFIINGsERVIVsQ~~rSPgvif~~~~~k~~~~~~~~a~v--------Ip~rG~wl~~e~d-----~~d----~~~~rI 185 (1060)
T COG0085 123 GYFIINGTERVIVSQEHRSPGVIFVEKKDKTGSKVLYVARV--------IPYRGSWLEFEFD-----PKD----NLYVRI 185 (1060)
T ss_pred cEEEECCeEEEEEEEeecCCCeEEecccccCCcceEEEEEE--------ecCCcceEEEEEc-----cCc----cEEEEe
Confidence 99999999999999999999966655432 23 33555543 3446778776643 122 234444
Q ss_pred cccccccchhhHHHHcCCCChHHHHHHhccC----CCChHHHHhhhhhhhhh--hhccCHHHHHHHHHhcCCCCCC--Ch
Q psy7582 241 PYIKQEIPIMIVFRALGFVADRDILEHIIYD----FDDPEMMEMVKPSLDEA--FVIQEQNVALNFIGARGARPGV--TK 312 (661)
Q Consensus 241 ~~~~~~IP~~illkALg~~sd~eI~~~i~~~----~~~~~~~~~l~~~~~~~--~~~~t~~~al~yig~~~~~~~~--~~ 312 (661)
... .+||+++||||||++||+||++.++.+ .......+.+....++. ..+.. ..|++||++++..... ..
T Consensus 186 d~~-rkiPvtilLRALG~~tDeeI~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~i~~-~~a~~~i~~r~~~~~~~~~~ 263 (1060)
T COG0085 186 DRK-RKIPVTILLRALGLETDEEIIEAFGGDELTDLVPPEGEEALLEIYEEAKGEKITA-RNALELIGSRVFVVKRYDAK 263 (1060)
T ss_pred eeE-EEeeHHHHHHHhCCCcHHHHHHHhcccccccccchHHHHHhHHHHhhccCCCcch-HHHHHHHhcccccccccccc
Confidence 332 389999999999999999999999852 21233334444444543 22333 3499999999653222 35
Q ss_pred hhhHHHHHHHHHhccCCCCcc----CCccchhHHHHHHHHHHHHHhhccCCcCCCChHHH----HHHHHHHHHh------
Q psy7582 313 ERRIKYAREILQKEMLPHVGV----SDFCETKKAYFLGYMVHRLLLASLGRRELDDRDHY----VRMYAQKFID------ 378 (661)
Q Consensus 313 ~~~~~~~~~~l~~~~l~Hig~----~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~----~k~~~~~~~~------ 378 (661)
+.+.+.++.++.+++|||++. .+.....|+.+|+.|+++|+.+..|.+.+||+||| +|.+++...+
T Consensus 264 ~gR~k~~~~vl~~~~L~hL~~~~~~~~l~~~~k~~di~~mi~~l~~L~~G~~~~DDiDHlGNKRlrlvGeLl~n~fR~gl 343 (1060)
T COG0085 264 EGRYKRAKYVLDKELLPHLGEAGERYDLSRVGKAKDIIAMIKYLIELRLGKGEEDDIDHLGNRRLRLVGELLENLFRVGL 343 (1060)
T ss_pred hhhhhhhhhhhhhhHHhhhcccccccchhhhHHHHHHHHHHHHHHHHhcCCCCCCCCccccccchhhHHHHHHHHHHHHH
Confidence 567889999999999999984 22233458889999999999999999999999999 5555443321
Q ss_pred ---------hCCCCch-HHHhhhhccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCC-CCCCCC
Q psy7582 379 ---------RGKDFNL-ELAIKTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNS-PIGRDG 447 (661)
Q Consensus 379 ---------~~~~~~~-~~~i~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~-~~~~~~ 447 (661)
+....+. ..++.++.||.++.+|++|||| .++|+||+|||+||+|+|||+|||++ ++.+++
T Consensus 344 ~rmer~ikerm~~~~~r~~i~p~dlIn~k~~~Alitgff--------g~sqlSQfmDqtNpLSeLSHkRRIsAlgLsRer 415 (1060)
T COG0085 344 SRMERDVKERLEKADKRDTLVPQDLINAKPIHALITGFF--------GRSQLSQFMDQTNPLSELSHKRRLSALGLSRER 415 (1060)
T ss_pred HHHHHHHHHHHhhhhhhhccCchhhcchhHHHHHHhccc--------cccceeeeeecCChHHhhhhhhceeccCcCccC
Confidence 2122222 3334567899999999999999 49999999999999999999999999 999999
Q ss_pred CCCCccccCCCcccccccCCCCCCcccccccccccceEEe-ecCCCchHHHHhhh-hccccccccCccccccccccccCC
Q psy7582 448 KLAKPRQLHNTLWGMICPAETPEGAAVGLVKNLALMAYIS-VGSQPSPILEFLEE-WSMENLEEIAPSAIADATKIFVNG 525 (661)
Q Consensus 448 k~~~~R~Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs-~~~~~~~i~~~l~~-~g~~~~~~~~~~~~~~~~~V~lnG 525 (661)
+.++||+||||||||+||+|||||+|||||||||++|+|+ .+++++|+.+++.. +|+.++.++++.+ ..+++||
T Consensus 416 a~fEvRDvHpTHyGRiCPiETPEGpNiGLI~sLA~~A~Vn~~Gf~etPy~kv~~g~~~v~~i~~l~~~~----~~~~~~~ 491 (1060)
T COG0085 416 AGFEVRDVHPTHYGRICPIETPEGPNIGLIKSLALYARINEYGFLETPYRKVLDGSLVVDEIEYLSADE----EDVYVIG 491 (1060)
T ss_pred CCCcccccCcccccccCCCCCCCCcchhHHHHHHHHeEecccCCCCCceEEEEeccccccceeeecccc----cceEEEe
Confidence 9999999999999999999999999999999999999999 99999999999985 9999998887754 7799999
Q ss_pred eEEEeeCChhhHHHHHHHHhhcCCcccceEEEEecCcC----CceEEecCCCcccceeEEeeCCcccccHHHHHHhhhcc
Q psy7582 526 CWVGIHRDPEQLMGTLRKLRRQMDIIVSEVSIIRDIRD----REIRIHTDAGRICRPLLIAENGSLLLKKRHIDNLKERD 601 (661)
Q Consensus 526 ~~iG~~~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~~~----~~i~i~s~~gRl~RP~l~~~~~~~~~~~~~~~~l~~~~ 601 (661)
.++|.++++..|++.+|.+|| + ++.+++++..... -++++.++.||.+|||++++|+++.|+.+|++.+..+
T Consensus 492 ~~~~~~~~~~~~~~~~~~~R~--~-~~~~~~~~~~~~~~~~dv~~~~~~~~~~~~~P~l~~dd~~~~l~~~~mqr~~~~- 567 (1060)
T COG0085 492 QANGTLDEPGELVEELVECRR--G-GSGEVSVADPEGVDYMDVSPKQVVSVGRSLIPFLEHDDANRALMGSNMQRQAVP- 567 (1060)
T ss_pred EeeeeecCCCceeeeEEEEee--c-ccccceeecCccccceeccceEEeccccccCceeEEcCchHhhhhhhhhhhccc-
Confidence 999999999999999998877 4 5667777654433 3889999999999999999999999999998876443
Q ss_pred cCCcCceEEeecceeeeecccchhhhhhhhhhhhhccchhhccccce
Q psy7582 602 YNNYGWQVLVQSGVVEYIDTLEEETTMIAMWQVLVQSGVVEYIDTLE 648 (661)
Q Consensus 602 ~~~~~~~~ll~kg~Ie~ld~~E~~~~~ia~~~~~l~~g~~e~~d~eE 648 (661)
...+|.+++..| +||+++.|++++.+|.++ |.++|+|+.+
T Consensus 568 -l~~~~~~lv~tG-~E~~~a~e~~~~~ia~~~-----~~~~~ve~~~ 607 (1060)
T COG0085 568 -LLRTEAPLVGTG-MEYLDAEDSGAAVIAKRP-----GVVTHVEISP 607 (1060)
T ss_pred -ccccccccccCC-ceeeccccccceeEeccC-----CcEEEEeeee
Confidence 135889999989 999999888888888776 4478888765
No 7
>CHL00001 rpoB RNA polymerase beta subunit
Probab=100.00 E-value=4.4e-79 Score=716.18 Aligned_cols=480 Identities=25% Similarity=0.324 Sum_probs=367.7
Q ss_pred cCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCCCCCCCCChHHH
Q psy7582 14 FDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKDGSPSPMMPNEA 93 (661)
Q Consensus 14 f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~l~P~ec 93 (661)
|..++|+++|++||||||++||++++++++||+ +. +....+.+.++++++++|.+ +|+||
T Consensus 10 ~~~P~Lv~~Q~~SF~~Fl~~gL~~i~~~~~pI~-~~---------~~~~~~~~~~~~~~l~~P~~----------~p~ea 69 (1070)
T CHL00001 10 STIPGFNQIQFEGFCRFIDQGLTEELSKFPKIE-DT---------DQEIEFQLFVETYQLVEPLI----------KERDA 69 (1070)
T ss_pred cCCCCHHHHHHHHHHHHHHHhHHHHHHhcCCeE-CC---------CCCEEEEEEeCeEEECCCCC----------CHHHH
Confidence 567999999999999999999999999999996 21 12234666777999999986 99999
Q ss_pred HhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCCceEEEcCeeeE
Q psy7582 94 RLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPGGYFIINGSEKV 173 (661)
Q Consensus 94 R~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~GGYFIInG~EkV 173 (661)
|+|++||+|+++|+++++..++ .....++|++|+||+|. +||||||||+|||
T Consensus 70 r~r~lTYsa~l~v~v~l~~~~~----~~i~~~~V~iG~iPlMt------------------------~gG~FIING~ERV 121 (1070)
T CHL00001 70 VYESLTYSSELYVPAGLIWKKS----RDMQEQTVFIGNIPLMN------------------------SLGTFIINGIYRV 121 (1070)
T ss_pred HHhCCCCCceeEEEEEEEEcCc----eeEEEeEEEEecCCccC------------------------CCcEEEEcCcEEE
Confidence 9999999999999999864221 12345789999999995 9999999999999
Q ss_pred EEeeeeeecCeEEEEEe-cCCceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEecccccccchhhH
Q psy7582 174 LIAQEKMATNTVYVFSM-KDSKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILPYIKQEIPIMIV 252 (661)
Q Consensus 174 ii~q~~~~~n~i~~~~~-~~~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~~~~~~IP~~il 252 (661)
|++|++++||++|.+.. +.++..|.|+++|.+ +.|+.+..+. + ..++++++.. ++||+++|
T Consensus 122 IVsQ~~rSpg~~~~~~~~~~~~~~y~a~iis~r--------gswl~~e~d~-----~----~~i~vri~~~-~kiPi~il 183 (1070)
T CHL00001 122 VINQILRSPGIYYRSELDHNGISVYTGTIISDW--------GGRLELEIDR-----K----ARIWARVSRK-QKISILVL 183 (1070)
T ss_pred EEEEEeccCCEEEEEecCCCCceeEEEEEEecC--------CCceEEEEec-----C----CeEEEEecCC-CcccHHHH
Confidence 99999999997777653 335557888887643 3466665432 1 2588999886 69999999
Q ss_pred HHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhh--hhccCHHHHHHHHHhcCC-CCCCChhhhHHHHHHHHHhccCC
Q psy7582 253 FRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEA--FVIQEQNVALNFIGARGA-RPGVTKERRIKYAREILQKEMLP 329 (661)
Q Consensus 253 lkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~--~~~~t~~~al~yig~~~~-~~~~~~~~~~~~~~~~l~~~~l~ 329 (661)
|||||+ +|+||++.+++. +.+..++.+. ..+.++++||.||+++.. +++ .....+.|+++|.+.+|+
T Consensus 184 LrALG~-sd~eIl~~~~~~-------~~l~~~l~~~~~~~~~t~e~Al~~i~~~l~~r~~--~~~~~~~a~~~l~~~ff~ 253 (1070)
T CHL00001 184 LSAMGL-NLREILDNVCYP-------EIFLSFLNDKEKKKIGSKENAILEFYQQFACVGG--DPVFSESLCKELQKKFFQ 253 (1070)
T ss_pred HHHcCC-CHHHHHHHhCcH-------HHHHHHHHHHhhccccCHHHHHHHHHHhhccCCC--CcchHHHHHHHHHHHhcc
Confidence 999999 699999999732 2233344332 247889999999999852 122 223456788888776666
Q ss_pred C------CccCCccch------hHHHHH-----HHHHHHHHhhccCCcCCCChHHH----HHHHHHHHHh----------
Q psy7582 330 H------VGVSDFCET------KKAYFL-----GYMVHRLLLASLGRRELDDRDHY----VRMYAQKFID---------- 378 (661)
Q Consensus 330 H------ig~~~~~~~------~K~~~L-----~~Mi~kLl~~~~g~~~~Dd~D~~----~k~~~~~~~~---------- 378 (661)
| +|+.+.|.. .|..+| ++|+++|+.+..|....||+||| ++.+++...+
T Consensus 254 ~rY~Lg~vGr~~~n~kl~~~~~~~~~~L~~~Di~~~i~~Ll~l~~G~~~~DDiDhLgNKRvr~vGeLL~~qfr~~l~r~~ 333 (1070)
T CHL00001 254 QRCELGRIGRRNMNRKLNLDIPENNTFLLPQDVLAAADYLIGMKFGMGTLDDIDHLKNKRIRSVADLLQDQFGLALNRLE 333 (1070)
T ss_pred ccccccccCchhhhhhhcccccccceEecHHHHHHHHHHHHHhhcCCCCccchhHHhccccchHHHHHHHHHHHHHHHHH
Confidence 6 998766542 456666 89999999999999999999999 4433332211
Q ss_pred ------------hCCCCchHHHhhhhccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCC--CCC
Q psy7582 379 ------------RGKDFNLELAIKTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNS--PIG 444 (661)
Q Consensus 379 ------------~~~~~~~~~~i~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~--~~~ 444 (661)
+...+++..+++.+.||.++++||+ ++|+||+|||+||||+|||+||+++ |++
T Consensus 334 r~ik~~m~~~~~~~~~~~~~~lin~~~It~~ik~ff~-------------ts~LSQflDqtNpLseltHkRRlsslGpgg 400 (1070)
T CHL00001 334 NAVRGTICGAIRRKLIPTPQNLVTSTPLTTTYESFFG-------------SHPLSQFLDQTNPLTEIVHGRKLSSLGPGG 400 (1070)
T ss_pred HHHHHHHHHHhcccccCCHHHhhCcchHHHHHHhhhc-------------CCcceeeeccCCHHHhhhhhhcccccCCCC
Confidence 1122345555666666766766654 4899999999999999999999999 999
Q ss_pred CCCCCC--CccccCCCcccccccCCCCCCcccccccccccceEEe-ecCCCchHHHHhhhhccccccccCcccccccccc
Q psy7582 445 RDGKLA--KPRQLHNTLWGMICPAETPEGAAVGLVKNLALMAYIS-VGSQPSPILEFLEEWSMENLEEIAPSAIADATKI 521 (661)
Q Consensus 445 ~~~k~~--~~R~Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs-~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V 521 (661)
.+++.+ +||+|||||||||||+|||||++||||++||++|+|+ .|+.++|+++++...+...+.++++.+ ...+.|
T Consensus 401 lsr~~a~fevRdvHpShyGRICPIETPEG~NiGLI~sLA~~A~In~~GfietP~~~v~~~~~~~~i~ylsa~e-e~~~~I 479 (1070)
T CHL00001 401 LTGRTASFRVRDIHPSHYGRICPIDTSEGINAGLIGSLAIHARIGHWGSLESPFYEISERSKEERMVYLSPSE-DEYYMI 479 (1070)
T ss_pred ccccccCCcccccCccccccccCCCCCCcccccchhhhhhhcccccCCCcccceeeeccccccceeEEccccc-cCceEE
Confidence 888877 8999999999999999999999999999999999999 889999999999888888888888765 455777
Q ss_pred ccCCeEEEeeCCh--hhHHHHHHHHhhcCCcccceEEEEecC-cC---CceEEecCCCcccceeEEeeCCcccccHHH
Q psy7582 522 FVNGCWVGIHRDP--EQLMGTLRKLRRQMDIIVSEVSIIRDI-RD---REIRIHTDAGRICRPLLIAENGSLLLKKRH 593 (661)
Q Consensus 522 ~lnG~~iG~~~~~--~~~~~~lr~~rr~~~~i~~~v~~~~~~-~~---~~i~i~s~~gRl~RP~l~~~~~~~~~~~~~ 593 (661)
+ ||.|+|...+. ..++. .|.+ + .++.+.++. .+ ...+|+|.++.|+ |+++|+|+...+....
T Consensus 480 a-~g~~~~~~~~~~~~~~~~----~r~~-~---e~~~i~~~~i~~~dIsP~qi~svaasLI-PFleHndanRalmgsn 547 (1070)
T CHL00001 480 A-AGNSLALNQGIQEEQVVP----ARYR-Q---EFLTIAWEQIHLRSIFPFQYFSIGASLI-PFLEHNDANRALMGSN 547 (1070)
T ss_pred E-eCceeeccCCccccceeE----EEec-C---eEEEEchHHCcEEeeChhhhhhhhhhcC-CCccccCcchhhhhhc
Confidence 7 99999965432 11111 1222 2 234443332 22 3448999999999 9999999765554443
No 8
>TIGR02013 rpoB DNA-directed RNA polymerase, beta subunit. This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit.
Probab=100.00 E-value=1.2e-77 Score=707.75 Aligned_cols=515 Identities=23% Similarity=0.352 Sum_probs=370.4
Q ss_pred hhhhhhcccCccchhHHHHHHHHHHHH----------hchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcC
Q psy7582 6 CWIVINAYFDEKGLVRQQLDSFDEFIQ----------MSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSK 75 (661)
Q Consensus 6 ~~~~i~~~f~~~~l~~~qi~SFn~Fi~----------~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~ 75 (661)
.|..++.||+.++|++||++|||+||+ +||++++++.+||+.. +.++.|+|.++++++
T Consensus 7 ~~~~~~~~~~~p~Lv~~Qi~SFn~FL~~~~~~~~~~~~gL~eii~~~~pI~~~------------~~~~~l~f~~~~l~~ 74 (1065)
T TIGR02013 7 DFGKIPEVLEVPNLLEIQLDSYDWFLQQDTPPEKRKEEGLEEVFKSIFPIEDY------------TGNIELEYLSYRLGE 74 (1065)
T ss_pred ecccCcccccCCCHHHHHHHHHHHHHcCCCcccccccccHHHHHhccCcEEec------------CCcEEEEEEEEEeCC
Confidence 489999999999999999999999999 8999999999999642 457999999999999
Q ss_pred CcccCCCCCCCCCChHHHHhcCCCccceEEEEEEEEEEcC-CCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhc
Q psy7582 76 PTHWEKDGSPSPMMPNEARLRNLTYSAPLYVDITKTVVRQ-GEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTEL 154 (661)
Q Consensus 76 P~~~~~~~~~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~-~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~ 154 (661)
|.+ +|+|||+|++||+|||+|+++++.... +. .....++|++|+||+|+
T Consensus 75 P~~----------~p~Ear~r~lTYsa~l~v~v~l~~~~~~~~--~~i~~~~V~iG~iPiMt------------------ 124 (1065)
T TIGR02013 75 PKY----------SVEECKERGLTYSAPLKVKLRLINKEEDGT--KEIKEQDVYMGDIPLMT------------------ 124 (1065)
T ss_pred CCC----------CHHHHHHhCCCcceeEEEEEEEEEeccCCc--cceeeeeEEEeCCCccC------------------
Confidence 986 899999999999999999999874321 11 12345799999999997
Q ss_pred CCCCCCCCceEEEcCeeeEEEeeeeeecCeEEEEEe---cCCceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccc
Q psy7582 155 NECPLDPGGYFIINGSEKVLIAQEKMATNTVYVFSM---KDSKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSA 231 (661)
Q Consensus 155 ~E~~~d~GGYFIInG~EkVii~q~~~~~n~i~~~~~---~~~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~ 231 (661)
.||||||||+||||++|+++|||++|.+.. ++++..+.|+++|. ++.|+.+..+. +
T Consensus 125 ------~gGyFIINGsERVIV~Qe~rspg~~~~~~~~~~~~~~~~~~a~iis~--------rgswl~~e~~~-----~-- 183 (1065)
T TIGR02013 125 ------DRGTFIINGAERVVVSQLHRSPGVFFSSEKDTHKSGKVLFSARIIPY--------RGSWLEFETDK-----K-- 183 (1065)
T ss_pred ------CCceEEECCcEEEEEEEeecCCCEEEEEccccCCCCceEEEEEEEeC--------CCCceEEEEec-----C--
Confidence 599999999999999999999998887764 33444677888764 24576665321 1
Q ss_pred cccEEEEEecccccccchhhHHHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhhhhccCHHHHHHHHHhcCCCCCCC
Q psy7582 232 IGQRIIAILPYIKQEIPIMIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEAFVIQEQNVALNFIGARGARPGVT 311 (661)
Q Consensus 232 ~~~~i~~~~~~~~~~IP~~illkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~~~al~yig~~~~~~~~~ 311 (661)
..++++++..+ +||+++||||||+++|+||++.++. ++.+.+.+ ++. ...++++||.|||++. +++..
T Consensus 184 --~~i~v~i~~~~-kIPi~illrALG~~sd~eI~~~i~~---~~~i~~~l----~~~-~~~~~e~Al~~i~~~~-~~g~~ 251 (1065)
T TIGR02013 184 --DVLYVRIDRKR-KLPATVLLRALGYTIDTLILNRLGS---GEYIRNTL----RKD-PTNSEEEALVEIYRKL-RPGEP 251 (1065)
T ss_pred --CeEEEEecCCC-ceeHHHHHHHcCCCcchhhhhhcCc---hHHHHHHH----Hhc-cccCHHHHHHHHHhhc-CCCCc
Confidence 25899999875 9999999999999999999999873 34444433 322 3678999999999985 33322
Q ss_pred hhhhHHHHHHHHHhccCC-------CCccCCccc------------hhHHHHHHHHHHHHHhhccCCcCCCChHHH----
Q psy7582 312 KERRIKYAREILQKEMLP-------HVGVSDFCE------------TKKAYFLGYMVHRLLLASLGRRELDDRDHY---- 368 (661)
Q Consensus 312 ~~~~~~~~~~~l~~~~l~-------Hig~~~~~~------------~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~---- 368 (661)
...+.|+++|.+++|| |+|+.+.|. ..|++||+ |+++|+.+..|...+||+|||
T Consensus 252 --~~~~~a~~~l~~~f~~~~rY~LghiGr~kln~Kl~~~~~~~~~~l~k~d~l~-mi~~Ll~~~~g~~~~DD~Dhl~NKR 328 (1065)
T TIGR02013 252 --PTVEAARSLLENLFFDPKRYDLGRVGRYKLNKKLGLDVPEDIGVLTKEDIIA-TIKYLIKLRNGKGEIDDIDHLGNRR 328 (1065)
T ss_pred --chHHHHHHHHHHHhcCcccccccccchhhhhhhcCcCcCcccceehHHHHHH-HHHHHHHhhcCCCCCcchhhhhccc
Confidence 2356788888876655 999632211 24899997 999999999999999999999
Q ss_pred HHHHHHHHHh---------------h-----CCCCchHHHhhhhccccchhhhcccCcchhhhccccccccceEEecccc
Q psy7582 369 VRMYAQKFID---------------R-----GKDFNLELAIKTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLT 428 (661)
Q Consensus 369 ~k~~~~~~~~---------------~-----~~~~~~~~~i~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N 428 (661)
++.+++.... + ...++...+++.+.+|.++++||+|| ||||+|||+|
T Consensus 329 vr~aGeLL~~~fr~~l~rl~k~ik~~l~~~~~~~~~~~~~i~~~~it~~i~~ff~tg-------------glSQ~Ldr~N 395 (1065)
T TIGR02013 329 IRSVGELLQNQFRVGLARMERIVRERMSTQDTDTLTPQDLINAKPISAAIKEFFGSS-------------QLSQFMDQTN 395 (1065)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCHHHhcCccchHHHHHHHhccC-------------CcccccccCC
Confidence 4443332211 1 11223344556666677777776665 9999999999
Q ss_pred hhhhhhhccccCC----CCCCCCCCCCccccCCCcccccccCCCCCCcccccccccccceEEe-ecCCCchHHHHhhhh-
Q psy7582 429 FASSLSHLRRVNS----PIGRDGKLAKPRQLHNTLWGMICPAETPEGAAVGLVKNLALMAYIS-VGSQPSPILEFLEEW- 502 (661)
Q Consensus 429 ~l~~lSh~Rrv~~----~~~~~~k~~~~R~Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs-~~~~~~~i~~~l~~~- 502 (661)
|+|+|||+||+++ ++.++++.++||+|||||||||||+|||||++||||+|||++|+|+ .|+...|++.+....
T Consensus 396 pLs~lsh~RRlsslgpggl~r~~~~~~~RdlHpShyGrICPiETPEG~n~GLVknLA~~a~i~~~G~i~~P~~~V~ng~~ 475 (1065)
T TIGR02013 396 PLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEYGFIETPYRKVKDGKV 475 (1065)
T ss_pred HHHhhhhhceecccCCCCcCccccCCccCccCccccccccCCCCCCCCccccccchhhhcccCcceEEeCCeEEEECCeE
Confidence 9999999999999 4789999999999999999999999999999999999999999999 566677776664322
Q ss_pred -ccccccccCccccccccccccCCeEEEeeCChhhHHHHHHHHhhcCCcccceEEEEecC-cC---CceEEecCCCcccc
Q psy7582 503 -SMENLEEIAPSAIADATKIFVNGCWVGIHRDPEQLMGTLRKLRRQMDIIVSEVSIIRDI-RD---REIRIHTDAGRICR 577 (661)
Q Consensus 503 -g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~-~~---~~i~i~s~~gRl~R 577 (661)
....++++++.+-.+.....-| ..+ .....+....-..|.. +. ++.+.++. .+ ...+|+|.++.|+
T Consensus 476 ~~~~~i~yl~a~eE~~~~Ia~~~-~~l---~~~~~~~~~~i~~r~~-~~---f~~~~~~~vt~~ei~p~~ilsv~aslI- 546 (1065)
T TIGR02013 476 VVTDEVDYLTADEEDNYVIAQAN-APL---DENGRFVEDLVVARYR-GE---ITLVSPDQVDYMDVSPKQVVSVAASLI- 546 (1065)
T ss_pred eccceeEECChHHhCCcEEEecC-cCc---CccCccccceeeEEEc-Cc---eeecChhHeeEEeeChhhhhhhHhhcC-
Confidence 1122344444431111100000 000 0000111111111111 11 11111111 11 3458999999999
Q ss_pred eeEEeeCCcccccHHHHH----------------HhhhcccCCcCceEEee--cceeeeecc
Q psy7582 578 PLLIAENGSLLLKKRHID----------------NLKERDYNNYGWQVLVQ--SGVVEYIDT 621 (661)
Q Consensus 578 P~l~~~~~~~~~~~~~~~----------------~l~~~~~~~~~~~~ll~--kg~Ie~ld~ 621 (661)
|+++|+|+...+.....+ ++ |..++.+++.-++. .|.|.|+|+
T Consensus 547 PFleHNds~R~lmgsnM~kQavpl~~~e~p~VgTg~-E~~v~~ds~~~i~a~~~G~v~~v~~ 607 (1065)
T TIGR02013 547 PFLEHDDANRALMGSNMQRQAVPLLRSEAPLVGTGM-EAKVARDSGAVIVAKRGGVVEYVDA 607 (1065)
T ss_pred CCccccCCcchhhhhhhhhhhhcccccCCCEEEcCc-chhhhccccceeEeccCCEEEEEcc
Confidence 999999975555444321 12 34556667766665 788888876
No 9
>PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed
Probab=100.00 E-value=8.8e-76 Score=695.50 Aligned_cols=402 Identities=27% Similarity=0.402 Sum_probs=314.0
Q ss_pred hhhhhcccCccchhHHHHHHHHHHH-------HhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCccc
Q psy7582 7 WIVINAYFDEKGLVRQQLDSFDEFI-------QMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHW 79 (661)
Q Consensus 7 ~~~i~~~f~~~~l~~~qi~SFn~Fi-------~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~ 79 (661)
+..+..++..++|++||++|||+|| ++||++++++.+||+. .+.++.|+|.++++++|.+
T Consensus 15 ~~~~~~~~~~p~Lv~~Qi~SFn~Fl~~~~~~~~~gL~~ii~~~~pI~~------------~~~~~~l~f~~~~l~~P~~- 81 (1112)
T PRK00405 15 FGKIKEVLELPNLLEIQLDSFDWFLQLDVPPEDEGLEEVFRSIFPIED------------FNGNLSLEFVSYELGEPKY- 81 (1112)
T ss_pred cccccccCCCCCHHHHHHHHHHHHHhcCCcccchhHHHHHHhcCCEEe------------cCCcEEEEEeeeEcCCCCC-
Confidence 4556778889999999999999999 9999999999999964 2467999999999999974
Q ss_pred CCCCCCCCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCC
Q psy7582 80 EKDGSPSPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPL 159 (661)
Q Consensus 80 ~~~~~~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~ 159 (661)
+|+|||+|++||+|||+|+++++...++ ....++|++|+||||+
T Consensus 82 ---------tp~Ear~r~lTYSaplyv~v~l~~~~~~----~i~~~~V~iG~iPiMt----------------------- 125 (1112)
T PRK00405 82 ---------DVEECKERGLTYSAPLRVKLRLINKETG----EIKEQEVYMGDIPLMT----------------------- 125 (1112)
T ss_pred ---------CHHHHHHhCCCCCeeEEEEEEEEEeccC----ceeeeeEEEecccccc-----------------------
Confidence 9999999999999999999999754332 2235799999999997
Q ss_pred CCCceEEEcCeeeEEEeeeeeecCeEEEEEec---CCceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEE
Q psy7582 160 DPGGYFIINGSEKVLIAQEKMATNTVYVFSMK---DSKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRI 236 (661)
Q Consensus 160 d~GGYFIInG~EkVii~q~~~~~n~i~~~~~~---~~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i 236 (661)
+||||||||+||||++|++++||++|.+... .++..|.|+++|. ++.|+.+..+. + ..+
T Consensus 126 -~gGyFIING~ERVIVsQe~rSPg~~~~~~~~k~~~~k~~y~a~Iis~--------rGswl~~e~d~-----k----~~I 187 (1112)
T PRK00405 126 -ENGTFIINGTERVIVSQLHRSPGVYFDHDKDKTSSGKLLYSARIIPY--------RGSWLEFEFDP-----K----DIL 187 (1112)
T ss_pred -CCceEEECCeEEEEEEEeecCCCEEEEEeccccCCCceeEEEEEEEC--------CCCcEEEEEec-----C----CeE
Confidence 8999999999999999999999976666543 2455688888764 25577766432 1 258
Q ss_pred EEEecccccccchhhHHHHcCCCChHHHHHHhccCCCCh-------------------------HHH--------H-hhh
Q psy7582 237 IAILPYIKQEIPIMIVFRALGFVADRDILEHIIYDFDDP-------------------------EMM--------E-MVK 282 (661)
Q Consensus 237 ~~~~~~~~~~IP~~illkALg~~sd~eI~~~i~~~~~~~-------------------------~~~--------~-~l~ 282 (661)
+++++.. ++||+++||||||+ ||+||++.++.+.... ++. + .+.
T Consensus 188 ~vri~~~-~kIPi~iLLrALGl-sd~eIl~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~~~~~~~ 265 (1112)
T PRK00405 188 YVRIDRR-RKLPVTVLLRALGY-SDEEILDLFYEKEEFGKEIEVPVEYLLGKVLAEDIVDEETGEVLAEANDEITEELDG 265 (1112)
T ss_pred EEEecCC-CcccHHHHHHHcCC-CHHHHHHHhcccccccceeccchHHhcccchhhhhcccccceeeeccCCccchhhhh
Confidence 9999965 68999999999999 9999999997432111 000 0 011
Q ss_pred hhhhhh---hhccCHHHHHHHHHhcCCCCCCChhhhHHHHHHHHHh-------ccCCCCccCCcc--------ch----h
Q psy7582 283 PSLDEA---FVIQEQNVALNFIGARGARPGVTKERRIKYAREILQK-------EMLPHVGVSDFC--------ET----K 340 (661)
Q Consensus 283 ~~~~~~---~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~~~l~~-------~~l~Hig~~~~~--------~~----~ 340 (661)
..+.+. ....++++|+.||+++.. ++.. ...+.|+++|.+ |.|||+|+.+.| .. .
T Consensus 266 ~~i~~~l~~~~~~t~e~Al~~I~k~l~-~g~~--~~~e~a~~~l~~~ff~~~rYdL~hiGr~k~nkKl~l~~~~~~~~L~ 342 (1112)
T PRK00405 266 PYIRNTLEKDPTSSREEALVEIYRRLR-PGEP--PTVEAARSLLENLFFDPKRYDLSKVGRYKLNKKLGLDEDEDVRVLT 342 (1112)
T ss_pred HHHHHHHhhccccCHHHHHHHHHhhcC-CCCc--chHHHHHHHHHHHhcCccccccccCCceecchhcccCccccccccc
Confidence 222222 135689999999999853 3322 234668887776 446999986544 11 3
Q ss_pred HHHHHHHHHHHHHhhccCCcCCCChHHH----HHHHHHHHH--------------h------hCCCCchHHHhhhhcccc
Q psy7582 341 KAYFLGYMVHRLLLASLGRRELDDRDHY----VRMYAQKFI--------------D------RGKDFNLELAIKTKIITD 396 (661)
Q Consensus 341 K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~----~k~~~~~~~--------------~------~~~~~~~~~~i~~~~it~ 396 (661)
|+++ ++|+++||.+..|...+||+||| +|.+++... . ....+++..+++.+.||.
T Consensus 343 ~~d~-~~mi~~Ll~l~~g~~~~DDiDhl~NKRvr~aGeLL~~~fr~~~~rl~k~ik~~l~~~~~~~~~~~~lin~~~it~ 421 (1112)
T PRK00405 343 KEDI-IATIKYLINLRNGKGEVDDIDHLGNRRVRSVGELLQNQFRIGLSRMERAVRERMSLQDLDTLTPQDLINAKPVVA 421 (1112)
T ss_pred HHHH-HHHHHHHHhhhcccCCCcchhHHhcchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCHHHhhCchhHHH
Confidence 5555 89999999999999999999999 444333221 0 122344556667777888
Q ss_pred chhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCC----CCCCCCCCCCccccCCCcccccccCCCCCCc
Q psy7582 397 GLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNS----PIGRDGKLAKPRQLHNTLWGMICPAETPEGA 472 (661)
Q Consensus 397 ~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~----~~~~~~k~~~~R~Lhps~wG~iCPveTPEG~ 472 (661)
++++||+|| ||||+|||+||+|+|||+||+++ ++.++++.++||+|||||||||||+|||||+
T Consensus 422 ~i~~ff~tg-------------glSQ~Ldq~NpLselshkRRlss~gpggl~r~~a~~~~R~lH~ShyGriCPiETPEG~ 488 (1112)
T PRK00405 422 AIKEFFGSS-------------QLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGP 488 (1112)
T ss_pred HHHHhhccC-------------CcceeeccCCHHHhhhhhceecccCCCCcCccccCCcccccCccccccccCcCCCCCC
Confidence 888877665 99999999999999999999999 4679999999999999999999999999999
Q ss_pred ccccccccccceEEe-ecCCCch
Q psy7582 473 AVGLVKNLALMAYIS-VGSQPSP 494 (661)
Q Consensus 473 ~cGLv~~La~~a~Vs-~~~~~~~ 494 (661)
+||||+|||++|+|+ .|+.++|
T Consensus 489 n~GLV~nLA~~a~i~~~G~~~tp 511 (1112)
T PRK00405 489 NIGLINSLATYARVNEYGFIETP 511 (1112)
T ss_pred ccccccchhhccccccCCccccc
Confidence 999999999999998 3444333
No 10
>cd00653 RNA_pol_B_RPB2 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.
Probab=100.00 E-value=2.1e-76 Score=693.83 Aligned_cols=354 Identities=48% Similarity=0.729 Sum_probs=286.4
Q ss_pred hhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCCCCCCCCChHHHHhcCC
Q psy7582 19 LVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKDGSPSPMMPNEARLRNL 98 (661)
Q Consensus 19 l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~l~P~ecR~r~~ 98 (661)
|++||++|||+|+++||++++++.+|+++.. .+..+.++|+++++++|.+.++ +..++++|+|||+|++
T Consensus 1 Lv~~qi~SFn~Fl~~gl~~ii~~~~~i~~~~----------~~~~~~l~f~~i~i~~P~~~~~-~~~~~l~P~ecRlr~l 69 (866)
T cd00653 1 LVKQQIDSFNYFLNVGLQEIVKSIPPITDTD----------DDGRLKLKFGDIYLGKPKVEEG-GVTRKLTPNECRLRDL 69 (866)
T ss_pred CchhHHHHHHHHHHHHHHHHHHhcCCeeecc----------CCCeEEEEEEEEEECCcccccc-CccccCCHHHHHhhCC
Confidence 6899999999999999999999999997532 1357899999999999998776 6668899999999999
Q ss_pred CccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCCceEEEcCeeeEEEeee
Q psy7582 99 TYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPGGYFIINGSEKVLIAQE 178 (661)
Q Consensus 99 TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~GGYFIInG~EkVii~q~ 178 (661)
||+|+++|++.++..+.+ ....+++.+|+|||||+|++|||++++++|+++.||||.|+||||||||+||||++|+
T Consensus 70 TYs~~l~v~i~~~~~~~~----~~~~~~v~iG~iPIMv~S~~C~L~~~~~~el~~~~E~p~d~GGYFIInG~EkVIi~qi 145 (866)
T cd00653 70 TYSAPLYVDIRLTVNDKG----KIKEQEVFIGEIPIMLRSKLCNLNGLTPEELIKLGECPLDPGGYFIINGTEKVIINQE 145 (866)
T ss_pred ccceeEEEEEEEEEecce----eEEEEEEEEeeCCcccCcccccccCCCHHHHHhcCCCcccCCCEEEECCceeEEEEEE
Confidence 999999999999764321 1235689999999999999999999999999999999999999999999999999999
Q ss_pred eeecCeEEEEEecCCceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEecccccccchhhHHHHcCC
Q psy7582 179 KMATNTVYVFSMKDSKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILPYIKQEIPIMIVFRALGF 258 (661)
Q Consensus 179 ~~~~n~i~~~~~~~~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~~~~~~IP~~illkALg~ 258 (661)
++++|+++++ ++...+.+ ..+|..... +....|+.+..+.. ...++.+++..+
T Consensus 146 ~~~~N~~~~~-~~~~~~~~--~~~s~~~~~--~~~~s~~~~~~~~~--------~~~i~~~i~~~~-------------- 198 (866)
T cd00653 146 QRSPNVIIVE-DSKGKRIY--TKTSIPSYS--PYRGSWLEVKSDKK--------KDRIYVRIDLKR-------------- 198 (866)
T ss_pred eccCCeEEEe-cCCCcEEE--EEEEccCCC--cCccEEEEEEEccC--------CCeEEEEecccC--------------
Confidence 9999988877 33333333 345443211 12233333221100 012333332211
Q ss_pred CChHHHHHHhccCCCChHHHHhhhhhhhhhhhccCHHHHHHHHHhcCCCCCCChhhhHHHHHHHHHhccCCCCccCCccc
Q psy7582 259 VADRDILEHIIYDFDDPEMMEMVKPSLDEAFVIQEQNVALNFIGARGARPGVTKERRIKYAREILQKEMLPHVGVSDFCE 338 (661)
Q Consensus 259 ~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~~~l~~~~l~Hig~~~~~~ 338 (661)
+++|+.|||+++
T Consensus 199 -----------------------------------~~~al~~ig~~~--------------------------------- 210 (866)
T cd00653 199 -----------------------------------QEEALKYIGKRF--------------------------------- 210 (866)
T ss_pred -----------------------------------HHHHHHHHHHHH---------------------------------
Confidence 678999999862
Q ss_pred hhHHHHHHHHHHHHHhhccCCcCCCChHHH---------------HHHHHHHHH-----------hhCCCCchHHHhhhh
Q psy7582 339 TKKAYFLGYMVHRLLLASLGRRELDDRDHY---------------VRMYAQKFI-----------DRGKDFNLELAIKTK 392 (661)
Q Consensus 339 ~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~---------------~k~~~~~~~-----------~~~~~~~~~~~i~~~ 392 (661)
.+|++|++||+.+..|.+.+||+||| +|..+++.. ++...++...+++.+
T Consensus 211 ----~~L~~Mi~kLl~~~~g~~~~Dd~D~~~NkRv~~~G~Ll~~lfr~~l~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~ 286 (866)
T cd00653 211 ----EDLIYMIRKLILLVLGKGKLDDIDHLGNKRVRLAGELLQNLFRSGLKRLEREVKEKLQKQLSKKKDLTPQLLINSK 286 (866)
T ss_pred ----HHHHHHHHHHHHHhcCCCCCCCchhhhCeEEeeHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccCHHHhccch
Confidence 57999999999999999999999999 222222221 122234455556677
Q ss_pred ccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCC-CCCCCCCCCCccccCCCcccccccCCCCCC
Q psy7582 393 IITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNS-PIGRDGKLAKPRQLHNTLWGMICPAETPEG 471 (661)
Q Consensus 393 ~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~-~~~~~~k~~~~R~Lhps~wG~iCPveTPEG 471 (661)
.||++|++||+||||.+.+. .+|++|+||+|||+||+|++||+||||+ ++++++|+++||+||||||||+||||||||
T Consensus 287 ~It~~i~~~~~TGnw~~~~~-~~~~~Gvsq~ldr~N~ls~lsh~Rrv~~~~~~~~~k~~~~R~lhps~~G~iCPveTPEG 365 (866)
T cd00653 287 PITSGIKEFLATGNWGSKRF-LMQRSGLSQVLDRLNPLSELSHKRRISSLGLFRERKGFEVRDLHPSHWGRICPIETPEG 365 (866)
T ss_pred HHHHHHHHHhhcCCcccccc-ccccceEEEEcccCCHHHHHHhhhhcccccccccccCCcccccCcccCCccCCCCCCCC
Confidence 89999999999999976555 7799999999999999999999999999 999999999999999999999999999999
Q ss_pred cccccccccccceEEe
Q psy7582 472 AAVGLVKNLALMAYIS 487 (661)
Q Consensus 472 ~~cGLv~~La~~a~Vs 487 (661)
++||||||||++|+|+
T Consensus 366 ~~cGLv~~LA~~a~Is 381 (866)
T cd00653 366 ENCGLVKNLALMARIS 381 (866)
T ss_pred ccccchhhhhceEeee
Confidence 9999999999999998
No 11
>CHL00207 rpoB RNA polymerase beta subunit; Provisional
Probab=100.00 E-value=1.2e-69 Score=633.15 Aligned_cols=521 Identities=19% Similarity=0.231 Sum_probs=354.8
Q ss_pred ccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEE--eEEEEcCCcccCCCCCCCCCCh
Q psy7582 13 YFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKF--EQIYLSKPTHWEKDGSPSPMMP 90 (661)
Q Consensus 13 ~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~--~~i~i~~P~~~~~~~~~~~l~P 90 (661)
-|..++|+..|++||+||+++||++++++.+||+. .+..+.++| +++++++|.+ +|
T Consensus 4 ~~~~Pdll~iQ~~SF~~FL~~GL~~~~~~~~pI~~------------~~~~~~l~~~~~~y~l~~P~~----------~~ 61 (1077)
T CHL00207 4 NFALPDFLEIQRTSFCWFLNEGLNEELNIFSKIFD------------YTGNLELLLFGKNYKLKYPKY----------NL 61 (1077)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCeEC------------CCCCEEEEEecceEEEcCCCC----------CH
Confidence 35679999999999999999999999999999953 233455555 4899999985 99
Q ss_pred HHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCCceEEEcCe
Q psy7582 91 NEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPGGYFIINGS 170 (661)
Q Consensus 91 ~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~GGYFIInG~ 170 (661)
.|||+|++||++||+|+++++...+ ...+.++|++|+||+|+ ++|||||||+
T Consensus 62 ~Ea~~r~~TYsa~l~v~~~l~~~~~----~~i~~~~V~lG~iPlMT------------------------~~GtFIING~ 113 (1077)
T CHL00207 62 LSAKSYDSNYSIQIYLPLKFINLKT----NKIKFINYLIGNLPKMT------------------------QRGTFIINGL 113 (1077)
T ss_pred HHHHHhCCccceeEEEEEEEEEcCC----ceEEEEEEEEeccCccC------------------------CCCEEEEcCc
Confidence 9999999999999999999864322 12356799999999997 8999999999
Q ss_pred eeEEEeeeeeecCeEEEEEe--cCCceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEecccccccc
Q psy7582 171 EKVLIAQEKMATNTVYVFSM--KDSKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILPYIKQEIP 248 (661)
Q Consensus 171 EkVii~q~~~~~n~i~~~~~--~~~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~~~~~~IP 248 (661)
||||++|+.++|+ +|+..+ +.++..|.|.|. |.++.|+.+..+. + ..++++++.. +++|
T Consensus 114 ERViVsQl~RSPG-iyf~~~~~k~~~~~y~a~II--------p~rGswl~~e~d~-----k----~~i~vridr~-rKip 174 (1077)
T CHL00207 114 ERVIVSQIIRSPG-IYFKKEIKKNSNKIYSATLI--------PNRGSWIKFELDK-----N----KEIWIRIDKN-RKKP 174 (1077)
T ss_pred eeEEEEEeccCCe-EEEEEecCcCCceEEEEEEE--------cCCCceEEEEEcC-----C----CeEEEEecCC-ceee
Confidence 9999999999988 776544 334446777764 5667899987543 2 2578888864 5899
Q ss_pred hhhHHHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhhhhccCHHHHHHHHHhcCCCCCCChhhhHHHHHHH-----H
Q psy7582 249 IMIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEAFVIQEQNVALNFIGARGARPGVTKERRIKYAREI-----L 323 (661)
Q Consensus 249 ~~illkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~~~-----l 323 (661)
+++||||||+ |++||++.+.+.. +..+ +...+.. ....++++|+.+|+++. +|+.+.. .+.++.+ +
T Consensus 175 it~lLrALGl-s~~eIl~~~~~~~-~~~~---~~~~l~~-~~~~~~e~Al~~Iy~~l-rp~~~~~--~~~a~~~l~~~ff 245 (1077)
T CHL00207 175 LIIFLKALGL-TDQDIYSRLTKSE-FLKK---LKPILLN-SNSYTNEEILLEIYKNL-SPIEPAT--VNDANQNLFSRFF 245 (1077)
T ss_pred HHHHHHHhCC-CHHHHHHHHhccc-hHHH---HHHHHhc-cCcccHHHHHHHHHHhc-CCCCCcc--HHHHHHHHHHHhc
Confidence 9999999999 9999999987311 2222 1222221 23568899999999985 3433321 2334443 3
Q ss_pred --HhccCCCCccCCccc-----------hhHHHHHHHHHHHHHhhccCCcCCCChHHH----HHHHHHHHHh--hCCCCc
Q psy7582 324 --QKEMLPHVGVSDFCE-----------TKKAYFLGYMVHRLLLASLGRRELDDRDHY----VRMYAQKFID--RGKDFN 384 (661)
Q Consensus 324 --~~~~l~Hig~~~~~~-----------~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~----~k~~~~~~~~--~~~~~~ 384 (661)
++|.|+|+|+.+.|. .-++.-+..|+++|+.+..|....||+||| +|.+++..++ +.....
T Consensus 246 ~~~rYdLg~vGR~klN~kl~~~~~~~~~~l~~~Dil~~i~~Li~l~~g~~~~DDiDHL~NRRvrsvGELlq~qfr~gl~r 325 (1077)
T CHL00207 246 DPKNYDLGKVGRYKINNKLNLNIPERVRNLTYEDILSIIDKLINLKINKGNFDDIDHLKNRRVRSVGELLQNQFRIGLKR 325 (1077)
T ss_pred ChhcccccccchhhhhhhccCCcCccCceecHHHHHHHHHHHHHhhcCCCcccchhhhhcccccchhHHHHHHHHHHHHH
Confidence 579999999854332 112333557899999999888889999999 6666665543 222223
Q ss_pred hHHHhhhhcccc-----chhhhcccCc-chhhhccccccccceEEecccchhhhhhhccccCC--CC--CCCCCCCCccc
Q psy7582 385 LELAIKTKIITD-----GLRYSLATGN-WGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNS--PI--GRDGKLAKPRQ 454 (661)
Q Consensus 385 ~~~~i~~~~it~-----~i~~~lsTGn-~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~--~~--~~~~k~~~~R~ 454 (661)
+.+.++...-.. ....++.+-- ...++.|| +++|+||+|||+||||+|||+||+++ |+ .+++..+++|+
T Consensus 326 ler~ike~m~~~~~~~~tp~~lin~k~lt~~ikeFF-gss~LSQfmDQtNpLselTHKRRlsaLGpGGLsR~ra~fevRd 404 (1077)
T CHL00207 326 LERILRNRMTICDIDSLSKFNLINPKPLIALIREFF-GSSQLSQYMDQTNPLSELTHKRRISILGPGGLDKDRISFAVRD 404 (1077)
T ss_pred HHHHHHHHhhhcccccCChhhcccchhHHHHHHHhh-ccCCccceecccChHHhhhccceeeccCCCcccccccCCcccc
Confidence 333333221100 0111111111 12445667 89999999999999999999999999 54 47777788999
Q ss_pred cCCCcccccccCCCCCCcccccccccccceEEe-ecCCCchHHHHhhhhc--cccccccCccccccccccccCCeEEEee
Q psy7582 455 LHNTLWGMICPAETPEGAAVGLVKNLALMAYIS-VGSQPSPILEFLEEWS--MENLEEIAPSAIADATKIFVNGCWVGIH 531 (661)
Q Consensus 455 Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs-~~~~~~~i~~~l~~~g--~~~~~~~~~~~~~~~~~V~lnG~~iG~~ 531 (661)
+||||||||||+|||||++|||+++||.+|+|+ .|+.++|++++..+.. ...+.++++.+ +...++.-+... .
T Consensus 405 vH~thyGRiCPIETPEG~n~Gli~~la~~~~in~~GfietPy~~v~~g~v~~~~~i~ylsa~~--e~~~~Ia~~~~~--~ 480 (1077)
T CHL00207 405 IHPSHYGRICPIETPEGPNCGLIGSLATNARINKFGFIETPFYKVINGKVKKFGNPIYLTADS--EDLYRIAPNDIN--L 480 (1077)
T ss_pred cCccccccccCCCCCCCcccccccchhhhccccCCCceeCceEEEEcCcccccCceeecChHH--hcCcEEEecCcc--C
Confidence 999999999999999999999999999999998 7889999988754432 12344555544 111122211111 1
Q ss_pred CChhhHHHHHHHHhhcCCcccceEEEEecCc----CCceEEecCCCcccceeEEeeCCccc-------------ccHHH-
Q psy7582 532 RDPEQLMGTLRKLRRQMDIIVSEVSIIRDIR----DREIRIHTDAGRICRPLLIAENGSLL-------------LKKRH- 593 (661)
Q Consensus 532 ~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~~----~~~i~i~s~~gRl~RP~l~~~~~~~~-------------~~~~~- 593 (661)
.....|.+..-..|.. + .++...++.. ....|++|.++.|+ |||+++|+... +.++.
T Consensus 481 ~~~~~~~~~~v~~r~~-~---ef~~~~~~~v~~~~vsp~Q~~SvaasLI-PFLehdDanRaLMGsnMqrQaVPll~~e~p 555 (1077)
T CHL00207 481 NKNNYFKKNIIPVRYK-Q---EFKTVNPSKVDFIAISPIQVFSIAESLI-PFLEHNDANRALMGSNMQRQAVPLLYPEKP 555 (1077)
T ss_pred CCCCcccCCEEEEEEC-C---cEEEEChHHceEEEeCcchhcchhhhcC-CcccccccchhhhhhccccccccccccCCC
Confidence 1111111111112222 2 2222222211 14568999999999 99999997444 44332
Q ss_pred -H-HHhhhcccCCcCceEEee--cceeeeeccc
Q psy7582 594 -I-DNLKERDYNNYGWQVLVQ--SGVVEYIDTL 622 (661)
Q Consensus 594 -~-~~l~~~~~~~~~~~~ll~--kg~Ie~ld~~ 622 (661)
+ +++ |..++.+++.-++. .|.|.|+|+.
T Consensus 556 ~VgTg~-e~~~a~ds~~~i~a~~~G~v~~v~~~ 587 (1077)
T CHL00207 556 IVGTGY-EKQIALDSGMTIISLTEGIVVSVSAY 587 (1077)
T ss_pred eEECCc-chHhhhhcchheEeccCcEEEEecCc
Confidence 1 333 33445555555443 5666666653
No 12
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=100.00 E-value=1.4e-64 Score=609.09 Aligned_cols=533 Identities=22% Similarity=0.301 Sum_probs=360.4
Q ss_pred hhcccCccchhHHHHHHHHHHHH-----hchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCCCC
Q psy7582 10 INAYFDEKGLVRQQLDSFDEFIQ-----MSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKDGS 84 (661)
Q Consensus 10 i~~~f~~~~l~~~qi~SFn~Fi~-----~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~~~ 84 (661)
.+..+..++|++.|.+||+||++ +||++++++++||+ +.+.++.|+|.++++++|.+
T Consensus 23 ~~~~~~~PdL~~iQ~~Sf~~Fl~~~~~~~GL~~~f~~ifPI~------------d~~g~~~lefv~y~l~~Pk~------ 84 (2836)
T PRK14844 23 IDLKDSLLDLVKVQKESYDSFTPKNKGNERLEVIFHTIFPIN------------DPLHRATIEFISCRVDDPKY------ 84 (2836)
T ss_pred CcccCCCCCHHHHHHHHHHHHhcCCCccccHHHHHHhcCCeE------------CCCCCEEEEEEEEEeCCCCC------
Confidence 33457889999999999999998 69999999999995 34567999999999999987
Q ss_pred CCCCChHHHHhcCCCccceEEEEEEEEEEc-----------CCC--------cceeeeeEEEEeeccceeeccCccccCC
Q psy7582 85 PSPMMPNEARLRNLTYSAPLYVDITKTVVR-----------QGE--------EPVTTQHQKSFIGKIPIMLRSTYCLLNG 145 (661)
Q Consensus 85 ~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~-----------~~~--------~~~~~~~~~v~lG~iPiMv~S~~C~L~~ 145 (661)
+|.||++|++||++||+|+++++..+ ... .....+.++|++|+||+|+
T Consensus 85 ----~~~Ec~~r~~TYsapl~v~~rL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ikeq~VylGdiPLMT--------- 151 (2836)
T PRK14844 85 ----DESECIKRGITFSAQVIASIRLVIMQDGISLDEYKSIKESGDHSKLATVIKSIEEQEVHFCELPMMT--------- 151 (2836)
T ss_pred ----CHHHHHhcCCcceeeEEEEEEEEEeccccccccccccccccccccccccccceeeeeEEEecCCccC---------
Confidence 89999999999999999999997521 000 0123456789999999999
Q ss_pred CChhhhhhcCCCCCCCCceEEEcCeeeEEEeeeeeecCeEEEEEec-----CCceeEEEEEEEeecCCCcCcceEEEEEE
Q psy7582 146 LTDRDLTELNECPLDPGGYFIINGSEKVLIAQEKMATNTVYVFSMK-----DSKYAYKTEIRSCLEHSSRPTSTLWVNMM 220 (661)
Q Consensus 146 ~~~~el~~~~E~~~d~GGYFIInG~EkVii~q~~~~~n~i~~~~~~-----~~~~~~~~~irs~~~~~~~~~~~~~l~~~ 220 (661)
..|+|||||+||||++|++|+|+ +|+..+. .++..|+|+| .|.++.|+.|.
T Consensus 152 ---------------~~GTFIING~ERVIVSQL~RSPG-VyF~~~~~kt~~sgk~lysa~I--------IP~RGsWLefE 207 (2836)
T PRK14844 152 ---------------DKGTFIINGVEKVIVSQMHRSPG-VFFDSDKGKTYNSGKLIYSARV--------IPYRGSWLDIE 207 (2836)
T ss_pred ---------------CCeEEEEcCcceEEEEcceeCCe-EEEEcccCcccCCCceeEEEEE--------ecCCcceEEEE
Confidence 89999999999999999999999 6554432 2454677777 57789999998
Q ss_pred ecCCccccccccccEEEEEecccccccchhhHHHHcCCCChHHHHHHhccC----C---------CChH-----------
Q psy7582 221 ARGGQSLKKSAIGQRIIAILPYIKQEIPIMIVFRALGFVADRDILEHIIYD----F---------DDPE----------- 276 (661)
Q Consensus 221 ~~g~~~~~~~~~~~~i~~~~~~~~~~IP~~illkALg~~sd~eI~~~i~~~----~---------~~~~----------- 276 (661)
.+. ++ .+++++.. ++++|+.+||||||+ |++||++.+... . ..+.
T Consensus 208 ~D~-----kd----~lyvRIDR-kRKiPiT~LLrALGl-s~edIL~~F~~~~~~~~~d~~~~~~~~~e~l~g~~~~~Di~ 276 (2836)
T PRK14844 208 FDV-----KD----HLYFRIDR-KRKLPISVLLKALGL-SNNDILDRFYEKIKYIKHKDGWKVPFVPDKFKGVRLPFDLM 276 (2836)
T ss_pred EcC-----CC----eEEEEecC-CeeeeHHHHHHHhCC-ChHHHHHhhcCceEEEEccCceeeccCHHHHhCCccceeee
Confidence 643 22 47888875 568999999999999 899999966321 0 0000
Q ss_pred -----------------HHHhh--------------------hh------------------------------------
Q psy7582 277 -----------------MMEMV--------------------KP------------------------------------ 283 (661)
Q Consensus 277 -----------------~~~~l--------------------~~------------------------------------ 283 (661)
....+ ..
T Consensus 277 d~~g~vlvdkgrrit~~~~krlk~~gvkkl~i~~~~l~g~~LaeDIVD~eTGEiL~eagteIT~e~ik~l~~~gi~~i~~ 356 (2836)
T PRK14844 277 DVEGNVLLKANVRITSRLAKKLYDNELKEYLVPFDSICGLFLAEDLIDSASSTKILSAGESIKLEDIKKLELLSIDEISV 356 (2836)
T ss_pred ccCCCEEEecCccccHHHHHHHHHcccCcccCchHhhcCceehhhhcCCCCCeEEEcCCCccCHHHHHHHHHcCCCceee
Confidence 00000 00
Q ss_pred ----------hhhh---hhhccCHHHHHHHHHhcCCCCCCChhhhHHHHHHHHHh-------ccCCCCccCCccc-----
Q psy7582 284 ----------SLDE---AFVIQEQNVALNFIGARGARPGVTKERRIKYAREILQK-------EMLPHVGVSDFCE----- 338 (661)
Q Consensus 284 ----------~~~~---~~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~~~l~~-------~~l~Hig~~~~~~----- 338 (661)
.+.. .....++++|+..|+++. +|+.+. ..+.|+.++.+ |-|..+|+.+.|.
T Consensus 357 l~~d~~~~~~~i~~tL~~D~~~~~e~Al~eIy~~l-Rpge~~--~~e~a~~l~~~~ff~~~~YdLg~vGR~k~N~kl~~~ 433 (2836)
T PRK14844 357 LNIDNLSVGPYILNTLFLDENMSYQDALYEIYKVL-RPGEVP--VLEIVEEFFRNLFFSPEYYDLSNIGRLKLNSYLGLN 433 (2836)
T ss_pred EeecccccchHHHHHHhhcccccHHHHHHHHHHhc-CCCCCC--cHHHHHHHHHHHhcCccccccccchhhhhhhhhccC
Confidence 0000 012346788999999885 343331 23346655543 6678888765432
Q ss_pred -------hhHHHHHHHHHHHHHhhccCCcCCCChHHH----HHHHHHHHHh--hCCCCchHHHhhhhcccc-----chhh
Q psy7582 339 -------TKKAYFLGYMVHRLLLASLGRRELDDRDHY----VRMYAQKFID--RGKDFNLELAIKTKIITD-----GLRY 400 (661)
Q Consensus 339 -------~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~----~k~~~~~~~~--~~~~~~~~~~i~~~~it~-----~i~~ 400 (661)
..+.+++. ++++|+.+..|....||+||| +|.+++...+ +.....+.+.++...-+. ..+.
T Consensus 434 ~~~~~~~l~~~Dii~-~i~~Li~l~~g~~~~DDiDhL~NRRvr~vGeLl~~qfr~gl~r~~~~i~e~~~~~~~~~~~p~~ 512 (2836)
T PRK14844 434 YDEDLTVLTHEDIIE-IVRKIVLLRDGQGSVDDIDHLGNRRVRSVGEFIENQFRTGLLKLERAVVDSMSTSSLDKVSPSD 512 (2836)
T ss_pred CCCCCcEecHHHHHH-HHHHHHHHhcCCCcccchhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhh
Confidence 12346664 789999999999999999999 6666655443 111122222222111000 0111
Q ss_pred hcccCcc-hhhhccccccccceEEecccchhhhhhhccccCC--CCC--CCCCCCCccccCCCcccccccCCCCCCcccc
Q psy7582 401 SLATGNW-GDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNS--PIG--RDGKLAKPRQLHNTLWGMICPAETPEGAAVG 475 (661)
Q Consensus 401 ~lsTGn~-~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~--~~~--~~~k~~~~R~Lhps~wG~iCPveTPEG~~cG 475 (661)
++.+-.. ...+.|| +++|+||+|||+||||+|||+||+++ |++ ++++.+.+|++||||||||||+|||||+|||
T Consensus 513 lin~~~l~~~i~~ff-~ss~LSQfmDQtNpLseltHkRRlsaLGPGGL~r~~a~fevRdvH~shyGRiCPIETPEG~NiG 591 (2836)
T PRK14844 513 FINPKVLTNVLRDFF-NSSQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGQNIG 591 (2836)
T ss_pred cccchhHHHHHHHHh-cccchhhhccCcChhhhhhhcceecccCCCCcccccCCCcccccCccccccccCCCCCCCCccc
Confidence 1111111 2334556 77899999999999999999999999 655 7778889999999999999999999999999
Q ss_pred cccccccceEEe-ecCCCchHHHHhhhhccccccccCccccccccccccCCeEEEeeCChhhHHHHHHHHhhcCCcccce
Q psy7582 476 LVKNLALMAYIS-VGSQPSPILEFLEEWSMENLEEIAPSAIADATKIFVNGCWVGIHRDPEQLMGTLRKLRRQMDIIVSE 554 (661)
Q Consensus 476 Lv~~La~~a~Vs-~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~~i~~~ 554 (661)
||++||.+|+|+ .|+.++|++++....-...+.++++.+ ....++..+... ......|++..-..|.. +. +
T Consensus 592 LI~SLA~yarIn~~GfietPy~kV~~g~v~~~i~ylsa~~--E~~~~Ia~a~~~--~~~~~~~~~~~v~~R~~-~e---f 663 (2836)
T PRK14844 592 LINSLAIYARINKYGFIESPYRKVVNRVVTDQIEYLSAID--EGLYYIADTSAK--LDENNCFVDDMLYCRYA-GS---F 663 (2836)
T ss_pred chhhhhhheeccCCceEeCCcEEEEcCcCcccccccChHH--hcCcEEEeCCcc--CCCCCcccCCeEEEecC-Cc---e
Confidence 999999999999 789999999886544234455666554 111111111100 00001111111112222 32 2
Q ss_pred EEEEecCc----CCceEEecCCCcccceeEEeeCCc-------------ccccHHH--H-HHhhhcccCCcCceEEee--
Q psy7582 555 VSIIRDIR----DREIRIHTDAGRICRPLLIAENGS-------------LLLKKRH--I-DNLKERDYNNYGWQVLVQ-- 612 (661)
Q Consensus 555 v~~~~~~~----~~~i~i~s~~gRl~RP~l~~~~~~-------------~~~~~~~--~-~~l~~~~~~~~~~~~ll~-- 612 (661)
+...++.. ....|++|.++.|+ |||+++|+. |++.++. + +++ |+.++.+++.-++.
T Consensus 664 ~~~~~~~v~~~dvsp~Q~~SvaasLI-PFLEhdDAnRALMGSNMQRQAVPLl~~e~PiVGTG~-E~~vA~DSg~~v~A~~ 741 (2836)
T PRK14844 664 VMVSSDQVSYIDVSPKQVISVAASLI-PFLENDDANRALMGSNMQRQAVPLLKPTAPLVATGM-ESFVASGSGAVVLAKR 741 (2836)
T ss_pred EEecHHHceEEEeCcchhhhhHhhcC-CccccCccccccccccccccccccccCCCCeEecCc-chhhhhcccceEEecc
Confidence 22222211 13568999999999 999999964 4555443 2 444 44566777776665
Q ss_pred cceeeeecccc
Q psy7582 613 SGVVEYIDTLE 623 (661)
Q Consensus 613 kg~Ie~ld~~E 623 (661)
.|.|+|+|+..
T Consensus 742 ~G~V~yVda~k 752 (2836)
T PRK14844 742 DGIVDSSDSNS 752 (2836)
T ss_pred CceEEEEcCCE
Confidence 78888888743
No 13
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=100.00 E-value=8.9e-63 Score=595.60 Aligned_cols=535 Identities=21% Similarity=0.323 Sum_probs=360.2
Q ss_pred hhhhhcccCccchhHHHHHHHHHHHH------hchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccC
Q psy7582 7 WIVINAYFDEKGLVRQQLDSFDEFIQ------MSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWE 80 (661)
Q Consensus 7 ~~~i~~~f~~~~l~~~qi~SFn~Fi~------~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~ 80 (661)
+.-++.-+..|+|+..|.+||+||++ +||++++++++||+ +.+..+.|+|.++++++|.+
T Consensus 15 f~k~~~~~~iPdLleIQ~~SF~~FLq~~~~~~~GL~e~f~~~fPI~------------d~~g~~~Lefv~Y~l~~Pk~-- 80 (2890)
T PRK09603 15 FTKTPTDLEVPNLLLLQRDSYDSFLYSKDGKESGIEKVFKSIFPIQ------------DEHNRITLEYAGCEFGKSKY-- 80 (2890)
T ss_pred cccCCccCCCCCHHHHHHHHHHHHHhCCCcccccHHHHHHhcCCeE------------CCCCcEEEEEEEEEeCCCCC--
Confidence 44455666789999999999999998 79999999999995 34567999999999999987
Q ss_pred CCCCCCCCChHHHHhcCCCccceEEEEEEEEEEcCCCc------ceeeeeEEEEeeccceeeccCccccCCCChhhhhhc
Q psy7582 81 KDGSPSPMMPNEARLRNLTYSAPLYVDITKTVVRQGEE------PVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTEL 154 (661)
Q Consensus 81 ~~~~~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~------~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~ 154 (661)
+|.||+++++||++||+|++++++.+.... .+..+.++|++|+||+|+
T Consensus 81 --------~~~Ec~~rg~TYsapL~v~~rL~~~~~~~~t~~~~~ikeikeq~VylGdiPLMT------------------ 134 (2890)
T PRK09603 81 --------TVREAMERGITYSIPLKIKVRLILWEKDTKSGEKNGIKDIKEQSIFIREIPLMT------------------ 134 (2890)
T ss_pred --------CHHHHHhhCCcccccEEEEEEEEEeeccccccccccccceEEeeEEEecCCccC------------------
Confidence 899999999999999999999975211111 123457889999999999
Q ss_pred CCCCCCCCceEEEcCeeeEEEeeeeeecCeEEEEEec----CCceeEEEEEEEeecCCCcCcceEEEEEEecCCcccccc
Q psy7582 155 NECPLDPGGYFIINGSEKVLIAQEKMATNTVYVFSMK----DSKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKS 230 (661)
Q Consensus 155 ~E~~~d~GGYFIInG~EkVii~q~~~~~n~i~~~~~~----~~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~ 230 (661)
..|+|||||+||||++|++|+|+ +|+..+. .++..|+|+| .|.++.|+.+..+. ++
T Consensus 135 ------~~GTFIING~ERVIVsQL~RSPG-VyF~~~~~k~~s~k~lysa~I--------IP~RGsWLefE~D~-----kd 194 (2890)
T PRK09603 135 ------ERTSFIINGVERVVVNQLHRSPG-VIFKEEESSTSLNKLIYTGQI--------IPDRGSWLYFEYDS-----KD 194 (2890)
T ss_pred ------CCceEEEcCceeEEEeeeccCCe-eEEeeccCcCCCCceeEEEEE--------ecCCcceEEEEEcC-----CC
Confidence 79999999999999999999999 6664432 2345577877 46778999998643 22
Q ss_pred ccccEEEEEecccccccchhhHHHHcCCCChHHHHHHhcc--------C-----CCC-----------------------
Q psy7582 231 AIGQRIIAILPYIKQEIPIMIVFRALGFVADRDILEHIIY--------D-----FDD----------------------- 274 (661)
Q Consensus 231 ~~~~~i~~~~~~~~~~IP~~illkALg~~sd~eI~~~i~~--------~-----~~~----------------------- 274 (661)
.+|+++.. ++++|+.+||||||+ +++||++.+.. + +..
T Consensus 195 ----~l~vrIDr-krKipit~lLrAlG~-s~edIl~~f~~~~~~~i~~~~~~~~~~~~~l~~~~~~di~d~~g~vlv~~g 268 (2890)
T PRK09603 195 ----VLYARINK-RRKVPVTILFRAMDY-QKQDIIKMFYPLVKVRYENDKYLIPFASLDANQRMEFDLKDPQGKIILLAG 268 (2890)
T ss_pred ----eEEEEEcC-cceecHHHHHHHhCC-CHHHHHHHhcccceEEEcccceeecccHHHhcCccceeecccCCCEEEecC
Confidence 57888875 568999999999999 89999997741 0 000
Q ss_pred ----hHHH-------------------------------Hhhhhh-----------hhhh--------------------
Q psy7582 275 ----PEMM-------------------------------EMVKPS-----------LDEA-------------------- 288 (661)
Q Consensus 275 ----~~~~-------------------------------~~l~~~-----------~~~~-------------------- 288 (661)
.... +.+... +.++
T Consensus 269 ~rit~~~~~~l~~~g~k~l~~~~~~l~g~~laedivd~~Evl~~~~~~Itee~le~i~~~gi~~i~vl~~~~~~~~~~i~ 348 (2890)
T PRK09603 269 KKLTSRKIKELKENHLEWVEYPMDILLNRHLAEPVMVGKEVLLDMLTQLDKNKLEKIHDLGVQEFVIINDLALGHDASII 348 (2890)
T ss_pred ccccHHHHHHHHhcCCceeccchhhhcceeeeeeccCccceeeccCChhcHHHHHHHHHcCCceEEEEeecccccccccc
Confidence 0000 000000 0000
Q ss_pred -----------------hhccCHHHHHHHHHhcCCCCCCChhhhHHHHHHHHHh-------ccCCCCccCCccc------
Q psy7582 289 -----------------FVIQEQNVALNFIGARGARPGVTKERRIKYAREILQK-------EMLPHVGVSDFCE------ 338 (661)
Q Consensus 289 -----------------~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~~~l~~-------~~l~Hig~~~~~~------ 338 (661)
....++++|+..|+++. +|+.+. ..+.|+.++.+ |-|..+|+.+.|.
T Consensus 349 ~t~~~d~~~~~~~~~t~~~~~~~eeAl~~iyr~l-rpgep~--~~e~A~~l~~~lFFn~~rYdLg~vGR~klN~kL~l~~ 425 (2890)
T PRK09603 349 HSFSADSESLKLLKQTEKIDDENALAAIRIHKVM-KPGDPV--TTEVAKQFVKKLFFDPERYDLTMVGRMKMNHKLGLHV 425 (2890)
T ss_pred cccccccccchhhhhccccccchHHHHHHHHhcc-CCCCCC--cHHHHHHHHHHHhcCcccccccccchhhhHhhhCCCC
Confidence 00013578888888875 333321 23446665543 6788888765432
Q ss_pred ------hhHHHHHHHHHHHHHhhccCCcCCCChHHH----HHHHHHHHHh--hCCCCchHHHhhhhccc--cc-----hh
Q psy7582 339 ------TKKAYFLGYMVHRLLLASLGRRELDDRDHY----VRMYAQKFID--RGKDFNLELAIKTKIIT--DG-----LR 399 (661)
Q Consensus 339 ------~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~----~k~~~~~~~~--~~~~~~~~~~i~~~~it--~~-----i~ 399 (661)
..+.|+++ .+++|+.+..|....||+||| +|.+++...+ +.....+.+.++...-. .. .+
T Consensus 426 ~~~~~~Lt~~Dil~-~i~~li~l~~g~~~~DDiDhL~NRRvr~vGELl~~qfr~gl~rler~irerm~~~~~~~~~~~p~ 504 (2890)
T PRK09603 426 PDYITTLTHEDIIT-TVKYLMKIKNNQGKIDDRDHLGNRRIRAVGELLANELHSGLVKMQKTIKDKLTTMSGAFDSLMPH 504 (2890)
T ss_pred CCcccEecchhHHH-HHHHHHHHHhCCCCCCcchhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccChh
Confidence 12347776 489999999999999999999 7777776654 22222333333322100 00 01
Q ss_pred hhcccC-cchhhhccccccccceEEecccchhhhhhhccccCC--CCC--CCCCCCCccccCCCcccccccCCCCCCccc
Q psy7582 400 YSLATG-NWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNS--PIG--RDGKLAKPRQLHNTLWGMICPAETPEGAAV 474 (661)
Q Consensus 400 ~~lsTG-n~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~--~~~--~~~k~~~~R~Lhps~wG~iCPveTPEG~~c 474 (661)
.++.+- -..++++|| +.+.+||+|||+||||+++|+||+++ |++ +++..+.+|++||||||||||+|||||+||
T Consensus 505 ~lin~k~i~~~ikeFF-gssqLSQfmDQtNpLseltHKRRlSaLGPGGlsr~ra~fevRdVH~shYGRiCPIETPEG~Ni 583 (2890)
T PRK09603 505 DLVNSKMITSTIMEFF-MGGQLSQFMDQTNPLSEVTHKRRLSALGEGGLVKDRVGFEARDVHPTHYGRICPIETPEGQNI 583 (2890)
T ss_pred hhhccHHHHHHHHHHh-ccCchhhhhcccChhhhhhhcccccccCCCCccccccCCcccccCcccccccCCCCCCCCCcc
Confidence 111111 112456677 88899999999999999999999998 655 666667899999999999999999999999
Q ss_pred ccccccccceEEe-ecCCCchHHHHhhhhccccccccCccccccccccccCCeEEEeeCChhhHHHHHHHHhhcCCcccc
Q psy7582 475 GLVKNLALMAYIS-VGSQPSPILEFLEEWSMENLEEIAPSAIADATKIFVNGCWVGIHRDPEQLMGTLRKLRRQMDIIVS 553 (661)
Q Consensus 475 GLv~~La~~a~Vs-~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~~i~~ 553 (661)
|||++||.+|+|+ .|+.++|++++....-...+.++++.+ ....++..+... ......|.+.+-..|.+ + .
T Consensus 584 GLI~SLa~~a~in~~GfietPy~kV~~g~v~~~i~ylsa~e--E~~~~IA~a~~~--~~~~~~~~~~~v~~R~~-~---e 655 (2890)
T PRK09603 584 GLINTLSTFTRVNDLGFIEAPYKKVVDGKVVGETIYLTAIQ--EDSHIIAPASTP--IDEEGNILGDLIETRVE-G---E 655 (2890)
T ss_pred cchhhhhhheecccCcceecceEEEecCccccceeeeCHHH--hcCceEeccCCc--cCCCCcccCCeEeEEEC-C---c
Confidence 9999999999999 789999998885443224455666554 111121211110 00001111111112222 2 2
Q ss_pred eEEEEecCc----CCceEEecCCCcccceeEEeeCCccccc-------------HHH--H-HHhhhcccCCcCceEEee-
Q psy7582 554 EVSIIRDIR----DREIRIHTDAGRICRPLLIAENGSLLLK-------------KRH--I-DNLKERDYNNYGWQVLVQ- 612 (661)
Q Consensus 554 ~v~~~~~~~----~~~i~i~s~~gRl~RP~l~~~~~~~~~~-------------~~~--~-~~l~~~~~~~~~~~~ll~- 612 (661)
++.+.++.. ....|++|.++.|+ |||+++|+...|. ++. + +++ |..++.++..-++.
T Consensus 656 ~~~~~~~~v~~~dvsp~Q~vSvaasLI-PFLEhdDAnRALMGSNMQRQAVPLl~~e~piVgTG~-E~~va~dSg~~i~a~ 733 (2890)
T PRK09603 656 IVLNEKSKVTLMDLSSSMLVGVAASLI-PFLEHDDANRALMGTNMQRQAVPLLRSDAPIVGTGI-EKIIARDSWGAIKAN 733 (2890)
T ss_pred eEEEChHHceEEEeCccceeeehhhcC-CccccCccccccccccchhhhhhhccccCCeEecCc-chhhhccccceeEec
Confidence 222222221 14569999999999 9999999754443 332 1 333 33455555555554
Q ss_pred -cceeeeeccc
Q psy7582 613 -SGVVEYIDTL 622 (661)
Q Consensus 613 -kg~Ie~ld~~ 622 (661)
.|.|+|+|+.
T Consensus 734 ~~G~V~yvd~~ 744 (2890)
T PRK09603 734 RAGVVEKIDSK 744 (2890)
T ss_pred CCeEEEEecCc
Confidence 5777777664
No 14
>PF04563 RNA_pol_Rpb2_1: RNA polymerase beta subunit; InterPro: IPR007644 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the protrusion domain []. The other lobe, RNA polymerase Rpb2, domain 2, is nested within this domain.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C 3AOH_H ....
Probab=100.00 E-value=7.7e-42 Score=339.35 Aligned_cols=149 Identities=52% Similarity=0.878 Sum_probs=124.0
Q ss_pred chhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCCCCCCCCChHHHHhcC
Q psy7582 18 GLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKDGSPSPMMPNEARLRN 97 (661)
Q Consensus 18 ~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~l~P~ecR~r~ 97 (661)
||++|||+|||+|+++||++++++.+|+.+.. .+..+.++++++.|++|++.+.++..++++|+|||+|+
T Consensus 1 ~Lv~~qi~SFn~Fl~~gl~~i~~~~~~i~~~~----------~~~~~~l~~~~~~i~~P~~~~~~~~~~~l~P~ecR~r~ 70 (203)
T PF04563_consen 1 GLVKHQIDSFNYFLNNGLKEILKEFPPIEFES----------SNNRISLKFENIRIGKPTYSESDGRERPLYPRECRLRG 70 (203)
T ss_dssp TTTHHHHHHHHHHHCTSSHHHHSCSSSCEECC----------CSTTEEEEEEEEEEESESSEHTTSCEEE--HHHHHHTT
T ss_pred CchHHHHHHHHHHHHCCCHHHhccCCceEecC----------CcceEEEEeeEEEEeeeeeccccccccCCCHHHHHhcC
Confidence 68999999999999999999999999997642 24689999999999999998867777899999999999
Q ss_pred CCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCCceEEEcCeeeEEEee
Q psy7582 98 LTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPGGYFIINGSEKVLIAQ 177 (661)
Q Consensus 98 ~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~GGYFIInG~EkVii~q 177 (661)
+||+|+++|++.++..+. ......++.+|+|||||+|++|||++++++++++.||||+|+||||||||+||||++|
T Consensus 71 ~TYs~~l~v~i~~~~~~~----~~~~~~~v~iG~iPiMv~S~~C~L~~~~~~~l~~~~E~~~d~GGYFIInG~EkVi~~q 146 (203)
T PF04563_consen 71 LTYSAPLYVDIELTVNNK----KEIKEQEVFIGKIPIMVRSKRCNLNGLSPKELVQLGECPNDPGGYFIINGSEKVIRMQ 146 (203)
T ss_dssp -B-EEEEEEEEEEEESST----TEEEESEEEEEEEE-BTTTTTSGGGT--HHHHHHTTS-TT---SSEEETTEEEEE-EE
T ss_pred CCCCCccceEEEEEeecc----ceEEeeEEEEeeCCeEeecceeeCCCCCHHHHHHcCCCCcCCCCEEEECCChhheehh
Confidence 999999999999986532 1234678999999999999999999999999999999999999999999999999999
Q ss_pred eee
Q psy7582 178 EKM 180 (661)
Q Consensus 178 ~~~ 180 (661)
+++
T Consensus 147 ~~~ 149 (203)
T PF04563_consen 147 IMR 149 (203)
T ss_dssp EEE
T ss_pred hhh
Confidence 987
No 15
>PF04565 RNA_pol_Rpb2_3: RNA polymerase Rpb2, domain 3; InterPro: IPR007645 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 3, is also known as the fork domain and is proximal to catalytic site [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C 3AOH_H 1IW7_M 2O5J_C 2CW0_M ....
Probab=99.95 E-value=2e-29 Score=203.98 Aligned_cols=66 Identities=58% Similarity=0.921 Sum_probs=59.6
Q ss_pred EEecccchhhhhhhccccCC--CCCCCCCCCCccccCCCcccccccCCCCCCcccccccccccceEEe
Q psy7582 422 QVLNRLTFASSLSHLRRVNS--PIGRDGKLAKPRQLHNTLWGMICPAETPEGAAVGLVKNLALMAYIS 487 (661)
Q Consensus 422 q~l~r~N~l~~lSh~Rrv~~--~~~~~~k~~~~R~Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs 487 (661)
|+|||+|+++++||+|||++ ++.+++|.+++|+|||||||||||||||||++|||+||||++|+|+
T Consensus 1 Q~l~r~N~l~~ls~~Rri~~~~~~~~~~~~~~~R~lh~s~~G~iCPveTPEG~~~GLv~~La~~a~I~ 68 (68)
T PF04565_consen 1 QYLDRTNPLSELSHLRRINRLGPLSKESKSTEPRQLHPSQYGRICPVETPEGENCGLVKNLALMARIT 68 (68)
T ss_dssp EE--TSSHHHHHHHHTEEESCSSTSSSSSSSTTTSTTGGGTTTBSSSSS-SSTSTTTEEEBBTT-EE-
T ss_pred CCcccccHHHHHHHHHhcccccccchhhcccccccccccceeEEeecccCCCccEeehheeeeeEEeC
Confidence 89999999999999999995 7899999999999999999999999999999999999999999986
No 16
>PRK07225 DNA-directed RNA polymerase subunit B'; Validated
Probab=99.82 E-value=1.5e-20 Score=211.45 Aligned_cols=114 Identities=41% Similarity=0.677 Sum_probs=98.9
Q ss_pred cccccccCCeEEEeeCChhhHHHHHHHHhhcCCcccceEEEEecCcCCceEEecCCCcccceeEEeeCCcccccHHHHHH
Q psy7582 517 DATKIFVNGCWVGIHRDPEQLMGTLRKLRRQMDIIVSEVSIIRDIRDREIRIHTDAGRICRPLLIAENGSLLLKKRHIDN 596 (661)
Q Consensus 517 ~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~~~~~i~i~s~~gRl~RP~l~~~~~~~~~~~~~~~~ 596 (661)
..++|||||+|+|++++|+.|++.||.+||+ |.++.+|+++++...++|+||||+||++|||+++++|+++++++|++.
T Consensus 3 ~~~~VflNG~~vG~~~~~~~lv~~lR~lRr~-g~i~~~vsI~~~~~~~ei~I~tD~GR~~RPl~iv~~g~~~l~~~~~~~ 81 (605)
T PRK07225 3 RKAKVYVNGKLIGTHDDPEELVEEIREARRS-GEISEEVNVSYKEETNEVIINTDAGRARRPLIVVENGEPLLTEEHIEK 81 (605)
T ss_pred cccEEEECCEEEEEECCHHHHHHHHHHHHcc-CCCCCcEEEEEECCCCEEEEEccCCccceeEEEEeCCcccCCHHHHHH
Confidence 3578999999999999999999999999999 999999999998888999999999999999999999999999999988
Q ss_pred hhhcccCCcCceEEeecceeeeecccchhhhhhhhhhhhhccchhhccccceeeeeEEEeccC
Q psy7582 597 LKERDYNNYGWQVLVQSGVVEYIDTLEEETTMIAMWQVLVQSGVVEYIDTLEEETTMIAMSPR 659 (661)
Q Consensus 597 l~~~~~~~~~~~~ll~kg~Ie~ld~~E~~~~~ia~~~~~l~~g~~e~~d~eEeet~~i~m~~~ 659 (661)
|+++ . ..|.+++.+|+|||+|++|||+++|||+++
T Consensus 82 l~~~---~-------------------------~~~~dl~~~G~IEyida~EE~~~~IA~~~~ 116 (605)
T PRK07225 82 LKNG---E-------------------------LTFDDLVKQGVIEYLDAEEEENAYIAVYEE 116 (605)
T ss_pred HHcC---C-------------------------CChHHHHhCCCeeecChhhhcCeEeccchh
Confidence 7431 1 347777777777777777777777777764
No 17
>TIGR03670 rpoB_arch DNA-directed RNA polymerase subunit B. This model represents the archaeal version of DNA-directed RNA polymerase subunit B (rpoB) and is observed in all archaeal genomes.
Probab=99.81 E-value=2.6e-20 Score=209.34 Aligned_cols=110 Identities=43% Similarity=0.765 Sum_probs=94.9
Q ss_pred cccCCeEEEeeCChhhHHHHHHHHhhcCCcccceEEEEecCcCCceEEecCCCcccceeEEeeCCcccccHHHHHHhhhc
Q psy7582 521 IFVNGCWVGIHRDPEQLMGTLRKLRRQMDIIVSEVSIIRDIRDREIRIHTDAGRICRPLLIAENGSLLLKKRHIDNLKER 600 (661)
Q Consensus 521 V~lnG~~iG~~~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~~~~~i~i~s~~gRl~RP~l~~~~~~~~~~~~~~~~l~~~ 600 (661)
|||||+|+|+++++..|++.||.+||+ |.++.+|+++++...++|+||||+||++|||++++++++.++++|++.|+++
T Consensus 1 VflNG~~vG~~~~~~~lv~~LR~lRr~-g~i~~~vsI~~~~~~~ei~I~tD~GR~~RPl~iv~~g~l~l~~~~l~~l~~~ 79 (599)
T TIGR03670 1 VYLNGRLIGYHDDPEELVEEVRKLRRS-GKLSQEVNVAYYEETNEVYINCDAGRIRRPLIVVENGKPKLTREHVEKLKEG 79 (599)
T ss_pred CEECCEEEEEECCHHHHHHHHHHHhCc-CCCCCcEEEEEeCCCCEEEEEcCCCccceeEEEeeCCCccccHHHHHHHhcc
Confidence 799999999999999999999999999 9999999999998889999999999999999999999999999998877431
Q ss_pred ccCCcCceEEeecceeeeecccchhhhhhhhhhhhhccchhhccccceeeeeEEEeccC
Q psy7582 601 DYNNYGWQVLVQSGVVEYIDTLEEETTMIAMWQVLVQSGVVEYIDTLEEETTMIAMSPR 659 (661)
Q Consensus 601 ~~~~~~~~~ll~kg~Ie~ld~~E~~~~~ia~~~~~l~~g~~e~~d~eEeet~~i~m~~~ 659 (661)
. ..|.+++.+|+|||+|++|||+++|||+++
T Consensus 80 ---~-------------------------~~~~~ll~~G~IEyida~Ee~~~~IA~~~~ 110 (599)
T TIGR03670 80 ---E-------------------------LTWDDLVKQGVIEYLDAEEEENAYIALDPE 110 (599)
T ss_pred ---C-------------------------CCHHHHHhcCCeEecCchhhcCeEEecchH
Confidence 1 346667777777777777777777777654
No 18
>PF04561 RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; InterPro: IPR007642 RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain []. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble. Many of the bacterial members contain large insertions within this domain, a region known as dispensable region 1 (DRI).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 2Y0S_R 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C ....
Probab=99.76 E-value=1.7e-18 Score=170.05 Aligned_cols=172 Identities=34% Similarity=0.405 Sum_probs=108.6
Q ss_pred ecCeEEEEEecCCceeEEEEEEEeecCCCcCcceEEEEEEecCCccccccccccEEEEEecccccccchhhHHHHcCCCC
Q psy7582 181 ATNTVYVFSMKDSKYAYKTEIRSCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILPYIKQEIPIMIVFRALGFVA 260 (661)
Q Consensus 181 ~~n~i~~~~~~~~~~~~~~~irs~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~~~~~~IP~~illkALg~~s 260 (661)
+.|+||++.+.+++.. ++|+... ..+.++.|..+..++ . .+....+.++.+||+++||||||++|
T Consensus 1 Rsn~i~~~~~~~~~~~----~~~~~~~-~~~~~~~~~~~~~~~-~---------~~~~~~~~~~~~IPi~ilLrALG~~s 65 (190)
T PF04561_consen 1 RSNGIYVEKDKDGNKI----IRSVRSD-IISSRGSWHYLEKDK-K---------IIIFSRPKKKFKIPIVILLRALGIES 65 (190)
T ss_dssp ESSSEEEEE-SSSSSC----SSCEEEE-ECCSSSEEEEEECET-T---------TEEEEETTSSSEEEHHHHHHHTT--S
T ss_pred CCCEEEEEEccCCCCe----eEEEEee-cCCCcceEEEEecCC-c---------EEEEEEcCcccccceEEeehhhcCcC
Confidence 4577999987766542 1122211 134556665444222 1 23445556677899999999999999
Q ss_pred hHHHHHHhccCCCChHHHHhhhhhhhhhhhccCHHHHHHHHHhcCCCCCCChhhhHHHHHHHH---------HhccCC-C
Q psy7582 261 DRDILEHIIYDFDDPEMMEMVKPSLDEAFVIQEQNVALNFIGARGARPGVTKERRIKYAREIL---------QKEMLP-H 330 (661)
Q Consensus 261 d~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~~~al~yig~~~~~~~~~~~~~~~~~~~~l---------~~~~l~-H 330 (661)
|+||++.|++...+......+.....+...+.|+++|+.|||++... ........+.++.+| .++.|+ |
T Consensus 66 d~eI~~~i~~~~~~~~~~~~~~~~~~~~~~~~t~~~al~~i~~~~~~-~~~~~~~~~~~~~~l~~~y~l~~i~r~~l~~h 144 (190)
T PF04561_consen 66 DKEIIELICYSEEDFEDIEELMLSELEEEEIYTQEQALEYIGKKFRF-RQGKPPKVEEARNFLQKRYDLGFIGRYKLNKH 144 (190)
T ss_dssp TCHHHHHHCCCSTCHSCSTTTHHHHCCCTSSCSCHHHHHHHHHCCHS-SSSCHCCHCHHHHHHTTCSSTCCCHHHCCHTT
T ss_pred cccccceeecccccccccccccccccccccccccccceeEeccceee-ecccccchhhhhcccccccccccccccceeee
Confidence 99999999963222222112222222235688999999999993211 111122344567766 467777 9
Q ss_pred CccCCccch--hHHHHHHHHHHHHHhhccCCcCCCChHHH
Q psy7582 331 VGVSDFCET--KKAYFLGYMVHRLLLASLGRRELDDRDHY 368 (661)
Q Consensus 331 ig~~~~~~~--~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~ 368 (661)
+|....+.. .|+.+|++|++||+.++.|.+.+||+|||
T Consensus 145 l~~~~~~~~~~~k~~~l~~m~~~ll~~~~g~~~~Dd~D~l 184 (190)
T PF04561_consen 145 LGSDEPNENDRLKAEDLGLMIRKLLKLANGECEPDDRDHL 184 (190)
T ss_dssp TTSSSSSSSSSCHHHHHHHHHHHHHHHHTTSS-S-STTSC
T ss_pred eeeeecccccccchhhHHHHHHHHHHHhcCCCCCCCcccc
Confidence 987655333 39999999999999999999999999997
No 19
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=99.75 E-value=1.5e-18 Score=137.69 Aligned_cols=63 Identities=63% Similarity=1.161 Sum_probs=59.1
Q ss_pred cccCCeEEEeeCChhhHHHHHHHHhhcCCcccceEEEEecCcCCceEEecCCCcccceeEEeeC
Q psy7582 521 IFVNGCWVGIHRDPEQLMGTLRKLRRQMDIIVSEVSIIRDIRDREIRIHTDAGRICRPLLIAEN 584 (661)
Q Consensus 521 V~lnG~~iG~~~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~~~~~i~i~s~~gRl~RP~l~~~~ 584 (661)
|||||.|+|++++|+.|+..+|.+||+ |.++.+||++++...++|+|+||+||+||||++++|
T Consensus 1 VFlNG~~iG~~~~p~~l~~~lr~~RR~-g~i~~~vsi~~~~~~~ei~I~tD~GR~~RPL~vV~n 63 (63)
T PF04566_consen 1 VFLNGVWIGIHSDPEELVKTLRNLRRS-GKISKEVSIVYDIREKEIRINTDAGRLCRPLFVVEN 63 (63)
T ss_dssp EEETTEEEEEESSHHHHHHHHHHHHHT-TSS-TTSEEEEETTTTEEEEE-SSCEEEEEEEEESS
T ss_pred CEECCEEEEEEcCHHHHHHHHHHHhhc-cCCcceeEEEEeccCCEEEEEccCCcccceeEEecC
Confidence 799999999999999999999999999 999999999999999999999999999999999976
No 20
>KOG0215|consensus
Probab=99.30 E-value=8.9e-14 Score=153.45 Aligned_cols=501 Identities=9% Similarity=-0.077 Sum_probs=259.0
Q ss_pred chhhhhhcccCccchhHHHHHHHHHHHHhchhhhhccCCccccccccccCCCCCCCCCeEEEEEeEEEEcCCcccCCCCC
Q psy7582 5 ACWIVINAYFDEKGLVRQQLDSFDEFIQMSVQRIVEDSPQIDLQAEAQHTSTEVETPPRYLLKFEQIYLSKPTHWEKDGS 84 (661)
Q Consensus 5 ~~~~~i~~~f~~~~l~~~qi~SFn~Fi~~gl~~iv~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~i~i~~P~~~~~~~~ 84 (661)
|.|-..+++.+..++.+.||.+++.++..-... .||.++.+.. ..+-++.=.+ +.-|..+.--..
T Consensus 99 dirvg~Ps~~~~~~~~~~~i~p~ecrlrd~tys-----a~i~vdieyt--------rg~~~~~~~~--v~igrmpimlrs 163 (1153)
T KOG0215|consen 99 DIRVGKPSIEEGNNVTNDNITPHECRLRDMTYS-----APIYVDIEYT--------RGRQIIAKRD--VIIGRMPIMLRS 163 (1153)
T ss_pred eeeccCcchhhccccccccCCchheeehhhhcc-----cceeEEEEEe--------cCcceEEecc--cccccchhhhhc
Confidence 456666677777888889999999987654322 2333322211 1111222223 333333322334
Q ss_pred CCCCChHHHHhcCCCccceEEEEEEEEEEcCCCcceeeeeEEEEeeccceeeccCccccCCCChhhhhhcCCCCCCCCce
Q psy7582 85 PSPMMPNEARLRNLTYSAPLYVDITKTVVRQGEEPVTTQHQKSFIGKIPIMLRSTYCLLNGLTDRDLTELNECPLDPGGY 164 (661)
Q Consensus 85 ~~~l~P~ecR~r~~TYs~~l~v~v~~~~~~~~~~~~~~~~~~v~lG~iPiMv~S~~C~L~~~~~~el~~~~E~~~d~GGY 164 (661)
++.+.|.+|+....-|. +.+-.....-+..|..|||+.+.-|.+++...+ -.+.|||+-++++|
T Consensus 164 ~rcvl~~~~e~~~a~~~---------------ecpldpggyfiv~G~ekViLiqeqlsknrii~~-~~k~~~~~~svtss 227 (1153)
T KOG0215|consen 164 SKCVLRGKDEEELARLN---------------ECPLDPGGYFIVKGTEKVILIQEQLSKNRIIVE-EDKKGNLQASVTSS 227 (1153)
T ss_pred cccccCCccHHHHHHhc---------------cCCCCCCceeEeccceeEEEehhhhhccCeeec-cccCCccccccccc
Confidence 45667777773332221 111000123466899999999999999999887 57889999999999
Q ss_pred EEEcCeeeEEEeeeeeecCeEEEEEecCCceeEEEEEE--EeecCCCcCcceEEEEEEecCCccccccccccEEEEEecc
Q psy7582 165 FIINGSEKVLIAQEKMATNTVYVFSMKDSKYAYKTEIR--SCLEHSSRPTSTLWVNMMARGGQSLKKSAIGQRIIAILPY 242 (661)
Q Consensus 165 FIInG~EkVii~q~~~~~n~i~~~~~~~~~~~~~~~ir--s~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~i~~~~~~ 242 (661)
|+..+++.+|+.+....+++...+++.-+-. +.+. ++.++..+. ...-.+ ..+..+..
T Consensus 228 t~e~kskt~v~~k~~k~ylk~~~~~d~ipiv---iv~ka~g~~sd~ei~------~~vg~~-----------~~y~~~~~ 287 (1153)
T KOG0215|consen 228 THERKSKTYVTTKKGKYYLKHNSFTDDIPIV---IVLKAMGLESDQEIV------QLVGGD-----------SKYQDIFA 287 (1153)
T ss_pred eeeecceEEEEeccceeeeehhhhhccCCEE---EEEeeccccchHHHH------HHhhcc-----------hHHHHhhc
Confidence 9999999999999988888766666544321 1111 111111110 000000 00100001
Q ss_pred cccccchhhHHHHcCCCChHHHHHHhccCCCChHHHHhhhhhhhhhhhccCHHHHHHHHHhcCCC----CC--CChhhhH
Q psy7582 243 IKQEIPIMIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEAFVIQEQNVALNFIGARGAR----PG--VTKERRI 316 (661)
Q Consensus 243 ~~~~IP~~illkALg~~sd~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~~~al~yig~~~~~----~~--~~~~~~~ 316 (661)
...+.|+.+-+.+.+ .-++++...... .........++|++.|...... ++ +......
T Consensus 288 ~s~ee~~~~~v~tqq-----qal~y~~~kvk~-----------~~~t~~~~~~e~~~~l~~~~lahv~v~~~~~r~K~~y 351 (1153)
T KOG0215|consen 288 PSLEECVSLGVYTQQ-----QALEYIGSKVKV-----------KRGTTPTKDEEALEVLSTTVLAHVPVPDLNFRMKAIY 351 (1153)
T ss_pred cchhhhhhhhhHHHH-----HHHHHhhheEEe-----------ccCCCCCchHHHHHHHHhhheeceeccCCCCcceeeh
Confidence 112333333333322 222222100000 0000112234455554443210 11 1100000
Q ss_pred HH--HHHHHHhccCCCCccCCccchhHHHHHHHHHHHHHhhccCCc-------CCCChHHHH----HH--------H--H
Q psy7582 317 KY--AREILQKEMLPHVGVSDFCETKKAYFLGYMVHRLLLASLGRR-------ELDDRDHYV----RM--------Y--A 373 (661)
Q Consensus 317 ~~--~~~~l~~~~l~Hig~~~~~~~~K~~~L~~Mi~kLl~~~~g~~-------~~Dd~D~~~----k~--------~--~ 373 (661)
.. .+.++. ..+ |....++++..+-..|.+|.+.| .+..+.- .--++|..+ +. . .
T Consensus 352 i~~m~rr~~~-a~l-~~~~~ddrd~~gnkrlelagqll-sllfeD~fk~~n~e~k~~~dk~l~k~~ra~~fD~~~~~n~~ 428 (1153)
T KOG0215|consen 352 IGLMVRRVIQ-AML-NKLAMDDRDYVGNKRLELAGQLL-SLLFEDLFKRFNSELKKNIDKILKKPIRAQEFDALKHLNVR 428 (1153)
T ss_pred HHHHHHHHHH-HHh-CcccccchhhhccchHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhcchhhhhhhHHHHHHHHH
Confidence 00 111111 111 21111111111112244433322 2222221 112344441 10 0 0
Q ss_pred HHHH----hh---CCCCchHHHhhhhccccchhhhcccCcchhhhccccccccceEEecccchhhhhhhccccCCCCCCC
Q psy7582 374 QKFI----DR---GKDFNLELAIKTKIITDGLRYSLATGNWGDQKKAHQARAGVSQVLNRLTFASSLSHLRRVNSPIGRD 446 (661)
Q Consensus 374 ~~~~----~~---~~~~~~~~~i~~~~it~~i~~~lsTGn~~~~~~~~~~~~G~sq~l~r~N~l~~lSh~Rrv~~~~~~~ 446 (661)
...+ .+ ....++ +-++..-++...-.+..|++| +...+-.-+++|.++..+..|-|-....-.+..|+.+.
T Consensus 429 ~~~it~~l~ra~stgnw~i-Krfrmer~gvt~VlsrlSyis-aLgmmtri~s~fektrkvsgprSlq~sqwgmlcp~dtp 506 (1153)
T KOG0215|consen 429 ANMITSGLERAISTGNWSI-KRFRMERAGVTQVLSRLSYIS-ALGMMTRINSQFEKTRKVSGPRSLQPSQWGMLCPSDTP 506 (1153)
T ss_pred HHHHHHHHHHHhhcCchHH-HHhhhhhccceeeehhhhhhh-hhhhheehhhhheeehhccCccccChhhcccccCCCCC
Confidence 0111 11 111122 222322233333334457787 55554457899999999999988888888888899888
Q ss_pred CCCCCccccCCCcccccccCCCCCCcccccccccccceEEeecCCCchHHHHhhhhccccccccC-ccccc-cccccccC
Q psy7582 447 GKLAKPRQLHNTLWGMICPAETPEGAAVGLVKNLALMAYISVGSQPSPILEFLEEWSMENLEEIA-PSAIA-DATKIFVN 524 (661)
Q Consensus 447 ~k~~~~R~Lhps~wG~iCPveTPEG~~cGLv~~La~~a~Vs~~~~~~~i~~~l~~~g~~~~~~~~-~~~~~-~~~~V~ln 524 (661)
.+.+-.+-..++.|+-|||-++|++.-|++.|..+...++..+....+.-.++.-++...+.... ++.+. .-..++.+
T Consensus 507 egeacglvknlalmthittd~ee~pi~~~~~k~gv~di~~v~~~e~~~~~~~~v~Lng~iig~~~~~~~~v~~~r~lrr~ 586 (1153)
T KOG0215|consen 507 EGEACGLVKNLALMTHITTDSEEKPILKLCYKLGVEDIHVVSGRELHTPDSFLVFLNGLIIGITRRPQYFVNSFRRLRRK 586 (1153)
T ss_pred CccccccccchHHHhcccCCCCcchhHHHHHHhcceeeeeecccccCCCceEEEEecceeeccccchHHHHHHHHHHHHc
Confidence 88899999999999999999999999999999999999988664433333333333333321111 11122 22457899
Q ss_pred CeEEEeeCChhhHHHHHHHHhhcCCcccceEEEEecCcCCceEEecCCCcccceeE
Q psy7582 525 GCWVGIHRDPEQLMGTLRKLRRQMDIIVSEVSIIRDIRDREIRIHTDAGRICRPLL 580 (661)
Q Consensus 525 G~~iG~~~~~~~~~~~lr~~rr~~~~i~~~v~~~~~~~~~~i~i~s~~gRl~RP~l 580 (661)
|.+-++++.....+...+.+++. |-......++.+...+ +|-++.+|.++|-+
T Consensus 587 G~i~~fvsv~~~~~q~~v~i~sd-ggr~crp~Iiv~~~~~--~v~~~h~~el~~g~ 639 (1153)
T KOG0215|consen 587 GKIGEFVSVFTNTTQRCVYIASD-GGRVCRPLIIVDNGRP--RVKQHHMDELLDGK 639 (1153)
T ss_pred CcccceeeeeeeeeeEEEEEecC-CCeEeeeEEEEeCCcc--hhhhhhHHHHHHhh
Confidence 99999887765555555555555 4333444444332222 77788888887765
No 21
>PF04567 RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; InterPro: IPR007647 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 5, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=98.70 E-value=3.2e-09 Score=79.87 Aligned_cols=29 Identities=66% Similarity=0.976 Sum_probs=25.3
Q ss_pred hhhhhccchhhccccceeeeeEEEeccCC
Q psy7582 632 WQVLVQSGVVEYIDTLEEETTMIAMSPRL 660 (661)
Q Consensus 632 ~~~~l~~g~~e~~d~eEeet~~i~m~~~~ 660 (661)
|.+++.+|+|||+|+||||++||||+|++
T Consensus 1 w~~ll~~G~vE~id~eEEe~~~Iam~~~d 29 (48)
T PF04567_consen 1 WDDLLKEGVVEYIDAEEEETCMIAMSPED 29 (48)
T ss_dssp HHHHHHTTSEEEEETTTCTT--EESSCCC
T ss_pred ChhHhhCCCEEEecchhccccEEEEeccc
Confidence 78899999999999999999999999864
No 22
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=97.83 E-value=1.8e-05 Score=61.81 Aligned_cols=49 Identities=20% Similarity=0.281 Sum_probs=38.5
Q ss_pred EEeeCCh--hhHHHHHHHHhhcCC--ccc--ceEEEEe---cCcCCceEEecCCCcccc
Q psy7582 528 VGIHRDP--EQLMGTLRKLRRQMD--IIV--SEVSIIR---DIRDREIRIHTDAGRICR 577 (661)
Q Consensus 528 iG~~~~~--~~~~~~lr~~rr~~~--~i~--~~v~~~~---~~~~~~i~i~s~~gRl~R 577 (661)
||+++.. ++++++||.+|.. | .++ .||..++ +.++|++||||++|||+|
T Consensus 1 iG~~~~~~a~~~~~~LR~~Kv~-~~~~vP~~lEI~~VP~~~~g~yPGLyLft~~aRm~R 58 (58)
T PF06883_consen 1 IGYVSPEEAEQIADQLRYLKVE-GEHGVPPTLEIGYVPPSKGGQYPGLYLFTTPARMMR 58 (58)
T ss_pred CceecHHHHHHHHHHHHHHHHc-CCCCCCCceEEEEEECCCCCCCCeEEEeCCcccccC
Confidence 5777765 7899999999987 5 344 4555554 357899999999999998
No 23
>PF04567 RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; InterPro: IPR007647 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 5, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=96.70 E-value=0.00017 Score=54.34 Aligned_cols=31 Identities=55% Similarity=0.784 Sum_probs=26.7
Q ss_pred ceEEeecceeeeecccchhhhhhhhhhhhhc
Q psy7582 607 WQVLVQSGVVEYIDTLEEETTMIAMWQVLVQ 637 (661)
Q Consensus 607 ~~~ll~kg~Ie~ld~~E~~~~~ia~~~~~l~ 637 (661)
|++|+++|.|||||++|+++++||+.++++.
T Consensus 1 w~~ll~~G~vE~id~eEEe~~~Iam~~~dl~ 31 (48)
T PF04567_consen 1 WDDLLKEGVVEYIDAEEEETCMIAMSPEDLE 31 (48)
T ss_dssp HHHHHHTTSEEEEETTTCTT--EESSCCCCC
T ss_pred ChhHhhCCCEEEecchhccccEEEEeccccc
Confidence 6778889999999999999999999998876
No 24
>TIGR02013 rpoB DNA-directed RNA polymerase, beta subunit. This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit.
Probab=85.11 E-value=0.47 Score=58.37 Aligned_cols=20 Identities=30% Similarity=0.454 Sum_probs=11.4
Q ss_pred chhhccccceeeeeEEEecc
Q psy7582 639 GVVEYIDTLEEETTMIAMSP 658 (661)
Q Consensus 639 g~~e~~d~eEeet~~i~m~~ 658 (661)
|.+||+||+|||.++||+.+
T Consensus 479 ~~i~yl~a~eE~~~~Ia~~~ 498 (1065)
T TIGR02013 479 DEVDYLTADEEDNYVIAQAN 498 (1065)
T ss_pred ceeEECChHHhCCcEEEecC
Confidence 45555555555555555544
No 25
>KOG0214|consensus
Probab=68.16 E-value=2.1 Score=50.31 Aligned_cols=33 Identities=55% Similarity=0.680 Sum_probs=31.7
Q ss_pred CceEEeecceeeeecccchhhhhhhhhhhhhcc
Q psy7582 606 GWQVLVQSGVVEYIDTLEEETTMIAMWQVLVQS 638 (661)
Q Consensus 606 ~~~~ll~kg~Ie~ld~~E~~~~~ia~~~~~l~~ 638 (661)
+|..|+.+|.+||||++|+++.++||.+.++.+
T Consensus 621 ~w~~lv~~G~ie~idteeEEtvmiam~~~dL~~ 653 (1141)
T KOG0214|consen 621 RWAHLLSSGEVEYIDTEEEETVMIAMGPKDLAE 653 (1141)
T ss_pred chhhhccccceeeeccchhhhHHHhcCHHHHhh
Confidence 899999999999999999999999999999887
No 26
>PF14251 DUF4346: Domain of unknown function (DUF4346)
Probab=62.39 E-value=4 Score=36.47 Aligned_cols=12 Identities=67% Similarity=1.193 Sum_probs=10.1
Q ss_pred CCCCCCceEEEc
Q psy7582 157 CPLDPGGYFIIN 168 (661)
Q Consensus 157 ~~~d~GGYFIIn 168 (661)
-..||+|||||.
T Consensus 12 i~LDp~GYfiI~ 23 (119)
T PF14251_consen 12 IDLDPAGYFIIY 23 (119)
T ss_pred cccCCCccEEEE
Confidence 457899999986
No 27
>TIGR03670 rpoB_arch DNA-directed RNA polymerase subunit B. This model represents the archaeal version of DNA-directed RNA polymerase subunit B (rpoB) and is observed in all archaeal genomes.
Probab=58.70 E-value=2.1 Score=49.47 Aligned_cols=27 Identities=37% Similarity=0.550 Sum_probs=23.4
Q ss_pred ecceeeeecccchhhhhhhhhhhhhcc
Q psy7582 612 QSGVVEYIDTLEEETTMIAMWQVLVQS 638 (661)
Q Consensus 612 ~kg~Ie~ld~~E~~~~~ia~~~~~l~~ 638 (661)
++|.|||+|++||+++.||+.+.++.+
T Consensus 88 ~~G~IEyida~Ee~~~~IA~~~~~l~~ 114 (599)
T TIGR03670 88 KQGVIEYLDAEEEENAYIALDPEELTP 114 (599)
T ss_pred hcCCeEecCchhhcCeEEecchHHhcc
Confidence 359999999999999999998887743
No 28
>PRK07225 DNA-directed RNA polymerase subunit B'; Validated
Probab=53.53 E-value=2.8 Score=48.54 Aligned_cols=26 Identities=38% Similarity=0.678 Sum_probs=22.6
Q ss_pred ecceeeeecccchhhhhhhhhhhhhc
Q psy7582 612 QSGVVEYIDTLEEETTMIAMWQVLVQ 637 (661)
Q Consensus 612 ~kg~Ie~ld~~E~~~~~ia~~~~~l~ 637 (661)
++|.|||+|++||+++.||+.+.++.
T Consensus 94 ~~G~IEyida~EE~~~~IA~~~~~l~ 119 (605)
T PRK07225 94 KQGVIEYLDAEEEENAYIAVYEEDLT 119 (605)
T ss_pred hCCCeeecChhhhcCeEeccchhhhc
Confidence 35999999999999999999887764
No 29
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=49.88 E-value=7.4 Score=47.47 Aligned_cols=30 Identities=30% Similarity=0.494 Sum_probs=27.1
Q ss_pred hhhhhhhhccchhhccccceeeeeEEEeccC
Q psy7582 629 IAMWQVLVQSGVVEYIDTLEEETTMIAMSPR 659 (661)
Q Consensus 629 ia~~~~~l~~g~~e~~d~eEeet~~i~m~~~ 659 (661)
...|..++..| +||+||+||+.++||+.|.
T Consensus 569 ~~~~~~lv~tG-~E~~~a~e~~~~~ia~~~~ 598 (1060)
T COG0085 569 LRTEAPLVGTG-MEYLDAEDSGAAVIAKRPG 598 (1060)
T ss_pred cccccccccCC-ceeeccccccceeEeccCC
Confidence 45688999999 8999999999999999875
No 30
>PRK08565 DNA-directed RNA polymerase subunit B; Provisional
Probab=44.45 E-value=5.8 Score=49.50 Aligned_cols=31 Identities=39% Similarity=0.663 Sum_probs=28.9
Q ss_pred hhhhhhhccchhhccccceeeeeEEEeccCC
Q psy7582 630 AMWQVLVQSGVVEYIDTLEEETTMIAMSPRL 660 (661)
Q Consensus 630 a~~~~~l~~g~~e~~d~eEeet~~i~m~~~~ 660 (661)
..|.+++.+|.|||+|++|||.++|||++++
T Consensus 585 ~~~~~l~~~g~iEyid~~Ee~~~~Ia~~~~~ 615 (1103)
T PRK08565 585 LTFDDLVKMGVIEYLDAEEEENAYVALDPED 615 (1103)
T ss_pred cchhhHhhcCcEEeeCHHHhcCcEEeccccc
Confidence 5699999999999999999999999999874
No 31
>PF04563 RNA_pol_Rpb2_1: RNA polymerase beta subunit; InterPro: IPR007644 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the protrusion domain []. The other lobe, RNA polymerase Rpb2, domain 2, is nested within this domain.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C 3AOH_H ....
Probab=34.69 E-value=13 Score=36.95 Aligned_cols=24 Identities=50% Similarity=0.839 Sum_probs=20.6
Q ss_pred CCchHHHhhhhccccchhhhcccC
Q psy7582 382 DFNLELAIKTKIITDGLRYSLATG 405 (661)
Q Consensus 382 ~~~~~~~i~~~~it~~i~~~lsTG 405 (661)
.+++..+++.+.||++|++|||||
T Consensus 180 ~~~~~~~i~~~~It~~~~~f~~TG 203 (203)
T PF04563_consen 180 KFNPKSLINSKIITNGIRYFFSTG 203 (203)
T ss_dssp CSSCTTSSHSHHHHHHHHHHHHTS
T ss_pred ccCHHHccCchHHHHHHHHHHcCC
Confidence 456677788899999999999998
No 32
>PF10385 RNA_pol_Rpb2_45: RNA polymerase beta subunit external 1 domain; InterPro: IPR019462 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. RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared with three in eukaryotes (not including mitochondrial or chloroplast polymerases). This entry represents a domain in prokaryotic polymerases that spans the gap between domains 4 and 5 of the protein. It is also known as the external 1 region of the polymerase and is bound in association with the external 2 region []. ; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2GHO_C 1YNN_C 1I6V_C 1YNJ_C 1HQM_C 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C ....
Probab=24.03 E-value=28 Score=27.99 Aligned_cols=18 Identities=39% Similarity=0.540 Sum_probs=14.8
Q ss_pred hhhccccceeeeeEEEec
Q psy7582 640 VVEYIDTLEEETTMIAMS 657 (661)
Q Consensus 640 ~~e~~d~eEeet~~i~m~ 657 (661)
-++||.|+|||.-.||-.
T Consensus 12 ~i~YLtA~eEe~~~IAqA 29 (66)
T PF10385_consen 12 EIEYLTADEEEKYVIAQA 29 (66)
T ss_dssp EEEEEECTTCCCSEEE-T
T ss_pred eeEEEchhhcCCcEeccc
Confidence 359999999999999864
No 33
>PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed
Probab=21.80 E-value=35 Score=42.70 Aligned_cols=20 Identities=25% Similarity=0.361 Sum_probs=18.0
Q ss_pred hhhccccceeeeeEEEeccC
Q psy7582 640 VVEYIDTLEEETTMIAMSPR 659 (661)
Q Consensus 640 ~~e~~d~eEeet~~i~m~~~ 659 (661)
.+||+|++|||.++||+.+.
T Consensus 523 ~i~yl~a~eE~~~~Ia~~~~ 542 (1112)
T PRK00405 523 EIVYLTADEEDNYVIAQANA 542 (1112)
T ss_pred ceEECCHHHhcCcEEEecCc
Confidence 67999999999999999764
Done!