Query psy8410
Match_columns 951
No_of_seqs 244 out of 1880
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 18:05:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8410.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8410hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0216|consensus 100.0 2E-234 5E-239 1971.0 55.7 838 63-951 13-908 (1111)
2 PRK08565 DNA-directed RNA poly 100.0 3E-199 6E-204 1850.9 71.2 816 63-951 9-908 (1103)
3 KOG0214|consensus 100.0 3E-188 6E-193 1605.5 39.5 822 63-951 13-948 (1141)
4 KOG0215|consensus 100.0 2E-184 4E-189 1555.1 36.9 821 63-951 54-963 (1153)
5 cd00653 RNA_pol_B_RPB2 RNA pol 100.0 8E-168 2E-172 1540.8 57.3 647 68-951 1-682 (866)
6 COG0085 RpoB DNA-directed RNA 100.0 8E-161 2E-165 1442.6 51.3 779 47-951 8-881 (1060)
7 TIGR02013 rpoB DNA-directed RN 100.0 2E-148 4E-153 1375.6 55.0 707 48-951 2-889 (1065)
8 PRK00405 rpoB DNA-directed RNA 100.0 2E-144 4E-149 1346.8 58.6 706 48-951 9-932 (1112)
9 CHL00001 rpoB RNA polymerase b 100.0 2E-139 4E-144 1288.7 54.2 713 63-951 10-866 (1070)
10 CHL00207 rpoB RNA polymerase b 100.0 1E-119 3E-124 1107.0 55.1 715 63-951 5-862 (1077)
11 PRK07225 DNA-directed RNA poly 100.0 2E-109 3E-114 976.6 31.3 367 537-951 4-410 (605)
12 TIGR03670 rpoB_arch DNA-direct 100.0 3E-109 6E-114 973.8 30.2 364 540-951 1-404 (599)
13 PRK09603 bifunctional DNA-dire 100.0 3E-105 6E-110 1010.6 52.3 740 48-951 9-1140(2890)
14 PRK14844 bifunctional DNA-dire 100.0 7E-103 2E-107 985.3 52.5 741 48-951 13-1133(2836)
15 PRK09606 DNA-directed RNA poly 100.0 1.3E-96 3E-101 862.7 40.3 437 64-526 14-492 (494)
16 PF00562 RNA_pol_Rpb2_6: RNA p 100.0 1.8E-75 4E-80 664.1 14.3 259 652-951 1-288 (386)
17 PF04563 RNA_pol_Rpb2_1: RNA p 100.0 6.4E-45 1.4E-49 381.3 14.4 148 67-216 1-149 (203)
18 PF04565 RNA_pol_Rpb2_3: RNA p 99.9 6.9E-27 1.5E-31 201.8 2.9 67 437-503 1-68 (68)
19 KOG0215|consensus 99.8 1.6E-22 3.4E-27 233.2 -7.6 405 63-505 108-549 (1153)
20 PF04566 RNA_pol_Rpb2_4: RNA p 99.6 3.7E-15 8E-20 126.7 8.1 63 540-612 1-63 (63)
21 PF04561 RNA_pol_Rpb2_2: RNA p 99.4 2.7E-14 5.9E-19 147.4 2.1 141 217-371 1-190 (190)
22 PRK07225 DNA-directed RNA poly 99.2 1.8E-11 3.8E-16 146.4 4.9 141 711-854 361-551 (605)
23 TIGR03670 rpoB_arch DNA-direct 99.1 2E-11 4.4E-16 145.7 4.0 141 711-854 355-545 (599)
24 PF06883 RNA_pol_Rpa2_4: RNA p 99.1 5.8E-11 1.3E-15 99.1 5.2 57 547-605 1-58 (58)
25 KOG0216|consensus 99.1 1.6E-11 3.5E-16 143.9 1.4 124 722-845 867-1037(1111)
26 PRK08565 DNA-directed RNA poly 99.0 1E-10 2.2E-15 149.4 2.7 133 721-853 866-1048(1103)
27 cd00653 RNA_pol_B_RPB2 RNA pol 98.9 4.1E-10 9E-15 141.1 4.1 117 721-837 640-799 (866)
28 PRK00405 rpoB DNA-directed RNA 98.9 6E-10 1.3E-14 141.6 2.8 117 721-837 890-1049(1112)
29 TIGR02013 rpoB DNA-directed RN 98.8 1.5E-09 3.3E-14 137.3 2.3 117 721-837 847-1009(1065)
30 KOG0214|consensus 98.8 1.4E-09 3.1E-14 129.0 0.1 118 720-837 905-1065(1141)
31 CHL00207 rpoB RNA polymerase b 98.7 5.6E-09 1.2E-13 131.2 3.4 117 721-837 820-994 (1077)
32 PF00562 RNA_pol_Rpb2_6: RNA p 98.7 7.1E-09 1.5E-13 119.2 3.0 109 711-822 239-384 (386)
33 COG0085 RpoB DNA-directed RNA 98.6 4.6E-09 9.9E-14 129.9 -0.2 117 721-837 839-998 (1060)
34 CHL00001 rpoB RNA polymerase b 98.6 1.6E-08 3.6E-13 127.6 3.6 117 721-837 824-998 (1070)
35 PF04567 RNA_pol_Rpb2_5: RNA p 98.6 1.1E-08 2.3E-13 82.7 1.1 38 610-647 5-48 (48)
36 PRK09603 bifunctional DNA-dire 97.9 3.4E-06 7.3E-11 112.0 2.1 70 768-837 1235-1315(2890)
37 PRK14844 bifunctional DNA-dire 97.9 3.2E-06 6.9E-11 111.9 0.5 70 768-837 1293-1373(2836)
38 PHA03394 lef-8 DNA-directed RN 93.9 0.081 1.8E-06 64.5 5.7 59 887-948 696-756 (865)
39 PF14251 DUF4346: Domain of un 58.5 4.9 0.00011 38.7 1.2 18 287-304 87-104 (119)
40 PF04941 LEF-8: Late expressio 38.6 41 0.00089 41.6 4.9 30 887-916 706-735 (748)
No 1
>KOG0216|consensus
Probab=100.00 E-value=2.2e-234 Score=1970.98 Aligned_cols=838 Identities=46% Similarity=0.773 Sum_probs=776.9
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhcc-CCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCcc
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDI-APIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVY 141 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~-~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTY 141 (951)
+.++.++++||+|||...+.||.+..-+. ..-.....+++++++++++++.+|+++.....+.+++|||.|||+|++||
T Consensus 13 p~l~~a~~pHi~sfnal~~~gll~~~v~~~~ek~~~~~g~kis~~ve~i~iakP~l~~~~~ss~~r~lyPaEcRqR~~TY 92 (1111)
T KOG0216|consen 13 PELQDAASPHIDSFNALTNGGLLNAGVAGIAEKVPLKAGDKISMKVESIQIAKPMLSDKVHSSDTRKLYPAECRQRGLTY 92 (1111)
T ss_pred hhhhhhhhhhhccccchhhhhHHHHHhhchhhhcccccCCceeEEEEEEEecCCCCCccccccccccccchhHhhcccee
Confidence 68899999999999999998876664333 22222222479999999999999999975544478899999999999999
Q ss_pred ceeEEEEEEEEeCCCcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCee
Q psy8410 142 SGPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHP 221 (951)
Q Consensus 142 sa~l~v~i~~~~~~~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~ 221 (951)
+|.+.|++.|.+||.....++.++|++||||||++|||.|++|+||++++|++.|+||||||||+||||||||++|||+|
T Consensus 93 ~Gkl~v~v~wsVNg~~~~~e~~dlG~vPIMlrSklChL~g~sp~eLV~hkEe~~EmGGYFIvNGIEKvIRmLIm~RRNHP 172 (1111)
T KOG0216|consen 93 KGKLVVRVSWSVNGGHVVIEKRDLGHVPIMLRSKLCHLNGASPKELVKHKEESSEMGGYFIVNGIEKVIRMLIMPRRNHP 172 (1111)
T ss_pred cceEEEEEEEEECCeeeeeeeeecCccceEEeccccccCCCChHHHhhccCchhhcCcEEEEcChHHhhhhheeccCCCc
Confidence 99999999999999988889999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeehhhHH--------------------------
Q psy8410 222 IAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSHRKSM-------------------------- 275 (951)
Q Consensus 222 ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~~k~l-------------------------- 275 (951)
+|++|++|++||..||+||+.|||||+|+++.+++|||++||+++++|+++|.+
T Consensus 173 iAiIR~Sfk~RG~~yS~yGVsmRcVReDqSsvtn~LHYLnnGtv~~~F~~rK~eylvPv~lILKAL~~tsDeEIf~~lv~ 252 (1111)
T KOG0216|consen 173 IAIIRPSFKDRGSSYSDYGVSMRCVREDQSSVTNVLHYLNNGTVMFRFSHRKREYLVPVVLILKALTNTTDEEIFEGLVG 252 (1111)
T ss_pred eEEechhhhhcCCCccccceEEEEeccccccceeEEEEecCCcEEEEEEEeeeeehhhHHHHHHHHhccCHHHHHHHHhC
Confidence 999999999999999999999999999999999999999999999999887653
Q ss_pred ----------HHHHhHHHHHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCCCCCchhhHhHHHHH
Q psy8410 276 ----------CLLGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDYWDKFLCLSHM 345 (951)
Q Consensus 276 ----------~v~~~L~~~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~~~~~K~~~L~~M 345 (951)
|+..||+++.+++++||+|||+|||++||+.+...|+ +++.++|+++|++++|+||+++.+||.+|++|
T Consensus 253 g~~gdqfl~~rv~~mLr~v~ee~l~trtqcl~yLGs~FRaVl~~v~~-~~D~evg~fILr~~VlvHLd~~~DKF~lLifm 331 (1111)
T KOG0216|consen 253 GDEGDQFLTSRVELMLREVQEENLFTRTQCLQYLGSRFRAVLDFVPE-QPDLEVGRFILREYVLVHLDSDEDKFNLLIFM 331 (1111)
T ss_pred CccCceeHHHHHHHHHHHHhhcccccHHHHHHHHhhhhhhhhcCCCC-CchHHHHHHHHHhheEEEecccHHHHHHHHHH
Confidence 7899999999999999999999999999988765666 88999999999999999999999999999999
Q ss_pred HHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc-------------c-----CChhhHHhhh--ccch
Q psy8410 346 TCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA-------------V-----LKESDIYAAF--RASS 405 (951)
Q Consensus 346 i~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~-------------~-----~~~~~~~~~i--~~~~ 405 (951)
+|||++++.|+|.+||+|+.+|||++++|+||..+|||+++.... . ++...+.+++ .+..
T Consensus 332 iqKL~slv~ge~~~dnpDs~q~qEil~~ghl~~~~LkEriEe~l~~~~~~vr~~l~~~~~~~~~~~~~~i~~~~~r~~~~ 411 (1111)
T KOG0216|consen 332 IQKLYSLVDGECTPDNPDSPQNQEILLPGHLYGSILKERIEEWLRFISAQVRRDLYKLGFKEDFLDISAIRKVFMRTNGN 411 (1111)
T ss_pred HHHHHHHhcCCcCCCCCCChhhhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhHhHHHHHHHHhhcccc
Confidence 999999999999999999999999999999999999999887210 0 1234456666 4689
Q ss_pred HHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCccccccccCCCccccCCCCceeecccCC
Q psy8410 406 IESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTP 485 (951)
Q Consensus 406 It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~t~~R~Lhps~wGfiCPv~TP 485 (951)
|+++|+|||||||+.+ ++|+++||++|+|++|||+||+|||||||+||||++|++||||++|||+|++|||+||||||
T Consensus 412 Ig~~me~fLsTGnl~s--~sgldLqQ~sG~tv~AEriNf~RflShFRavhRGa~f~~mrTTtvRKLlPEsWGFlCPVHTP 489 (1111)
T KOG0216|consen 412 IGRKMEYFLSTGNLVS--RSGLDLQQTSGYTVVAERINFYRFLSHFRAVHRGAFFAEMRTTTVRKLLPESWGFLCPVHTP 489 (1111)
T ss_pred HHHHHHHHHhcCCeee--ccchhhHhhcCcEEehhhhhHHHHHHHHHHHhcccchhheeehhhHhhCchhhcccccccCC
Confidence 9999999999999999 89999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHh
Q psy8410 486 DGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRML 565 (951)
Q Consensus 486 eG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~ 565 (951)
||+||||+||||..|+|++..+. .+.|+++|.++||.|.... ....+..|+|+|||+++||++.+.+..+++.||++
T Consensus 490 DG~PCGlLnH~t~~c~I~t~~dd--~s~ip~~L~~~Gm~p~~~~-~~~G~~l~~VlldGk~vG~~s~~~a~~i~~~lR~~ 566 (1111)
T KOG0216|consen 490 DGAPCGLLNHMTRTCRIVTRPDD--VSFIPSILFELGMVPSSHL-VEAGEPLYPVLLDGKVVGWVSSPLAKKIVDYLRYY 566 (1111)
T ss_pred CCCchhHHHhhhhheeEeecCcc--hhhhhHHHHhcCCCchhcc-ccCCCceeEEEECCEEEEeeccHHHHHHHHHHHHH
Confidence 99999999999999999999876 6899999999999986521 12223479999999999999999999999999999
Q ss_pred hhcCC-CCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccCcceeeeec
Q psy8410 566 KIVGE-KIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRE 644 (951)
Q Consensus 566 k~~g~-~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~E 644 (951)
|.+.. .||.++||.|++.+ .. +||||+||||++||++|||.|++.+.+||||++||+|++||+.++|+.++.+||.|
T Consensus 567 Kv~~p~~iP~~leIg~Vp~s-~~-gqyPglyi~s~~aR~~RpV~nl~~~~~e~iG~fEQvym~i~~~~~e~~~~v~th~E 644 (1111)
T KOG0216|consen 567 KVEAPAVIPNDLEIGYVPTS-TN-GQYPGLYIFSGPARMIRPVKNLSLDSVEWIGPFEQVYMNIAIDPKEIFPDVTTHVE 644 (1111)
T ss_pred hhcCcccCCCcceEeeeecC-CC-CCCceeEEecCchhhhhehhccccCchhhcccHHHhhhhhccchhhcCCCcceeEE
Confidence 97633 29999999999987 45 99999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeecccccccccccCCCCce
Q psy8410 645 LSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTN 724 (951)
Q Consensus 645 i~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~~~~~~~~~~p~G~N 724 (951)
++|+.+||++|+|||||||||||||||||||||||||+|++||+.|+|+|+|+|+|||.|+|++..||.+++|++|.|+|
T Consensus 645 ~~pt~~ls~~anliP~sD~NQSPRNmYQCQMgKQtmg~p~~a~~~radnklYrlqt~qsP~vr~~~y~~y~~d~yp~GtN 724 (1111)
T KOG0216|consen 645 LHPTGILSIVANLIPFSDHNQSPRNMYQCQMGKQTMGTPGHALRTRADNKLYRLQTPQSPIVRPELYDTYGMDDYPNGTN 724 (1111)
T ss_pred ecccchHhHhhcCccccccCCCchhHHHhhhhhhhcCCccccchhcccCceEEecCCCCceeecccccccccccCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecc
Q psy8410 725 AIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMV 804 (951)
Q Consensus 725 aiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v 804 (951)
|||||+|||||||||||||||+|+||||+++++||++++++.++.+
T Consensus 725 aiVAVisyTgyDMeDAmiiNK~s~eRGf~~G~vykte~i~L~~~~~---------------------------------- 770 (1111)
T KOG0216|consen 725 AIVAVISYTGYDMEDAMIINKSSYERGFAYGTVYKTEKIDLSKKRS---------------------------------- 770 (1111)
T ss_pred eEEEEEeecccChhhhhhhchhhhhccccceeEEeeeeechhhccc----------------------------------
Confidence 9999999999999999999999999999999999999999876321
Q ss_pred cccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecCCCCeEEEEEeCCCccEEEEEEEEecCCCCCCCC
Q psy8410 805 SDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKESENRYVTCRYSGKEEMCVEVVRMSSGFTEGGSV 884 (951)
Q Consensus 805 ~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~~~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~ 884 (951)
....|++.|.++. .++||+||||.+|+++..||++|++++.++++....+|++.|+|+||.|++.+++...
T Consensus 771 -----r~~~F~~~p~~~~-~~~ld~dgLP~~G~kl~~~dp~~~y~d~~t~~~~~~~~~~~ep~~vd~vr~~~~~~~~--- 841 (1111)
T KOG0216|consen 771 -----RSKHFGRSPGEPE-LKKLDADGLPSIGQKLEYGDPYYAYFDEETGKTRIKKYHGTEPGIVDEVRVLGNDMGD--- 841 (1111)
T ss_pred -----ceeeeeeCCCCcc-ccccCCCCCCCCcccccCCCcEEEEEcccCCceEEEEecCCCCeeeEEEEEccccCCC---
Confidence 1247888887765 7899999999999999999999999999999999999999999999999999987432
Q ss_pred CCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 885 TPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 885 ~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
..+.+.|++|++|+|.||||||||||||||||+.||.+||||||+|++|||||||||||||||||||
T Consensus 842 ~~k~~~i~~Ri~R~p~IGDKFsSRhGQKGicS~~wP~~dmPFtesGm~PDii~NPH~FPSRMTIgM~ 908 (1111)
T KOG0216|consen 842 QEKCATITLRIPRNPIIGDKFSSRHGQKGICSQKWPTIDMPFTESGMVPDIIINPHAFPSRMTIGML 908 (1111)
T ss_pred ccceEEEEEEecCCCcccchhhhhccccccccccCCCCCCCccccCcCcceeeCCCCCcccccHHHH
Confidence 2488999999999999999999999999999999999999999999999999999999999999996
No 2
>PRK08565 DNA-directed RNA polymerase subunit B; Provisional
Probab=100.00 E-value=2.9e-199 Score=1850.87 Aligned_cols=816 Identities=29% Similarity=0.436 Sum_probs=705.8
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCccc
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYS 142 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTYs 142 (951)
...++|++|||||||+|+++||++++++++||++. +..+.|+|++++|++|++.++++ ...+|+|+|||+|++||+
T Consensus 9 ~~~~~Lv~~qidSFn~Fi~~gL~~iv~~~~pI~~~--~~~~~L~f~~i~l~~P~~~~~~~--~~~~l~P~ecR~r~lTYs 84 (1103)
T PRK08565 9 FKEKGLVRQHLDSYNDFIERGLQEIVDEFGEIKTE--IPGLKIVLGKIRVGEPEIKEADG--SERPITPMEARLRNLTYA 84 (1103)
T ss_pred hcccChHHHHHHHHHHHHHHhHHHHHHhcCCEEec--CCCEEEEEEEEEECCCccccccc--ccCCCCHHHHHhcCCCcc
Confidence 45789999999999999999999999999999886 47899999999999999987664 457899999999999999
Q ss_pred eeEEEEEEEEeCCCcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCeeE
Q psy8410 143 GPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPI 222 (951)
Q Consensus 143 a~l~v~i~~~~~~~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~i 222 (951)
|||+|+++++.++.+....++.||+|||||||++|||++++|+||+++||||+|+||||||||+|||||+|+++++|+++
T Consensus 85 a~l~v~i~~~~~~~~~~~~~v~iG~iPIMv~S~~C~L~~~s~~el~~~~E~p~D~GGYFIING~ERVI~~q~~~s~n~~~ 164 (1103)
T PRK08565 85 APLYLTMIPVENGIEYEPEEVKIGDLPIMVKSKICPLSGLSPDELIEIGEDPKDPGGYFIINGSERVIVSQEDLAPNRVL 164 (1103)
T ss_pred eEEEEEEEEEECCeeeEEEEEEeccCCeEeCCCcccCCCCCHHHHHhcCCCccCCCCeEEECCcEEEEEEEEecCCCEEE
Confidence 99999999987775555668999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeehh----------hHH------HH---------
Q psy8410 223 AIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSHR----------KSM------CL--------- 277 (951)
Q Consensus 223 a~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~~----------k~l------~v--------- 277 (951)
+..+ .++..++.++..+++...+ .....++|..+|.+.++|... |++ .+
T Consensus 165 ~~~~----~~~~~~~~~a~i~s~~~~~--~~~~~l~~~~~g~i~~~~~~~~~~IPi~illkALG~~sD~eI~~~i~~~~~ 238 (1103)
T PRK08565 165 VDKG----EAGSSITHTAKVISSRAGY--RAQVTVERRKDGTIYVSFPAVPGKIPFVILMRALGLETDRDIVYAVSLDPE 238 (1103)
T ss_pred EEEe----cCCCcceEEEEEEeccCCC--cceEEEEEecCCeEEEEEcCcccEeeHHHHHHHcCCCCHHHHHHHhcccHH
Confidence 8753 3456666667666655433 356789999999988877643 233 11
Q ss_pred -HHhHHHHHHh--CC-CCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCCCCC----chhhHhHHHHHHHHH
Q psy8410 278 -LGMMQSLHEE--GI-HTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDD----YWDKFLCLSHMTCKL 349 (951)
Q Consensus 278 -~~~L~~~~~~--~i-~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~~----~~~K~~~L~~Mi~kL 349 (951)
...|....++ .+ .|+++||.|||++|++. .++.++++.|+++|++++|||++. +.+|+++|++|++||
T Consensus 239 ~~~~l~~~l~~~~~~~~t~~~al~~ig~~~~~~----~~~~~~~e~~~~~L~~~ll~Hig~~~~~~~~K~~~L~~Mi~kL 314 (1103)
T PRK08565 239 IQQELLPSLEQASSIAATVEDALDYIGKRVAIG----QPREYRIERAEQILDKYLLPHLGTSPEDRIKKAYFLGQMASKL 314 (1103)
T ss_pred HHHHHHHHHHHhhccccCHHHHHHHHHHhccCC----CCCccHHHHHHHHHHhhCcccCCCcccchhHHHHHHHHHHHHH
Confidence 1222222222 25 89999999999999864 235567899999999999999985 457999999999999
Q ss_pred HHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc-----------cCChhhHHhhhccchHHHHHHHHHhcCC
Q psy8410 350 FHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA-----------VLKESDIYAAFRASSIESAMTNFLATGN 418 (951)
Q Consensus 350 l~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~-----------~~~~~~~~~~i~~~~It~~i~~~laTGN 418 (951)
++++.|.+.+||+|||+||||+++|+||+.+||+.|++... +.+..++..+++++.||++|++||||||
T Consensus 315 l~l~~g~~~~DD~D~l~NKRv~l~G~Ll~~~fr~~l~~~~~~ik~~l~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGn 394 (1103)
T PRK08565 315 LELYLGRREPDDKDHYANKRLRLAGDLLAELFRVAFKQLVKDLKYQLEKSYARGRKLDLRAIVRPDIITERIRHALATGN 394 (1103)
T ss_pred HhhhcCCCCCCCccccCCcEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHhcccchhhHHHHHHHhcCc
Confidence 99999999999999999999999999999999997776211 1122345566677899999999999999
Q ss_pred cCCCccchhhhhhccceeEEecccchhhhcccccccccCccccccccCCCccccCCCCceeecccCCCCccccccccccc
Q psy8410 419 VSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTT 498 (951)
Q Consensus 419 w~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~ 498 (951)
|.+ |++||||+|+|+||+|+|||||||+. ++..+.+.++||+||||||||+||+|||||++||||||||+
T Consensus 395 w~~---------~~sGvSq~ldr~N~l~~lSh~Rrv~s-~~~r~~~~~~vR~Lhps~wG~iCPveTPEG~~cGLv~~LA~ 464 (1103)
T PRK08565 395 WVG---------GRTGVSQLLDRTNYLSTLSHLRRVVS-PLSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLAL 464 (1103)
T ss_pred ccc---------CCcceEEecccCCHHHHHHHHhhccC-CcccCCCCccccccChhhccccCCCCCCCccccchhhhhhc
Confidence 998 35999999999999999999999964 23344567899999999999999999999999999999999
Q ss_pred eeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEE
Q psy8410 499 NCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEI 578 (951)
Q Consensus 499 ~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei 578 (951)
+|+|++..+. +.|.++|.++|+.++...........++|||||+|+|++++ +..+++.||.+||+|. ||.++||
T Consensus 465 ~a~It~~~~~---~~i~~~l~~~G~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~--~~~l~~~lR~~Rr~g~-i~~~v~I 538 (1103)
T PRK08565 465 MAQISVGVDE---EEVEEILYELGVVPVEEAREEEYISWSRVYLNGRLIGYHPD--GEELAEKIRELRRSGK-ISDEVNV 538 (1103)
T ss_pred ccccccCCCh---HHHHHHHHHcCCCchhhcCcccCCCceEEEECCEEEEEECC--HHHHHHHHHHHhhcCC-CCCeEEE
Confidence 9999998764 88999999999998753322233456899999999999974 7999999999999998 9999999
Q ss_pred EEEcCCCCCCCCCCeEEEEecCcccccceeeeccc--------------------------cccccCCccceeeeeeecc
Q psy8410 579 VYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAG--------------------------NIEWIGTFEQVFMDICITM 632 (951)
Q Consensus 579 ~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g--------------------------~iE~I~~~Eq~~~~Ia~~~ 632 (951)
++++. +++++|+||||+||++|||+++++| .|||||++||++++||+++
T Consensus 539 ~~~~~-----~~~~~i~I~sd~GRl~RP~~~v~~g~~~~~~~~~~~l~~~~~~~~~l~~~g~iEyid~~Ee~~~~Ia~~~ 613 (1103)
T PRK08565 539 AYIET-----GEINEVYVNCDSGRVRRPLIVVENGKPKLTREHVEKLKKGELTFDDLVKMGVIEYLDAEEEENAYVALDP 613 (1103)
T ss_pred EEccc-----cccceEEEecCCceeeeeEEEEecCceeccHHHHHHhhccccchhhHhhcCcEEeeCHHHhcCcEEeccc
Confidence 99863 4578999999999999999998654 8999999999999999999
Q ss_pred cccCcceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeeccccc
Q psy8410 633 KEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYD 712 (951)
Q Consensus 633 ~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~~~ 712 (951)
+++.. .+||+||+|++|||++||+|||+||||||||||||||+|||||++++|+..|+|+++|+|+|||+|||+|+.++
T Consensus 614 ~~l~~-~~th~Ei~p~~ilsv~asliPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~r~d~~~~~l~~pQ~Plv~t~~~~ 692 (1103)
T PRK08565 614 EDLTP-EHTHLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGLYAANFRIRTDTRGHLLHYPQRPLVQTRALE 692 (1103)
T ss_pred cccCc-ceeccccCCccccceeeeccCCcccCcccchhhhhhhhhcccccccccceEeecCCcceeecCceeEEEecccc
Confidence 99865 58999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEe
Q psy8410 713 TLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFF 792 (951)
Q Consensus 713 ~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~ 792 (951)
.++++++|+|+||+||||||+||||||||||||+|+|||||++++|+++.++.++.. .|.+..+..
T Consensus 693 ~~~~~~~p~G~N~iVAv~sy~GYn~EDaiIink~s~~rG~~~s~~~~~~~~~~~~~~--~~~~~~~~~------------ 758 (1103)
T PRK08565 693 IIGYNDRPAGQNAVVAVLSYTGYNIEDAIIMNKASIERGLARSTFFRTYETEERKYP--GGQEDKIEI------------ 758 (1103)
T ss_pred ccccccCCCCeeEEEEEEcccCcchHHhhhhhhhhhhcCCceEEEEEEEEEEeeecC--CCCceEEec------------
Confidence 999999999999999999999999999999999999999999999999887654311 111100000
Q ss_pred ceeeeeeeeecccccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecC--------------CCCeEEE
Q psy8410 793 GVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKE--------------SENRYVT 858 (951)
Q Consensus 793 g~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~--------------~~~~~~~ 858 (951)
+ ....++..+ +..+++||+||+|++|++|++||+|+||+++ ...++.+
T Consensus 759 -~---------------~~~~~~~~~--~~~~~~Ld~dGi~~~G~~v~~gdili~k~~p~~~~~~~~~~~~~~~~~~~~s 820 (1103)
T PRK08565 759 -P---------------EPNVRGYRG--EEYYRKLDEDGIVSPEVEVKGGDVLIGKTSPPRFLEELEELSLGLQERRDTS 820 (1103)
T ss_pred -C---------------CCcccccCc--hhhhhcCCCCCCcCCCcEEcCCCEEEEEecCCCCCcchhhccccCCccccce
Confidence 0 001222111 2348899999999999999999999999976 1235678
Q ss_pred EEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeC
Q psy8410 859 CRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFN 938 (951)
Q Consensus 859 ~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~N 938 (951)
++|+++|+|+||+|.++.+.+ + .+.|+|++|+.|+|+||||||||||||||||++||+||||||++|++||||||
T Consensus 821 ~~~~~~e~g~V~~V~~~~~~~-~----~~~vkv~ir~~R~p~iGDKfssRhGqKGv~s~i~~~edmPf~~~G~~pDiI~N 895 (1103)
T PRK08565 821 VTVRHGEKGIVDTVLITESPE-G----NKLVKVRVRDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIIN 895 (1103)
T ss_pred EEecCCCceEEEEEEEEecCC-C----cEEEEEEEEEEecCchhhhhhhhccCcceeeeecccccCCcCCCCCCccEEEC
Confidence 899999999999999988753 2 57999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcccCCCCC
Q psy8410 939 PHGFPSRMTIGFL 951 (951)
Q Consensus 939 Phg~PSRMTiG~l 951 (951)
|||||||||||||
T Consensus 896 Ph~~PSRMtiG~l 908 (1103)
T PRK08565 896 PHAIPSRMTVGQL 908 (1103)
T ss_pred CCCCcccccHHHH
Confidence 9999999999996
No 3
>KOG0214|consensus
Probab=100.00 E-value=3e-188 Score=1605.46 Aligned_cols=822 Identities=29% Similarity=0.409 Sum_probs=702.8
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecc-------cEEEEEEeeEEEcCCcccCCCCCcccccCChHHHH
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYG-------KTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEAR 135 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~-------~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcR 135 (951)
...++|++||+||||.||+.++++|+++.++|+..... .+|.|+|+.|++.+|+..|.|+ .+..++|+|||
T Consensus 13 f~ekglvrqQldsFdeFiq~~~qeiv~~~p~i~l~~~~qh~~~~~~r~~l~f~qiylskP~~~e~dg--~~~~m~p~eAR 90 (1141)
T KOG0214|consen 13 FEEKGLVRQQLDSFDEFIQQTLQEIVADSPKIELQDEAQHTQENPARYQLFFEQIYLSKPTHTESDG--STSTMFPNEAR 90 (1141)
T ss_pred hcccchHHHHHHHHHHHHHHHHHHHHhcCCCceehhhhhhhccCccceEEEeeeEEEecccccccCC--CccccCchhhH
Confidence 46789999999999999999999999999999886532 4689999999999999999998 67899999999
Q ss_pred hcCCccceeEEEEEEEEeCCC-----cceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEE
Q psy8410 136 QTRSVYSGPFNVTVAWSWDGK-----AGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLV 210 (951)
Q Consensus 136 lr~lTYsa~l~v~i~~~~~~~-----~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVI 210 (951)
+||+|||||||||++..+... ..+..+++||+||||+||..|.|++++++||.++||||+|+||||||||+|||+
T Consensus 91 lrnLTYSspLyVd~~k~~~~~~~~~~~~~~qkvfIGkIPiMlrS~~C~l~~~~d~dl~~l~eCp~DqgGyfIINGseKVl 170 (1141)
T KOG0214|consen 91 LRNLTYSSPLYVDATKIVKTSRDEVEDMQEQKVFIGKIPIMLRSSYCLLSGLTDKDLTELGECPYDQGGYFIINGSEKVL 170 (1141)
T ss_pred hhhcccccceEEEeEEEEeeccccccccccceeeEeccceeeehhhhhhcccchhhhhhccCCCcCCCceEEEcCceeee
Confidence 999999999999999875321 234568999999999999999999999999999999999999999999999999
Q ss_pred EEEEeccCCeeEEEE-------------eccccccCcccceeEEEEEEecCC--CcceeEEEEEeecCcEEE-Ee-----
Q psy8410 211 RLLINNRRNHPIAIK-------------RNAWKNRGLLFSDLGVYIRSVKRD--ESATNNVLHFVTNGSARF-MF----- 269 (951)
Q Consensus 211 r~li~~r~N~~ia~~-------------R~~~~~rg~~~t~~~v~ir~v~~d--~~s~~~~l~yl~~g~~~~-~~----- 269 (951)
+.|+..+.|....++ ||...+.+..-+. .++....++ ...+..+|.|++.....+ .|
T Consensus 171 IAQe~matn~vyvf~k~~p~~~ay~~EirS~le~~sR~~st--l~v~~~ar~~~gq~i~~tlpyikqeIPI~ilfrALG~ 248 (1141)
T KOG0214|consen 171 IAQEKMATNIVYVFKKAHPGTYAYTGEIRSCLERSSRFIST--LSVNMDARAGKGQEIIATLPYIKQEIPILILFRALGF 248 (1141)
T ss_pred eehhhccCceEEEEecCCCCceeEeeeeehhhhccCCCcce--eeeeeccccCCCceEEEEeeeecccCcEEEEehhhcC
Confidence 999999999765543 2211111111111 122222211 234567788888765432 22
Q ss_pred ehhhHH-----------HHHHhHHHHHHhCC--CCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCCCCCch
Q psy8410 270 SHRKSM-----------CLLGMMQSLHEEGI--HTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDYW 336 (951)
Q Consensus 270 ~~~k~l-----------~v~~~L~~~~~~~i--~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~~~~ 336 (951)
...|++ .+++||+.+.+++. ..++.||+|||+|-.+.- -+...+++.|+++|.+++|||++...
T Consensus 249 v~dreILehIcYd~~D~em~e~lkpsieeafviq~qn~ALdfig~rga~~G---vtkekri~yakdiLqKe~lPhi~~~e 325 (1141)
T KOG0214|consen 249 VSDREILEHICYDFDDAEMFESLKPSIEEAFVIQEQNVALDFIGQRGACIG---VTKEKRIKYAKEILQKELLPHVGLGE 325 (1141)
T ss_pred CccHHHHHhhcCCCCcHHHHHHhhhhhhhhhhhhhhHHHHHHHHhcCCCCC---CCcchhhHHHHHHHHHHhccccccch
Confidence 124444 47788888877764 456679999999975432 23456889999999999999998644
Q ss_pred ----hhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc-----------ccCChhhHHhhh
Q psy8410 337 ----DKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS-----------AVLKESDIYAAF 401 (951)
Q Consensus 337 ----~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~-----------~~~~~~~~~~~i 401 (951)
.|++||+|||++|+.++.|++.+||||||+|||++|+|+|++.+||..|.+.. ......++.-++
T Consensus 326 ~~etkKA~fLGYmi~rlll~aLgRr~~ddRDHfG~KRLDlaGpLLa~lfR~lf~~l~rd~~~~mQk~le~~~dfni~~ai 405 (1141)
T KOG0214|consen 326 ICETKKAYFLGYMVHRLLLAALGRRELDDRDHFGNKRLDLAGPLLAKLFRSLFAKLLRDVTRYMQKCLENGVDFNIELAI 405 (1141)
T ss_pred hhhhhHHHHHHhhHHHHHHHHcCCCCccchhhccccchhhchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCccceEEEEE
Confidence 89999999999999999999999999999999999999999999998666521 112344555577
Q ss_pred ccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCccccccccCCCccccCCCCceeec
Q psy8410 402 RASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICP 481 (951)
Q Consensus 402 ~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~t~~R~Lhps~wGfiCP 481 (951)
+++.||++++|+||||||+.+++ .++-++||||||+|+||+++|||+||++. +...++|...||+|||||||++||
T Consensus 406 ka~iIt~gl~yslaTgnwgdq~k---a~~~ragVsQVLnR~t~~sTLsHlRR~n~-Pigr~GKlAkpRqlHnthwGmvCP 481 (1141)
T KOG0214|consen 406 KAKIITNGLNYALATGNWGDQKK---AMQGRAGVSQVLNRLNPLSTLSHLRRTNS-PIGRTGKLAKPRQLHNSHWGMVCP 481 (1141)
T ss_pred EeeeecccceeeeccCCccchhH---HhhccccHHHHhccccHHHHHHHHhhcCC-ccccccccCCccccCcccceeecc
Confidence 99999999999999999997555 67789999999999999999999999994 567889999999999999999999
Q ss_pred ccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHH
Q psy8410 482 VHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPK 561 (951)
Q Consensus 482 v~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~ 561 (951)
+|||||++||||||||+|+.|+++..+ .+|.++|.++||++++...++.....++||+||.|+|.|.+ ++.++..
T Consensus 482 aeTPEGqacGLVKNLSLmayIsvGS~~---sPi~EfLeewgmE~le~~~ps~~~datkvfvNG~wvGlhrd--p~~l~~t 556 (1141)
T KOG0214|consen 482 AETPEGQACGLVKNLSLMAYISVGSLE---SPIVEFLEEWGMENLEEISPSPSPDATKVFVNGVWVGLHRD--PEELVAT 556 (1141)
T ss_pred ccCCCcceeeccccceEEEEEecCCCc---cHHHHHHHHhchhhHhhcCCCcCCCceEEEEcccEEEecCC--HHHHHHH
Confidence 999999999999999999999999776 88999999999999987766777778999999999999985 5899999
Q ss_pred HHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeecc-----------------------------
Q psy8410 562 LRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAA----------------------------- 612 (951)
Q Consensus 562 lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~----------------------------- 612 (951)
||++||+.. ++.+++++.+... + +++||||+||.|||++++++
T Consensus 557 lr~lRR~~d-i~~Evs~vRDIr~-k------E~ri~tDaGR~~rPLliven~~l~~~k~hi~~L~~~~~~~~~w~~lv~~ 628 (1141)
T KOG0214|consen 557 LKRLRRQFD-IIAEVSMVRDIRD-K------EIRIFTDAGRSLRPLLIVENAKLLIKKRHIRALKQSKPNEYRWAHLLSS 628 (1141)
T ss_pred HHHHHHhhc-cchhhhhhccccc-c------ceeeeeccCccccceEEEechhhhhhhHHHHHHhhCchhhcchhhhccc
Confidence 999999876 7777777665543 3 49999999999999998653
Q ss_pred ccccccCCccceeeeeeecccccCc----ceeeeecccCCccccceeeeecCCCCCCCccchhhcccccccccccccccc
Q psy8410 613 GNIEWIGTFEQVFMDICITMKEAYP----GITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWR 688 (951)
Q Consensus 613 g~iE~I~~~Eq~~~~Ia~~~~~~~~----~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~ 688 (951)
|.+||||++||+.++||+.++|+.+ ..||||||||+.|||++||+|||||||||||||||+||+|||||++..|++
T Consensus 629 G~ie~idteeEEtvmiam~~~dL~~~~~~~~~THCEiHpsmILgv~asiIpFpdh~qspr~tYQsa~~kqamg~y~tn~~ 708 (1141)
T KOG0214|consen 629 GEVEYIDTEEEETVMIAMGPKDLAESAYPKTYTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVYHTNPQ 708 (1141)
T ss_pred cceeeeccchhhhHHHhcCHHHHhhccCCcccccccccHHHhhhhceeeeecCCCCCchHHHHHHHHhhhcceeeeecch
Confidence 6799999999999999999999864 468999999999999999999999999999999999999999999999999
Q ss_pred ccCCcceEEecCCCceeeecccccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEecc
Q psy8410 689 YQGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESG 768 (951)
Q Consensus 689 ~R~D~~~y~L~ypQ~Plv~t~~~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~ 768 (951)
.|+|+..|.|+|||+|+|+|+.++++.+.++|+|+|++||++||+|||+|||+|||+++++||+|++.+|+++.....+.
T Consensus 709 vR~dtl~~~l~ypqkpl~tt~~~e~l~~~eL~aG~NaiVAi~~~~GYNqEDsvimn~s~v~rg~FrS~~~RsYk~q~~~~ 788 (1141)
T KOG0214|consen 709 VRMDTLAKVLYYPQKPLVTTRAMEYLRFRELPAGQNAIVAIACYSGYNQEDSVIMNQSSVDRGLFRSFFIRSYKDQEHKK 788 (1141)
T ss_pred hhhhhhhhcccccccchhhHHHHhhhhhhhcccccceEEEEecccCccHHHHHHHHhhhhhcchhhhhhhhHHHhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999987654321
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCC------CChhhhhcCCCCCceeecceecCC
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDP------ANKALEDKLGPDGLVYVGAKLNER 842 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p------~~~~~~~~Ld~DGl~~~G~~v~~g 842 (951)
. .|. .+.|...+ .+...|++||+||++.+|+.|..|
T Consensus 789 ~--~~~------------------------------------ee~~~~~~~~~~~~mr~~~~dkLdddG~i~~G~~vs~~ 830 (1141)
T KOG0214|consen 789 D--QGP------------------------------------EEIFEEPPRGEGRGMRNGKYDKLDDDGIIMPGSRVSGG 830 (1141)
T ss_pred c--ccc------------------------------------ccccccccccccccccccccccccccCCccccceeecC
Confidence 1 011 12222211 122358899999999999999999
Q ss_pred CCEEEEecCC------C--------CeEEEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceecc
Q psy8410 843 DPMYSYWKES------E--------NRYVTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASR 908 (951)
Q Consensus 843 d~l~~~~~~~------~--------~~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssR 908 (951)
|+++||..+. . +++.+++++++|.|+||+|.++.|. +| .+.++|++|+.|.|++|||||||
T Consensus 831 Dv~iGk~t~~~~~~~~~~~~~~~~t~~d~s~~Lr~~e~Givd~V~vt~n~-~G----~kF~kv~vr~~ripqiGDKfasr 905 (1141)
T KOG0214|consen 831 DVLIGKTTPQPAKEDESGPEDRLYTKRDHSTKLRHTERGIVDQVWVTKNS-EG----PKFVKVRVRQVRIPQIGDKFASR 905 (1141)
T ss_pred CEEeccccCCcccchhccccccccccccceeecccCCcceEEEEEEecCC-CC----CceeEEEEeecccccccchhccc
Confidence 9999998741 1 2457889999999999999999875 33 79999999999999999999999
Q ss_pred CCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 909 AGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 909 HGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
||||||||.+++|||||||.+|++|||||||||||||||||||
T Consensus 906 HgqKG~ig~~~~qedmpft~eGi~pDiiiNPhaiPSRmtig~l 948 (1141)
T KOG0214|consen 906 HGQKGTIGITYRQEDMPFTIEGIVPDIIINPHAIPSRMTIGQL 948 (1141)
T ss_pred cccCccccceeecCCCCccccCCCcceEECcccCccccchhhh
Confidence 9999999999999999999999999999999999999999986
No 4
>KOG0215|consensus
Probab=100.00 E-value=1.7e-184 Score=1555.08 Aligned_cols=821 Identities=28% Similarity=0.442 Sum_probs=690.6
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCccc
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYS 142 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTYs 142 (951)
...+|||+||+||||||++.+|+.|++++..|..+. +..++++|.|+++++|++.++... ....++|+|||+|++||+
T Consensus 54 lkvkglvkqhldsfnyfv~~~ik~iv~an~~itsd~-dp~fylky~dirvg~Ps~~~~~~~-~~~~i~p~ecrlrd~tys 131 (1153)
T KOG0215|consen 54 LKVKGLVKQHLDSFNYFVDVDIKKIVKANQLITSDV-DPSFYLKYLDIRVGKPSIEEGNNV-TNDNITPHECRLRDMTYS 131 (1153)
T ss_pred HhhhhHHHHHHhhhhhhhhhhHHHHHHhhcccCcCc-CchhhheeeeeeccCcchhhcccc-ccccCCchheeehhhhcc
Confidence 468999999999999999999999999999998877 789999999999999999877543 345799999999999999
Q ss_pred eeEEEEEEEEeCCCcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCeeE
Q psy8410 143 GPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPI 222 (951)
Q Consensus 143 a~l~v~i~~~~~~~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~i 222 (951)
||++||++++.+.......++.||++|||+||++|+|++.+++++++.+|||+||||||||+|+||||..|++.+.|..+
T Consensus 132 a~i~vdieytrg~~~~~~~~v~igrmpimlrs~rcvl~~~~e~~~a~~~ecpldpggyfiv~G~ekViLiqeqlsknrii 211 (1153)
T KOG0215|consen 132 APIYVDIEYTRGRQIIAKRDVIIGRMPIMLRSSKCVLRGKDEEELARLNECPLDPGGYFIVKGTEKVILIQEQLSKNRII 211 (1153)
T ss_pred cceeEEEEEecCcceEEecccccccchhhhhccccccCCccHHHHHHhccCCCCCCceeEeccceeEEEehhhhhccCee
Confidence 99999999998777666678999999999999999999999999999999999999999999999999999999999877
Q ss_pred EEEeccccccCcccceeEEEEEEecCCCcce--eEEEEEeecCcEE----EEeehhhHH--------------------H
Q psy8410 223 AIKRNAWKNRGLLFSDLGVYIRSVKRDESAT--NNVLHFVTNGSAR----FMFSHRKSM--------------------C 276 (951)
Q Consensus 223 a~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~--~~~l~yl~~g~~~----~~~~~~k~l--------------------~ 276 (951)
.- . ...+...-+.. .--..+..++.+ ..-..|+++.... +.+ ..|++ .
T Consensus 212 ~~-~---~k~~~~~~svt-sst~e~kskt~v~~k~~k~ylk~~~~~d~ipivi-v~ka~g~~sd~ei~~~vg~~~~y~~~ 285 (1153)
T KOG0215|consen 212 VE-E---DKKGNLQASVT-SSTHERKSKTYVTTKKGKYYLKHNSFTDDIPIVI-VLKAMGLESDQEIVQLVGGDSKYQDI 285 (1153)
T ss_pred ec-c---ccCCccccccc-cceeeecceEEEEeccceeeeehhhhhccCCEEE-EEeeccccchHHHHHHhhcchHHHHh
Confidence 53 1 11222211100 000011111111 1123455544321 111 12322 1
Q ss_pred HHHhHHHHHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCCCC----CchhhHhHHHHHHHHHHHH
Q psy8410 277 LLGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLD----DYWDKFLCLSHMTCKLFHV 352 (951)
Q Consensus 277 v~~~L~~~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~----~~~~K~~~L~~Mi~kLl~~ 352 (951)
....+.++...+++||++||+|++.+.+... +...+..+.|..+|...+++|++ +...|+.+++.|+|+++.+
T Consensus 286 ~~~s~ee~~~~~v~tqqqal~y~~~kvk~~~---~t~~~~~~e~~~~l~~~~lahv~v~~~~~r~K~~yi~~m~rr~~~a 362 (1153)
T KOG0215|consen 286 FAPSLEECVSLGVYTQQQALEYIGSKVKVKR---GTTPTKDEEALEVLSTTVLAHVPVPDLNFRMKAIYIGLMVRRVIQA 362 (1153)
T ss_pred hccchhhhhhhhhHHHHHHHHHhhheEEecc---CCCCCchHHHHHHHHhhheeceeccCCCCcceeehHHHHHHHHHHH
Confidence 2223566677899999999999999987643 33445678899999999999996 4568999999999999999
Q ss_pred hcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc------------c--cCChhhHHhhh--ccchHHHHHHHHHhc
Q psy8410 353 VQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS------------A--VLKESDIYAAF--RASSIESAMTNFLAT 416 (951)
Q Consensus 353 ~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~------------~--~~~~~~~~~~i--~~~~It~~i~~~laT 416 (951)
..+.-..||+|+++|||++|+|+|++.+|++-|.... + +....++.+.+ +.+.||++|.+++||
T Consensus 363 ~l~~~~~ddrd~~gnkrlelagqllsllfeD~fk~~n~e~k~~~dk~l~k~~ra~~fD~~~~~n~~~~~it~~l~ra~st 442 (1153)
T KOG0215|consen 363 MLNKLAMDDRDYVGNKRLELAGQLLSLLFEDLFKRFNSELKKNIDKILKKPIRAQEFDALKHLNVRANMITSGLERAIST 442 (1153)
T ss_pred HhCcccccchhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999999999999999998665511 1 12345566656 788999999999999
Q ss_pred CCcCCCccchhhhhhccceeEEecccchhhhcccccccccCcccccccc-CCCccccCCCCceeecccCCCCcccccccc
Q psy8410 417 GNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRS-SEPRQLRTDAWGFICPVHTPDGTPCGLLNH 495 (951)
Q Consensus 417 GNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~-t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~ 495 (951)
|||.. |+ +.|.+.|++||+.|++|++.|..+.|++ +.|+++|+ .+||.|+|||||++||+|||||++||||||
T Consensus 443 gnw~i-Kr---frmer~gvt~VlsrlSyisaLgmmtri~--s~fektrkvsgprSlq~sqwgmlcp~dtpegeacglvkn 516 (1153)
T KOG0215|consen 443 GNWSI-KR---FRMERAGVTQVLSRLSYISALGMMTRIN--SQFEKTRKVSGPRSLQPSQWGMLCPSDTPEGEACGLVKN 516 (1153)
T ss_pred CchHH-HH---hhhhhccceeeehhhhhhhhhhhheehh--hhheeehhccCccccChhhcccccCCCCCCccccccccc
Confidence 99999 55 6689999999999999999999999988 67888876 799999999999999999999999999999
Q ss_pred ccceeEEeeccCccccccHHHHHHHCCCeeccccccC--CCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCC
Q psy8410 496 LTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQS--IPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIP 573 (951)
Q Consensus 496 La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~--~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~ 573 (951)
||++++|+++.++ +++...+..+|++.+...... .....+-|||||.++|.+.. ++.++..+|.+||+|. |.
T Consensus 517 lalmthittd~ee---~pi~~~~~k~gv~di~~v~~~e~~~~~~~~v~Lng~iig~~~~--~~~~v~~~r~lrr~G~-i~ 590 (1153)
T KOG0215|consen 517 LALMTHITTDSEE---KPILKLCYKLGVEDIHVVSGRELHTPDSFLVFLNGLIIGITRR--PQYFVNSFRRLRRKGK-IG 590 (1153)
T ss_pred hHHHhcccCCCCc---chhHHHHHHhcceeeeeecccccCCCceEEEEecceeeccccc--hHHHHHHHHHHHHcCc-cc
Confidence 9999999999775 899999999999987532221 22347899999999999985 5889999999999999 99
Q ss_pred CceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeec--------------------------cccccccCCccceeee
Q psy8410 574 KSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLA--------------------------AGNIEWIGTFEQVFMD 627 (951)
Q Consensus 574 ~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~--------------------------~g~iE~I~~~Eq~~~~ 627 (951)
.+++|.-+... ..++|.||+||+|||++++. .|.|||+|++|+++++
T Consensus 591 ~fvsv~~~~~q-------~~v~i~sdggr~crp~Iiv~~~~~~v~~~h~~el~~g~r~F~DFl~~glvEYLDVNEEND~~ 663 (1153)
T KOG0215|consen 591 EFVSVFTNTTQ-------RCVYIASDGGRVCRPLIIVDNGRPRVKQHHMDELLDGKRTFDDFLKDGLIEYLDVNEENDSL 663 (1153)
T ss_pred ceeeeeeeeee-------EEEEEecCCCeEeeeEEEEeCCcchhhhhhHHHHHHhhhhHHHHHHhchhheeecccccCce
Confidence 99998654322 35999999999999999854 3789999999999999
Q ss_pred eeecccccCcceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeee
Q psy8410 628 ICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFR 707 (951)
Q Consensus 628 Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~ 707 (951)
||+.++++.+ .+||+||.|++|||+||+|||||||||||||||||+|||||||+.++|+..|+|+.+|.|.|||+|+|+
T Consensus 664 Ialye~~I~~-~TTHLEIEPFTiLGv~AGLIPYPHHNQSPRNTYQCAMGKQAmG~IaYNQ~~RiDtlmYll~YPq~PmVk 742 (1153)
T KOG0215|consen 664 IALYEEDIGP-ETTHLEIEPFTILGVVAGLIPYPHHNQSPRNTYQCAMGKQAMGAIAYNQKKRIDSLLYLLVYPQRPMVK 742 (1153)
T ss_pred EEechhhcCC-CcceeeecchhhhhhhccccCCCCCCCCCcchhhhhhhhhhhhhhhhhhhhhHHHHHHHHhcCCCcccc
Confidence 9999999998 799999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccce
Q psy8410 708 PVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQ 787 (951)
Q Consensus 708 t~~~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~ 787 (951)
|++.+.+++|++|+||||.||||||+|||+|||+|+||+|+||||+||.+||+.+..+++.. +.+ ++...|.++.
T Consensus 743 TKTIELi~ydKLPAGQNAtVAVMSYSGYDIEDALVLNKsSlDRGfGRC~Vyk~~~~~~kkY~----N~T-~Drimgp~~d 817 (1153)
T KOG0215|consen 743 TKTIELINYDKLPAGQNATVAVMSYSGYDIEDALVLNKSSIDRGFGRCEVYKKTTTTLKKYA----NGT-FDRIMGPQLD 817 (1153)
T ss_pred ceeEEeeccccCCCCCccEEEEEeccCCchhhhhhcccchhccCcceEEEEeeeeeeeeecC----CCc-hhhhcccccC
Confidence 99999999999999999999999999999999999999999999999999999888877632 211 1111222111
Q ss_pred eEEEeceeeeeeeeecccccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecCC-C-------------
Q psy8410 788 AQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKES-E------------- 853 (951)
Q Consensus 788 ~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~-~------------- 853 (951)
--++.|.- ..+.||+|||..+|..|+.|+++++|--|. +
T Consensus 818 -------------------------~~t~kpi~--kh~vLd~DGl~~pG~~V~~~qi~iNK~mP~vt~~~~~~~~~~~~~ 870 (1153)
T KOG0215|consen 818 -------------------------PNTRKPIW--KHQVLDDDGLATPGERVQPGQIYINKQMPTVTGTSLPGLSASQVQ 870 (1153)
T ss_pred -------------------------CCcCCcch--hhcccCcccCCCCccEeccCcEEEeccCCCcccccCCCCCccccc
Confidence 11122221 245799999999999999999999984321 1
Q ss_pred CeEEEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCC
Q psy8410 854 NRYVTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVP 933 (951)
Q Consensus 854 ~~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~P 933 (951)
-++.++.||+.|++|||+|.++.++++ ...+|+.+|++|+||+|||||||||||||||.|++||||||++.||+|
T Consensus 871 Yk~~pitykgpepsyidkVmls~n~~d-----q~LIK~llRQTRrPElGDKFSSRHGQKGVcGlIv~QEDMPFnD~GIcP 945 (1153)
T KOG0215|consen 871 YKAVPITYKGPEPSYIDRVMLTSNDED-----QFLIKVLLRQTRRPELGDKFSSRHGQKGVCGLIVQQEDMPFNDQGICP 945 (1153)
T ss_pred cccccceecCCCcchhheeEeecCccc-----cHHHHHHHhhccCcccccccccccCCCceeeEEeeccCCCCcccCCCc
Confidence 124578899999999999999999755 368999999999999999999999999999999999999999999999
Q ss_pred cEEeCCCCCCcccCCCCC
Q psy8410 934 DIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 934 DiI~NPhg~PSRMTiG~l 951 (951)
||||||||||||||||+|
T Consensus 946 DiIMNPHGFPSRMTVGK~ 963 (1153)
T KOG0215|consen 946 DIIMNPHGFPSRMTVGKM 963 (1153)
T ss_pred ccccCCCCCcccchHHHH
Confidence 999999999999999975
No 5
>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=7.9e-168 Score=1540.79 Aligned_cols=647 Identities=36% Similarity=0.528 Sum_probs=575.0
Q ss_pred hhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCccceeEEE
Q psy8410 68 LGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSGPFNV 147 (951)
Q Consensus 68 Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTYsa~l~v 147 (951)
|++|||||||+|+++||++++++++++++..++..+.++|+++++++|.+.++ + ...+++|+|||+|++||+||++|
T Consensus 1 Lv~~qi~SFn~Fl~~gl~~ii~~~~~i~~~~~~~~~~l~f~~i~i~~P~~~~~-~--~~~~l~P~ecRlr~lTYs~~l~v 77 (866)
T cd00653 1 LVKQQIDSFNYFLNVGLQEIVKSIPPITDTDDDGRLKLKFGDIYLGKPKVEEG-G--VTRKLTPNECRLRDLTYSAPLYV 77 (866)
T ss_pred CchhHHHHHHHHHHHHHHHHHHhcCCeeeccCCCeEEEEEEEEEECCcccccc-C--ccccCCHHHHHhhCCccceeEEE
Confidence 68999999999999999999999999998754578999999999999998876 3 46789999999999999999999
Q ss_pred EEEEEeCCCcc-eEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCeeE----
Q psy8410 148 TVAWSWDGKAG-GTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPI---- 222 (951)
Q Consensus 148 ~i~~~~~~~~~-~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~i---- 222 (951)
++.++.++... ...++.+|+|||||+|++|||++++++||++.||||.||||||||||+|||||+|+++++|+++
T Consensus 78 ~i~~~~~~~~~~~~~~v~iG~iPIMv~S~~C~L~~~~~~el~~~~E~p~d~GGYFIInG~EkVIi~qi~~~~N~~~~~~~ 157 (866)
T cd00653 78 DIRLTVNDKGKIKEQEVFIGEIPIMLRSKLCNLNGLTPEELIKLGECPLDPGGYFIINGTEKVIINQEQRSPNVIIVEDS 157 (866)
T ss_pred EEEEEEecceeEEEEEEEEeeCCcccCcccccccCCCHHHHHhcCCCcccCCCEEEECCceeEEEEEEeccCCeEEEecC
Confidence 99998766543 5568999999999999999999999999999999999999999999999999999999999998
Q ss_pred EEEeccccccCcccceeEEEEEEecCCC-cceeEEEEEeecCcEEEEeehhhHHHHHHhHHHHHHhCCCCHHHHHHHHHh
Q psy8410 223 AIKRNAWKNRGLLFSDLGVYIRSVKRDE-SATNNVLHFVTNGSARFMFSHRKSMCLLGMMQSLHEEGIHTQHDSKVFFGQ 301 (951)
Q Consensus 223 a~~R~~~~~rg~~~t~~~v~ir~v~~d~-~s~~~~l~yl~~g~~~~~~~~~k~l~v~~~L~~~~~~~i~t~e~aL~yIG~ 301 (951)
...+..|..+...++.+...++|++.+. .......++..+ +++||.|||+
T Consensus 158 ~~~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~i~~~i~~~~-----------------------------~~~al~~ig~ 208 (866)
T cd00653 158 KGKRIYTKTSIPSYSPYRGSWLEVKSDKKKDRIYVRIDLKR-----------------------------QEEALKYIGK 208 (866)
T ss_pred CCcEEEEEEEccCCCcCccEEEEEEEccCCCeEEEEecccC-----------------------------HHHHHHHHHH
Confidence 3456667777666666677888887665 333334444322 7899999999
Q ss_pred hhcccccccccCCcHHHHHHHHhhccccCCCCCchhhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHH
Q psy8410 302 IFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDYWDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLL 381 (951)
Q Consensus 302 ~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lf 381 (951)
+| .+|++|++||++++.|.+.+||+|||+||||+++|+||+.+|
T Consensus 209 ~~------------------------------------~~L~~Mi~kLl~~~~g~~~~Dd~D~~~NkRv~~~G~Ll~~lf 252 (866)
T cd00653 209 RF------------------------------------EDLIYMIRKLILLVLGKGKLDDIDHLGNKRVRLAGELLQNLF 252 (866)
T ss_pred HH------------------------------------HHHHHHHHHHHHHhcCCCCCCCchhhhCeEEeeHHHHHHHHH
Confidence 97 799999999999999999999999999999999999999999
Q ss_pred HHHhhccccc--------C---ChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhccc
Q psy8410 382 KKEKSGTSAV--------L---KESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSH 450 (951)
Q Consensus 382 ke~~~~~~~~--------~---~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh 450 (951)
++.+++.... . .......++++..||++|++|||||||.. +.+ ++|++||||++||+|++|+|||
T Consensus 253 r~~l~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~~It~~i~~~~~TGnw~~--~~~--~~~~~Gvsq~ldr~N~ls~lsh 328 (866)
T cd00653 253 RSGLKRLEREVKEKLQKQLSKKKDLTPQLLINSKPITSGIKEFLATGNWGS--KRF--LMQRSGLSQVLDRLNPLSELSH 328 (866)
T ss_pred HHHHHHHHHHHHHHHHhhhhcccccCHHHhccchHHHHHHHHHhhcCCccc--ccc--ccccceEEEEcccCCHHHHHHh
Confidence 9987773111 1 11234445577899999999999999999 333 8899999999999999999999
Q ss_pred ccccccCccccccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccc
Q psy8410 451 FRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVI 530 (951)
Q Consensus 451 ~Rrv~rg~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~ 530 (951)
+||||+|+++++++++++|+||||||||+||+|||||++||||||||++|+|+
T Consensus 329 ~Rrv~~~~~~~~~k~~~~R~lhps~~G~iCPveTPEG~~cGLv~~LA~~a~Is--------------------------- 381 (866)
T cd00653 329 KRRISSLGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--------------------------- 381 (866)
T ss_pred hhhcccccccccccCCcccccCcccCCccCCCCCCCCccccchhhhhceEeee---------------------------
Confidence 99999988999999999999999999999999999999999999999999986
Q ss_pred cCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeee
Q psy8410 531 QSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNL 610 (951)
Q Consensus 531 ~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l 610 (951)
||++||++++
T Consensus 382 ----------------------------------------------------------------------Gr~~rP~~~v 391 (866)
T cd00653 382 ----------------------------------------------------------------------GRIERPYRIV 391 (866)
T ss_pred ----------------------------------------------------------------------eEeeeeEEEe
Confidence 6889999998
Q ss_pred ccccccccCCccceeeeeeecccccCcceeeeecccCCccccceeeeecCCCCCCCccchhhcccccccccccccccccc
Q psy8410 611 AAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQ 690 (951)
Q Consensus 611 ~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R 690 (951)
+ ..+||+||+|++|||++||+|||+||||||||||||||+|||||+|++|++.|
T Consensus 392 ~--------------------------~~~th~ei~~~~~ls~~asliPf~~hNqspRn~~~~~M~kQa~g~~~~n~~~r 445 (866)
T cd00653 392 E--------------------------KEVTHIEISPSQILSVAASLIPFPEHNQSPRNLYQSNMQKQAVGTPALNQQYR 445 (866)
T ss_pred c--------------------------cceEEEEeCccceeeeeeeccCCCCcccccchhhhhcccCCccCchhcccccc
Confidence 5 25899999999999999999999999999999999999999999999999999
Q ss_pred CCcceEEecCCCceeeecccccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEecccc
Q psy8410 691 GVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYN 770 (951)
Q Consensus 691 ~D~~~y~L~ypQ~Plv~t~~~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~ 770 (951)
+|+++|+|.|||+|||+|+..+.++++++|+|+||+||||||+||||||||||||+|+|||+|++.+|+++.+++.+..
T Consensus 446 ~d~~~~~l~~pq~plv~T~~~~~~~~~~~~~G~N~~VAv~~y~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~- 524 (866)
T cd00653 446 MDTKLYLLLYPQKPLVGTGIEEYIAFGELPLGQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSIHYKKYEIELRKTK- 524 (866)
T ss_pred ccchheeeccCCCCccccchHHHhCCCccCCCceEEEEEeccccccccceeeeehhhhhcCceeEEEEEEEEEEEEecC-
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999876521
Q ss_pred CcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccc--cCCCCChhhhhcCCCCCceeecceecCCCCEEEE
Q psy8410 771 YYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYF--GRDPANKALEDKLGPDGLVYVGAKLNERDPMYSY 848 (951)
Q Consensus 771 ~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~--~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~ 848 (951)
.|.+ +.+ .........+++||+||+|++|+.|++||+|+||
T Consensus 525 -~~~~------------------------------------~~~~~~~~~~~~~~~~~ld~dGi~~~g~~v~~gd~li~k 567 (866)
T cd00653 525 -NGPE------------------------------------EITRGDIPNVSEEKLKNLDEDGIIRPGARVEPGDILVGK 567 (866)
T ss_pred -CCcc------------------------------------eEecCCCCCCChHHhhccCCCCCcCCCCEecCCCEEEEE
Confidence 0111 011 1112233468999999999999999999999999
Q ss_pred ecCCC--------------CeEEEEEeCCCccEEEEEEEEecCC--CCCCCCCCeEEEEEEeeecCCCcccceeccCCCc
Q psy8410 849 WKESE--------------NRYVTCRYSGKEEMCVEVVRMSSGF--TEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQK 912 (951)
Q Consensus 849 ~~~~~--------------~~~~~~~~~~~e~g~vd~v~~~~~~--~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQK 912 (951)
+++.. .++.+++|+.+|+|+||+|.++.+. .+ ....++|++|+.|+|+||||||||||||
T Consensus 568 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~v~~v~~~~~~~~~~----~~~~v~v~~r~~R~p~iGDKfssRhGqK 643 (866)
T cd00653 568 ITPKGETESTPIFGEKARDVRDTSLKYPGGEKGIVDDVKIFSRELNDG----GNKLVKVYIRQKRKPQIGDKFASRHGQK 643 (866)
T ss_pred ecCcccccccccccccCCcceEEEEEecCCCceEEEEEEEeccccCCC----CcEEEEEEEeEEecCCcccccccccCCC
Confidence 98642 3567899999999999999998832 12 3689999999999999999999999999
Q ss_pred cEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 913 GICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 913 Gv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
||||++||+||||||++|++|||||||||||||||||||
T Consensus 644 Gv~s~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql 682 (866)
T cd00653 644 GVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQL 682 (866)
T ss_pred cEEEEEeccccCCcccCCCCCcEEecCCcCcccccHHHH
Confidence 999999999999999999999999999999999999996
No 6
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=100.00 E-value=8.3e-161 Score=1442.62 Aligned_cols=779 Identities=24% Similarity=0.304 Sum_probs=636.1
Q ss_pred CccccCCCCCCCccchhhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCccc
Q psy8410 47 KNLTDKNFGKPPDKQNEFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHF 126 (951)
Q Consensus 47 ~~l~~~~fg~~~~~~~~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~ 126 (951)
++.++..|++.++- ..+++|+++|++|||+|+.+||+++++++.||+.. +.+++|+|.++++++|
T Consensus 8 ~~r~r~~~~~i~~~--~~~p~Lv~~QldSyn~ff~~gLq~i~~~i~PI~~~--~~~~~Lef~~~~l~~p----------- 72 (1060)
T COG0085 8 KKRIRDSFGKIPEF--LDLPNLVEIQLDSYNAFFLEGLQEVFREIFPIESY--NGNTELEYGSYRLGEP----------- 72 (1060)
T ss_pred ccccccchhhcccc--cCCccHHHHHHHHHHHHHHHHHHHHHHhcCceecC--CCCEEEEEEEEEecCC-----------
Confidence 34677889998887 88999999999999999999999999999999876 5789999999999999
Q ss_pred ccCChHHHHhcCCccceeEEEEEEEEeCCCcc--eEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEc
Q psy8410 127 NKYYPTEARQTRSVYSGPFNVTVAWSWDGKAG--GTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVG 204 (951)
Q Consensus 127 ~~l~P~EcRlr~lTYsa~l~v~i~~~~~~~~~--~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIIn 204 (951)
.+++|.|||+|++||||||+|+++++.++... +..+|++|+||+|++ |||||||
T Consensus 73 ~k~~p~EcR~R~lTYsapLyv~lrlv~~~~~e~~k~~eV~iG~iPlMt~------------------------gGyFIIN 128 (1060)
T COG0085 73 PKFYPEECRLRGLTYSAPLYVKLRLVVNETGEEIKEQEVYMGDIPLMTR------------------------GGYFIIN 128 (1060)
T ss_pred CCCCHHHHHhcCCccccceEEEEEEEECCcccccccceEEeccCcEecC------------------------CcEEEEC
Confidence 24679999999999999999999999876543 367899999999999 9999999
Q ss_pred CceeEEEEEEeccCCeeEEEEeccccccCcccceeEEEEEEecCCCc--ceeEE---EEEeecCcE-E-EEeehhhHH--
Q psy8410 205 GHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDES--ATNNV---LHFVTNGSA-R-FMFSHRKSM-- 275 (951)
Q Consensus 205 G~EKVIr~li~~r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~--s~~~~---l~yl~~g~~-~-~~~~~~k~l-- 275 (951)
|+||||++|+..++|..+.-.. .+++..+. -..++...... ...+. ..|..-+.- . ....+.||+
T Consensus 129 GsERVIVsQ~~rSPgvif~~~~---~k~~~~~~---~~a~vIp~rG~wl~~e~d~~d~~~~rId~~rkiPvtilLRALG~ 202 (1060)
T COG0085 129 GTERVIVSQEHRSPGVIFVEKK---DKTGSKVL---YVARVIPYRGSWLEFEFDPKDNLYVRIDRKRKIPVTILLRALGL 202 (1060)
T ss_pred CeEEEEEEEeecCCCeEEeccc---ccCCcceE---EEEEEecCCcceEEEEEccCccEEEEeeeEEEeeHHHHHHHhCC
Confidence 9999999999999997765432 22222111 12222221111 00000 111111111 1 112345665
Q ss_pred ----H-----------------HHHhHHHHHHhC---CCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCC
Q psy8410 276 ----C-----------------LLGMMQSLHEEG---IHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPH 331 (951)
Q Consensus 276 ----~-----------------v~~~L~~~~~~~---i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpH 331 (951)
. ...++-++.++. --+..+|++|||++|....... ....+.++++.++.+++|||
T Consensus 203 ~tDeeI~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~i~~~~a~~~i~~r~~~~~~~~-~~~gR~k~~~~vl~~~~L~h 281 (1060)
T COG0085 203 ETDEEIIEAFGGDELTDLVPPEGEEALLEIYEEAKGEKITARNALELIGSRVFVVKRYD-AKEGRYKRAKYVLDKELLPH 281 (1060)
T ss_pred CcHHHHHHHhcccccccccchHHHHHhHHHHhhccCCCcchHHHHHHHhcccccccccc-cchhhhhhhhhhhhhhHHhh
Confidence 1 111222222222 1233449999999998654311 24567899999999999999
Q ss_pred CCC--------chhhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc----ccCChhhH-H
Q psy8410 332 LDD--------YWDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS----AVLKESDI-Y 398 (951)
Q Consensus 332 l~~--------~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~----~~~~~~~~-~ 398 (951)
|.+ ...|+.+|+.|+++|+.+..|.+.+||+|||+||||+++|+|++++||..|.+.. .+++..+. .
T Consensus 282 L~~~~~~~~l~~~~k~~di~~mi~~l~~L~~G~~~~DDiDHlGNKRlrlvGeLl~n~fR~gl~rmer~ikerm~~~~~r~ 361 (1060)
T COG0085 282 LGEAGERYDLSRVGKAKDIIAMIKYLIELRLGKGEEDDIDHLGNRRLRLVGELLENLFRVGLSRMERDVKERLEKADKRD 361 (1060)
T ss_pred hcccccccchhhhHHHHHHHHHHHHHHHHhcCCCCCCCCccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 985 2348899999999999999999999999999999999999999999999776632 23333333 3
Q ss_pred hhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCccccccccCCCccccCCCCce
Q psy8410 399 AAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGF 478 (951)
Q Consensus 399 ~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~t~~R~Lhps~wGf 478 (951)
.+..++.||.++.+|++||||++ |||||++||+||+|+|||+|||++.++..+.+.+++|+|||||||+
T Consensus 362 ~i~p~dlIn~k~~~Alitgffg~-----------sqlSQfmDqtNpLSeLSHkRRIsAlgLsRera~fEvRDvHpTHyGR 430 (1060)
T COG0085 362 TLVPQDLINAKPIHALITGFFGR-----------SQLSQFMDQTNPLSELSHKRRLSALGLSRERAGFEVRDVHPTHYGR 430 (1060)
T ss_pred ccCchhhcchhHHHHHHhccccc-----------cceeeeeecCChHHhhhhhhceeccCcCccCCCCcccccCcccccc
Confidence 34478999999999999999996 8999999999999999999999986678888899999999999999
Q ss_pred eecccCCCCccccccccccceeEEe-eccCccccccHHHHHH-HCCCeeccccccCCCCcceEEEECCEEEEEEeCccHH
Q psy8410 479 ICPVHTPDGTPCGLLNHLTTNCQIS-EYIPSKVLAQIPSVLV-SLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIAT 556 (951)
Q Consensus 479 iCPv~TPeG~~cGLvk~La~~~~Vt-~~~~~~~~~~i~~~L~-~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~ 556 (951)
+||+|||||+||||+||||++|+|+ .+.++ .+..+++. .+|+.++... ......|++||.++|.++++ .
T Consensus 431 iCPiETPEGpNiGLI~sLA~~A~Vn~~Gf~e---tPy~kv~~g~~~v~~i~~l----~~~~~~~~~~~~~~~~~~~~--~ 501 (1060)
T COG0085 431 ICPIETPEGPNIGLIKSLALYARINEYGFLE---TPYRKVLDGSLVVDEIEYL----SADEEDVYVIGQANGTLDEP--G 501 (1060)
T ss_pred cCCCCCCCCcchhHHHHHHHHeEecccCCCC---CceEEEEeccccccceeee----cccccceEEEeEeeeeecCC--C
Confidence 9999999999999999999999999 66554 56666666 4888876531 12236799999999999854 7
Q ss_pred HHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeec-------------------------
Q psy8410 557 SLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLA------------------------- 611 (951)
Q Consensus 557 ~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~------------------------- 611 (951)
.+++++|.+|+ + +..+++++..+.. . ..--++++.+|.||.+||++...
T Consensus 502 ~~~~~~~~~R~-~--~~~~~~~~~~~~~-~--~~dv~~~~~~~~~~~~~P~l~~dd~~~~l~~~~mqr~~~~l~~~~~~l 575 (1060)
T COG0085 502 ELVEELVECRR-G--GSGEVSVADPEGV-D--YMDVSPKQVVSVGRSLIPFLEHDDANRALMGSNMQRQAVPLLRTEAPL 575 (1060)
T ss_pred ceeeeEEEEee-c--ccccceeecCccc-c--ceeccceEEeccccccCceeEEcCchHhhhhhhhhhhccccccccccc
Confidence 89999999998 3 4455666543221 0 00014899999999999999743
Q ss_pred --cccccccCCccceeeeeeecccccCcceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccc
Q psy8410 612 --AGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRY 689 (951)
Q Consensus 612 --~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~ 689 (951)
.| +||++++|+.++.||..+. .+||+|++|..|+|++|++|||++|||||||||||+|+||++|++.+|+..
T Consensus 576 v~tG-~E~~~a~e~~~~~ia~~~~-----~~~~ve~~~~~I~~~~~~~~~~~~~n~~~~n~~~~~~~~Q~~~~~~~~~~~ 649 (1060)
T COG0085 576 VGTG-MEYLDAEDSGAAVIAKRPG-----VVTHVEISPIVILGIEASLIPYPEHNQSPYNLYKFARSNQATGINQRPLVK 649 (1060)
T ss_pred ccCC-ceeeccccccceeEeccCC-----cEEEEeeeeeEEEeeccccCCccccCcChHHHHHHhhhhcccCCCccccee
Confidence 46 9999999999999999864 489999999999999999999999999999999999999999999999999
Q ss_pred cCCcceEEecCCCceeeecccccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccc
Q psy8410 690 QGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGY 769 (951)
Q Consensus 690 R~D~~~y~L~ypQ~Plv~t~~~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~ 769 (951)
|.|+..|.++|||.|+|+| +++|+|||++||||||+||||||||||||++++||+|++.+|+++..++.+.
T Consensus 650 ~~d~~~~~~~~~~~P~~~~--------~e~~~GqN~~VA~m~~~GYn~EDAiiin~~~v~~~~~ts~~~~~~~~~~r~~- 720 (1060)
T COG0085 650 RGDTVEKGLVYADGPSVDT--------GELALGQNALVAFMPWNGYNYEDAIIISERSVERDLFTSIHIEEYETEARDT- 720 (1060)
T ss_pred ccccccccceecCCCcccc--------CcccCCceeEEEEecccCcChhHheecccchhhcCCceEEEEEEEeeeeecc-
Confidence 9999999999999999988 9999999999999999999999999999999999999999999998886552
Q ss_pred cCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCC-ChhhhhcCCCCCceeecceecCCCCEEEE
Q psy8410 770 NYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-NKALEDKLGPDGLVYVGAKLNERDPMYSY 848 (951)
Q Consensus 770 ~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~ 848 (951)
+. |+.+++ ..|+ .+..+++||+|||++||+.|++||+|+||
T Consensus 721 -~~------------------------------------g~e~~~-~iP~~~e~~~~~Lde~Gii~ig~~V~~gdilvgk 762 (1060)
T COG0085 721 -KL------------------------------------GPEEIR-DIPNVSEEALRNLDEDGIIRIGAEVKGGDILVGK 762 (1060)
T ss_pred -CC------------------------------------Cccccc-cCCCcCHHHHhcCCccCccccccEEcCCCEEEEe
Confidence 11 233342 3343 45568999999999999999999999999
Q ss_pred ecCCCC-----------------eEEEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCC
Q psy8410 849 WKESEN-----------------RYVTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQ 911 (951)
Q Consensus 849 ~~~~~~-----------------~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQ 911 (951)
++|... ++.|++++++|+|+||.|.++++++..++ ..+.|||++|+.|.|++||||||||||
T Consensus 763 ~tP~~~~~~~~ee~ll~i~~ek~rdtsl~~~~g~~G~V~~V~~~~~~~~~~g-~~~~vkV~v~~~R~~~~GDK~a~RHG~ 841 (1060)
T COG0085 763 VTPKGETELTPEERLLRIFGEKVRDTSLRVPHGEEGIVDDVQVFTREDGDPG-VNKLVKVYVAQKRKPQIGDKMAGRHGN 841 (1060)
T ss_pred eCCCCCCCCCchhhhhccccceeeccceeecCCCCeEEEEEEEEeccCCCcC-ceEEEEEEEEEeccCCccccccccCCC
Confidence 987421 25789999999999999999988532222 378999999999999999999999999
Q ss_pred ccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 912 KGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 912 KGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
|||||++||+||||||+||++||||+|||||||||||||+
T Consensus 842 KGVis~i~p~eDMPf~~~G~~~DiilNP~gvPSRM~iGqi 881 (1060)
T COG0085 842 KGVVSKIVPQEDMPFLEDGTPPDIILNPLGVPSRMNIGQI 881 (1060)
T ss_pred CceeeeecCcccCCcCCCCCcccEEECCCCCCccccHHHH
Confidence 9999999999999999999999999999999999999985
No 7
>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=1.7e-148 Score=1375.64 Aligned_cols=707 Identities=21% Similarity=0.305 Sum_probs=564.1
Q ss_pred ccccCCCCCCCccchhhhhhhhHHHHHhHHHHHH----------HHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcc
Q psy8410 48 NLTDKNFGKPPDKQNEFLLTLGAPHIASFDFMLD----------EGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKV 117 (951)
Q Consensus 48 ~l~~~~fg~~~~~~~~~l~~Lv~~hIdSFN~Fi~----------~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~ 117 (951)
++.|.+|++.+.. ..+++|++||+||||+||+ +||++++++++||+.. +.++.|+|.++++++|.+
T Consensus 2 ~~~r~~~~~~~~~--~~~p~Lv~~Qi~SFn~FL~~~~~~~~~~~~gL~eii~~~~pI~~~--~~~~~l~f~~~~l~~P~~ 77 (1065)
T TIGR02013 2 KRIRIDFGKIPEV--LEVPNLLEIQLDSYDWFLQQDTPPEKRKEEGLEEVFKSIFPIEDY--TGNIELEYLSYRLGEPKY 77 (1065)
T ss_pred CceeeecccCccc--ccCCCHHHHHHHHHHHHHcCCCcccccccccHHHHHhccCcEEec--CCcEEEEEEEEEeCCCCC
Confidence 3456778876655 4789999999999999999 8999999999999887 467999999999999976
Q ss_pred cCCCCCcccccCChHHHHhcCCccceeEEEEEEEEeCC----CcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCC
Q psy8410 118 PAGPVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDG----KAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEH 193 (951)
Q Consensus 118 ~~~~~~~~~~~l~P~EcRlr~lTYsa~l~v~i~~~~~~----~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~ 193 (951)
+|+|||+|++||+||++|++.++..+ +.....+++||+||||++
T Consensus 78 ------------~p~Ear~r~lTYsa~l~v~v~l~~~~~~~~~~i~~~~V~iG~iPiMt~-------------------- 125 (1065)
T TIGR02013 78 ------------SVEECKERGLTYSAPLKVKLRLINKEEDGTKEIKEQDVYMGDIPLMTD-------------------- 125 (1065)
T ss_pred ------------CHHHHHHhCCCcceeEEEEEEEEEeccCCccceeeeeEEEeCCCccCC--------------------
Confidence 39999999999999999999997532 234456899999999976
Q ss_pred CCCCCCeEEEcCceeEEEEEEeccCCeeEEEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeeh--
Q psy8410 194 PDEWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSH-- 271 (951)
Q Consensus 194 ~~D~GGYFIInG~EKVIr~li~~r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~-- 271 (951)
||||||||+||||++|+..++|..+..... ....++ ..+.+.+++.+ ++. ..+.+-+++.+++.+..
T Consensus 126 ----gGyFIINGsERVIV~Qe~rspg~~~~~~~~-~~~~~~--~~~~a~iis~r--gsw--l~~e~~~~~~i~v~i~~~~ 194 (1065)
T TIGR02013 126 ----RGTFIINGAERVVVSQLHRSPGVFFSSEKD-THKSGK--VLFSARIIPYR--GSW--LEFETDKKDVLYVRIDRKR 194 (1065)
T ss_pred ----CceEEECCcEEEEEEEeecCCCEEEEEccc-cCCCCc--eEEEEEEEeCC--CCc--eEEEEecCCeEEEEecCCC
Confidence 999999999999999999999988765421 001111 12335566554 221 22323334555555432
Q ss_pred -------hhHH------HH-------HHhHHHHHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccC-
Q psy8410 272 -------RKSM------CL-------LGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILP- 330 (951)
Q Consensus 272 -------~k~l------~v-------~~~L~~~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llp- 330 (951)
.|++ .+ ..++..+.+....|+++||.||++++++.. ....+.|+.+|++.+||
T Consensus 195 kIPi~illrALG~~sd~eI~~~i~~~~~i~~~l~~~~~~~~e~Al~~i~~~~~~g~------~~~~~~a~~~l~~~f~~~ 268 (1065)
T TIGR02013 195 KLPATVLLRALGYTIDTLILNRLGSGEYIRNTLRKDPTNSEEEALVEIYRKLRPGE------PPTVEAARSLLENLFFDP 268 (1065)
T ss_pred ceeHHHHHHHcCCCcchhhhhhcCchHHHHHHHHhccccCHHHHHHHHHhhcCCCC------cchHHHHHHHHHHHhcCc
Confidence 3333 01 112222334457899999999999987642 22457899999998887
Q ss_pred ------CCCC----------------chhhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcc
Q psy8410 331 ------HLDD----------------YWDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGT 388 (951)
Q Consensus 331 ------Hl~~----------------~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~ 388 (951)
|++. ...|++||+ |+++|+.+..|...+||+|||+||||+++|+||+.+|+..|.+.
T Consensus 269 ~rY~LghiGr~kln~Kl~~~~~~~~~~l~k~d~l~-mi~~Ll~~~~g~~~~DD~Dhl~NKRvr~aGeLL~~~fr~~l~rl 347 (1065)
T TIGR02013 269 KRYDLGRVGRYKLNKKLGLDVPEDIGVLTKEDIIA-TIKYLIKLRNGKGEIDDIDHLGNRRIRSVGELLQNQFRVGLARM 347 (1065)
T ss_pred ccccccccchhhhhhhcCcCcCcccceehHHHHHH-HHHHHHHhhcCCCCCcchhhhhccchhhHHHHHHHHHHHHHHHH
Confidence 9982 124888996 99999999999999999999999999999999999999865552
Q ss_pred cc----cC-----ChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhccccccccc---
Q psy8410 389 SA----VL-----KESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHR--- 456 (951)
Q Consensus 389 ~~----~~-----~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~r--- 456 (951)
.+ ++ .......+++++.||+++++||+|| ||||++||+|++++|||+||+..
T Consensus 348 ~k~ik~~l~~~~~~~~~~~~~i~~~~it~~i~~ff~tg----------------glSQ~Ldr~NpLs~lsh~RRlsslgp 411 (1065)
T TIGR02013 348 ERIVRERMSTQDTDTLTPQDLINAKPISAAIKEFFGSS----------------QLSQFMDQTNPLAELTHKRRLSALGP 411 (1065)
T ss_pred HHHHHHHhhhcccccCCHHHhcCccchHHHHHHHhccC----------------CcccccccCCHHHhhhhhceecccCC
Confidence 11 11 2233556678899999999999875 89999999999999999999986
Q ss_pred CccccccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCc
Q psy8410 457 GSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQ 536 (951)
Q Consensus 457 g~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~ 536 (951)
|++-.+.+.++||+|||||||+|||+|||||++||||||||++|+|+.. |... .
T Consensus 412 ggl~r~~~~~~~RdlHpShyGrICPiETPEG~n~GLVknLA~~a~i~~~----------------G~i~----------~ 465 (1065)
T TIGR02013 412 GGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEY----------------GFIE----------T 465 (1065)
T ss_pred CCcCccccCCccCccCccccccccCCCCCCCCccccccchhhhcccCcc----------------eEEe----------C
Confidence 3566777789999999999999999999999999999999999999622 2110 0
Q ss_pred ceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeecccccc
Q psy8410 537 ALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIE 616 (951)
Q Consensus 537 ~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE 616 (951)
.+.++.||++. ..+.+|
T Consensus 466 P~~~V~ng~~~---------------------------------------------------------------~~~~i~ 482 (1065)
T TIGR02013 466 PYRKVKDGKVV---------------------------------------------------------------VTDEVD 482 (1065)
T ss_pred CeEEEECCeEe---------------------------------------------------------------ccceeE
Confidence 12222333211 235688
Q ss_pred ccCCccceeeeeeecccccCc----------------------ceeeeecccCCccccceeeeecCCCCCCCccchhhcc
Q psy8410 617 WIGTFEQVFMDICITMKEAYP----------------------GITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQ 674 (951)
Q Consensus 617 ~I~~~Eq~~~~Ia~~~~~~~~----------------------~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~ 674 (951)
|++++||+++.||....++.. ..+||+||+|.+|||++||||||+|||||||||||||
T Consensus 483 yl~a~eE~~~~Ia~~~~~l~~~~~~~~~~i~~r~~~~f~~~~~~~vt~~ei~p~~ilsv~aslIPFleHNds~R~lmgsn 562 (1065)
T TIGR02013 483 YLTADEEDNYVIAQANAPLDENGRFVEDLVVARYRGEITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSN 562 (1065)
T ss_pred ECChHHhCCcEEEecCcCcCccCccccceeeEEEcCceeecChhHeeEEeeChhhhhhhHhhcCCCccccCCcchhhhhh
Confidence 999999999999987665532 2469999999999999999999999999999999999
Q ss_pred ccccccccc-----------------------------------cccccccCCc---------ceEEec----------C
Q psy8410 675 MGKQTMGTP-----------------------------------CLNWRYQGVG---------KLYRLQ----------T 700 (951)
Q Consensus 675 M~KQamG~~-----------------------------------~~n~~~R~D~---------~~y~L~----------y 700 (951)
|+|||||+. ++|+..|.|+ +.|.|+ |
T Consensus 563 M~kQavpl~~~e~p~VgTg~E~~v~~ds~~~i~a~~~G~v~~v~~~~~~~r~d~~~~~~~~~~~~y~L~~~~~snq~~~~ 642 (1065)
T TIGR02013 563 MQRQAVPLLRSEAPLVGTGMEAKVARDSGAVIVAKRGGVVEYVDAKRIVIRYDEDEDEPDGGIDIYRLLKYQRSNQDTCI 642 (1065)
T ss_pred hhhhhhcccccCCCEEEcCcchhhhccccceeEeccCCEEEEEccceEEEEecCCcccccccceEEEeecccccccCceE
Confidence 999999777 8999999995 456655 9
Q ss_pred CCceeeecc----cccccc------cccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEecccc
Q psy8410 701 PASPFFRPV----HYDTLD------MDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYN 770 (951)
Q Consensus 701 pQ~Plv~t~----~~~~~~------~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~ 770 (951)
||+|||+|+ ..+.+. ++++|+|+|++||||||+||||||||||||+|+|||+|++.+|+++.+++.+.
T Consensus 643 ~q~Plv~~~~~v~~~~~l~d~~~~~~~e~~~G~N~~VAvm~y~GYn~EDAiiink~~i~rg~~~s~~~~~~~~~~~~~-- 720 (1065)
T TIGR02013 643 NQRPIVSVGDRVEAGDVLADGPSTDLGELALGRNVLVAFMPWNGYNYEDAILISERLVKDDVFTSIHIEEYEVEARDT-- 720 (1065)
T ss_pred EeeeeeccCCeEeeeeEecccccccCCcCcCccceEEEEEeeecccccceEEeehhhhcCCceEEEEEEEEEEEeecc--
Confidence 999999994 555544 89999999999999999999999999999999999999999999998887541
Q ss_pred CcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCC-ChhhhhcCCCCCceeecceecCCCCEEEEe
Q psy8410 771 YYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-NKALEDKLGPDGLVYVGAKLNERDPMYSYW 849 (951)
Q Consensus 771 ~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~ 849 (951)
+.|.| .++...|. ....+++||+||+|++|+.|++||+|+||+
T Consensus 721 ~~g~e------------------------------------~~~~~~p~~~~~~~~~Ld~dGi~~~G~~v~~gdilvgk~ 764 (1065)
T TIGR02013 721 KLGPE------------------------------------EITRDIPNVSEEALRNLDENGIVRIGAEVKAGDILVGKV 764 (1065)
T ss_pred CCCce------------------------------------EeeccCCCCchhhhhccCCCCCccCccEeCCCCEEEEEe
Confidence 11211 11112232 234588999999999999999999999999
Q ss_pred cCCC---------------------CeEEEEEeCCCccEEEEEEEEecCCCCC--CCCCCeEEEEEEeeecCCCccccee
Q psy8410 850 KESE---------------------NRYVTCRYSGKEEMCVEVVRMSSGFTEG--GSVTPNCAYIGYRIQRNPTVGDKFA 906 (951)
Q Consensus 850 ~~~~---------------------~~~~~~~~~~~e~g~vd~v~~~~~~~~~--~~~~~~~~~i~~r~~R~p~iGDKfs 906 (951)
++.. .++.+++++++|+|+||+|.++.+++.. +....+.++|++|+.|+|+||||||
T Consensus 765 ~p~~~~~~~~~~~l~~~~~~~~~~~~~d~s~~~~~~~~g~V~~V~~~~~~~~~~~~~~~~~~vkv~ir~~R~p~iGDKfa 844 (1065)
T TIGR02013 765 TPKGETELTPEEKLLRAIFGEKARDVRDTSLRVPPGVEGTVIDVKVFSRKQGDELPPGVNKLVKVYIAQKRKIQVGDKMA 844 (1065)
T ss_pred cCCcccccChhhhhhhhhcccCCccccccceEccCCCCEEEEEEEEEeccCCCccCcCccEEEEEEEeecccccccchhh
Confidence 7621 1345889999999999999998764321 0011468999999999999999999
Q ss_pred ccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 907 SRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 907 sRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
||||||||||+|||+||||||++|++|||||||||||||||||||
T Consensus 845 sRHGqKGvis~i~~~eDMPf~~~G~~pDiIiNPhg~PSRMtiGql 889 (1065)
T TIGR02013 845 GRHGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQI 889 (1065)
T ss_pred hcccCceeEEeEecCCCCCccCCCCCccEEECCCCCcccccHHHH
Confidence 999999999999999999999999999999999999999999996
No 8
>PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed
Probab=100.00 E-value=1.7e-144 Score=1346.83 Aligned_cols=706 Identities=22% Similarity=0.309 Sum_probs=558.3
Q ss_pred ccccCCCCCCCccchhhhhhhhHHHHHhHHHHH-------HHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCC
Q psy8410 48 NLTDKNFGKPPDKQNEFLLTLGAPHIASFDFML-------DEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAG 120 (951)
Q Consensus 48 ~l~~~~fg~~~~~~~~~l~~Lv~~hIdSFN~Fi-------~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~ 120 (951)
+..|.+|++.+.. ..+++|+++|++|||+|+ ++||++++++++||+.. +.++.|+|.++++++|.
T Consensus 9 ~~~r~~~~~~~~~--~~~p~Lv~~Qi~SFn~Fl~~~~~~~~~gL~~ii~~~~pI~~~--~~~~~l~f~~~~l~~P~---- 80 (1112)
T PRK00405 9 KRIRKSFGKIKEV--LELPNLLEIQLDSFDWFLQLDVPPEDEGLEEVFRSIFPIEDF--NGNLSLEFVSYELGEPK---- 80 (1112)
T ss_pred CceEeeccccccc--CCCCCHHHHHHHHHHHHHhcCCcccchhHHHHHHhcCCEEec--CCcEEEEEeeeEcCCCC----
Confidence 4557889987755 478999999999999999 99999999999999886 47899999999999996
Q ss_pred CCCcccccCChHHHHhcCCccceeEEEEEEEEeCC-CcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCC
Q psy8410 121 PVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDG-KAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGG 199 (951)
Q Consensus 121 ~~~~~~~~l~P~EcRlr~lTYsa~l~v~i~~~~~~-~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GG 199 (951)
++|+|||+|++||+|||+|+++++..+ .+....+|+||+||||+ +||
T Consensus 81 --------~tp~Ear~r~lTYSaplyv~v~l~~~~~~~i~~~~V~iG~iPiMt------------------------~gG 128 (1112)
T PRK00405 81 --------YDVEECKERGLTYSAPLRVKLRLINKETGEIKEQEVYMGDIPLMT------------------------ENG 128 (1112)
T ss_pred --------CCHHHHHHhCCCCCeeEEEEEEEEEeccCceeeeeEEEecccccc------------------------CCc
Confidence 359999999999999999999997543 23445689999999995 699
Q ss_pred eEEEcCceeEEEEEEeccCCeeEEEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeeh--------
Q psy8410 200 YFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSH-------- 271 (951)
Q Consensus 200 YFIInG~EKVIr~li~~r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~-------- 271 (951)
||||||+||||+.|+..++|..+.....+- ..++ ..+.+.+++.+ ++. ..+.+-.++.+++++..
T Consensus 129 yFIING~ERVIVsQe~rSPg~~~~~~~~k~-~~~k--~~y~a~Iis~r--Gsw--l~~e~d~k~~I~vri~~~~kIPi~i 201 (1112)
T PRK00405 129 TFIINGTERVIVSQLHRSPGVYFDHDKDKT-SSGK--LLYSARIIPYR--GSW--LEFEFDPKDILYVRIDRRRKLPVTV 201 (1112)
T ss_pred eEEECCeEEEEEEEeecCCCEEEEEecccc-CCCc--eeEEEEEEECC--CCc--EEEEEecCCeEEEEecCCCcccHHH
Confidence 999999999999999999998776542200 0111 12345566654 221 22223334555555532
Q ss_pred -hhHH-----HHHHh---------------------------------------------------HHH-HHHhCCCCHH
Q psy8410 272 -RKSM-----CLLGM---------------------------------------------------MQS-LHEEGIHTQH 293 (951)
Q Consensus 272 -~k~l-----~v~~~---------------------------------------------------L~~-~~~~~i~t~e 293 (951)
.|++ .+.++ +.+ +.+++..|++
T Consensus 202 LLrALGlsd~eIl~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~~~~~~~~~i~~~l~~~~~~t~e 281 (1112)
T PRK00405 202 LLRALGYSDEEILDLFYEKEEFGKEIEVPVEYLLGKVLAEDIVDEETGEVLAEANDEITEELDGPYIRNTLEKDPTSSRE 281 (1112)
T ss_pred HHHHcCCCHHHHHHHhcccccccceeccchHHhcccchhhhhcccccceeeeccCCccchhhhhHHHHHHHhhccccCHH
Confidence 3333 11111 111 1123467999
Q ss_pred HHHHHHHhhhcccccccccCCcHHHHHHHHhhcccc-------CCCCCc-----------hh----hHhHHHHHHHHHHH
Q psy8410 294 DSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCIL-------PHLDDY-----------WD----KFLCLSHMTCKLFH 351 (951)
Q Consensus 294 ~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~ll-------pHl~~~-----------~~----K~~~L~~Mi~kLl~ 351 (951)
+|+.||++++++.. ....+.|+.+|++.+| ||++.. .. +..++++|+++|+.
T Consensus 282 ~Al~~I~k~l~~g~------~~~~e~a~~~l~~~ff~~~rYdL~hiGr~k~nkKl~l~~~~~~~~L~~~d~~~mi~~Ll~ 355 (1112)
T PRK00405 282 EALVEIYRRLRPGE------PPTVEAARSLLENLFFDPKRYDLSKVGRYKLNKKLGLDEDEDVRVLTKEDIIATIKYLIN 355 (1112)
T ss_pred HHHHHHHhhcCCCC------cchHHHHHHHHHHHhcCccccccccCCceecchhcccCcccccccccHHHHHHHHHHHHh
Confidence 99999999987642 1235678888887665 999842 11 33456999999999
Q ss_pred HhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc---------cCChhhHHhhhccchHHHHHHHHHhcCCcCCC
Q psy8410 352 VVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA---------VLKESDIYAAFRASSIESAMTNFLATGNVSAG 422 (951)
Q Consensus 352 ~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~---------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~~ 422 (951)
+..|...+||+|||+||||+++|+||+.+|+..|.+..+ ..+..++..+++++.||++|++||+||
T Consensus 356 l~~g~~~~DDiDhl~NKRvr~aGeLL~~~fr~~~~rl~k~ik~~l~~~~~~~~~~~~lin~~~it~~i~~ff~tg----- 430 (1112)
T PRK00405 356 LRNGKGEVDDIDHLGNRRVRSVGELLQNQFRIGLSRMERAVRERMSLQDLDTLTPQDLINAKPVVAAIKEFFGSS----- 430 (1112)
T ss_pred hhcccCCCcchhHHhcchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCHHHhhCchhHHHHHHHhhccC-----
Confidence 999999999999999999999999999999986555211 122345666778999999999999875
Q ss_pred ccchhhhhhccceeEEecccchhhhccccccccc---CccccccccCCCccccCCCCceeecccCCCCccccccccccce
Q psy8410 423 KNSTLQLMQASGFVIMAENINRMRYMSHFRAVHR---GSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTN 499 (951)
Q Consensus 423 k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~r---g~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~ 499 (951)
||||++||+|+++.|||+||+.. |++-.+.+.++||+|||||||+|||+|||||++||||+|||++
T Consensus 431 -----------glSQ~Ldq~NpLselshkRRlss~gpggl~r~~a~~~~R~lH~ShyGriCPiETPEG~n~GLV~nLA~~ 499 (1112)
T PRK00405 431 -----------QLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATY 499 (1112)
T ss_pred -----------CcceeeccCCHHHhhhhhceecccCCCCcCccccCCcccccCccccccccCcCCCCCCccccccchhhc
Confidence 89999999999999999999985 4566677789999999999999999999999999999999999
Q ss_pred eEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEE
Q psy8410 500 CQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIV 579 (951)
Q Consensus 500 ~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~ 579 (951)
|+|+.. |+.. ..|.+++||.|- .
T Consensus 500 a~i~~~----------------G~~~----------tp~~~~~nG~~~---~---------------------------- 522 (1112)
T PRK00405 500 ARVNEY----------------GFIE----------TPYRKVVDGKVT---D---------------------------- 522 (1112)
T ss_pred cccccC----------------Cccc----------cceEEEECCeEc---c----------------------------
Confidence 999843 4431 127888999861 1
Q ss_pred EEcCCCCCCCCCCeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccC----------------------c
Q psy8410 580 YLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAY----------------------P 637 (951)
Q Consensus 580 ~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~----------------------~ 637 (951)
.+||+|++||++..||....++. .
T Consensus 523 ----------------------------------~i~yl~a~eE~~~~Ia~~~~~l~~~~~~~~~~i~~r~~~e~~~~~~ 568 (1112)
T PRK00405 523 ----------------------------------EIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTARYKGEFVLVPP 568 (1112)
T ss_pred ----------------------------------ceEECCHHHhcCcEEEecCcccCCCCcccCceEEEEecCcceeech
Confidence 12344444444444444333321 1
Q ss_pred ceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccc--------------------------------
Q psy8410 638 GITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCL-------------------------------- 685 (951)
Q Consensus 638 ~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~-------------------------------- 685 (951)
..+||+||+|.+|||++||||||++|||||||+|||+|+|||||+...
T Consensus 569 ~~~~~~~i~p~qi~sv~aslIPFleHnda~R~lmgSnMqrQAvpl~~~~~p~vgTg~e~~~~~ds~~~i~a~~~G~v~~v 648 (1112)
T PRK00405 569 EEVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLLRPEAPLVGTGMERRVARDSGAVVVAKRDGVVEYV 648 (1112)
T ss_pred hhceEEeechhhhceehhhccCcccccCCcchhhhhhhhhhhhhhccccCCeeecCcchhhhhhcchheEeccCCEEEEE
Confidence 247999999999999999999999999999999999999999999888
Q ss_pred ---cccccC-----------------CcceEE-ecCCCceeeeccc----cccc------ccccCCCCceEEEEEEeccC
Q psy8410 686 ---NWRYQG-----------------VGKLYR-LQTPASPFFRPVH----YDTL------DMDNFPMGTNAIVAVISYTG 734 (951)
Q Consensus 686 ---n~~~R~-----------------D~~~y~-L~ypQ~Plv~t~~----~~~~------~~~~~p~G~NaiVAv~sytG 734 (951)
|+..|. |+..+. +.|||+|||+|+. .+.+ +++++|+|+|++||||||+|
T Consensus 649 ~~~~i~ir~~~~~~~~~~~~~y~L~~~~~sn~~~~~~q~Plv~~~~~v~~g~~lad~~~~~~~e~~~G~N~~VA~~~y~G 728 (1112)
T PRK00405 649 DASRIVVRVEELDPGEDGVDIYNLIKFQRSNQNTCINQRPIVKVGDRVEKGDVLADGPSTDNGELALGQNVLVAFMPWNG 728 (1112)
T ss_pred eCCEEEEeecccccCCCCeeEEEecccccccccceeecceeeecCCeEeeccEeecccccCcccccCCcceEEEEEeecc
Confidence 888888 555555 7899999999994 5554 79999999999999999999
Q ss_pred CCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccc
Q psy8410 735 YDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYF 814 (951)
Q Consensus 735 Yn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~ 814 (951)
|||||||||||+|+|||+|++.+|+++..++.+.. .|.| .++
T Consensus 729 Yn~EDaiiink~si~rg~~~s~~~~~~~~~~~~~~--~~~~------------------------------------~~~ 770 (1112)
T PRK00405 729 YNFEDAILISERLVKEDVFTSIHIEEYEIEARDTK--LGPE------------------------------------EIT 770 (1112)
T ss_pred cCccceEEEEhhhhccCceEEEEEeeeeeEeeccC--CCce------------------------------------eec
Confidence 99999999999999999999999999887764311 1111 122
Q ss_pred cCCCC-ChhhhhcCCCCCceeecceecCCCCEEEEecCCC---------------------CeEEEEEeCCCccEEEEEE
Q psy8410 815 GRDPA-NKALEDKLGPDGLVYVGAKLNERDPMYSYWKESE---------------------NRYVTCRYSGKEEMCVEVV 872 (951)
Q Consensus 815 ~~~p~-~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~---------------------~~~~~~~~~~~e~g~vd~v 872 (951)
...|. ....+++||+||+|++|+.|++||+|+||+++.. .++.+++++++|+|+||+|
T Consensus 771 ~~~p~~~~~~~~~Ld~dGi~~~G~~v~~gDiligk~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~s~~~~~~~~g~V~~v 850 (1112)
T PRK00405 771 RDIPNVSEEALRNLDESGIVRIGAEVKPGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVKDTSLRVPHGEEGTVIDV 850 (1112)
T ss_pred ccCCCCChHHhhccCCCCCccCccEecCCCEEEEEecCCCccccChhhhhhhhhhcccccccccceEEcCCCCCEEEEEE
Confidence 22232 1235889999999999999999999999997621 1346889999999999999
Q ss_pred EEecC-CCCC--CCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCC
Q psy8410 873 RMSSG-FTEG--GSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIG 949 (951)
Q Consensus 873 ~~~~~-~~~~--~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG 949 (951)
.++++ .+.. +....+.++|++|+.|+|+||||||||||||||||+|||+||||||++|++|||||||||||||||||
T Consensus 851 ~~~~~~~~~~~~~~~~~~~vkv~ir~~R~p~iGDKfasRHGqKGvis~i~~~eDMPf~~~G~~pDiIiNPhg~PSRMtiG 930 (1112)
T PRK00405 851 KVFTRIEQGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIG 930 (1112)
T ss_pred EEeeccccCCccCcCcceEEEEEEeeecccCcccchhhccCCceeEEeEeccCCCCcCCCCCCCcEEECCCCCcccccHH
Confidence 99876 3211 00114689999999999999999999999999999999999999999999999999999999999999
Q ss_pred CC
Q psy8410 950 FL 951 (951)
Q Consensus 950 ~l 951 (951)
||
T Consensus 931 ql 932 (1112)
T PRK00405 931 QI 932 (1112)
T ss_pred HH
Confidence 96
No 9
>CHL00001 rpoB RNA polymerase beta subunit
Probab=100.00 E-value=1.8e-139 Score=1288.68 Aligned_cols=713 Identities=19% Similarity=0.212 Sum_probs=554.0
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCccc
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYS 142 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTYs 142 (951)
..+++|+++|+||||+|+++||++++++++||+....+..+.+.++++++++|.+ +|.|||+|++||+
T Consensus 10 ~~~P~Lv~~Q~~SF~~Fl~~gL~~i~~~~~pI~~~~~~~~~~~~~~~~~l~~P~~------------~p~ear~r~lTYs 77 (1070)
T CHL00001 10 STIPGFNQIQFEGFCRFIDQGLTEELSKFPKIEDTDQEIEFQLFVETYQLVEPLI------------KERDAVYESLTYS 77 (1070)
T ss_pred cCCCCHHHHHHHHHHHHHHHhHHHHHHhcCCeECCCCCEEEEEEeCeEEECCCCC------------CHHHHHHhCCCCC
Confidence 4689999999999999999999999999999993221234666677999999976 3999999999999
Q ss_pred eeEEEEEEEEeCCC-cceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCee
Q psy8410 143 GPFNVTVAWSWDGK-AGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHP 221 (951)
Q Consensus 143 a~l~v~i~~~~~~~-~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~ 221 (951)
||++|++.++..+. .....+|++|+||+| |+||||||||+||||+.|+..++|..
T Consensus 78 a~l~v~v~l~~~~~~~i~~~~V~iG~iPlM------------------------t~gG~FIING~ERVIVsQ~~rSpg~~ 133 (1070)
T CHL00001 78 SELYVPAGLIWKKSRDMQEQTVFIGNIPLM------------------------NSLGTFIINGIYRVVINQILRSPGIY 133 (1070)
T ss_pred ceeEEEEEEEEcCceeEEEeEEEEecCCcc------------------------CCCcEEEEcCcEEEEEEEEeccCCEE
Confidence 99999999975543 244568999999999 77999999999999999999999987
Q ss_pred EEEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeeh---------hhHH-----HHH------HhH
Q psy8410 222 IAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSH---------RKSM-----CLL------GMM 281 (951)
Q Consensus 222 ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~---------~k~l-----~v~------~~L 281 (951)
+...... .++ ..+.+.+++.+. + ...+.+-.++.+++.+.. .|++ .+. .++
T Consensus 134 ~~~~~~~---~~~--~~y~a~iis~rg--s--wl~~e~d~~~~i~vri~~~~kiPi~ilLrALG~sd~eIl~~~~~~~~l 204 (1070)
T CHL00001 134 YRSELDH---NGI--SVYTGTIISDWG--G--RLELEIDRKARIWARVSRKQKISILVLLSAMGLNLREILDNVCYPEIF 204 (1070)
T ss_pred EEEecCC---CCc--eeEEEEEEecCC--C--ceEEEEecCCeEEEEecCCCcccHHHHHHHcCCCHHHHHHHhCcHHHH
Confidence 7654211 111 123455665543 1 122333334555555533 3333 111 112
Q ss_pred H----HHHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCC------CCCc----h------hhHhH
Q psy8410 282 Q----SLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPH------LDDY----W------DKFLC 341 (951)
Q Consensus 282 ~----~~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpH------l~~~----~------~K~~~ 341 (951)
. +..+.++.|+++||.||++++..+- ......+.|+.+|++.+++| ++.. . .|..+
T Consensus 205 ~~~l~~~~~~~~~t~e~Al~~i~~~l~~r~----~~~~~~~~a~~~l~~~ff~~rY~Lg~vGr~~~n~kl~~~~~~~~~~ 280 (1070)
T CHL00001 205 LSFLNDKEKKKIGSKENAILEFYQQFACVG----GDPVFSESLCKELQKKFFQQRCELGRIGRRNMNRKLNLDIPENNTF 280 (1070)
T ss_pred HHHHHHHhhccccCHHHHHHHHHHhhccCC----CCcchHHHHHHHHHHHhccccccccccCchhhhhhhcccccccceE
Confidence 1 2223458899999999999984321 12335678999999988888 7632 1 45666
Q ss_pred H-----HHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc-----------ccCChhhHHhhhccch
Q psy8410 342 L-----SHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS-----------AVLKESDIYAAFRASS 405 (951)
Q Consensus 342 L-----~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~-----------~~~~~~~~~~~i~~~~ 405 (951)
| ++|+++|+.+..|....||+|||+||||+++|+|++.+|+..|.+.. ......++..+++++.
T Consensus 281 L~~~Di~~~i~~Ll~l~~G~~~~DDiDhLgNKRvr~vGeLL~~qfr~~l~r~~r~ik~~m~~~~~~~~~~~~~~lin~~~ 360 (1070)
T CHL00001 281 LLPQDVLAAADYLIGMKFGMGTLDDIDHLKNKRIRSVADLLQDQFGLALNRLENAVRGTICGAIRRKLIPTPQNLVTSTP 360 (1070)
T ss_pred ecHHHHHHHHHHHHHhhcCCCCccchhHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCHHHhhCcch
Confidence 6 99999999999999999999999999999999999999998555421 1112234666779999
Q ss_pred HHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhccccccccc-Cc--cccccccCCCccccCCCCceeecc
Q psy8410 406 IESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHR-GS--YFQEMRSSEPRQLRTDAWGFICPV 482 (951)
Q Consensus 406 It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~r-g~--~f~~~k~t~~R~Lhps~wGfiCPv 482 (951)
||++|++||+| +||||++||+|+|+.|||+||+.. |+ .-.+...++||++||||||+|||+
T Consensus 361 It~~ik~ff~t----------------s~LSQflDqtNpLseltHkRRlsslGpgglsr~~a~fevRdvHpShyGRICPI 424 (1070)
T CHL00001 361 LTTTYESFFGS----------------HPLSQFLDQTNPLTEIVHGRKLSSLGPGGLTGRTASFRVRDIHPSHYGRICPI 424 (1070)
T ss_pred HHHHHHhhhcC----------------CcceeeeccCCHHHhhhhhhcccccCCCCccccccCCcccccCccccccccCC
Confidence 99999999985 689999999999999999999985 32 323333469999999999999999
Q ss_pred cCCCCccccccccccceeEEeec-cCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHH
Q psy8410 483 HTPDGTPCGLLNHLTTNCQISEY-IPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPK 561 (951)
Q Consensus 483 ~TPeG~~cGLvk~La~~~~Vt~~-~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~ 561 (951)
|||||++||||++||++|+|+.. .. ..++.+++...+..++... .+..+..+.|+ ||.|+|...+. +
T Consensus 425 ETPEG~NiGLI~sLA~~A~In~~Gfi---etP~~~v~~~~~~~~i~yl-sa~ee~~~~Ia-~g~~~~~~~~~----~--- 492 (1070)
T CHL00001 425 DTSEGINAGLIGSLAIHARIGHWGSL---ESPFYEISERSKEERMVYL-SPSEDEYYMIA-AGNSLALNQGI----Q--- 492 (1070)
T ss_pred CCCCcccccchhhhhhhcccccCCCc---ccceeeeccccccceeEEc-cccccCceEEE-eCceeeccCCc----c---
Confidence 99999999999999999999954 33 3666677766665554321 12234568888 99999832210 0
Q ss_pred HHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccCcceee
Q psy8410 562 LRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITT 641 (951)
Q Consensus 562 lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~t 641 (951)
.+..+.. |. | ++++.||.. ..|
T Consensus 493 ----------~~~~~~~-----------------------r~-~-----------------~e~~~i~~~-------~i~ 514 (1070)
T CHL00001 493 ----------EEQVVPA-----------------------RY-R-----------------QEFLTIAWE-------QIH 514 (1070)
T ss_pred ----------ccceeEE-----------------------Ee-c-----------------CeEEEEchH-------HCc
Confidence 0001110 11 0 224556554 349
Q ss_pred eecccCCccccceeeeecCCCCCCCccchhhcccccccccccccc---------ccccC-----------------C---
Q psy8410 642 HRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLN---------WRYQG-----------------V--- 692 (951)
Q Consensus 642 h~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n---------~~~R~-----------------D--- 692 (951)
|+||+|.+|+|++||||||++|||||||+|||+|+|||||+...| ++.|. |
T Consensus 515 ~~dIsP~qi~svaasLIPFleHndanRalmgsnMqrQAvpll~~~~p~VgTG~E~~~~~ds~~~i~a~~~G~V~~vd~~~ 594 (1070)
T CHL00001 515 LRSIFPFQYFSIGASLIPFLEHNDANRALMGSNMQRQAVPLSRSEKCIVGTGLERQVALDSGVVAIAEHEGKIIYTDTDK 594 (1070)
T ss_pred EEeeChhhhhhhhhhcCCCccccCcchhhhhhccchhccccccCCCCEeecCcchhhhhcccceeEEccCCEEEEEeCCE
Confidence 999999999999999999999999999999999999999999988 88887 6
Q ss_pred --------c-ceEEecC---------CCceeeecccccccc------------cccCCCCceEEEEEEeccCCCCCCcEE
Q psy8410 693 --------G-KLYRLQT---------PASPFFRPVHYDTLD------------MDNFPMGTNAIVAVISYTGYDMEDAMI 742 (951)
Q Consensus 693 --------~-~~y~L~y---------pQ~Plv~t~~~~~~~------------~~~~p~G~NaiVAv~sytGYn~EDAiI 742 (951)
+ ..|++.| ||+|||+++ +..+ .+++|+|+|++||||||+|||||||||
T Consensus 595 I~i~~~~~~~~y~l~~y~rsnq~t~~~QkPlV~~g--~~v~~g~~ladg~~~~~gel~~G~N~~VA~m~~~GYn~EDAii 672 (1070)
T CHL00001 595 IILSGNGDTLSIPLVMYQRSNKNTCMHQKPQVRRG--KCVKKGQILADGAATVGGELALGKNVLVAYMPWEGYNFEDAVL 672 (1070)
T ss_pred EEEEcCCCeEEEEeeceeccCCCcccccCCEEecC--CEEccCCEeccChhhccccccCCccceeeeeeccccccchhhh
Confidence 4 4577778 999999999 4444 899999999999999999999999999
Q ss_pred EeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCC-Ch
Q psy8410 743 LNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-NK 821 (951)
Q Consensus 743 iNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~ 821 (951)
|||+|++||+|++.+|+++.+++.+.. .|.|. +....|+ .+
T Consensus 673 in~~~v~~g~~~s~~~~~~~~~~~~~~--~g~e~------------------------------------i~~~~p~~~~ 714 (1070)
T CHL00001 673 ISERLVYEDIYTSFHIRKYEIQTHVTS--QGPER------------------------------------ITKEIPHLEA 714 (1070)
T ss_pred hhhhhhcCCceEEEEEeeeeEEEeccC--CCcce------------------------------------EeccCCCCch
Confidence 999999999999999999888765411 12221 1112233 22
Q ss_pred hhhhcCCCCCceeecceecCCCCEEEEecCCC-----------------------CeEEEEEeCCCccEEEEEEEEecCC
Q psy8410 822 ALEDKLGPDGLVYVGAKLNERDPMYSYWKESE-----------------------NRYVTCRYSGKEEMCVEVVRMSSGF 878 (951)
Q Consensus 822 ~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~-----------------------~~~~~~~~~~~e~g~vd~v~~~~~~ 878 (951)
..+++||+||++++|+.|++||+|+||++|.. .++.+++++++++|+|++|.+++..
T Consensus 715 ~~~~~Ld~dGi~~~G~~v~~gDilvgK~~p~~~~~~~~~~~~~~~~~if~~~~~~~~d~sl~~~~~~~g~V~~v~~~~~~ 794 (1070)
T CHL00001 715 HLLRNLDKNGIVMLGSWVETGDILVGKLTPQEAEESSYAPEGRLLRAIFGIQVSTSKETCLKLPIGGRGRVIDVRWIQKK 794 (1070)
T ss_pred hhhhccCCCCCccCCcEecCCCEEEEEecCCcccccccCcchhhhhhhhccccCcceeCeEECCCCCceEEEEEEEEecc
Confidence 45889999999999999999999999997631 1356788999999999999998753
Q ss_pred CCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 879 TEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 879 ~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
...+ ...+.|+|++|+.|+|++|||||||||||||||+|||+||||||+||++|||||||||||||||||||
T Consensus 795 ~~~~-~~~~~vkv~i~~~R~~~vGDK~asRHGqKGvvs~i~~~eDMPf~~dG~~pDiIlNP~gvPSRMtiGql 866 (1070)
T CHL00001 795 GGSS-YNPETIHVYILQKREIQVGDKVAGRHGNKGIISKILPRQDMPYLQDGTPVDMVLNPLGVPSRMNVGQI 866 (1070)
T ss_pred cCCC-CCcEEEEEEEEEEecCCCCcccccccCCcceEeeeecccCCCcccCCCCCceeeccccccccccHHHH
Confidence 1110 13679999999999999999999999999999999999999999999999999999999999999996
No 10
>CHL00207 rpoB RNA polymerase beta subunit; Provisional
Probab=100.00 E-value=1.2e-119 Score=1107.01 Aligned_cols=715 Identities=20% Similarity=0.248 Sum_probs=518.0
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEe--eEEEcCCcccCCCCCcccccCChHHHHhcCCc
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIV--KAAISEPKVPAGPVGIHFNKYYPTEARQTRSV 140 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~--~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lT 140 (951)
..+++|+..|++||++|+++||++++++.+||+.. +..+.++|. ++++++|.+ +|.|||+|++|
T Consensus 5 ~~~Pdll~iQ~~SF~~FL~~GL~~~~~~~~pI~~~--~~~~~l~~~~~~y~l~~P~~------------~~~Ea~~r~~T 70 (1077)
T CHL00207 5 FALPDFLEIQRTSFCWFLNEGLNEELNIFSKIFDY--TGNLELLLFGKNYKLKYPKY------------NLLSAKSYDSN 70 (1077)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCeECC--CCCEEEEEecceEEEcCCCC------------CHHHHHHhCCc
Confidence 46889999999999999999999999999999874 344555555 899999974 39999999999
Q ss_pred cceeEEEEEEEEeCCC-cceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCC
Q psy8410 141 YSGPFNVTVAWSWDGK-AGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRN 219 (951)
Q Consensus 141 Ysa~l~v~i~~~~~~~-~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N 219 (951)
|++||+|++.++.++. +....++++|+||+|.. +|||||||+||||+.|+..++.
T Consensus 71 Ysa~l~v~~~l~~~~~~~i~~~~V~lG~iPlMT~------------------------~GtFIING~ERViVsQl~RSPG 126 (1077)
T CHL00207 71 YSIQIYLPLKFINLKTNKIKFINYLIGNLPKMTQ------------------------RGTFIINGLERVIVSQIIRSPG 126 (1077)
T ss_pred cceeEEEEEEEEEcCCceEEEEEEEEeccCccCC------------------------CCEEEEcCceeEEEEEeccCCe
Confidence 9999999999986443 34567899999999954 9999999999999999966665
Q ss_pred eeEEEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEee---------hhhHH-----HHHHhHHH--
Q psy8410 220 HPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFS---------HRKSM-----CLLGMMQS-- 283 (951)
Q Consensus 220 ~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~---------~~k~l-----~v~~~L~~-- 283 (951)
..+..... +.....|+ +.+ ....++ ...+.+-.++.+++++. +.|++ .+..++..
T Consensus 127 iyf~~~~~--k~~~~~y~---a~I--Ip~rGs--wl~~e~d~k~~i~vridr~rKipit~lLrALGls~~eIl~~~~~~~ 197 (1077)
T CHL00207 127 IYFKKEIK--KNSNKIYS---ATL--IPNRGS--WIKFELDKNKEIWIRIDKNRKKPLIIFLKALGLTDQDIYSRLTKSE 197 (1077)
T ss_pred EEEEEecC--cCCceEEE---EEE--EcCCCc--eEEEEEcCCCeEEEEecCCceeeHHHHHHHhCCCHHHHHHHHhccc
Confidence 33322211 11111222 122 221111 11122222333433332 33443 12222211
Q ss_pred --------HHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHh-------hccccCCCCC--------------
Q psy8410 284 --------LHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYML-------TNCILPHLDD-------------- 334 (951)
Q Consensus 284 --------~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL-------~~~llpHl~~-------------- 334 (951)
+...+..++++|+.+|++++++... . ..+.++.++ ++|.|+|++-
T Consensus 198 ~~~~~~~~l~~~~~~~~e~Al~~Iy~~lrp~~~---~---~~~~a~~~l~~~ff~~~rYdLg~vGR~klN~kl~~~~~~~ 271 (1077)
T CHL00207 198 FLKKLKPILLNSNSYTNEEILLEIYKNLSPIEP---A---TVNDANQNLFSRFFDPKNYDLGKVGRYKINNKLNLNIPER 271 (1077)
T ss_pred hHHHHHHHHhccCcccHHHHHHHHHHhcCCCCC---c---cHHHHHHHHHHHhcChhcccccccchhhhhhhccCCcCcc
Confidence 1223567899999999999987531 1 123344433 5677777763
Q ss_pred -chhhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc----cc-----CChhhHHhhhccc
Q psy8410 335 -YWDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS----AV-----LKESDIYAAFRAS 404 (951)
Q Consensus 335 -~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~----~~-----~~~~~~~~~i~~~ 404 (951)
..-++.+++.|+++|+.+..|....||+|||+||||+++|+|++.+|+-.|.+.. .+ ........+++++
T Consensus 272 ~~~l~~~Dil~~i~~Li~l~~g~~~~DDiDHL~NRRvrsvGELlq~qfr~gl~rler~ike~m~~~~~~~~tp~~lin~k 351 (1077)
T CHL00207 272 VRNLTYEDILSIIDKLINLKINKGNFDDIDHLKNRRVRSVGELLQNQFRIGLKRLERILRNRMTICDIDSLSKFNLINPK 351 (1077)
T ss_pred CceecHHHHHHHHHHHHHhhcCCCcccchhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHhhhcccccCChhhcccch
Confidence 1225678999999999999998899999999999999999999999997444411 11 1223345566899
Q ss_pred hHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhccccccccc---CccccccccCCCccccCCCCceeec
Q psy8410 405 SIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHR---GSYFQEMRSSEPRQLRTDAWGFICP 481 (951)
Q Consensus 405 ~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~r---g~~f~~~k~t~~R~Lhps~wGfiCP 481 (951)
.||..|+.||++ +++||.+|++|+|+.|+|.||+.. |+.-.+...+++|++||||||+|||
T Consensus 352 ~lt~~ikeFFgs----------------s~LSQfmDQtNpLselTHKRRlsaLGpGGLsR~ra~fevRdvH~thyGRiCP 415 (1077)
T CHL00207 352 PLIALIREFFGS----------------SQLSQYMDQTNPLSELTHKRRISILGPGGLDKDRISFAVRDIHPSHYGRICP 415 (1077)
T ss_pred hHHHHHHHhhcc----------------CCccceecccChHHhhhccceeeccCCCcccccccCCcccccCccccccccC
Confidence 999999999973 689999999999999999999975 5666667789999999999999999
Q ss_pred ccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHH
Q psy8410 482 VHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPK 561 (951)
Q Consensus 482 v~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~ 561 (951)
+|||||++|||+++||++|.|+.. |..+ ..|....||++. ..+ .+..+ .+
T Consensus 416 IETPEG~n~Gli~~la~~~~in~~----------------Gfie----------tPy~~v~~g~v~-~~~--~i~yl-sa 465 (1077)
T CHL00207 416 IETPEGPNCGLIGSLATNARINKF----------------GFIE----------TPFYKVINGKVK-KFG--NPIYL-TA 465 (1077)
T ss_pred CCCCCCcccccccchhhhccccCC----------------Ccee----------CceEEEEcCccc-ccC--ceeec-Ch
Confidence 999999999999999999999766 4332 124555788753 111 11111 01
Q ss_pred HHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccCcceee
Q psy8410 562 LRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITT 641 (951)
Q Consensus 562 lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~t 641 (951)
.... ...|+-.. +.+ .+.|.+.-..+.++. -+++..++ +...+
T Consensus 466 ~~e~---------~~~Ia~~~-----------~~~-~~~~~~~~~~v~~r~---------~~ef~~~~-------~~~v~ 508 (1077)
T CHL00207 466 DSED---------LYRIAPND-----------INL-NKNNYFKKNIIPVRY---------KQEFKTVN-------PSKVD 508 (1077)
T ss_pred HHhc---------CcEEEecC-----------ccC-CCCCcccCCEEEEEE---------CCcEEEEC-------hHHce
Confidence 0000 01111000 000 112333222222211 12232222 22468
Q ss_pred eecccCCccccceeeeecCCCCCCCccchhhccccccccc----------ccccc-----------------------c-
Q psy8410 642 HRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMG----------TPCLN-----------------------W- 687 (951)
Q Consensus 642 h~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG----------~~~~n-----------------------~- 687 (951)
+++++|.+++|++||||||.+||++.|++|+++|++||+. |.... .
T Consensus 509 ~~~vsp~Q~~SvaasLIPFLehdDanRaLMGsnMqrQaVPll~~e~p~VgTg~e~~~a~ds~~~i~a~~~G~v~~v~~~~ 588 (1077)
T CHL00207 509 FIAISPIQVFSIAESLIPFLEHNDANRALMGSNMQRQAVPLLYPEKPIVGTGYEKQIALDSGMTIISLTEGIVVSVSAYK 588 (1077)
T ss_pred EEEeCcchhcchhhhcCCcccccccchhhhhhccccccccccccCCCeEECCcchHhhhhcchheEeccCcEEEEecCcE
Confidence 9999999999999999999999999999999999999983 33210 0
Q ss_pred -cccCC---cceEEec----------CCCceeeeccccc----------ccccccCCCCceEEEEEEeccCCCCCCcEEE
Q psy8410 688 -RYQGV---GKLYRLQ----------TPASPFFRPVHYD----------TLDMDNFPMGTNAIVAVISYTGYDMEDAMIL 743 (951)
Q Consensus 688 -~~R~D---~~~y~L~----------ypQ~Plv~t~~~~----------~~~~~~~p~G~NaiVAv~sytGYn~EDAiIi 743 (951)
..|.| ...|.|. ..|+|+|+.+..- .+.++++|+|+|++||||||+||||||||||
T Consensus 589 I~i~~~~~~~~~y~l~~~~rsNq~t~i~qrp~V~~G~~v~~G~iladg~~~~~~el~lG~N~lVA~m~y~GYN~EDAiii 668 (1077)
T CHL00207 589 IIIQDDNNRYIHYYLQKYQRSNQNTCINYRPIVWVGEKINIGQILADGSDIDNSELALGQNVLVAYMPWEGYNFEDAILI 668 (1077)
T ss_pred EEEEeCCCceeEEEeccccccccCceeecccccCCCCEEecCCEEecchhccCCcccCCcccEEEEEeeeccccchhhhh
Confidence 11221 1336555 4899999987642 4678999999999999999999999999999
Q ss_pred eccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCC-Chh
Q psy8410 744 NKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-NKA 822 (951)
Q Consensus 744 Nkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~~ 822 (951)
||++++||+|++.+|+++.+++.+. +.|.|. +....|. ...
T Consensus 669 nk~~v~rg~f~Si~~~~~~~e~~~~--~~g~e~------------------------------------i~~~~p~~~~~ 710 (1077)
T CHL00207 669 NKRLVYEDLFTSIHIEKYEIELRQT--KLGSEE------------------------------------ITRNIPNVSEY 710 (1077)
T ss_pred hhhhhcCCceEEEEEEEeeeEEeec--CCCceE------------------------------------EeccCCCCChH
Confidence 9999999999999999988876541 122221 1111232 234
Q ss_pred hhhcCCCCCceeecceecCCCCEEEEecCCC---------------------CeEEEEEeCCCccEEEEEEEEecCCC-C
Q psy8410 823 LEDKLGPDGLVYVGAKLNERDPMYSYWKESE---------------------NRYVTCRYSGKEEMCVEVVRMSSGFT-E 880 (951)
Q Consensus 823 ~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~---------------------~~~~~~~~~~~e~g~vd~v~~~~~~~-~ 880 (951)
.+++||+||++++|++|++||+|+||++|.. .++.+++++++|+|+||+|.++.++. +
T Consensus 711 ~~~~LD~dGiv~iG~~V~~gDilvgK~tp~~~~~~~~~~~ll~~i~~~~~~~~kd~sl~~~~~~~g~V~~V~~~~~~~~~ 790 (1077)
T CHL00207 711 SLKNLDENGIISIGSKVLAGDILVGKITPKGESDQLPEGKLLRAIFGEKAKDVKDTSLRMPNGGYGRVIKVEIFSRSKGD 790 (1077)
T ss_pred HhhccCccCCCcCCcEeCCCCEEEEEecCccccccChhhhhhhhhhccCCCcceEeEEEcCCCCcEEEEEEEEEecCCCC
Confidence 5889999999999999999999999997621 14678999999999999999988632 2
Q ss_pred C-CCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 881 G-GSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 881 ~-~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
+ +..-...++|.+|+.|+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||
T Consensus 791 ~~~~~~~~~vkv~i~~~R~p~vGDKfasRHGqKGVvs~i~p~eDMPf~~dG~~pDiIlNPhg~PSRMtiGql 862 (1077)
T CHL00207 791 ELKFGYYLKIRVFIAQIRKIQVGDKLAGRHGNKGIISRILPRQDMPYLPDGTPPDIILNPLGVPSRMNVGQL 862 (1077)
T ss_pred cccccccEEEEEEEEEEecCCcccccccccCCceeEEeeeccCCCCccCCCCCccEEECCccccccccHHHH
Confidence 1 1011356999999999999999999999999999999999999999999999999999999999999996
No 11
>PRK07225 DNA-directed RNA polymerase subunit B'; Validated
Probab=100.00 E-value=1.6e-109 Score=976.62 Aligned_cols=367 Identities=31% Similarity=0.478 Sum_probs=326.2
Q ss_pred ceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeecc----
Q psy8410 537 ALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAA---- 612 (951)
Q Consensus 537 ~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~---- 612 (951)
.++|||||+|+|++++ +..++++||.+||.|. ||.++||++++.. .+|+||||+||++|||+++++
T Consensus 4 ~~~VflNG~~vG~~~~--~~~lv~~lR~lRr~g~-i~~~vsI~~~~~~-------~ei~I~tD~GR~~RPl~iv~~g~~~ 73 (605)
T PRK07225 4 KAKVYVNGKLIGTHDD--PEELVEEIREARRSGE-ISEEVNVSYKEET-------NEVIINTDAGRARRPLIVVENGEPL 73 (605)
T ss_pred ccEEEECCEEEEEECC--HHHHHHHHHHHHccCC-CCCcEEEEEECCC-------CEEEEEccCCccceeEEEEeCCccc
Confidence 4689999999999974 7999999999999998 9999999998753 369999999999999999866
Q ss_pred ----------------------ccccccCCccceeeeeeecccccCcceeeeecccCCccccceeeeecCCCCCCCccch
Q psy8410 613 ----------------------GNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNM 670 (951)
Q Consensus 613 ----------------------g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~ 670 (951)
|.|||||++||++++||+.++++.. .+||+||+|+++||++||+|||+|||||||||
T Consensus 74 l~~~~~~~l~~~~~~~~dl~~~G~IEyida~EE~~~~IA~~~~~l~~-~~th~Ei~p~~ilgv~AslIPF~~hNQSPRn~ 152 (605)
T PRK07225 74 LTEEHIEKLKNGELTFDDLVKQGVIEYLDAEEEENAYIAVYEEDLTE-EHTHLEIDPSLILGIGAGMIPYPEHNASPRIT 152 (605)
T ss_pred CCHHHHHHHHcCCCChHHHHhCCCeeecChhhhcCeEeccchhhhcc-cccccccCCcceeEEEeeccCCCCCCccchhh
Confidence 8999999999999999999999865 58999999999999999999999999999999
Q ss_pred hhccccccccccccccccccCCcceEEecCCCceeeecccccccccccCCCCceEEEEEEeccCCCCCCcEEEecccccc
Q psy8410 671 YQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYER 750 (951)
Q Consensus 671 yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dR 750 (951)
|||||+|||||++++|+..|+|+++|+|+|||+|||+|+.++.++++++|+|+||+||||||+||||||||||||+|+||
T Consensus 153 yq~~M~KQa~g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAvmsy~GYn~EDAiIiNkssidR 232 (605)
T PRK07225 153 MGAGMIKQSLGLPAANYKLRPDTRGHLLHYPQVPLVKTQTQEIIGFDERPAGQNFVVAVMSYEGYNIEDALIMNKASIER 232 (605)
T ss_pred hhhhhhhcccCccccceeeecCCcccEEeeCCcceEEccchHhhCCCccCCCeeEEEEEECcCCCChhHeeeeehhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCCChhhhhcCCCC
Q psy8410 751 GFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPD 830 (951)
Q Consensus 751 G~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~D 830 (951)
||||+.+|+++..+.++.. .|.+..+.. +..... ....+..|++||+|
T Consensus 233 Glf~s~~~k~~~~~~~~~~--~~~~~~~~~-----------------------------p~~~~~-~~~~~~~~~~LD~d 280 (605)
T PRK07225 233 GLGRSHFFRTYEGEERRYP--GGQEDRFEI-----------------------------PDKDVR-GYRGEEAYRHLDED 280 (605)
T ss_pred CceEEEEEEEEEEEeeecC--CCcceEEec-----------------------------CCchhc-cccChHHhhcCCCC
Confidence 9999999999887654411 111100000 000000 00112358899999
Q ss_pred CceeecceecCCCCEEEEecCC--------------CCeEEEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeee
Q psy8410 831 GLVYVGAKLNERDPMYSYWKES--------------ENRYVTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQ 896 (951)
Q Consensus 831 Gl~~~G~~v~~gd~l~~~~~~~--------------~~~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~ 896 (951)
|||++|+.|.+||+|+||++|. ..++.+++++.+|+|+||+|.++.+.+ + .+.++|++|+.
T Consensus 281 Gi~~~G~~v~~gdiligk~sp~~~~~~~~~~~~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~-~----~~~vkv~ir~~ 355 (605)
T PRK07225 281 GLVNPETEVKEGDVLIGKTSPPRFLEEPDDFGISPEKRRETSVTMRSGEEGIVDTVILTETEE-G----SRLVKVRVRDL 355 (605)
T ss_pred CCccCCCEECCCCEEEEEecCCCCccchhhhcccccCcceeeEEecCCCcEEEEEEEEEecCC-C----CEEEEEEEEEE
Confidence 9999999999999999998752 134678899999999999999987643 2 57899999999
Q ss_pred cCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 897 RNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 897 R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
|+|+||||||||||||||||++|||||||||++|++|||||||||||||||||||
T Consensus 356 R~p~iGDKfssRHGQKGvvs~i~~~eDMPft~~G~~PDiIiNPhg~PSRMTiGql 410 (605)
T PRK07225 356 RIPELGDKFASRHGQKGVIGLIVPQEDMPFTESGVVPDLIINPHAIPSRMTVGHV 410 (605)
T ss_pred EeccccchhhhcccCceeEEeEeccccCCcCCCCCcccEEECcccccccCcHHHH
Confidence 9999999999999999999999999999999999999999999999999999996
No 12
>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=100.00 E-value=2.6e-109 Score=973.75 Aligned_cols=364 Identities=33% Similarity=0.536 Sum_probs=323.6
Q ss_pred EEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeeccc------
Q psy8410 540 VMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAG------ 613 (951)
Q Consensus 540 V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g------ 613 (951)
|||||+|+|++++ +..++++||.+||.|. ||.++||++++.. ++|+||||+||++|||+++++|
T Consensus 1 VflNG~~vG~~~~--~~~lv~~LR~lRr~g~-i~~~vsI~~~~~~-------~ei~I~tD~GR~~RPl~iv~~g~l~l~~ 70 (599)
T TIGR03670 1 VYLNGRLIGYHDD--PEELVEEVRKLRRSGK-LSQEVNVAYYEET-------NEVYINCDAGRIRRPLIVVENGKPKLTR 70 (599)
T ss_pred CEECCEEEEEECC--HHHHHHHHHHHhCcCC-CCCcEEEEEeCCC-------CEEEEEcCCCccceeEEEeeCCCccccH
Confidence 7999999999974 7999999999999998 9999999998753 5799999999999999997654
Q ss_pred --------------------cccccCCccceeeeeeecccccCcceeeeecccCCccccceeeeecCCCCCCCccchhhc
Q psy8410 614 --------------------NIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQC 673 (951)
Q Consensus 614 --------------------~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc 673 (951)
.|||||++||+++.||+.++|+.. .+||+||+|++|||++||+|||+||||||||||||
T Consensus 71 ~~l~~l~~~~~~~~~ll~~G~IEyida~Ee~~~~IA~~~~~l~~-~~th~Ei~p~~ilgv~AslIPF~~hNqSpRn~YQc 149 (599)
T TIGR03670 71 EHVEKLKEGELTWDDLVKQGVIEYLDAEEEENAYIALDPEELTP-EHTHLEIDPSAILGIIASTIPYPEHNQSPRNTMGA 149 (599)
T ss_pred HHHHHHhccCCCHHHHHhcCCeEecCchhhcCeEEecchHHhcc-CcCccccCCcceeeEEeeccCCCCcCcchhhHHHH
Confidence 499999999999999999999865 58999999999999999999999999999999999
Q ss_pred cccccccccccccccccCCcceEEecCCCceeeecccccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCce
Q psy8410 674 QMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFA 753 (951)
Q Consensus 674 ~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~ 753 (951)
||+|||||+|++|++.|+|+++|+|+|||+|||+|++++.++++++|+|+||+||||||+||||||||||||+|+|||||
T Consensus 150 ~M~KQamG~~~~n~~~R~D~~~~~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAvmsy~GYn~EDAiIink~si~rG~f 229 (599)
T TIGR03670 150 AMAKQSLGLYAANYRIRLDTRGHLLHYPQKPLVKTRVLELIGYDDRPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLA 229 (599)
T ss_pred hhhhccccccccChhhcccccceEEcCCCCceeeeeeHHHhCccccCCCeeEEEEEEcccCcChhHeeeechhhhhcCCe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCCChhhhhcCCCCCce
Q psy8410 754 HGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLV 833 (951)
Q Consensus 754 ~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~ 833 (951)
++.+|+++.++.++.. .|.+..+. .| ....++.. .+..+++||+||+|
T Consensus 230 ~s~~~~~~~~~~~~~~--~~~~e~~~-------------~p---------------~~~~~~~~--~~~~~~~LD~dGi~ 277 (599)
T TIGR03670 230 RSTFFRTYEAEERRYP--GGQEDRFE-------------IP---------------EPDVRGYR--GEEAYKHLDEDGIV 277 (599)
T ss_pred EEEEEEEEEEEeeccC--CCCceEEe-------------cC---------------Cchhcccc--chhhhccCCCCCCc
Confidence 9999999887754311 11110000 00 00111111 12358899999999
Q ss_pred eecceecCCCCEEEEecCC--------------CCeEEEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCC
Q psy8410 834 YVGAKLNERDPMYSYWKES--------------ENRYVTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNP 899 (951)
Q Consensus 834 ~~G~~v~~gd~l~~~~~~~--------------~~~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p 899 (951)
++|+.|++||+|+||++|. ..++.+++|+++|+|+||+|.++.+++ + .+.++|++|+.|+|
T Consensus 278 ~~G~~v~~gdiligk~~p~~~~~~~~~~~~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~-~----~~~vkv~~r~~R~p 352 (599)
T TIGR03670 278 YPEVEVKGGDVLIGKTSPPRFLEELRELGLVTERRRDTSVTVRHGEKGIVDKVIITETEE-G----NKLVKVRVRDLRIP 352 (599)
T ss_pred CCCcEeCCCCEEEEEecCCCCccchhhhccccccCceEEEEecCCCcEEEEEEEEEecCC-C----cEEEEEEEeeeecC
Confidence 9999999999999998751 124678899999999999999987753 2 57999999999999
Q ss_pred CcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 900 TVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 900 ~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
+||||||||||||||||++||+||||||++|++|||||||||||||||||||
T Consensus 353 ~iGDKfssRHGQKGvvs~i~~~eDMPft~~G~~pDiIiNPhg~PSRMTiGql 404 (599)
T TIGR03670 353 ELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQL 404 (599)
T ss_pred cchhhhhhhccCcceEEeEeccCCCCcCCCCCCCCEEECcccccccccHHHH
Confidence 9999999999999999999999999999999999999999999999999996
No 13
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=100.00 E-value=2.8e-105 Score=1010.59 Aligned_cols=740 Identities=21% Similarity=0.293 Sum_probs=532.3
Q ss_pred ccccCCCCCCCccchhhhhhhhHHHHHhHHHHHH------HHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCC
Q psy8410 48 NLTDKNFGKPPDKQNEFLLTLGAPHIASFDFMLD------EGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGP 121 (951)
Q Consensus 48 ~l~~~~fg~~~~~~~~~l~~Lv~~hIdSFN~Fi~------~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~ 121 (951)
+.+|.+||+.++. ..+++|+..|.+||++|++ +||++++++++||+.. +.++.|+|.++++++|.+.
T Consensus 9 ~~~R~~f~k~~~~--~~iPdLleIQ~~SF~~FLq~~~~~~~GL~e~f~~~fPI~d~--~g~~~Lefv~Y~l~~Pk~~--- 81 (2890)
T PRK09603 9 NRLRADFTKTPTD--LEVPNLLLLQRDSYDSFLYSKDGKESGIEKVFKSIFPIQDE--HNRITLEYAGCEFGKSKYT--- 81 (2890)
T ss_pred ceEEeecccCCcc--CCCCCHHHHHHHHHHHHHhCCCcccccHHHHHHhcCCeECC--CCcEEEEEEEEEeCCCCCC---
Confidence 3467899998876 5899999999999999997 7999999999999865 4789999999999999864
Q ss_pred CCcccccCChHHHHhcCCccceeEEEEEEEEe---CCC--------cceEEEEeecccceEecCCcccCCCCCHHHHHHc
Q psy8410 122 VGIHFNKYYPTEARQTRSVYSGPFNVTVAWSW---DGK--------AGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIER 190 (951)
Q Consensus 122 ~~~~~~~l~P~EcRlr~lTYsa~l~v~i~~~~---~~~--------~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~ 190 (951)
|.||++|++||++||+|++.+++ +.+ ++...+|++|+||+|..
T Consensus 82 ---------~~Ec~~rg~TYsapL~v~~rL~~~~~~~~t~~~~~ikeikeq~VylGdiPLMT~----------------- 135 (2890)
T PRK09603 82 ---------VREAMERGITYSIPLKIKVRLILWEKDTKSGEKNGIKDIKEQSIFIREIPLMTE----------------- 135 (2890)
T ss_pred ---------HHHHHhhCCcccccEEEEEEEEEeeccccccccccccceEEeeEEEecCCccCC-----------------
Confidence 89999999999999999999974 221 24566899999999999
Q ss_pred CCCCCCCCCeEEEcCceeEEEEEEeccCCee------------------EEEEeccccccCcccceeEEEEEEecCCCcc
Q psy8410 191 GEHPDEWGGYFIVGGHEKLVRLLINNRRNHP------------------IAIKRNAWKNRGLLFSDLGVYIRSVKRDESA 252 (951)
Q Consensus 191 gE~~~D~GGYFIInG~EKVIr~li~~r~N~~------------------ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s 252 (951)
.|.|||||+||||+.|+..+++.. +...|++|.+....-.+ .+++|.-+..+.+
T Consensus 136 -------~GTFIING~ERVIVsQL~RSPGVyF~~~~~k~~s~k~lysa~IIP~RGsWLefE~D~kd-~l~vrIDrkrKip 207 (2890)
T PRK09603 136 -------RTSFIINGVERVVVNQLHRSPGVIFKEEESSTSLNKLIYTGQIIPDRGSWLYFEYDSKD-VLYARINKRRKVP 207 (2890)
T ss_pred -------CceEEEcCceeEEEeeeccCCeeEEeeccCcCCCCceeEEEEEecCCcceEEEEEcCCC-eEEEEEcCcceec
Confidence 999999999999999998765321 33367777765433333 3566665543211
Q ss_pred eeEE---EEE----------------eecC------------------------cEEEE----eehh--hHH--------
Q psy8410 253 TNNV---LHF----------------VTNG------------------------SARFM----FSHR--KSM-------- 275 (951)
Q Consensus 253 ~~~~---l~y----------------l~~g------------------------~~~~~----~~~~--k~l-------- 275 (951)
.+.. |.| +.++ .+.+. +... +.+
T Consensus 208 it~lLrAlG~s~edIl~~f~~~~~~~i~~~~~~~~~~~~~l~~~~~~di~d~~g~vlv~~g~rit~~~~~~l~~~g~k~l 287 (2890)
T PRK09603 208 VTILFRAMDYQKQDIIKMFYPLVKVRYENDKYLIPFASLDANQRMEFDLKDPQGKIILLAGKKLTSRKIKELKENHLEWV 287 (2890)
T ss_pred HHHHHHHhCCCHHHHHHHhcccceEEEcccceeecccHHHhcCccceeecccCCCEEEecCccccHHHHHHHHhcCCcee
Confidence 1110 100 0110 00000 0000 000
Q ss_pred ----------------------------H-HHHhHHHHHHhCC-------------------------------------
Q psy8410 276 ----------------------------C-LLGMMQSLHEEGI------------------------------------- 289 (951)
Q Consensus 276 ----------------------------~-v~~~L~~~~~~~i------------------------------------- 289 (951)
. -.+.+..+.+.++
T Consensus 288 ~~~~~~l~g~~laedivd~~Evl~~~~~~Itee~le~i~~~gi~~i~vl~~~~~~~~~~i~~t~~~d~~~~~~~~~t~~~ 367 (2890)
T PRK09603 288 EYPMDILLNRHLAEPVMVGKEVLLDMLTQLDKNKLEKIHDLGVQEFVIINDLALGHDASIIHSFSADSESLKLLKQTEKI 367 (2890)
T ss_pred ccchhhhcceeeeeeccCccceeeccCChhcHHHHHHHHHcCCceEEEEeecccccccccccccccccccchhhhhcccc
Confidence 0 0011111111111
Q ss_pred -CCHHHHHHHHHhhhcccc--------------cccccCCcHHHHHHHHhhccccCCCCCch--hhHhHHHHHHHHHHHH
Q psy8410 290 -HTQHDSKVFFGQIFKEKL--------------QYDLRHLNEVEICDYMLTNCILPHLDDYW--DKFLCLSHMTCKLFHV 352 (951)
Q Consensus 290 -~t~e~aL~yIG~~fr~~~--------------~~~~~~~~~~~~~~~iL~~~llpHl~~~~--~K~~~L~~Mi~kLl~~ 352 (951)
.++++|+..|++++|+.. ++.|+.|+..++||..|++.|-.++.... --...+...++.|+.+
T Consensus 368 ~~~~eeAl~~iyr~lrpgep~~~e~A~~l~~~lFFn~~rYdLg~vGR~klN~kL~l~~~~~~~~Lt~~Dil~~i~~li~l 447 (2890)
T PRK09603 368 DDENALAAIRIHKVMKPGDPVTTEVAKQFVKKLFFDPERYDLTMVGRMKMNHKLGLHVPDYITTLTHEDIITTVKYLMKI 447 (2890)
T ss_pred ccchHHHHHHHHhccCCCCCCcHHHHHHHHHHHhcCcccccccccchhhhHhhhCCCCCCcccEecchhHHHHHHHHHHH
Confidence 145889999999987631 11356677778888888888765543211 1123566889999999
Q ss_pred hcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc-----------ccCChhhHHhhhccchHHHHHHHHHhcCCcCC
Q psy8410 353 VQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS-----------AVLKESDIYAAFRASSIESAMTNFLATGNVSA 421 (951)
Q Consensus 353 ~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~-----------~~~~~~~~~~~i~~~~It~~i~~~laTGNw~~ 421 (951)
..|....||+|||+||||+++|+|++.+|+-.|.+.. ..........++++..++..++.||+|+
T Consensus 448 ~~g~~~~DDiDhL~NRRvr~vGELl~~qfr~gl~rler~irerm~~~~~~~~~~~p~~lin~k~i~~~ikeFFgss---- 523 (2890)
T PRK09603 448 KNNQGKIDDRDHLGNRRIRAVGELLANELHSGLVKMQKTIKDKLTTMSGAFDSLMPHDLVNSKMITSTIMEFFMGG---- 523 (2890)
T ss_pred HhCCCCCCcchhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccChhhhhccHHHHHHHHHHhccC----
Confidence 9999999999999999999999999999987444310 1112222344568899999999999753
Q ss_pred CccchhhhhhccceeEEecccchhhhccccccccc---CccccccccCCCccccCCCCceeecccCCCCccccccccccc
Q psy8410 422 GKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHR---GSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTT 498 (951)
Q Consensus 422 ~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~r---g~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~ 498 (951)
-+||.+|++|+|+.|+|.||+.. |+.-.+...+++|++||||||+|||+|||||++|||+++||.
T Consensus 524 ------------qLSQfmDQtNpLseltHKRRlSaLGPGGlsr~ra~fevRdVH~shYGRiCPIETPEG~NiGLI~SLa~ 591 (2890)
T PRK09603 524 ------------QLSQFMDQTNPLSEVTHKRRLSALGEGGLVKDRVGFEARDVHPTHYGRICPIETPEGQNIGLINTLST 591 (2890)
T ss_pred ------------chhhhhcccChhhhhhhcccccccCCCCccccccCCcccccCcccccccCCCCCCCCCcccchhhhhh
Confidence 37789999999999999999963 566667777999999999999999999999999999999999
Q ss_pred eeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEE
Q psy8410 499 NCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEI 578 (951)
Q Consensus 499 ~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei 578 (951)
+|+|... |+.. ..|....||++- +. ...+ ..... .. .-|
T Consensus 592 ~a~in~~----------------Gfie----------tPy~kV~~g~v~----~~-i~yl-sa~eE---~~------~~I 630 (2890)
T PRK09603 592 FTRVNDL----------------GFIE----------APYKKVVDGKVV----GE-TIYL-TAIQE---DS------HII 630 (2890)
T ss_pred heecccC----------------ccee----------cceEEEecCccc----cc-eeee-CHHHh---cC------ceE
Confidence 9999866 4332 124444688742 11 1111 01111 00 111
Q ss_pred EEEcCCCCCCCCCCeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccCcceeeeecccCCccccceeeee
Q psy8410 579 VYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLI 658 (951)
Q Consensus 579 ~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslI 658 (951)
+ +.+ +.+ ...|++....+..+. .+++..++ +...++++++|.+++|++||||
T Consensus 631 A--~a~---------~~~-~~~~~~~~~~v~~R~---------~~e~~~~~-------~~~v~~~dvsp~Q~vSvaasLI 682 (2890)
T PRK09603 631 A--PAS---------TPI-DEEGNILGDLIETRV---------EGEIVLNE-------KSKVTLMDLSSSMLVGVAASLI 682 (2890)
T ss_pred e--ccC---------Ccc-CCCCcccCCeEeEEE---------CCceEEEC-------hHHceEEEeCccceeeehhhcC
Confidence 1 000 001 123444333322221 12232222 2357899999999999999999
Q ss_pred cCCCCCCCccchhhcccccccc----------ccccc-----------------------cc--cccCCc------ceEE
Q psy8410 659 PMPDCNQSPRNMYQCQMGKQTM----------GTPCL-----------------------NW--RYQGVG------KLYR 697 (951)
Q Consensus 659 Pf~~hNqSpRn~yqc~M~KQam----------G~~~~-----------------------n~--~~R~D~------~~y~ 697 (951)
||.+||++.|++|+|+|++||+ ||+.. +. ..|.+. ..|.
T Consensus 683 PFLEhdDAnRALMGSNMQRQAVPLl~~e~piVgTG~E~~va~dSg~~i~a~~~G~V~yvd~~~I~i~~~~~~~~~~~~Y~ 762 (2890)
T PRK09603 683 PFLEHDDANRALMGTNMQRQAVPLLRSDAPIVGTGIEKIIARDSWGAIKANRAGVVEKIDSKNIYILGEGKEEAYIDAYS 762 (2890)
T ss_pred CccccCccccccccccchhhhhhhccccCCeEecCcchhhhccccceeEecCCeEEEEecCcEEEEEecCCCCceeeEEe
Confidence 9999999999999999999999 33321 01 122111 2477
Q ss_pred ec----------CCCceeeeccccc----------ccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeE
Q psy8410 698 LQ----------TPASPFFRPVHYD----------TLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCI 757 (951)
Q Consensus 698 L~----------ypQ~Plv~t~~~~----------~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~ 757 (951)
|. ..|+|+|+.+..- .+..+|+++|+|++||+|+|.|||+|||||||++.+. ..+
T Consensus 763 L~Ky~RSNQ~TcinqrPiV~~Gd~V~kGdilADG~st~~GELALG~NvlVAfmpW~GYNfEDAIlISERlV~-----eD~ 837 (2890)
T PRK09603 763 LQKNLRTNQNTSFNQVPIVKVGDKVEAGQIIADGPSMDRGELALGKNVRVAFMPWNGYNFEDAIVVSERITK-----DDI 837 (2890)
T ss_pred eccccccCCCceeeeccEecCCCEeccCCEEecCcccccCeeccCcccEEEEeeeccccCccccccchhhhc-----Ccc
Confidence 75 4899999988642 4678999999999999999999999999999999884 466
Q ss_pred EEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCC-ChhhhhcCCCCCceeec
Q psy8410 758 FKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-NKALEDKLGPDGLVYVG 836 (951)
Q Consensus 758 yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~~~~~~Ld~DGl~~~G 836 (951)
|+|.+++..+- |. -..|.|+.++....|+ .+...++||++|++++|
T Consensus 838 fTSIHIee~ei------~~---------------------------r~Tk~G~EeITrdIPnvse~~l~~LDe~GII~iG 884 (2890)
T PRK09603 838 FTSTHIYEKEV------DA---------------------------RELKHGVEEFTADIPDVKEEALAHLDESGIVKVG 884 (2890)
T ss_pred ceEEEEeeeEE------EE---------------------------EecCCCCcEEeccCCCCCHHHHhcCCCCCCEeeC
Confidence 77777764320 00 0112344455555675 44567899999999999
Q ss_pred ceecCCCCEEEEecCCCC---------------------eEEEEEeCCCccEEEEEEEEecCCC----------------
Q psy8410 837 AKLNERDPMYSYWKESEN---------------------RYVTCRYSGKEEMCVEVVRMSSGFT---------------- 879 (951)
Q Consensus 837 ~~v~~gd~l~~~~~~~~~---------------------~~~~~~~~~~e~g~vd~v~~~~~~~---------------- 879 (951)
+.|++||+|+||++|... ++.|++++++..|+|.+|++++..+
T Consensus 885 a~V~~GDILVGKvTPkge~~~tPEekLLraIFGeka~~vkDtSLrvp~G~~G~Vidv~~f~r~~~~k~~~~~~~~~~~~~ 964 (2890)
T PRK09603 885 TYVSAGMILVGKTSPKGEIKSTPEERLLRAIFGDKAGHVVNKSLYCPPSLEGTVIDVKVFTKKGYEKDARVLSAYEEEKA 964 (2890)
T ss_pred CEECCCCEEEEeeccCCCCCCChHHHHHHHHhcccccccccCceecCCCCcEEEEEEEEecccccchhHHHHHHHHHHHH
Confidence 999999999999987421 3578999999999999999886320
Q ss_pred --------------------------------------------------------------------------------
Q psy8410 880 -------------------------------------------------------------------------------- 879 (951)
Q Consensus 880 -------------------------------------------------------------------------------- 879 (951)
T Consensus 965 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1044 (2890)
T PRK09603 965 KLDMEHFDRLTMLNREELLRVSSLLSQAILEEPFSHNGKDYKEGDQIPKEEIASINRFTLASLVKKYSKEVQNHYEITKN 1044 (2890)
T ss_pred HHhHhhHHHHHHHHHHHHHhhhhhccccccccccccccccccccccccHHHHhhCCHHHhhhhhccCCHHHHHHHHHHHH
Confidence
Q ss_pred ---------------------CC---CCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcE
Q psy8410 880 ---------------------EG---GSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDI 935 (951)
Q Consensus 880 ---------------------~~---~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDi 935 (951)
.+ +..-.+.|+|++|+.|+|++|||||||||||||||+|||+|||||++||++|||
T Consensus 1045 ~~~~~~~~~~~~~~~k~~~~~~gdeL~~Gv~~~VkV~ia~kR~~qvGDK~AgRHGnKGViS~I~p~EDMPfl~dG~~pDI 1124 (2890)
T PRK09603 1045 NFLEQKKVLGEEHEEKLSILEKDDILPNGVIKKVKLYIATKRKLKVGDKMAGRHGNKGIVSNIVPVADMPYTADGEPVDI 1124 (2890)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCcCCCCcceEEEEEEEEeecccccchhhhccCCCeeEEEEEchhcCCCCCCCCCCcE
Confidence 00 001246799999999999999999999999999999999999999999999999
Q ss_pred EeCCCCCCcccCCCCC
Q psy8410 936 VFNPHGFPSRMTIGFL 951 (951)
Q Consensus 936 I~NPhg~PSRMTiG~l 951 (951)
|+||||||||||||||
T Consensus 1125 IlNPlGvPSRMnIGQi 1140 (2890)
T PRK09603 1125 VLNPLGVPSRMNIGQI 1140 (2890)
T ss_pred EECCCCCCccccHHHH
Confidence 9999999999999995
No 14
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=100.00 E-value=7e-103 Score=985.34 Aligned_cols=741 Identities=18% Similarity=0.271 Sum_probs=534.8
Q ss_pred ccccCCCCCCCccchhhhhhhhHHHHHhHHHHHH-----HHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCC
Q psy8410 48 NLTDKNFGKPPDKQNEFLLTLGAPHIASFDFMLD-----EGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPV 122 (951)
Q Consensus 48 ~l~~~~fg~~~~~~~~~l~~Lv~~hIdSFN~Fi~-----~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~ 122 (951)
.-.|.+||+..+. ...+++|+..|.+||++|++ +||++++++++||+.. +.++.|+|.++++++|.+.
T Consensus 13 ~~~R~~f~~~~~~-~~~~PdL~~iQ~~Sf~~Fl~~~~~~~GL~~~f~~ifPI~d~--~g~~~lefv~y~l~~Pk~~---- 85 (2836)
T PRK14844 13 FVPRVSYSRSIDL-KDSLLDLVKVQKESYDSFTPKNKGNERLEVIFHTIFPINDP--LHRATIEFISCRVDDPKYD---- 85 (2836)
T ss_pred ceeeeecccCCcc-cCCCCCHHHHHHHHHHHHhcCCCccccHHHHHHhcCCeECC--CCCEEEEEEEEEeCCCCCC----
Confidence 4457889983322 14689999999999999997 6999999999999865 4789999999999999864
Q ss_pred CcccccCChHHHHhcCCccceeEEEEEEEEe-C------------C-----------CcceEEEEeecccceEecCCccc
Q psy8410 123 GIHFNKYYPTEARQTRSVYSGPFNVTVAWSW-D------------G-----------KAGGTFTKEVGRVPIMLKSKRCH 178 (951)
Q Consensus 123 ~~~~~~l~P~EcRlr~lTYsa~l~v~i~~~~-~------------~-----------~~~~~~~v~iG~IPIMvkS~~C~ 178 (951)
+.||+.|++||++||+|++.++. + . +++...+|++|+||+|..
T Consensus 86 --------~~Ec~~r~~TYsapl~v~~rL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ikeq~VylGdiPLMT~----- 152 (2836)
T PRK14844 86 --------ESECIKRGITFSAQVIASIRLVIMQDGISLDEYKSIKESGDHSKLATVIKSIEEQEVHFCELPMMTD----- 152 (2836)
T ss_pred --------HHHHHhcCCcceeeEEEEEEEEEeccccccccccccccccccccccccccceeeeeEEEecCCccCC-----
Confidence 89999999999999999999975 1 1 123355799999999999
Q ss_pred CCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCee-------------------EEEEeccccccCccccee
Q psy8410 179 LRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHP-------------------IAIKRNAWKNRGLLFSDL 239 (951)
Q Consensus 179 L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~-------------------ia~~R~~~~~rg~~~t~~ 239 (951)
.|.|||||+||||+.|+..+++.. |...|++|.+....-.+
T Consensus 153 -------------------~GTFIING~ERVIVSQL~RSPGVyF~~~~~kt~~sgk~lysa~IIP~RGsWLefE~D~kd- 212 (2836)
T PRK14844 153 -------------------KGTFIINGVEKVIVSQMHRSPGVFFDSDKGKTYNSGKLIYSARVIPYRGSWLDIEFDVKD- 212 (2836)
T ss_pred -------------------CeEEEEcCcceEEEEcceeCCeEEEEcccCcccCCCceeEEEEEecCCcceEEEEEcCCC-
Confidence 999999999999999998765321 23367888765443333
Q ss_pred EEEEEEecCCCcceeE---EEEE----------------eec-------------------------CcEEEE----eeh
Q psy8410 240 GVYIRSVKRDESATNN---VLHF----------------VTN-------------------------GSARFM----FSH 271 (951)
Q Consensus 240 ~v~ir~v~~d~~s~~~---~l~y----------------l~~-------------------------g~~~~~----~~~ 271 (951)
.+++|.-+..+...+. .|.| +.+ |.+.+- +..
T Consensus 213 ~lyvRIDRkRKiPiT~LLrALGls~edIL~~F~~~~~~~~~d~~~~~~~~~e~l~g~~~~~Di~d~~g~vlvdkgrrit~ 292 (2836)
T PRK14844 213 HLYFRIDRKRKLPISVLLKALGLSNNDILDRFYEKIKYIKHKDGWKVPFVPDKFKGVRLPFDLMDVEGNVLLKANVRITS 292 (2836)
T ss_pred eEEEEecCCeeeeHHHHHHHhCCChHHHHHhhcCceEEEEccCceeeccCHHHHhCCccceeeeccCCCEEEecCccccH
Confidence 3566665543211110 1111 000 000000 000
Q ss_pred --hhHH----------------------H--------------------HH----------------------HhH-HHH
Q psy8410 272 --RKSM----------------------C--------------------LL----------------------GMM-QSL 284 (951)
Q Consensus 272 --~k~l----------------------~--------------------v~----------------------~~L-~~~ 284 (951)
.+.+ . .. ..+ ..+
T Consensus 293 ~~~krlk~~gvkkl~i~~~~l~g~~LaeDIVD~eTGEiL~eagteIT~e~ik~l~~~gi~~i~~l~~d~~~~~~~i~~tL 372 (2836)
T PRK14844 293 RLAKKLYDNELKEYLVPFDSICGLFLAEDLIDSASSTKILSAGESIKLEDIKKLELLSIDEISVLNIDNLSVGPYILNTL 372 (2836)
T ss_pred HHHHHHHHcccCcccCchHhhcCceehhhhcCCCCCeEEEcCCCccCHHHHHHHHHcCCCceeeEeecccccchHHHHHH
Confidence 0000 0 00 001 111
Q ss_pred HHhCCCCHHHHHHHHHhhhcccc--------------cccccCCcHHHHHHHHhhccccCCCCCc--hhhHhHHHHHHHH
Q psy8410 285 HEEGIHTQHDSKVFFGQIFKEKL--------------QYDLRHLNEVEICDYMLTNCILPHLDDY--WDKFLCLSHMTCK 348 (951)
Q Consensus 285 ~~~~i~t~e~aL~yIG~~fr~~~--------------~~~~~~~~~~~~~~~iL~~~llpHl~~~--~~K~~~L~~Mi~k 348 (951)
..+...++++|+..|++++|+.. ++.|+.|+..++||..|++.|-.+.... .--...+..+++.
T Consensus 373 ~~D~~~~~e~Al~eIy~~lRpge~~~~e~a~~l~~~~ff~~~~YdLg~vGR~k~N~kl~~~~~~~~~~l~~~Dii~~i~~ 452 (2836)
T PRK14844 373 FLDENMSYQDALYEIYKVLRPGEVPVLEIVEEFFRNLFFSPEYYDLSNIGRLKLNSYLGLNYDEDLTVLTHEDIIEIVRK 452 (2836)
T ss_pred hhcccccHHHHHHHHHHhcCCCCCCcHHHHHHHHHHHhcCccccccccchhhhhhhhhccCCCCCCcEecHHHHHHHHHH
Confidence 12334578999999999997641 1135666777888888888875543211 1122367799999
Q ss_pred HHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc---------ccCChhhHHhhhccchHHHHHHHHHhcCCc
Q psy8410 349 LFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS---------AVLKESDIYAAFRASSIESAMTNFLATGNV 419 (951)
Q Consensus 349 Ll~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~---------~~~~~~~~~~~i~~~~It~~i~~~laTGNw 419 (951)
|+.+..|....||+|||+||||+++|+||+.+|+-.|.+.. ..........++++..+|.++++||+|
T Consensus 453 Li~l~~g~~~~DDiDhL~NRRvr~vGeLl~~qfr~gl~r~~~~i~e~~~~~~~~~~~p~~lin~~~l~~~i~~ff~s--- 529 (2836)
T PRK14844 453 IVLLRDGQGSVDDIDHLGNRRVRSVGEFIENQFRTGLLKLERAVVDSMSTSSLDKVSPSDFINPKVLTNVLRDFFNS--- 529 (2836)
T ss_pred HHHHhcCCCcccchhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhhcccchhHHHHHHHHhcc---
Confidence 99999999999999999999999999999999997544421 112233455567899999999999975
Q ss_pred CCCccchhhhhhccceeEEecccchhhhccccccccc---CccccccccCCCccccCCCCceeecccCCCCccccccccc
Q psy8410 420 SAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHR---GSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHL 496 (951)
Q Consensus 420 ~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~r---g~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~L 496 (951)
+++||++|++|+|+.|+|.||+.. |+.-.+...+++|++||||||+|||+|||||++|||+++|
T Consensus 530 -------------s~LSQfmDQtNpLseltHkRRlsaLGPGGL~r~~a~fevRdvH~shyGRiCPIETPEG~NiGLI~SL 596 (2836)
T PRK14844 530 -------------SQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGQNIGLINSL 596 (2836)
T ss_pred -------------cchhhhccCcChhhhhhhcceecccCCCCcccccCCCcccccCccccccccCCCCCCCCcccchhhh
Confidence 589999999999999999999975 5666777789999999999999999999999999999999
Q ss_pred cceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCce
Q psy8410 497 TTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSL 576 (951)
Q Consensus 497 a~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ 576 (951)
|.+|+|+.. |+.. ..|....||++- + ....+. .... . ..
T Consensus 597 A~yarIn~~----------------Gfie----------tPy~kV~~g~v~----~-~i~yls-a~~E---~------~~ 635 (2836)
T PRK14844 597 AIYARINKY----------------GFIE----------SPYRKVVNRVVT----D-QIEYLS-AIDE---G------LY 635 (2836)
T ss_pred hhheeccCC----------------ceEe----------CCcEEEEcCcCc----c-cccccC-hHHh---c------Cc
Confidence 999999876 4332 124445788742 1 111111 1000 0 11
Q ss_pred EEEEEcCCCCCCCCCCeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccCcceeeeecccCCccccceee
Q psy8410 577 EIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLAN 656 (951)
Q Consensus 577 ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~As 656 (951)
-|+-. + +.+ ...|++..+.+..+. .+++..+. +.+.++++++|.+++|++||
T Consensus 636 ~Ia~a--~---------~~~-~~~~~~~~~~v~~R~---------~~ef~~~~-------~~~v~~~dvsp~Q~~Svaas 687 (2836)
T PRK14844 636 YIADT--S---------AKL-DENNCFVDDMLYCRY---------AGSFVMVS-------SDQVSYIDVSPKQVISVAAS 687 (2836)
T ss_pred EEEeC--C---------ccC-CCCCcccCCeEEEec---------CCceEEec-------HHHceEEEeCcchhhhhHhh
Confidence 12110 0 111 123444444433322 12222221 23568999999999999999
Q ss_pred eecCCCCCCCccchhhcccccccc----------cccccc-------------------------ccccCCc--------
Q psy8410 657 LIPMPDCNQSPRNMYQCQMGKQTM----------GTPCLN-------------------------WRYQGVG-------- 693 (951)
Q Consensus 657 lIPf~~hNqSpRn~yqc~M~KQam----------G~~~~n-------------------------~~~R~D~-------- 693 (951)
||||.+||++.|++|+|+|++||+ ||+... ...|.+.
T Consensus 688 LIPFLEhdDAnRALMGSNMQRQAVPLl~~e~PiVGTG~E~~vA~DSg~~v~A~~~G~V~yVda~kIvI~~~~~~~~~~~~ 767 (2836)
T PRK14844 688 LIPFLENDDANRALMGSNMQRQAVPLLKPTAPLVATGMESFVASGSGAVVLAKRDGIVDSSDSNSIVIRAFDKERVNYLD 767 (2836)
T ss_pred cCCccccCccccccccccccccccccccCCCCeEecCcchhhhhcccceEEeccCceEEEEcCCEEEEEeCCCccccccc
Confidence 999999999999999999999999 333211 1122221
Q ss_pred -ceEEec----------CCCceeeeccccc----------ccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCc
Q psy8410 694 -KLYRLQ----------TPASPFFRPVHYD----------TLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGF 752 (951)
Q Consensus 694 -~~y~L~----------ypQ~Plv~t~~~~----------~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~ 752 (951)
..|.|. ..|+|+|+.+..- .+..+++++|+|++||+|+|.|||+|||||||++.+...
T Consensus 768 ~~~Y~L~ky~RSNQ~TcinQrPiV~~Gd~V~kGdilADG~st~~GELALG~NvlVAfmpW~GYNfEDAIliSErlv~eD- 846 (2836)
T PRK14844 768 VDIYHLRKFQRSNHNTCINQKPLVCVGDYVKEGDVIADGPAINSGELALGQNLLVAFMSWQGYNFEDSIIISSEVVKKD- 846 (2836)
T ss_pred cceEEeccccccccceeeeecceecCCCEeccCCEeccChhhcccccccccceEEEEeccCCcccccccccchhhccCc-
Confidence 247776 3899999988742 467899999999999999999999999999999998665
Q ss_pred eeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCC-ChhhhhcCCCCC
Q psy8410 753 AHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-NKALEDKLGPDG 831 (951)
Q Consensus 753 ~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~~~~~~Ld~DG 831 (951)
+|+|.+++..+- |. -..|.|+.++....|+ .+...++||++|
T Consensus 847 ----~fTSiHIee~ei------~~---------------------------r~Tk~G~EeITrdIPnv~e~~lr~LDe~G 889 (2836)
T PRK14844 847 ----LFTSIHIEEFEC------VV---------------------------HDTPLGSEKITRAIPGVNEENLYHLDDSG 889 (2836)
T ss_pred ----eeEEEeecceEE------EE---------------------------EeccCCCceecccCCCCChHHHhcCCCCC
Confidence 455555543220 00 0112334445555665 455678999999
Q ss_pred ceeecceecCCCCEEEEecCCCC---------------------eEEEEEeCCCccEEEEEEEEecCCC-----------
Q psy8410 832 LVYVGAKLNERDPMYSYWKESEN---------------------RYVTCRYSGKEEMCVEVVRMSSGFT----------- 879 (951)
Q Consensus 832 l~~~G~~v~~gd~l~~~~~~~~~---------------------~~~~~~~~~~e~g~vd~v~~~~~~~----------- 879 (951)
++++|++|++||||+||++|+.. ++.|++++++..|+|.+|++++..+
T Consensus 890 IV~iGa~V~~GDILVGKvtPk~e~~~tPEekLL~aIFGek~~~vkdtSLrvp~G~~G~Vidv~~f~~~~~~~~~~~~~~~ 969 (2836)
T PRK14844 890 IVKIGTRVGPGYILVGKVTPKPSLSLPPETKLLMTIFGEKSFDCADSSLYTSPDVEGTVIDVQVFTRRGVEENERALLIK 969 (2836)
T ss_pred CeecCCEECCCCEEEEeecCCCCCCCCHHHHHHHHHhCCcccccccCceecCCCCCEEEEEEEEEcccccccchhhhhhh
Confidence 99999999999999999987421 3578999999999999999887420
Q ss_pred --------------------------------------------------------------------------------
Q psy8410 880 -------------------------------------------------------------------------------- 879 (951)
Q Consensus 880 -------------------------------------------------------------------------------- 879 (951)
T Consensus 970 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1049 (2836)
T PRK14844 970 QKEINDFEKERDYIINVTSEYFYDELKKLLINSGSQDREKFDSIEREQWWGIGLKNQSISEQVKSLKKDFDEKVSHAIAQ 1049 (2836)
T ss_pred hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhcccccccHHHHhhccHHhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence
Q ss_pred ---------CC---CCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccC
Q psy8410 880 ---------EG---GSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMT 947 (951)
Q Consensus 880 ---------~~---~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMT 947 (951)
.+ |..-.+.|||.+.+.|.+++|||+|||||||||||.|+|.|||||.+||+++|||+||+|+|||||
T Consensus 1050 ~~~k~~~~~~gdeL~~gv~~~VkVyia~KRkiqvGDKmAGRHGNKGVIS~IlP~eDMPyL~DGtpvDIvLNPLGVPSRMN 1129 (2836)
T PRK14844 1050 FKRKVEKLHEGYDLPQGVSMSVKVFIAVKHSLQPGDKMAGRHGNKGVISRVVPVEDMPYLEDGTPVDIILNPLGVPSRMN 1129 (2836)
T ss_pred HHHHHHhccCCCcCCCCCceEEEEEEEEeecCCccccccccCCCCceEeEEcccCCCCcCCCCCCceEEeCCCCCCcccc
Confidence 00 001145899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCC
Q psy8410 948 IGFL 951 (951)
Q Consensus 948 iG~l 951 (951)
|||+
T Consensus 1130 vGQi 1133 (2836)
T PRK14844 1130 VGQI 1133 (2836)
T ss_pred HHHH
Confidence 9995
No 15
>PRK09606 DNA-directed RNA polymerase subunit B''; Validated
Probab=100.00 E-value=1.3e-96 Score=862.70 Aligned_cols=437 Identities=25% Similarity=0.384 Sum_probs=370.4
Q ss_pred hhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCccce
Q psy8410 64 FLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSG 143 (951)
Q Consensus 64 ~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTYsa 143 (951)
.-++|++|||||||+|+++||++++++.+|+++.. ++.+.|+|+++++++|++.++++ ...+++|+|||+|++||+|
T Consensus 14 ~~~~lv~~qi~SFn~Fi~~gl~~ii~~~~~i~~~~-~~~~~l~~~~~~l~~P~~~~~~~--~~~~l~P~eaR~r~~TYs~ 90 (494)
T PRK09606 14 KEHRLVRHHIDSYNDFVDNGLQKIIDEQGPIETEI-EDGVYVELGKIRVGKPVVKEADG--SEREIYPMEARLRNLTYSA 90 (494)
T ss_pred CCCChHHHHHHHHHHHHHHhHHHHHHhcCCEEEec-CCcEEEEEEEEEECCCcccccCC--ccccCCHHHHHhcCCCccc
Confidence 45789999999999999999999999999999875 45688999999999999887664 4578999999999999999
Q ss_pred eEEEEEEEEeCCCcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCeeEE
Q psy8410 144 PFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPIA 223 (951)
Q Consensus 144 ~l~v~i~~~~~~~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~ia 223 (951)
|++|++.++.++.+....++.+|+|||||||++|||+|++|+||+++||||+|+||||||||+|||||+|+++++|++++
T Consensus 91 ~l~v~i~~~~~~~~~~~~~v~iG~iPiMv~S~~C~L~~~~~~~l~~~~E~~~d~GGyFIING~ErVi~~q~~~~~n~~~~ 170 (494)
T PRK09606 91 PLYLEMSPVEGGEEEEPEEVYIGELPVMVGSKICNLYGLSEEELIEVGEDPLDPGGYFIVNGSERVLMTLEDLAPNKILV 170 (494)
T ss_pred eEEEEEEEEECCCceEEeeEEeccCCeEeccCcccCCCCCHHHHHhcCCCcCCCCCeEEECCCeEEEEEEEeccCCeeEE
Confidence 99999999877655456689999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeehh----------hHH-----------------H
Q psy8410 224 IKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSHR----------KSM-----------------C 276 (951)
Q Consensus 224 ~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~~----------k~l-----------------~ 276 (951)
+.|+.|..+. + ...+++... ..+....++|..+|.+.+.+... |++ .
T Consensus 171 ~~~~~~~~~~--~---~~~i~s~~~-~~~~~~~l~~~~~g~i~~~~~~~~~~iPi~~llkALg~~sd~eI~~~i~~~~~~ 244 (494)
T PRK09606 171 EKDERYGDRI--E---VAKVFSQRR-GYRALVTVERNRDGLLEVSFPSVPGSIPFVILMRALGLETDEEIVEAVSDDPEI 244 (494)
T ss_pred EeccCCCccc--e---EEEEEcccc-cceeeEEEEEecCCeEEEEEcCccccccHHHHHHHcCCCCHHHHHHHhCCcHHH
Confidence 9887665321 1 123333222 13344678888889888877542 222 1
Q ss_pred HHHhHHHHHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCCCCC----chhhHhHHHHHHHHHHHH
Q psy8410 277 LLGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDD----YWDKFLCLSHMTCKLFHV 352 (951)
Q Consensus 277 v~~~L~~~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~~----~~~K~~~L~~Mi~kLl~~ 352 (951)
+..+++.+.+.++.|+++||.|||++|++.. + +.++.+.|+++|++++|||++. ..+|++||++|++||+++
T Consensus 245 ~~~l~~~~~~~~~~t~~~al~~ig~~~~~~~---~-~~~~~~~~~~~l~~~~l~hig~~~~~~~~K~~~L~~m~~kLl~~ 320 (494)
T PRK09606 245 VKFMLENLEEAEVDTQEEALEYIGKRVAPGQ---T-KEYRIKRAEYVIDRYLLPHLGVEPEVRRAKAHYLGRMAEACFEL 320 (494)
T ss_pred HHHHHHHHHhcccCCHHHHHHHHHHhcCCCC---C-cchHHHHHHHHHHHhhhcccCCCcchhhHHHHHHHHHHHHHHHH
Confidence 2224455566678999999999999998642 2 4557789999999999999996 447999999999999999
Q ss_pred hcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc-----------cCChhhHHhhhccchHHHHHHHHHhcCCcCC
Q psy8410 353 VQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA-----------VLKESDIYAAFRASSIESAMTNFLATGNVSA 421 (951)
Q Consensus 353 ~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~-----------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~ 421 (951)
+.|.+.+||+|||+||||+++|+||+.+||+.+.+... ..+..++..+++++.||++|++|||||||.+
T Consensus 321 ~~g~~~~Dd~D~l~nkRv~~~G~Ll~~~fr~~l~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~~It~~l~~~~~TGnw~~ 400 (494)
T PRK09606 321 ALGRREEDDKDHYANKRLKLAGDLMEDLFRVAFNRLARDVKYQLERANMRNRELSIKTAVRSDVLTERLEHAMATGNWVG 400 (494)
T ss_pred hcCCCCCCCcccccCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHhcCchhhhHHHHHHhhcccccC
Confidence 99999999999999999999999999999997766211 1123345667788899999999999999998
Q ss_pred CccchhhhhhccceeEEecccchhhhcccccccccCccccccccCCCccccCCCCceeecccCCCCccccccccccceeE
Q psy8410 422 GKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQ 501 (951)
Q Consensus 422 ~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~ 501 (951)
+ ++||||+|||+||+|+||||||||.| +..+.+.++||+||||||||+||||||||++||||||||++|+
T Consensus 401 ~---------~~glSq~ldr~N~la~lSh~Rrv~s~-~~r~~~~~~vR~lhps~~G~iCPveTPEG~~cGLv~~La~~a~ 470 (494)
T PRK09606 401 G---------RTGVSQLLDRTDYMATLSHLRRVVSP-LSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVKNFAQMVE 470 (494)
T ss_pred C---------CceEEEEccCCCHHHHhhHHHhccCC-ccccCccccccccCcccceecccCcCCCCCcccHHHhhhceEE
Confidence 2 48999999999999999999999953 3334456799999999999999999999999999999999999
Q ss_pred EeeccCccccccHHHHHHHCCCeec
Q psy8410 502 ISEYIPSKVLAQIPSVLVSLGMLPL 526 (951)
Q Consensus 502 Vt~~~~~~~~~~i~~~L~~lG~~~~ 526 (951)
|++..+. +.|.++|.++||+++
T Consensus 471 V~~~~~~---~~i~~~l~~lg~~~~ 492 (494)
T PRK09606 471 ISTGEDE---EEVKEILKELGVEPE 492 (494)
T ss_pred EeCCCCh---HHHHHHHHHCcCeeC
Confidence 9998654 789999999999875
No 16
>PF00562 RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; InterPro: IPR007120 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 (2.7.7.6 from EC) 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 represents the hybrid-binding domain and the wall domain []. The hybrid-binding domain binds the nascent RNA strand/template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion []. This domain is also involved in binding to Rpb1 and Rpb3 []. Many of the bacterial members contain large insertions within this domain, which are known as dispensable region 2 (DRII).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2Y0S_R 3HKZ_B 2PMZ_R 3H0G_B 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B ....
Probab=100.00 E-value=1.8e-75 Score=664.08 Aligned_cols=259 Identities=40% Similarity=0.631 Sum_probs=211.5
Q ss_pred cceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeecc-cccccc---------cccCCC
Q psy8410 652 SNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPV-HYDTLD---------MDNFPM 721 (951)
Q Consensus 652 sv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~-~~~~~~---------~~~~p~ 721 (951)
||+|++|||++|||||||+|||||+|||||+|.+|+..|+|++. .|||+|||+|+ .++..+ ++++|+
T Consensus 1 si~As~ipf~~hn~s~R~~~~~~m~kQa~~~y~~~~~~R~d~~~---~~~q~Plv~~~~~~~~~~ilad~~~~~~~e~~~ 77 (386)
T PF00562_consen 1 SIVASLIPFPEHNQSPRNLYQCNMQKQAIGTYSLNKFNRSDQNT---CYPQKPLVKTGDRVEKGQILADGPSTKFGELPL 77 (386)
T ss_dssp -THGGTSSSGGGC-HHHHHHHHHHGCGBCSEEETTTTTS-TSSE---SS-BEESSBSSSTBTTTTECEE-TTECTTTS-S
T ss_pred CEEeCCCCEEEEEcCCcEEEEeCcCCCcccceeeeeeeccCcce---eccccceEEeeccccccCccccccccccccCcc
Confidence 68999999999999999999999999999999999999999998 89999999999 788888 999999
Q ss_pred CceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeee
Q psy8410 722 GTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLR 801 (951)
Q Consensus 722 G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~ 801 (951)
|+|++||||||+||||||||||||+|++||+|++.+|++ .+++++.. .|.
T Consensus 78 G~N~iVAvmsy~GYN~EDAiIiNkssv~rG~f~s~~~k~-~~~~~~~~--~g~--------------------------- 127 (386)
T PF00562_consen 78 GQNAIVAVMSYTGYNQEDAIIINKSSVDRGLFTSIHYKT-EIEIRDNK--GGP--------------------------- 127 (386)
T ss_dssp SEEEEEEESBSSSTTTSSEEEEECHHHHTTTTEEEEEEE-EEEEEEET--TSE---------------------------
T ss_pred eeeeeEEeeehhcccchhhhhhhhhhhhcCeeeEEEEEE-Eeeeeccc--CCc---------------------------
Confidence 999999999999999999999999999999999999999 76664311 111
Q ss_pred ecccccccccccccCCCC-ChhhhhcCCCCCceeecceecCCCCEEEEec-------------CCC---CeEEEEEeCCC
Q psy8410 802 HMVSDKWQTKDYFGRDPA-NKALEDKLGPDGLVYVGAKLNERDPMYSYWK-------------ESE---NRYVTCRYSGK 864 (951)
Q Consensus 802 h~v~dk~~~~~~~~~~p~-~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~-------------~~~---~~~~~~~~~~~ 864 (951)
..+++...|. ....+++||+||+|++|+.|++||+|+||+. .+. .++.+++++.+
T Consensus 128 --------~e~~~~~~~~~~~~~~~~LD~dGii~~G~~v~~gDiligk~~~~~~~~~~~~~~~~~~~~~~~d~s~~~~~~ 199 (386)
T PF00562_consen 128 --------SEEIFRPIPNVKEYNYSKLDEDGIIKIGSRVEKGDILIGKITSPPRFSPLLKKIFGEKNRNYRDTSIKYKSG 199 (386)
T ss_dssp --------EBBESS--TSSTSTTGGGBCTTSBB-TTCEEETTSEEEEEEESTSC--HHHHHHHHSSSCSEEEEEEES-TT
T ss_pred --------ccccccccccchhhhhhhcccccccccCcEEecceeEEEEEecccccccchhhccccccccccceeeccccc
Confidence 0123333332 2346889999999999999999999999994 111 25788999999
Q ss_pred ccEEEEEEEEecCCCCC--CCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCC
Q psy8410 865 EEMCVEVVRMSSGFTEG--GSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGF 942 (951)
Q Consensus 865 e~g~vd~v~~~~~~~~~--~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~ 942 (951)
|.|+||+|.++.+.... .......++|++|+.|+|+||||||||||||||||+|||+||||||++|++||||||||||
T Consensus 200 e~g~Vd~V~~~~~~~~~~~~~~~~~~iki~ir~~R~p~iGDKfssRHGqKGVvs~i~~~eDMPft~~G~~pDiIiNPhgi 279 (386)
T PF00562_consen 200 ESGRVDKVIIFSNEKKDTSNNEGYKKIKIRIRSTRRPQIGDKFSSRHGQKGVVSKILPQEDMPFTEDGIVPDIIINPHGI 279 (386)
T ss_dssp -EEEEEEEEEECCCSSBEEETTCEEEEEEEEEEEEE--TTEEEEETTSEEEEEEEEE-TTTSEEETTSEB-SEEE-GGGS
T ss_pred EEeEeccccccccccccccccCcceEEEEEecccccchhHHHHhhhhcCceEEeeeeccccCccccCCCcceeeeccccc
Confidence 99999999994421000 0013789999999999999999999999999999999999999999999999999999999
Q ss_pred CcccCCCCC
Q psy8410 943 PSRMTIGFL 951 (951)
Q Consensus 943 PSRMTiG~l 951 (951)
|||||||||
T Consensus 280 PSRMtiGql 288 (386)
T PF00562_consen 280 PSRMTIGQL 288 (386)
T ss_dssp TTTTBTHHH
T ss_pred ccccchHHH
Confidence 999999996
No 17
>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=6.4e-45 Score=381.28 Aligned_cols=148 Identities=33% Similarity=0.618 Sum_probs=127.5
Q ss_pred hhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCccceeEE
Q psy8410 67 TLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSGPFN 146 (951)
Q Consensus 67 ~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTYsa~l~ 146 (951)
+|++|||||||+|+++||++++++.+||++..++..+.+++++++|++|++.+.+. ...++||+|||+|++||+|+++
T Consensus 1 ~Lv~~qi~SFn~Fl~~gl~~i~~~~~~i~~~~~~~~~~l~~~~~~i~~P~~~~~~~--~~~~l~P~ecR~r~~TYs~~l~ 78 (203)
T PF04563_consen 1 GLVKHQIDSFNYFLNNGLKEILKEFPPIEFESSNNRISLKFENIRIGKPTYSESDG--RERPLYPRECRLRGLTYSAPLY 78 (203)
T ss_dssp TTTHHHHHHHHHHHCTSSHHHHSCSSSCEECCCSTTEEEEEEEEEEESESSEHTTS--CEEE--HHHHHHTT-B-EEEEE
T ss_pred CchHHHHHHHHHHHHCCCHHHhccCCceEecCCcceEEEEeeEEEEeeeeeccccc--cccCCCHHHHHhcCCCCCCccc
Confidence 68999999999999999999999999999987667899999999999999987543 6789999999999999999999
Q ss_pred EEEEEEeCCC-cceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEec
Q psy8410 147 VTVAWSWDGK-AGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINN 216 (951)
Q Consensus 147 v~i~~~~~~~-~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~ 216 (951)
|+|+++.++. +....++.+|+|||||+|++|||++++++|++++||||+|+||||||||+|||||+|+++
T Consensus 79 v~i~~~~~~~~~~~~~~v~iG~iPiMv~S~~C~L~~~~~~~l~~~~E~~~d~GGYFIInG~EkVi~~q~~~ 149 (203)
T PF04563_consen 79 VDIELTVNNKKEIKEQEVFIGKIPIMVRSKRCNLNGLSPKELVQLGECPNDPGGYFIINGSEKVIRMQIMR 149 (203)
T ss_dssp EEEEEEESSTTEEEESEEEEEEEE-BTTTTTSGGGT--HHHHHHTTS-TT---SSEEETTEEEEE-EEEEE
T ss_pred eEEEEEeeccceEEeeEEEEeeCCeEeecceeeCCCCCHHHHHHcCCCCcCCCCEEEECCChhheehhhhh
Confidence 9999999887 566778999999999999999999999999999999999999999999999999999887
No 18
>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=99.93 E-value=6.9e-27 Score=201.82 Aligned_cols=67 Identities=39% Similarity=0.762 Sum_probs=60.6
Q ss_pred EEecccchhhhccccccccc-CccccccccCCCccccCCCCceeecccCCCCccccccccccceeEEe
Q psy8410 437 IMAENINRMRYMSHFRAVHR-GSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQIS 503 (951)
Q Consensus 437 qvl~rlN~l~~lSh~Rrv~r-g~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt 503 (951)
|++||+|++++|||+|+|++ |.++.+++.+++|+|||||||||||+|||||++|||+||||++|.|+
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 79999999999999999998 88999999999999999999999999999999999999999999986
No 19
>KOG0215|consensus
Probab=99.82 E-value=1.6e-22 Score=233.21 Aligned_cols=405 Identities=7% Similarity=-0.073 Sum_probs=214.8
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeec---ccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCC
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIY---GKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRS 139 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~---~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~l 139 (951)
....+++++||++++.++..-...+ ||..+.+ +.. .+.=.++-|+ ..+..-- .++-+.|.+|+.+..
T Consensus 108 ~~~~~~~~~~i~p~ecrlrd~tysa-----~i~vdieytrg~~-~~~~~~v~ig--rmpimlr--s~rcvl~~~~e~~~a 177 (1153)
T KOG0215|consen 108 EEGNNVTNDNITPHECRLRDMTYSA-----PIYVDIEYTRGRQ-IIAKRDVIIG--RMPIMLR--SSKCVLRGKDEEELA 177 (1153)
T ss_pred hhccccccccCCchheeehhhhccc-----ceeEEEEEecCcc-eEEecccccc--cchhhhh--ccccccCCccHHHHH
Confidence 3667888899999999987644433 3333221 122 2222233443 3332211 346678888884433
Q ss_pred ccceeEEEEEEEEeCCCcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCC
Q psy8410 140 VYSGPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRN 219 (951)
Q Consensus 140 TYsa~l~v~i~~~~~~~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N 219 (951)
-|. .--.+..-.-+..|.-|||+.+.-|.++.+.++ -...|||+.++++||+.++++++|.+....-++
T Consensus 178 ~~~----------ecpldpggyfiv~G~ekViLiqeqlsknrii~~-~~k~~~~~~svtsst~e~kskt~v~~k~~k~yl 246 (1153)
T KOG0215|consen 178 RLN----------ECPLDPGGYFIVKGTEKVILIQEQLSKNRIIVE-EDKKGNLQASVTSSTHERKSKTYVTTKKGKYYL 246 (1153)
T ss_pred Hhc----------cCCCCCCceeEeccceeEEEehhhhhccCeeec-cccCCccccccccceeeecceEEEEeccceeee
Confidence 221 100112233567899999999999999999988 678999999999999999999999654333222
Q ss_pred eeEEEEeccccccCcccceeEEEEEEe--cCCCcceeEEE---EEeecCcEEEEeehhhHH-HHHHhHHHHH-----HhC
Q psy8410 220 HPIAIKRNAWKNRGLLFSDLGVYIRSV--KRDESATNNVL---HFVTNGSARFMFSHRKSM-CLLGMMQSLH-----EEG 288 (951)
Q Consensus 220 ~~ia~~R~~~~~rg~~~t~~~v~ir~v--~~d~~s~~~~l---~yl~~g~~~~~~~~~k~l-~v~~~L~~~~-----~~~ 288 (951)
... ++.++-+ ..+.+..+ ..|+.....+- .|...-...+-..+..-+ ..+.-|.... ..+
T Consensus 247 k~~-----~~~d~ip----iviv~ka~g~~sd~ei~~~vg~~~~y~~~~~~s~ee~~~~~v~tqqqal~y~~~kvk~~~~ 317 (1153)
T KOG0215|consen 247 KHN-----SFTDDIP----IVIVLKAMGLESDQEIVQLVGGDSKYQDIFAPSLEECVSLGVYTQQQALEYIGSKVKVKRG 317 (1153)
T ss_pred ehh-----hhhccCC----EEEEEeeccccchHHHHHHhhcchHHHHhhccchhhhhhhhhHHHHHHHHHhhheEEeccC
Confidence 111 1111100 01111111 12221111111 011100000000000000 0011111100 011
Q ss_pred --CCCHHHHHHHHHhhhccccc----ccccCCcHH-HHHHHHhhccccCCCCCchh--hHhHHHHHHHHHHHHhcCCccC
Q psy8410 289 --IHTQHDSKVFFGQIFKEKLQ----YDLRHLNEV-EICDYMLTNCILPHLDDYWD--KFLCLSHMTCKLFHVVQGMVQL 359 (951)
Q Consensus 289 --i~t~e~aL~yIG~~fr~~~~----~~~~~~~~~-~~~~~iL~~~llpHl~~~~~--K~~~L~~Mi~kLl~~~~g~~~~ 359 (951)
..-.++|++.+...+.+... +++.+.-.+ -..+.++.-.+-+-.-++.+ +...|-.|.+ |+.+.+++-..
T Consensus 318 t~~~~~~e~~~~l~~~~lahv~v~~~~~r~K~~yi~~m~rr~~~a~l~~~~~ddrd~~gnkrlelagq-llsllfeD~fk 396 (1153)
T KOG0215|consen 318 TTPTKDEEALEVLSTTVLAHVPVPDLNFRMKAIYIGLMVRRVIQAMLNKLAMDDRDYVGNKRLELAGQ-LLSLLFEDLFK 396 (1153)
T ss_pred CCCCchHHHHHHHHhhheeceeccCCCCcceeehHHHHHHHHHHHHhCcccccchhhhccchHHHHHH-HHHHHHHHHHH
Confidence 12346788888776644321 122221111 12233333222222222222 3345666555 56677777777
Q ss_pred CCcccccchhhhhhHHHHHHHHHHHhhccc---ccC---------ChhhHHhhhccchHHHHHHHHHhcCCcCCCccchh
Q psy8410 360 DSEDSIMLQEIMTGGSLYLQLLKKEKSGTS---AVL---------KESDIYAAFRASSIESAMTNFLATGNVSAGKNSTL 427 (951)
Q Consensus 360 Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~---~~~---------~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~ 427 (951)
++.+.+.+++-.+.+++...++.+.++... ..+ +..+..+-++-.-++...--+-.|++|..| .
T Consensus 397 ~~n~e~k~~~dk~l~k~~ra~~fD~~~~~n~~~~~it~~l~ra~stgnw~iKrfrmer~gvt~VlsrlSyisaLg----m 472 (1153)
T KOG0215|consen 397 RFNSELKKNIDKILKKPIRAQEFDALKHLNVRANMITSGLERAISTGNWSIKRFRMERAGVTQVLSRLSYISALG----M 472 (1153)
T ss_pred HHHHHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHHHhhcCchHHHHhhhhhccceeeehhhhhhhhhh----h
Confidence 899999999999999977776666554421 100 112222222222223333334567777773 1
Q ss_pred hhhhccceeEEecccchhhhc-ccccccccCccccccc-cCCCccccCCCCceeecccCCCCccccccccccceeEEeec
Q psy8410 428 QLMQASGFVIMAENINRMRYM-SHFRAVHRGSYFQEMR-SSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEY 505 (951)
Q Consensus 428 ~~~q~sGvsqvl~rlN~l~~l-Sh~Rrv~rg~~f~~~k-~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~ 505 (951)
.-+.++++.++..+..+-|-. |.++.+- .+.+.. ..-++-..+..|+.|||-++|++..|+++|..+...+++..
T Consensus 473 mtri~s~fektrkvsgprSlq~sqwgmlc---p~dtpegeacglvknlalmthittd~ee~pi~~~~~k~gv~di~~v~~ 549 (1153)
T KOG0215|consen 473 MTRINSQFEKTRKVSGPRSLQPSQWGMLC---PSDTPEGEACGLVKNLALMTHITTDSEEKPILKLCYKLGVEDIHVVSG 549 (1153)
T ss_pred heehhhhheeehhccCccccChhhccccc---CCCCCCccccccccchHHHhcccCCCCcchhHHHHHHhcceeeeeecc
Confidence 334678888886665554432 2333332 122222 35688999999999999999999999999999999998866
No 20
>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=99.59 E-value=3.7e-15 Score=126.70 Aligned_cols=63 Identities=35% Similarity=0.536 Sum_probs=55.1
Q ss_pred EEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeecc
Q psy8410 540 VMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAA 612 (951)
Q Consensus 540 V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~ 612 (951)
|||||.|+|++++ +..+++.||.+||+|. |+.++||+++... .+|+||||+||+||||+++++
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 VFLNGVWIGIHSD--PEELVKTLRNLRRSGK-ISKEVSIVYDIRE-------KEIRINTDAGRLCRPLFVVEN 63 (63)
T ss_dssp EEETTEEEEEESS--HHHHHHHHHHHHHTTS-S-TTSEEEEETTT-------TEEEEE-SSCEEEEEEEEESS
T ss_pred CEECCEEEEEEcC--HHHHHHHHHHHhhccC-CcceeEEEEeccC-------CEEEEEccCCcccceeEEecC
Confidence 8999999999984 5999999999999998 9999999998654 359999999999999999864
No 21
>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=99.44 E-value=2.7e-14 Score=147.36 Aligned_cols=141 Identities=24% Similarity=0.292 Sum_probs=90.4
Q ss_pred cCCeeEEEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEee------------hhhHH------HHH
Q psy8410 217 RRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFS------------HRKSM------CLL 278 (951)
Q Consensus 217 r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~------------~~k~l------~v~ 278 (951)
|+|.+++..+..|..+ ++|+..+.++.....+++..+...+.+. +.|++ .+.
T Consensus 1 Rsn~i~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IPi~ilLrALG~~sd~eI~ 70 (190)
T PF04561_consen 1 RSNGIYVEKDKDGNKI----------IRSVRSDIISSRGSWHYLEKDKKIIIFSRPKKKFKIPIVILLRALGIESDKEII 70 (190)
T ss_dssp ESSSEEEEE-SSSSSC----------SSCEEEEECCSSSEEEEEECETTTEEEEETTSSSEEEHHHHHHHTT--STCHHH
T ss_pred CCCEEEEEEccCCCCe----------eEEEEeecCCCcceEEEEecCCcEEEEEEcCcccccceEEeehhhcCcCccccc
Confidence 5788888877776654 2334444444455666766544322222 23444 111
Q ss_pred H---------------hHHHHHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHh---------hccccC-CCC
Q psy8410 279 G---------------MMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYML---------TNCILP-HLD 333 (951)
Q Consensus 279 ~---------------~L~~~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL---------~~~llp-Hl~ 333 (951)
+ ++....+.++.|+++|+.|||++++... .+....+.++.+| .+++|+ ||+
T Consensus 71 ~~i~~~~~~~~~~~~~~~~~~~~~~~~t~~~al~~i~~~~~~~~----~~~~~~~~~~~~l~~~y~l~~i~r~~l~~hl~ 146 (190)
T PF04561_consen 71 ELICYSEEDFEDIEELMLSELEEEEIYTQEQALEYIGKKFRFRQ----GKPPKVEEARNFLQKRYDLGFIGRYKLNKHLG 146 (190)
T ss_dssp HHHCCCSTCHSCSTTTHHHHCCCTSSCSCHHHHHHHHHCCHSSS----SCHCCHCHHHHHHTTCSSTCCCHHHCCHTTTT
T ss_pred ceeecccccccccccccccccccccccccccceeEeccceeeec----ccccchhhhhcccccccccccccccceeeeee
Confidence 1 1233344679999999999999443322 2223445666665 355666 998
Q ss_pred Cchh------hHhHHHHHHHHHHHHhcCCccCCCcccccchhhh
Q psy8410 334 DYWD------KFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIM 371 (951)
Q Consensus 334 ~~~~------K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~ 371 (951)
.... |+.+|++|++||+.++.|.+.+||+|||+||||+
T Consensus 147 ~~~~~~~~~~k~~~l~~m~~~ll~~~~g~~~~Dd~D~l~NkRv~ 190 (190)
T PF04561_consen 147 SDEPNENDRLKAEDLGLMIRKLLKLANGECEPDDRDHLGNKRVR 190 (190)
T ss_dssp SSSSSSSSSCHHHHHHHHHHHHHHHHTTSS-S-STTSCCCEEEE
T ss_pred eeecccccccchhhHHHHHHHHHHHhcCCCCCCCccccCCcCCc
Confidence 6544 9999999999999999999999999999999985
No 22
>PRK07225 DNA-directed RNA polymerase subunit B'; Validated
Probab=99.16 E-value=1.8e-11 Score=146.36 Aligned_cols=141 Identities=27% Similarity=0.433 Sum_probs=105.9
Q ss_pred ccccccccCCCCceEEEEE------EeccCCCCCCcEEEecc-------------------c-cccCceeeeEEEeEEEE
Q psy8410 711 YDTLDMDNFPMGTNAIVAV------ISYTGYDMEDAMILNKS-------------------S-YERGFAHGCIFKSMFIE 764 (951)
Q Consensus 711 ~~~~~~~~~p~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s-~dRG~~~~~~yks~~~~ 764 (951)
.|.+...+ ||..||+. |+|+=-.+-..||||.- + ....+..++.|....++
T Consensus 361 GDKfssRH---GQKGvvs~i~~~eDMPft~~G~~PDiIiNPhg~PSRMTiGql~E~~~gk~~~~~g~~~d~t~F~~~~~~ 437 (605)
T PRK07225 361 GDKFASRH---GQKGVIGLIVPQEDMPFTESGVVPDLIINPHAIPSRMTVGHVLEMIGGKVGSLEGRRVDGTAFSGEDEE 437 (605)
T ss_pred cchhhhcc---cCceeEEeEeccccCCcCCCCCcccEEECcccccccCcHHHHHHHHHHHHHHhcCceEeecCCCCchHH
Confidence 45555554 99999998 67887777889999953 2 23334567777654332
Q ss_pred E------eccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcC
Q psy8410 765 L------ESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKL 827 (951)
Q Consensus 765 ~------~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~L 827 (951)
. +.+++++|+|.||+|.||.++++.||+|++|||||+|||.||+ |+.+.+++||.+++ ++.++
T Consensus 438 ~~~~~L~~~g~~~~G~e~my~G~TG~~~~~~if~G~~yYqrL~HmV~DK~haR~~Gp~~~lTrQP~~GR~r~GG~RfGEM 517 (605)
T PRK07225 438 DLREALEKLGFEHTGKEVMYDGITGEKIEAEIFVGVIYYQKLHHMVANKLHARSRGPVQVLTRQPTEGRAREGGLRFGEM 517 (605)
T ss_pred HHHHHHHHhCcCCCCeEEEEcCCCCCEecccEEEeehheeechhhhcchhhhccCCCCcccccCCccccccCCCeeeeee
Confidence 1 2278999999999999999999999999999999999999998 57778999998765 35578
Q ss_pred CCCCceeecce-------ecCCCCEEEEecCCCC
Q psy8410 828 GPDGLVYVGAK-------LNERDPMYSYWKESEN 854 (951)
Q Consensus 828 d~DGl~~~G~~-------v~~gd~l~~~~~~~~~ 854 (951)
+.|.|++.|+- ....|....++....+
T Consensus 518 Erd~lia~Gas~~L~Erl~~~SD~~~~~vC~~CG 551 (605)
T PRK07225 518 ERDVLIGHGAAMLLKERLLDESDKVEIYVCAKCG 551 (605)
T ss_pred ehhhhhhhhhHHHHHHHHhccCcceeEEeecCcC
Confidence 88888888873 3345555555554443
No 23
>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=99.14 E-value=2e-11 Score=145.68 Aligned_cols=141 Identities=29% Similarity=0.467 Sum_probs=104.1
Q ss_pred ccccccccCCCCceEEEEE------EeccCCCCCCcEEEecc-------------------ccccC-ceeeeEEEeEEEE
Q psy8410 711 YDTLDMDNFPMGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERG-FAHGCIFKSMFIE 764 (951)
Q Consensus 711 ~~~~~~~~~p~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG-~~~~~~yks~~~~ 764 (951)
.|.+...+ ||..||+. |+|+--.+-..||||.- +.-.| +..+++|....++
T Consensus 355 GDKfssRH---GQKGvvs~i~~~eDMPft~~G~~pDiIiNPhg~PSRMTiGqllE~~~gk~~~~~g~~~d~t~F~~~~~~ 431 (599)
T TIGR03670 355 GDKFASRH---GQKGVIGMIVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLEMIAGKVAALEGRRVDGTPFEGEPEE 431 (599)
T ss_pred hhhhhhhc---cCcceEEeEeccCCCCcCCCCCCCCEEECcccccccccHHHHHHHHHHHHHHhcCCEEEeCCCCCccHH
Confidence 45555454 99999998 67887777788999953 32233 3466777643332
Q ss_pred -----E-eccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcC
Q psy8410 765 -----L-ESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKL 827 (951)
Q Consensus 765 -----~-~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~L 827 (951)
+ +.++++||+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ ++.++
T Consensus 432 ~~~~~L~~~g~~~~G~e~ly~G~TG~~~~~~if~G~~yyqrL~HmV~DK~h~Rs~Gp~~~lTrQP~~Gr~r~GG~RfGEM 511 (599)
T TIGR03670 432 ELRKELLKLGFKPDGKEVMYDGITGEKLEAEIFIGVIYYQKLHHMVADKIHARSRGPVQVLTRQPTEGRAREGGLRFGEM 511 (599)
T ss_pred HHHHHHHHcCCCCCCCEEEEcCCCCCCccccEEEEehhheechhhhcchhhhcccCCCcccccCCccccccCCCeeeeee
Confidence 1 1278999999999999999999999999999999999999998 56778999998765 35578
Q ss_pred CCCCceeecce-------ecCCCCEEEEecCCCC
Q psy8410 828 GPDGLVYVGAK-------LNERDPMYSYWKESEN 854 (951)
Q Consensus 828 d~DGl~~~G~~-------v~~gd~l~~~~~~~~~ 854 (951)
+.|.|++.|+. ....|....++....+
T Consensus 512 Erd~lia~Gas~~L~ErL~~~SD~~~~~vC~~CG 545 (599)
T TIGR03670 512 ERDVLIGHGAAMLLKERLLDESDKYVVYVCENCG 545 (599)
T ss_pred ehhhHhhcchHHHHHHHHhccCcceeEEeecccC
Confidence 88888888873 3344555544444433
No 24
>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=99.13 E-value=5.8e-11 Score=99.15 Aligned_cols=57 Identities=51% Similarity=0.952 Sum_probs=52.6
Q ss_pred EEEEeCccHHHHHHHHHHhhhcCC-CCCCceEEEEEcCCCCCCCCCCeEEEEecCccccc
Q psy8410 547 VGYILDQIATSLVPKLRMLKIVGE-KIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLR 605 (951)
Q Consensus 547 iG~~~~~~~~~~~~~lR~~k~~g~-~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~R 605 (951)
|||++++.+..+++.||++|..|. .||.++||+++|.. +. +|||||||||++|||+|
T Consensus 1 iG~~~~~~a~~~~~~LR~~Kv~~~~~vP~~lEI~~VP~~-~~-g~yPGLyLft~~aRm~R 58 (58)
T PF06883_consen 1 IGYVSPEEAEQIADQLRYLKVEGEHGVPPTLEIGYVPPS-KG-GQYPGLYLFTTPARMMR 58 (58)
T ss_pred CceecHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEECC-CC-CCCCeEEEeCCcccccC
Confidence 589998899999999999998883 49999999999987 65 99999999999999998
No 25
>KOG0216|consensus
Probab=99.11 E-value=1.6e-11 Score=143.95 Aligned_cols=124 Identities=39% Similarity=0.604 Sum_probs=92.7
Q ss_pred CceEEEEE------EeccCCCCCCcEEEecc-------------------ccccCc-eeeeEEEeEEEE---------E-
Q psy8410 722 GTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERGF-AHGCIFKSMFIE---------L- 765 (951)
Q Consensus 722 G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG~-~~~~~yks~~~~---------~- 765 (951)
||..|-.- |+||--.|-..||+|.- ..--|. -++++|.-..-+ +
T Consensus 867 GQKGicS~~wP~~dmPFtesGm~PDii~NPH~FPSRMTIgM~iEs~AgK~~alhG~~~Datpf~~~E~~t~~dyfg~~L~ 946 (1111)
T KOG0216|consen 867 GQKGICSQKWPTIDMPFTESGMVPDIIINPHAFPSRMTIGMLIESMAGKAGALHGNAQDATPFIFSEENTAIDYFGEMLK 946 (1111)
T ss_pred cccccccccCCCCCCCccccCcCcceeeCCCCCcccccHHHHHHHHhchhhccccccccCCceeecCcccHHHHHHHHHH
Confidence 77776554 78888888999999953 222222 245666322111 1
Q ss_pred eccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCcee
Q psy8410 766 ESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVY 834 (951)
Q Consensus 766 ~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~ 834 (951)
+.|+|+||+|+||+|.+|..+++.||+|+||||||||||+||| |+.+.+++||.+++ .+..++.|.|+.
T Consensus 947 ~~GyNyyGnE~~YSGv~G~e~~adIf~GvVyYQRLrHMv~DKfQVRstG~v~~~T~QPvkGRkr~GGiRfGEMERDali~ 1026 (1111)
T KOG0216|consen 947 KAGYNYYGNEPMYSGVDGREMRADIFFGVVYYQRLRHMVSDKFQVRSTGPVDSLTHQPVKGRKRGGGIRFGEMERDALIA 1026 (1111)
T ss_pred HcCcCccCCcccccccccceeeeeEEEeehhHHHHHHHhcceeeeeeccCccccccCCccCcccCCCccccchhhhhHhh
Confidence 2389999999999999999999999999999999999999999 45667888998765 456789999999
Q ss_pred ecceecCCCCE
Q psy8410 835 VGAKLNERDPM 845 (951)
Q Consensus 835 ~G~~v~~gd~l 845 (951)
.|+-.-=.|-|
T Consensus 1027 HGtsfllqDRL 1037 (1111)
T KOG0216|consen 1027 HGTSFLLQDRL 1037 (1111)
T ss_pred cchHhhhhhhh
Confidence 99854434443
No 26
>PRK08565 DNA-directed RNA polymerase subunit B; Provisional
Probab=99.01 E-value=1e-10 Score=149.37 Aligned_cols=133 Identities=32% Similarity=0.464 Sum_probs=101.0
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEec-------------------cccccC-ceeeeEEEeEEEE-----E-ecc
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNK-------------------SSYERG-FAHGCIFKSMFIE-----L-ESG 768 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNk-------------------ss~dRG-~~~~~~yks~~~~-----~-~~~ 768 (951)
.||..||+. |+|+--.+-..||||. ++.-.| +..++.|.....+ + +.+
T Consensus 866 hGqKGv~s~i~~~edmPf~~~G~~pDiI~NPh~~PSRMtiG~l~E~~~gk~~~~~g~~~d~t~F~~~~~~~~~~~L~~~g 945 (1103)
T PRK08565 866 HGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLESIAGKVAALEGRFVDATPFYGEPEEELRKELLKLG 945 (1103)
T ss_pred ccCcceeeeecccccCCcCCCCCCccEEECCCCCcccccHHHHHHHHHHHHHHhcCceeeecCcCCchHHHHHHHHHHcC
Confidence 499999998 6787666777899994 333344 3456777653332 1 237
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
+++||+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ ++.+++.|.|++.|+
T Consensus 946 ~~~~G~e~l~~G~tG~~~~~~if~G~~yy~rL~HmV~DK~~~R~~Gp~~~lt~QP~~Gr~~~GG~R~GEME~d~l~a~Ga 1025 (1103)
T PRK08565 946 YKPDGTEVMYDGRTGEKIKAPIFIGVVYYQKLHHMVADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGHGA 1025 (1103)
T ss_pred CCCCCcEEEEcCCCCCCcccceEEeehhheechhhhchhhhhccCCCcchhhhCCccccccCCCeeeecchHHHHHhccc
Confidence 8999999999999999999999999999999999999998 57778889998765 356788888888888
Q ss_pred e-------ecCCCCEEEEecCCC
Q psy8410 838 K-------LNERDPMYSYWKESE 853 (951)
Q Consensus 838 ~-------v~~gd~l~~~~~~~~ 853 (951)
. ....|....++....
T Consensus 1026 s~~L~erL~~~SD~~~~~vC~~C 1048 (1103)
T PRK08565 1026 AMLLKERLLDSSDKTTIYVCELC 1048 (1103)
T ss_pred HHHHHHHhhccccceeeeeeccc
Confidence 4 345555554444433
No 27
>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=98.94 E-value=4.1e-10 Score=141.11 Aligned_cols=117 Identities=33% Similarity=0.558 Sum_probs=92.9
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEecc-------------------ccccC-ceeeeEEEeEEEE-E-----ecc
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERG-FAHGCIFKSMFIE-L-----ESG 768 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG-~~~~~~yks~~~~-~-----~~~ 768 (951)
.||..||+. |+|+--.+-..||||.- +.-.| +.+++.|.....+ + +.+
T Consensus 640 hGqKGv~s~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~t~f~~~~~~~~~~~l~~~g 719 (866)
T cd00653 640 HGQKGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLESLLGKAGALLGKFGDATPFDGAEEEDISELLGEAG 719 (866)
T ss_pred cCCCcEEEEEeccccCCcccCCCCCcEEecCCcCcccccHHHHHHHHHHHHHHhcCCcccccccCcchHHHHHHHHHHcC
Confidence 499999998 68887778899999964 22223 3567777543222 1 226
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
++++|+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ +..+++.|.|++.|+
T Consensus 720 ~~~~G~e~~y~g~tG~~~~~~if~G~~yyqrL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~lia~Ga 799 (866)
T cd00653 720 LNYYGKEVLYDGRTGEPLEAPIFVGPVYYQRLKHMVDDKIHARSTGPYSLLTRQPLKGRSRGGGQRFGEMERDALIAHGA 799 (866)
T ss_pred CCCCCcEEEEcCCCCCCcccceEEeehhhhhhhhhhchhhhhcccCCcchhccCcCccccccCCeEEEEEehhhhhhhhh
Confidence 7899999999999999999999999999999999999998 56778899998765 345788888888887
No 28
>PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed
Probab=98.88 E-value=6e-10 Score=141.65 Aligned_cols=117 Identities=21% Similarity=0.292 Sum_probs=91.9
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEecc-------------------ccccCceeeeE-EEeEEEE-E-----ecc
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERGFAHGCI-FKSMFIE-L-----ESG 768 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG~~~~~~-yks~~~~-~-----~~~ 768 (951)
.||..||+. |+|+--.+-..||||.- +.-.|.+.++. |.....+ + +.+
T Consensus 890 HGqKGvis~i~~~eDMPf~~~G~~pDiIiNPhg~PSRMtiGql~E~~~gk~~~~~g~~~~tp~f~~~~~~~~~~~l~~~g 969 (1112)
T PRK00405 890 HGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAAKGLGIKFATPVFDGAKEEEIKELLEEAG 969 (1112)
T ss_pred cCCceeEEeEeccCCCCcCCCCCCCcEEECCCCCcccccHHHHHHHHhhHHHHhcCCeEecCccCCccHHHHHHHHHHcC
Confidence 499999998 67887777889999953 44455555554 4432211 1 227
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
++++|+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ ++..++.|+|++.|+
T Consensus 970 ~~~~G~e~l~~G~tG~~~~~~if~G~~yy~rL~HmV~DK~haRs~Gp~~~lT~QP~~Grsr~GG~R~GEME~d~l~a~Ga 1049 (1112)
T PRK00405 970 LPEDGKTTLYDGRTGEPFDRPVTVGYMYMLKLHHLVDDKIHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGA 1049 (1112)
T ss_pred cCCCCCEEEECCCCCCCCcccEEEEehhheechhhhcchhhhcccCCccceeeCCCcccccCCCeeeeeeehhhHhhhhh
Confidence 8899999999999999999999999999999999999998 56778899998765 356788888888887
No 29
>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=98.80 E-value=1.5e-09 Score=137.32 Aligned_cols=117 Identities=20% Similarity=0.279 Sum_probs=90.8
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEecc-------------------cc-c--cCceeeeE-EEeEEEE-----E-
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SY-E--RGFAHGCI-FKSMFIE-----L- 765 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~-d--RG~~~~~~-yks~~~~-----~- 765 (951)
.||..||+. |+|+=-.+-..||||.- +. . .|+..++. |.....+ +
T Consensus 847 HGqKGvis~i~~~eDMPf~~~G~~pDiIiNPhg~PSRMtiGqllE~~~gka~~~~~~~~~~~~tp~f~~~~~~~~~~~l~ 926 (1065)
T TIGR02013 847 HGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAGKRLGRKGVPIATPVFDGASEEEIKEYLE 926 (1065)
T ss_pred ccCceeEEeEecCCCCCccCCCCCccEEECCCCCcccccHHHHHHHHHHHHHHhccCCCeEEeccCcCCccHHHHHHHHH
Confidence 499999998 67887777789999953 22 2 35555555 4432211 1
Q ss_pred eccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCcee
Q psy8410 766 ESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVY 834 (951)
Q Consensus 766 ~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~ 834 (951)
+.+++++|+|.||+|.||.++++.||+|++|||||+|||.||+ |+.+.+++||.+++ .+.+++.|+|++
T Consensus 927 ~~g~~~~G~e~l~~G~TG~~~~~~ifvG~~yy~rL~HmV~DK~haRs~Gp~~~lT~QP~~Grsr~GG~R~GEME~d~l~a 1006 (1065)
T TIGR02013 927 KAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEA 1006 (1065)
T ss_pred HcCCCCCCCEEEEcCCCCCCccccEEEeehheeechhhhcchhhhcccCCccceeeCCCcccccCCCeeeeeeeHHHHHh
Confidence 2278899999999999999999999999999999999999998 56778899998765 345777888888
Q ss_pred ecc
Q psy8410 835 VGA 837 (951)
Q Consensus 835 ~G~ 837 (951)
.|+
T Consensus 1007 ~Ga 1009 (1065)
T TIGR02013 1007 YGA 1009 (1065)
T ss_pred hhh
Confidence 877
No 30
>KOG0214|consensus
Probab=98.76 E-value=1.4e-09 Score=129.04 Aligned_cols=118 Identities=30% Similarity=0.483 Sum_probs=87.5
Q ss_pred CCCceEEEEE------EeccCCCCCCcEEEecccc--------------------ccCceeeeEEEeEEEEE------ec
Q psy8410 720 PMGTNAIVAV------ISYTGYDMEDAMILNKSSY--------------------ERGFAHGCIFKSMFIEL------ES 767 (951)
Q Consensus 720 p~G~NaiVAv------~sytGYn~EDAiIiNkss~--------------------dRG~~~~~~yks~~~~~------~~ 767 (951)
+.||..++++ |+||-=..-..||+|..++ ..-.+|+++|....++. .-
T Consensus 905 rHgqKG~ig~~~~qedmpft~eGi~pDiiiNPhaiPSRmtig~liEc~lgk~~a~~~e~~~atpFs~v~v~~is~~l~~~ 984 (1141)
T KOG0214|consen 905 RHGQKGTIGITYRQEDMPFTIEGIVPDIIINPHAIPSRMTIGQLIECLLGKVAAYEGEEGDATPFSDVTVSKISANLHVY 984 (1141)
T ss_pred ccccCccccceeecCCCCccccCCCcceEECcccCccccchhhhHHHhhhhhhhcccccccCCCCCccchhcccchHHHh
Confidence 4599999998 4555555555799996422 22335788887744432 11
Q ss_pred cccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChhh------hhcCCCCCceeec
Q psy8410 768 GYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKAL------EDKLGPDGLVYVG 836 (951)
Q Consensus 768 ~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~~------~~~Ld~DGl~~~G 836 (951)
+++++|+|+||+|++|.++.+.||+||+|||||+||++||+ |+.++++++|.+++. +..++.|++++.|
T Consensus 985 g~~~~G~e~~ynGrtG~~~~~~if~GptyyqrL~Hmvd~kih~R~~Gp~q~ltRQP~~gRsr~GGlRfGEMErdc~iahG 1064 (1141)
T KOG0214|consen 985 GYQYRGNERMYNGRTGRKLRAQIFIGPTYYQRLKHMVDDKIHSRARGPVQILTRQPVEGRSRDGGLRFGEMERDCLIAHG 1064 (1141)
T ss_pred ccccCCCEEEecCCCCceeeeeeecCchHHHHHHHhhhheeeecccCCceeeeccccccccccCCeeeehhHHHHHHHhh
Confidence 67889999999999999999999999999999999999998 567789999987653 2344445555544
Q ss_pred c
Q psy8410 837 A 837 (951)
Q Consensus 837 ~ 837 (951)
+
T Consensus 1065 a 1065 (1141)
T KOG0214|consen 1065 A 1065 (1141)
T ss_pred H
Confidence 4
No 31
>CHL00207 rpoB RNA polymerase beta subunit; Provisional
Probab=98.71 E-value=5.6e-09 Score=131.22 Aligned_cols=117 Identities=18% Similarity=0.180 Sum_probs=91.1
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEecc-------------------cc-ccCceeeeEEEeEEEEE------e--
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SY-ERGFAHGCIFKSMFIEL------E-- 766 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~-dRG~~~~~~yks~~~~~------~-- 766 (951)
.||..||+. |+|+--..--.||||.- +. ..|.+.+++|.....+. .
T Consensus 820 HGqKGVvs~i~p~eDMPf~~dG~~pDiIlNPhg~PSRMtiGqllE~~lGka~~~l~~~~~~tpF~~~~~~~~~~~l~~~~ 899 (1077)
T CHL00207 820 HGNKGIISRILPRQDMPYLPDGTPPDIILNPLGVPSRMNVGQLFECLLGLAGDNLNKRFKILPFDEMYGSEYSRILINNK 899 (1077)
T ss_pred cCCceeEEeeeccCCCCccCCCCCccEEECCccccccccHHHHHHHHHHHHHHhcCCcEeeccCCCCcHHHHHHHHHhhh
Confidence 499999998 67877777778999942 32 35555666665422210 0
Q ss_pred -------c------cccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------
Q psy8410 767 -------S------GYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------ 822 (951)
Q Consensus 767 -------~------~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------ 822 (951)
. +++++|+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++
T Consensus 900 l~~~~~~~~~~~~~~~~~~Gk~~lydG~TGe~~~~~i~vG~~Yy~kL~HmV~DKihaRs~Gp~s~lTqQP~~Grsr~GG~ 979 (1077)
T CHL00207 900 LNQASIKNNEYWLFNSYHPGKMVLRDGRTGYKFKNPVTVGIAYMLKLIHLVDDKIHARTTGPYSLVTQQPLGGKAQHGGQ 979 (1077)
T ss_pred hhhccchhccccccCCCCCCCEEEECCCCCCCccCceEEEecceeEchhhccccceeeccCCCcccccCCCCccccCCCe
Confidence 0 14568999999999999999999999999999999999998 57788899998764
Q ss_pred hhhcCCCCCceeecc
Q psy8410 823 LEDKLGPDGLVYVGA 837 (951)
Q Consensus 823 ~~~~Ld~DGl~~~G~ 837 (951)
++..++.|.|.+.|+
T Consensus 980 RfGEME~~aL~a~GA 994 (1077)
T CHL00207 980 RFGEMEVWALEAFGA 994 (1077)
T ss_pred eeecccHHHHHhhhh
Confidence 356788899998888
No 32
>PF00562 RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; InterPro: IPR007120 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 (2.7.7.6 from EC) 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 represents the hybrid-binding domain and the wall domain []. The hybrid-binding domain binds the nascent RNA strand/template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion []. This domain is also involved in binding to Rpb1 and Rpb3 []. Many of the bacterial members contain large insertions within this domain, which are known as dispensable region 2 (DRII).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2Y0S_R 3HKZ_B 2PMZ_R 3H0G_B 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B ....
Probab=98.69 E-value=7.1e-09 Score=119.18 Aligned_cols=109 Identities=32% Similarity=0.533 Sum_probs=77.7
Q ss_pred ccccccccCCCCceEEEEE------EeccCCCCCCcEEEecc-------------------ccccCc-eeeeEEEeEEEE
Q psy8410 711 YDTLDMDNFPMGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERGF-AHGCIFKSMFIE 764 (951)
Q Consensus 711 ~~~~~~~~~p~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG~-~~~~~yks~~~~ 764 (951)
.|.+...+ ||..||+. |+|+=-.+-..||||.- +.-.|- .+++.|.....+
T Consensus 239 GDKfssRH---GqKGVvs~i~~~eDMPft~~G~~pDiIiNPhgiPSRMtiGqllE~~~g~~~~~~g~~~~~t~F~~~~~~ 315 (386)
T PF00562_consen 239 GDKFSSRH---GQKGVVSKILPQEDMPFTEDGIVPDIIINPHGIPSRMTIGQLLESLLGKAGALNGRFVDATPFDESSEE 315 (386)
T ss_dssp TEEEEETT---SEEEEEEEEE-TTTSEEETTSEB-SEEE-GGGSTTTTBTHHHHHHHHHHHHHHSTCEEB-TTTSSS-HH
T ss_pred HHHHhhhh---cCceEEeeeeccccCccccCCCcceeeecccccccccchHHHHhhhhhhhhhccccceecCCCCCcchh
Confidence 45554444 99999999 57776556668999954 333333 445556543221
Q ss_pred -----E-eccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh
Q psy8410 765 -----L-ESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA 822 (951)
Q Consensus 765 -----~-~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~ 822 (951)
+ +.+++++|+|.+|+|.||..+++.||+|++|||||+|||+||+ |+.+.+++||.+++
T Consensus 316 ~i~~~l~~~g~~~~g~~~l~~g~tG~~~~~~i~~G~~yy~rL~Hmv~DK~h~Rs~Gp~~~lT~QP~~Gr 384 (386)
T PF00562_consen 316 DISELLKKAGYNYPGKEVLYDGRTGEKFEAPIFIGPVYYQRLKHMVDDKIHARSRGPYSLLTRQPVEGR 384 (386)
T ss_dssp HHHHHHHHTTSHTTSEEEEBESSSSSBESSEEEEEEEEEEEBSTCGGGSTEEESS--BBSSSSSB-SSS
T ss_pred hhHhhhhcccccccceEEEEcCccCceEEeEEEeeeEEeccceEeCCcEEEEEecCCCccccCCCCCCC
Confidence 1 1267889999999999999999999999999999999999998 57778889998764
No 33
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=98.65 E-value=4.6e-09 Score=129.93 Aligned_cols=117 Identities=28% Similarity=0.413 Sum_probs=94.6
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEecc-------------------ccccCc-eeeeEEEeEEEEE------ecc
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERGF-AHGCIFKSMFIEL------ESG 768 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG~-~~~~~yks~~~~~------~~~ 768 (951)
.||..||+. |+|+-=..--.||||.- +.--|. +.+++|.....+. +.+
T Consensus 839 HG~KGVis~i~p~eDMPf~~~G~~~DiilNP~gvPSRM~iGqilE~~lG~a~~~~G~~~~~~~F~g~~~~~~~~~l~~~g 918 (1060)
T COG0085 839 HGNKGVVSKIVPQEDMPFLEDGTPPDIILNPLGVPSRMNIGQILETHLGKAAALLGIPVDTPVFDGAPEEDIRELLKEAG 918 (1060)
T ss_pred CCCCceeeeecCcccCCcCCCCCcccEEECCCCCCccccHHHHHHHHHHHHHHhcCceeccCCcCCCCHHHHHHHHHHcC
Confidence 399999987 78887777789999953 333344 4667776644331 227
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
++..|+|.||+|.||+++++.||+|++|||||+|||.||+ ||-+++++||.+++ .+..++.|.|++.|+
T Consensus 919 ~~~~Gk~~lydG~TGe~~~~~i~vG~~Y~~kL~HmV~dK~HaRs~GP~s~lT~QP~~Gka~~GG~RfGEME~~aL~ayGA 998 (1060)
T COG0085 919 FPYSGKEVLYDGRTGEPFDAPIFVGVMYYQKLHHMVDDKIHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGA 998 (1060)
T ss_pred CCCCCCEEeecCCCCCcccccEEEEehHHHhHHhhhcccceeeccCCceeeecCCCCcccccCCccccchHHHHHHHHhH
Confidence 8889999999999999999999999999999999999999 57789999998654 467888899999888
No 34
>CHL00001 rpoB RNA polymerase beta subunit
Probab=98.62 E-value=1.6e-08 Score=127.64 Aligned_cols=117 Identities=17% Similarity=0.205 Sum_probs=88.4
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEecc-------------------ccccCc-eeeeEEEeEEEE-Ee-------
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERGF-AHGCIFKSMFIE-LE------- 766 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG~-~~~~~yks~~~~-~~------- 766 (951)
.||..||+. |+|+--.+--.||||.- +.-.|- +++++|.....+ ..
T Consensus 824 HGqKGvvs~i~~~eDMPf~~dG~~pDiIlNP~gvPSRMtiGqllE~~~G~a~~~~g~~~~~~pf~~~~~~~~~~~~~~~~ 903 (1070)
T CHL00001 824 HGNKGIISKILPRQDMPYLQDGTPVDMVLNPLGVPSRMNVGQIFECLLGLAGDLLNRHYRIAPFDERYEQEASRKLVFSE 903 (1070)
T ss_pred cCCcceEeeeecccCCCcccCCCCCceeeccccccccccHHHHHHHHhHHHHhhcCceeeeccCCCcchhhhhhhhhhHH
Confidence 499999998 67877777778999953 333342 455666532221 00
Q ss_pred --c-cc---cCc-------ceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------
Q psy8410 767 --S-GY---NYY-------GTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------ 822 (951)
Q Consensus 767 --~-~~---~~~-------g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------ 822 (951)
+ +. +.| |+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++
T Consensus 904 l~~~~~~~~~~~~~~~~~~Gk~~l~dG~TG~~~~~~i~vG~~Yy~kL~HmV~DKihaRs~Gp~~~lT~QP~~Grsr~GG~ 983 (1070)
T CHL00001 904 LYEASKQTANPWVFEPEYPGKSRLFDGRTGDPFEQPVTIGKAYILKLIHQVDDKIHARSSGPYALVTQQPLRGRSKQGGQ 983 (1070)
T ss_pred HHHHHHhcCCceeccCCCCCeEEEEcCCCCCCccceEEEEecceeEchhhccccceeeccCCCcccccCCCCcccCCCCe
Confidence 0 11 333 999999999999999999999999999999999998 57778899998765
Q ss_pred hhhcCCCCCceeecc
Q psy8410 823 LEDKLGPDGLVYVGA 837 (951)
Q Consensus 823 ~~~~Ld~DGl~~~G~ 837 (951)
++..++.|.|.+.|+
T Consensus 984 RfGEME~~al~a~GA 998 (1070)
T CHL00001 984 RVGEMEVWALEGFGV 998 (1070)
T ss_pred eeecchHHHHHhhhH
Confidence 356788888888888
No 35
>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=98.61 E-value=1.1e-08 Score=82.69 Aligned_cols=38 Identities=24% Similarity=0.274 Sum_probs=29.9
Q ss_pred eccccccccCCccceeeeeeecccccC------cceeeeecccC
Q psy8410 610 LAAGNIEWIGTFEQVFMDICITMKEAY------PGITTHRELSK 647 (951)
Q Consensus 610 l~~g~iE~I~~~Eq~~~~Ia~~~~~~~------~~~~th~Ei~p 647 (951)
|+.|.|||||++||++++||++++++. ...||||||||
T Consensus 5 l~~G~vE~id~eEEe~~~Iam~~~dl~~~~~~~~~~~TH~EI~P 48 (48)
T PF04567_consen 5 LKEGVVEYIDAEEEETCMIAMSPEDLESTNEDITHTYTHCEIHP 48 (48)
T ss_dssp HHTTSEEEEETTTCTT--EESSCCCCCHSGGCCSST-SEEES-G
T ss_pred hhCCCEEEecchhccccEEEEecccccccCCCCCCccEEEeEeC
Confidence 578999999999999999999987775 34699999998
No 36
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=97.93 E-value=3.4e-06 Score=112.04 Aligned_cols=70 Identities=20% Similarity=0.275 Sum_probs=62.3
Q ss_pred cccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeec
Q psy8410 768 GYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVG 836 (951)
Q Consensus 768 ~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G 836 (951)
+++++|+|.+|+|.||+++++.||+|++||+||+|||.||+ |+.+..+.||.+++ .+..++.|.|.+.|
T Consensus 1235 G~~~~Gk~~LyDGrTGe~f~~~V~vG~~YylKL~HmVdDKiHaRstGPyslvTqQPl~GKs~~GGqRfGEMEvwALeAyG 1314 (2890)
T PRK09603 1235 KIAMDGKMDLYDGRTGEKMRERVNVGYMYMIKLHHLVDEKVHARSTGPYSLVTHQPVGGKALFGGQRFGEMEVWALEAYG 1314 (2890)
T ss_pred CCCCCCCEEEEcCCCCCCccceEEEEeeceeechhhccchhhhccCCCcchhhhCCCcccccCCCceeeeeeHHHHHHhh
Confidence 56789999999999999999999999999999999999998 56778889997654 46788999999988
Q ss_pred c
Q psy8410 837 A 837 (951)
Q Consensus 837 ~ 837 (951)
+
T Consensus 1315 A 1315 (2890)
T PRK09603 1315 A 1315 (2890)
T ss_pred H
Confidence 8
No 37
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=97.88 E-value=3.2e-06 Score=111.91 Aligned_cols=70 Identities=20% Similarity=0.318 Sum_probs=61.8
Q ss_pred cccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeec
Q psy8410 768 GYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVG 836 (951)
Q Consensus 768 ~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G 836 (951)
+++++|+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ .+..++.|.+.+.|
T Consensus 1293 g~~~~Gk~~l~dG~TGe~f~~~v~vG~~yy~kL~HmV~DKihaRs~Gp~s~lT~QPl~Gr~~~GG~RfGEME~~al~a~G 1372 (2836)
T PRK14844 1293 GLDNSGQAVLYDGCSGEKFDRKVTVGYMYMLKLHHLVDGKIHARSVGPYSLVTQQPLGGKSHFGGQRFGEMECWALQAYG 1372 (2836)
T ss_pred CcCCCCCEEEEcCCCCCccchhheeCcchhhhhhhhhcchhhhcccCCCcccccCCCcccccCCCceeecchHHHHHHHh
Confidence 56789999999999999999999999999999999999998 57778889998654 35678888888888
Q ss_pred c
Q psy8410 837 A 837 (951)
Q Consensus 837 ~ 837 (951)
+
T Consensus 1373 a 1373 (2836)
T PRK14844 1373 A 1373 (2836)
T ss_pred H
Confidence 7
No 38
>PHA03394 lef-8 DNA-directed RNA polymerase subunit beta-like protein; Provisional
Probab=93.88 E-value=0.081 Score=64.50 Aligned_cols=59 Identities=27% Similarity=0.302 Sum_probs=45.6
Q ss_pred eEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCC--CCCCCCCcEEeCCCCCCcccCC
Q psy8410 887 NCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPF--TDSGLVPDIVFNPHGFPSRMTI 948 (951)
Q Consensus 887 ~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPf--t~~G~~PDiI~NPhg~PSRMTi 948 (951)
-.+|+++-..=.=-.|=|.||=||||||+.. .||+-= .|||+.|-|.++|.+|-||.|.
T Consensus 696 v~lKl~~Vtst~dLeGlKICgIHGQKGVln~---seDLtew~aeDg~~aQIclSPiSyLsRQtn 756 (865)
T PHA03394 696 VYLKIRLVTSTSDLEGLKICGIHGQKGVLNG---SEDLTEWMAEDGTHAQICLSPISYLSRQTN 756 (865)
T ss_pred EEEEEEEEEEecCcceeEEeeecccccccCC---cchhhhhhccCCCcceEEechHHhhccccc
Confidence 3455555444445569999999999999764 566542 4789999999999999999984
No 39
>PF14251 DUF4346: Domain of unknown function (DUF4346)
Probab=58.50 E-value=4.9 Score=38.65 Aligned_cols=18 Identities=11% Similarity=0.364 Sum_probs=13.2
Q ss_pred hCCCCHHHHHHHHHhhhc
Q psy8410 287 EGIHTQHDSKVFFGQIFK 304 (951)
Q Consensus 287 ~~i~t~e~aL~yIG~~fr 304 (951)
.+..|+-+--.|||+-+.
T Consensus 87 ~~~vs~ldHA~YLGrEL~ 104 (119)
T PF14251_consen 87 PCLVSRLDHAAYLGRELQ 104 (119)
T ss_pred CCccchhHHHHHHHHHHH
Confidence 366777777789998764
No 40
>PF04941 LEF-8: Late expression factor 8 (LEF-8); InterPro: IPR007025 Late expression factor 8 (LEF-8) is one of the primary components of RNA polymerase produced by polyhedrosis viruses. LEF-8 shows homology to the second largest subunit of prokaryotic DNA-directed RNA polymerase[].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=38.63 E-value=41 Score=41.60 Aligned_cols=30 Identities=20% Similarity=0.196 Sum_probs=22.7
Q ss_pred eEEEEEEeeecCCCcccceeccCCCccEEe
Q psy8410 887 NCAYIGYRIQRNPTVGDKFASRAGQKGICS 916 (951)
Q Consensus 887 ~~~~i~~r~~R~p~iGDKfssRHGQKGv~~ 916 (951)
-.+|+++-..=.=--|=|.||=||||||.-
T Consensus 706 v~vKl~~V~st~dLeGlKICgIHGQKGVln 735 (748)
T PF04941_consen 706 VYVKLTLVTSTSDLEGLKICGIHGQKGVLN 735 (748)
T ss_pred EEEEEEEEEEecCccceEEeeeeccccccc
Confidence 456665555555566999999999999975
Done!