Query psy4067
Match_columns 1384
No_of_seqs 414 out of 2198
Neff 5.4
Searched_HMMs 46136
Date Sat Aug 17 00:28:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4067.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4067hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0214|consensus 100.0 2E-194 4E-199 1713.5 19.7 775 39-1377 223-1051(1141)
2 KOG0215|consensus 100.0 8E-189 2E-193 1644.9 25.6 760 52-1376 259-1065(1153)
3 PRK08565 DNA-directed RNA poly 100.0 1E-168 2E-173 1622.3 45.3 775 32-1377 192-1011(1103)
4 COG0085 RpoB DNA-directed RNA 100.0 1E-161 2E-166 1498.3 35.7 737 52-1377 195-984 (1060)
5 TIGR02013 rpoB DNA-directed RN 100.0 9E-150 2E-154 1430.2 48.2 741 339-1377 70-995 (1065)
6 PRK00405 rpoB DNA-directed RNA 100.0 5E-147 1E-151 1411.2 46.9 446 725-1377 570-1035(1112)
7 CHL00001 rpoB RNA polymerase b 100.0 7E-143 2E-147 1360.4 49.4 722 357-1377 65-984 (1070)
8 cd00653 RNA_pol_B_RPB2 RNA pol 100.0 1E-139 3E-144 1329.4 44.9 648 339-1377 43-785 (866)
9 KOG0216|consensus 100.0 3E-136 7E-141 1206.4 35.3 759 329-1376 51-1014(1111)
10 CHL00207 rpoB RNA polymerase b 100.0 2E-134 4E-139 1277.6 46.9 729 356-1377 59-980 (1077)
11 PRK07225 DNA-directed RNA poly 100.0 2E-131 5E-136 1200.8 35.0 428 689-1377 86-513 (605)
12 TIGR03670 rpoB_arch DNA-direct 100.0 1E-130 3E-135 1192.4 34.0 428 689-1377 80-507 (599)
13 PRK09603 bifunctional DNA-dire 100.0 5E-125 1E-129 1225.0 39.4 629 475-1377 402-1301(2890)
14 PRK14844 bifunctional DNA-dire 100.0 4E-120 1E-124 1175.1 38.6 646 475-1377 411-1359(2836)
15 PF00562 RNA_pol_Rpb2_6: RNA p 100.0 3E-102 7E-107 912.3 20.2 368 909-1372 1-386 (386)
16 TIGR02013 rpoB DNA-directed RN 100.0 1.5E-68 3.2E-73 684.1 22.3 224 40-290 184-459 (1065)
17 CHL00001 rpoB RNA polymerase b 100.0 4.8E-66 1E-70 658.2 22.2 275 32-337 157-490 (1070)
18 KOG0214|consensus 100.0 5.8E-61 1.3E-65 572.9 15.9 745 339-1372 67-1014(1141)
19 PRK08565 DNA-directed RNA poly 100.0 2.1E-57 4.4E-62 588.2 21.3 254 339-592 54-460 (1103)
20 KOG0215|consensus 100.0 6.6E-59 1.4E-63 548.6 5.2 726 115-1342 347-1116(1153)
21 CHL00207 rpoB RNA polymerase b 100.0 5E-57 1.1E-61 572.9 19.7 242 27-297 148-446 (1077)
22 COG0085 RpoB DNA-directed RNA 100.0 7.2E-55 1.6E-59 543.9 5.4 411 689-1320 569-1006(1060)
23 cd00653 RNA_pol_B_RPB2 RNA pol 100.0 3.8E-53 8.3E-58 539.2 15.5 152 138-289 211-381 (866)
24 KOG0216|consensus 100.0 1.3E-50 2.9E-55 480.7 16.9 266 52-338 233-554 (1111)
25 PRK14844 bifunctional DNA-dire 100.0 1.6E-47 3.5E-52 500.0 15.2 147 142-300 448-615 (2836)
26 PRK09603 bifunctional DNA-dire 100.0 2E-45 4.2E-50 482.2 17.5 99 189-299 504-607 (2890)
27 PRK09606 DNA-directed RNA poly 100.0 4.8E-44 1E-48 433.1 10.3 247 38-309 203-492 (494)
28 PF00562 RNA_pol_Rpb2_6: RNA p 100.0 2.7E-45 5.9E-50 431.5 -2.5 280 738-1193 1-299 (386)
29 PRK00405 rpoB DNA-directed RNA 100.0 1.6E-40 3.5E-45 428.6 17.7 235 356-590 81-492 (1112)
30 PRK09606 DNA-directed RNA poly 100.0 7.7E-39 1.7E-43 387.9 17.1 254 339-592 59-463 (494)
31 PRK07225 DNA-directed RNA poly 99.9 7.2E-27 1.6E-31 286.4 5.7 211 1090-1320 318-535 (605)
32 TIGR03670 rpoB_arch DNA-direct 99.9 1.3E-26 2.9E-31 283.9 5.3 210 1090-1320 312-529 (599)
33 PF04565 RNA_pol_Rpb2_3: RNA p 99.9 9.9E-26 2.1E-30 204.4 2.4 66 224-289 1-68 (68)
34 PF04563 RNA_pol_Rpb2_1: RNA p 99.7 5.4E-18 1.2E-22 184.7 3.5 74 339-412 44-118 (203)
35 PF04567 RNA_pol_Rpb2_5: RNA p 98.8 2.6E-09 5.7E-14 91.1 2.6 42 692-733 1-48 (48)
36 PF04561 RNA_pol_Rpb2_2: RNA p 98.7 8.3E-09 1.8E-13 110.1 2.2 128 31-168 30-190 (190)
37 PF04561 RNA_pol_Rpb2_2: RNA p 98.6 4.4E-08 9.5E-13 104.6 5.4 61 451-511 118-190 (190)
38 PF04566 RNA_pol_Rpb2_4: RNA p 96.9 0.00047 1E-08 62.5 2.2 25 325-354 1-25 (63)
39 PHA03394 lef-8 DNA-directed RN 92.8 0.11 2.3E-06 66.3 4.6 142 1188-1337 673-828 (865)
40 PF04565 RNA_pol_Rpb2_3: RNA p 92.3 0.035 7.7E-07 51.2 -0.3 25 564-588 29-55 (68)
41 PHA03394 lef-8 DNA-directed RN 60.3 4.1 8.8E-05 52.8 1.3 47 1129-1178 707-755 (865)
42 PF04941 LEF-8: Late expressio 37.9 32 0.0007 44.5 4.1 38 498-535 209-246 (748)
43 PF04563 RNA_pol_Rpb2_1: RNA p 37.1 22 0.00047 39.6 2.2 24 185-208 180-203 (203)
44 PF08259 Periviscerokin: Periv 35.3 17 0.00037 22.5 0.5 9 754-762 2-10 (11)
45 PF04566 RNA_pol_Rpb2_4: RNA p 29.8 9.1 0.0002 35.2 -1.8 20 658-683 43-62 (63)
No 1
>KOG0214|consensus
Probab=100.00 E-value=1.7e-194 Score=1713.46 Aligned_cols=775 Identities=37% Similarity=0.604 Sum_probs=691.6
Q ss_pred cceeeEeccchhe-----eccccccccchHHHHhhhccccc-----------------cceeccccccccccccccccee
Q psy4067 39 GLQAILFLPLFKQ-----VDFGDSKVVSLRELLSHVTYQKR-----------------LYRLTVQPNWLGTVKAVHGTYL 96 (1384)
Q Consensus 39 ~~~~~~~~~~~~~-----~~~~~~~~~sd~~~~~~i~~~~~-----------------~~~~~~~~~~~~~~~~~~g~~~ 96 (1384)
|+.|+++|||||| ||||||||||||||||||||||+ ||+|++||||||.|+|++|
T Consensus 223 gq~i~~tlpyikqeIPI~ilfrALG~v~dreILehIcYd~~D~em~e~lkpsieeafviq~qn~ALdfig~rga~~G--- 299 (1141)
T KOG0214|consen 223 GQEIIATLPYIKQEIPILILFRALGFVSDREILEHICYDFDDAEMFESLKPSIEEAFVIQEQNVALDFIGQRGACIG--- 299 (1141)
T ss_pred CceEEEEeeeecccCcEEEEehhhcCCccHHHHHhhcCCCCcHHHHHHhhhhhhhhhhhhhhHHHHHHHHhcCCCCC---
Confidence 8999999999999 99999999999999999999984 9999999999999999999
Q ss_pred eeeccccccCCCCHHHHHHHHHHHHHHHhcCccccccCh-------hhHHHHHHHHHHHHHhcCcCC-CCChhhhhhHHh
Q psy4067 97 TMVTDETSKLKDSPEIRDKWKLVLSFLKEKGLVKPHIDS-------FDYFINVEIKKLMQANANIYS-DVDPLFYLKYLD 168 (1384)
Q Consensus 97 ~~~~~e~~~~~~~~~~~~~~~~~~~~~~~kgl~~~hi~~-------~~~f~~~~i~~~~~~~~~~~~-d~~d~f~~k~~d 168 (1384)
+++| +++.+++|+.+|. ++|||+. ++||+|||||+++.+.++++. |++|||++||+|
T Consensus 300 --vtke-kri~yakdiLqKe------------~lPhi~~~e~~etkKA~fLGYmi~rlll~aLgRr~~ddRDHfG~KRLD 364 (1141)
T KOG0214|consen 300 --VTKE-KRIKYAKEILQKE------------LLPHVGLGEICETKKAYFLGYMVHRLLLAALGRRELDDRDHFGNKRLD 364 (1141)
T ss_pred --CCcc-hhhHHHHHHHHHH------------hccccccchhhhhhHHHHHHhhHHHHHHHHcCCCCccchhhccccchh
Confidence 9999 8999999999999 9999876 689999999999999998776 899999999999
Q ss_pred hhhcchh-------------------hhcccccccccccccccchhhHHHHHHHHHHhCCcc-cccccccccceeeeecc
Q psy4067 169 IHVGIAD-------------------KIIPKIKAAQFDIVNHMRQDTITNALTAAIQTGNWT-IRRFKMERQGVTQVLSR 228 (1384)
Q Consensus 169 ~~~~~~~-------------------k~~~~~~~~~~~~~~~~~~~~IT~~l~~alsTGNW~-~~~~~~~r~GvsQvL~R 228 (1384)
+++..+. |+++. +..|||.-++++++||+|++||||||||+ .++.++.|+||||||+|
T Consensus 365 laGpLLa~lfR~lf~~l~rd~~~~mQk~le~--~~dfni~~aika~iIt~gl~yslaTgnwgdq~ka~~~ragVsQVLnR 442 (1141)
T KOG0214|consen 365 LAGPLLAKLFRSLFAKLLRDVTRYMQKCLEN--GVDFNIELAIKAKIITNGLNYALATGNWGDQKKAMQGRAGVSQVLNR 442 (1141)
T ss_pred hchhHHHHHHHHHHHHHHHHHHHHHHHHHhc--CccceEEEEEEeeeecccceeeeccCCccchhHHhhccccHHHHhcc
Confidence 9985433 33332 57899999999999999999999999998 77789999999999999
Q ss_pred cchhhcccccccccccccccccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccccCCChHHHHHHHHHcCcee
Q psy4067 229 LSYISGLGMMTRINSQFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITTENDEKNMLKIMYNIGIEH 308 (1384)
Q Consensus 229 ln~ls~lshlrRv~s~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~~~~~~~i~~~l~~lG~~~ 308 (1384)
+||+|+||||||+|+|+.+++|+++|||||||||||+||+|||||++|||||||||||+||+|++++||+++|++|||++
T Consensus 443 ~t~~sTLsHlRR~n~Pigr~GKlAkpRqlHnthwGmvCPaeTPEGqacGLVKNLSLmayIsvGS~~sPi~EfLeewgmE~ 522 (1141)
T KOG0214|consen 443 LNPLSTLSHLRRTNSPIGRTGKLAKPRQLHNSHWGMVCPAETPEGQACGLVKNLSLMAYISVGSLESPIVEFLEEWGMEN 522 (1141)
T ss_pred ccHHHHHHHHhhcCCccccccccCCccccCcccceeeccccCCCcceeeccccceEEEEEecCCCccHHHHHHHHhchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCcccCCCCeEEEEECCEEEEEeecCcccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCceeeee
Q psy4067 309 IAMFNGEELSSPGVYLVFVNGILAGITCHHKEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVVRS 388 (1384)
Q Consensus 309 ~~~~~~~~~~~~~~~~VflNG~~vG~~~~~i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~~~ 388 (1384)
|+++++..+ +..+|||+||+|+|+|++|..+ .+.++..| ++
T Consensus 523 le~~~ps~~--~datkvfvNG~wvGlhrdp~~l-----~~tlr~lR--------------------------------R~ 563 (1141)
T KOG0214|consen 523 LEEISPSPS--PDATKVFVNGVWVGLHRDPEEL-----VATLKRLR--------------------------------RQ 563 (1141)
T ss_pred HhhcCCCcC--CCceEEEEcccEEEecCCHHHH-----HHHHHHHH--------------------------------Hh
Confidence 999887554 5789999999999999999988 76666666 22
Q ss_pred eeeeccccceeccccccccCCcccccccceeeeeEEEeccccccchhhhHHhhccccccccCCChhhHHHHhhhcccccc
Q psy4067 389 DLVIGRMPIMLQSSKCVLRNKTEYTSSSRRASTSSVTMHSQRTSPLLSCKKLRQKRFQTYKKTPVDDARDFLSSTCIAHI 468 (1384)
Q Consensus 389 ~V~IG~iPIMLrS~~CvL~g~~~~is~~~~~s~t~i~~~~~~~~P~~e~~~~~~~~~~~~~~~~~~ea~e~L~~~~LpHv 468 (1384)
--.+-+.- |+|
T Consensus 564 ~di~~Evs-~vR-------------------------------------------------------------------- 574 (1141)
T KOG0214|consen 564 FDIIAEVS-MVR-------------------------------------------------------------------- 574 (1141)
T ss_pred hccchhhh-hhc--------------------------------------------------------------------
Confidence 11000000 000
Q ss_pred ccccccchhhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhccccceeccccce
Q psy4067 469 PVINMRFKMKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNLSGVVNLVSGWW 548 (1384)
Q Consensus 469 ~v~~~~~~~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~~~i~sl~~g~w 548 (1384)
++
T Consensus 575 --------------------------------------------------------------DI---------------- 576 (1141)
T KOG0214|consen 575 --------------------------------------------------------------DI---------------- 576 (1141)
T ss_pred --------------------------------------------------------------cc----------------
Confidence 00
Q ss_pred eecccCceeEeecCcccccccCCCCCCCcccccCCCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeeccCC
Q psy4067 549 FELKYGNKIYIRSPSRKLLAAGFSGPHSGRVRLMPEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLGGG 628 (1384)
Q Consensus 549 ~~~~~~n~~~i~t~~r~~~a~Gvh~sh~GRicp~pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~~g 628 (1384)
.-+++.|.|| +||+| ||+++++ +.+. .++.+|+
T Consensus 577 ----r~kE~ri~tD-------------aGR~~----rPLlive-----n~~l-------~~~k~hi-------------- 609 (1141)
T KOG0214|consen 577 ----RDKEIRIFTD-------------AGRSL----RPLLIVE-----NAKL-------LIKKRHI-------------- 609 (1141)
T ss_pred ----cccceeeeec-------------cCccc----cceEEEe-----chhh-------hhhhHHH--------------
Confidence 0134888999 99999 9999994 4444 5556666
Q ss_pred CCcccccccccceeeeEeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEeccCC
Q psy4067 629 GILPSIQRQTTCLLTLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDVNE 708 (1384)
Q Consensus 629 ~i~~~~~~~~~~~l~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~~e 708 (1384)
+.|++. .+..++|..++..|.+||||++|
T Consensus 610 ----------------------~~L~~~-----------------------------~~~~~~w~~lv~~G~ie~idtee 638 (1141)
T KOG0214|consen 610 ----------------------RALKQS-----------------------------KPNEYRWAHLLSSGEVEYIDTEE 638 (1141)
T ss_pred ----------------------HHHhhC-----------------------------chhhcchhhhccccceeeeccch
Confidence 445440 12568999999999999999999
Q ss_pred CcceEEEeCCCCCCC----ccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccc
Q psy4067 709 GNDSHIAVSESGIRP----GVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIG 784 (1384)
Q Consensus 709 ~~~~~ia~~~~~~~~----~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~ 784 (1384)
|++++||++++++.. ..||||||||++||||||+ .||||||||||||+||++|+|||||
T Consensus 639 EEtvmiam~~~dL~~~~~~~~~THCEiHpsmILgv~as--------------iIpFpdh~qspr~tYQsa~~kqamg--- 701 (1141)
T KOG0214|consen 639 EETVMIAMGPKDLAESAYPKTYTHCEIHPSMILGVCAS--------------IIPFPDHNQSPRNTYQSAMGKQAMG--- 701 (1141)
T ss_pred hhhHHHhcCHHHHhhccCCcccccccccHHHhhhhcee--------------eeecCCCCCchHHHHHHHHhhhcce---
Confidence 999999999998864 4799999999999999999 6666666666666666666666555
Q ss_pred cccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccc
Q psy4067 785 YNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDV 864 (1384)
Q Consensus 785 ~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~ 864 (1384)
T Consensus 702 -------------------------------------------------------------------------------- 701 (1141)
T KOG0214|consen 702 -------------------------------------------------------------------------------- 701 (1141)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeecc
Q psy4067 865 KQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQ 944 (1384)
Q Consensus 865 ~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~ 944 (1384)
++.+|+
T Consensus 702 --------------------------------------------------------------------------~y~tn~ 707 (1141)
T KOG0214|consen 702 --------------------------------------------------------------------------VYHTNP 707 (1141)
T ss_pred --------------------------------------------------------------------------eeeecc
Confidence 456788
Q ss_pred ccceeeeeeeeeccCCceeeeeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeee
Q psy4067 945 QNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQ 1024 (1384)
Q Consensus 945 ~~RiDt~~~~L~ypQkPLV~T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~ 1024 (1384)
..|+|++.|.++|||+|+++|+.+++..+.++|+|+|++||++||+|||||||+|||++++|||+|||++||+|+..+..
T Consensus 708 ~vR~dtl~~~l~ypqkpl~tt~~~e~l~~~eL~aG~NaiVAi~~~~GYNqEDsvimn~s~v~rg~FrS~~~RsYk~q~~~ 787 (1141)
T KOG0214|consen 708 QVRMDTLAKVLYYPQKPLVTTRAMEYLRFRELPAGQNAIVAIACYSGYNQEDSVIMNQSSVDRGLFRSFFIRSYKDQEHK 787 (1141)
T ss_pred hhhhhhhhhcccccccchhhHHHHhhhhhhhcccccceEEEEecccCccHHHHHHHHhhhhhcchhhhhhhhHHHhhhhh
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred cCCCccceeeCCccccCCCCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCcccccccccccccccc
Q psy4067 1025 YPNQTHDRILGPLLEADTRKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSY 1104 (1384)
Q Consensus 1025 ~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~ 1104 (1384)
...+.++.+..|......++.+..|++||+||++.+|++|..+||+|||++|..+.+. ...
T Consensus 788 ~~~~~ee~~~~~~~~~~~~mr~~~~dkLdddG~i~~G~~vs~~Dv~iGk~t~~~~~~~--~~~----------------- 848 (1141)
T KOG0214|consen 788 KDQGPEEIFEEPPRGEGRGMRNGKYDKLDDDGIIMPGSRVSGGDVLIGKTTPQPAKED--ESG----------------- 848 (1141)
T ss_pred cccccccccccccccccccccccccccccccCCccccceeecCCEEeccccCCcccch--hcc-----------------
Confidence 8888888888887766677788889999999999999999999999999998654320 000
Q ss_pred ceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceee
Q psy4067 1105 LEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKE 1184 (1384)
Q Consensus 1105 vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e 1184 (1384)
...+....+|
T Consensus 849 ----------------------------------------------------------------------~~~~~~t~~d 858 (1141)
T KOG0214|consen 849 ----------------------------------------------------------------------PEDRLYTKRD 858 (1141)
T ss_pred ----------------------------------------------------------------------cccccccccc
Confidence 0012224578
Q ss_pred ecccccCCccceeeEEEEecCCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCC
Q psy4067 1185 VPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHG 1264 (1384)
Q Consensus 1185 ~s~~~k~~e~~~vd~V~i~~~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg 1264 (1384)
.++.++.+|.|+||+|+++.|.+|.+++||++|+.|.|++|||||||||||||||++++|||||||.+|++|||||||||
T Consensus 859 ~s~~Lr~~e~Givd~V~vt~n~~G~kF~kv~vr~~ripqiGDKfasrHgqKG~ig~~~~qedmpft~eGi~pDiiiNPha 938 (1141)
T KOG0214|consen 859 HSTKLRHTERGIVDQVWVTKNSEGPKFVKVRVRQVRIPQIGDKFASRHGQKGTIGITYRQEDMPFTIEGIVPDIIINPHA 938 (1141)
T ss_pred ceeecccCCcceEEEEEEecCCCCCceeEEEEeecccccccchhccccccCccccceeecCCCCccccCCCcceEECccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccchhhhHHhhhhHHHhhcCCeeeeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccc
Q psy4067 1265 YPSRMTVGKLIELLAGKAGLMEGNYKEGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLK 1344 (1384)
Q Consensus 1265 ~PSRMTIGql~E~l~Gk~~~~~g~~~d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLk 1344 (1384)
||||||||||+||++||++++.|...|+|||++..+..|+..|.++||++.|+|+||||+||++|.++||+||+|||||+
T Consensus 939 iPSRmtig~liEc~lgk~~a~~~e~~~atpFs~v~v~~is~~l~~~g~~~~G~e~~ynGrtG~~~~~~if~GptyyqrL~ 1018 (1141)
T KOG0214|consen 939 IPSRMTIGQLIECLLGKVAAYEGEEGDATPFSDVTVSKISANLHVYGYQYRGNERMYNGRTGRKLRAQIFIGPTYYQRLK 1018 (1141)
T ss_pred CccccchhhhHHHhhhhhhhcccccccCCCCCccchhcccchHHHhccccCCCEEEecCCCCceeeeeeecCchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCccceeeccCCccccccCCCccccccCCCc
Q psy4067 1345 HMVQDKIHARSRGPRVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1345 HMV~DKiHaRsrGP~~~LTrQP~eGRsr~~~~~ 1377 (1384)
|||+||||+|+|||+|+|||||++||||.||+-
T Consensus 1019 Hmvd~kih~R~~Gp~q~ltRQP~~gRsr~GGlR 1051 (1141)
T KOG0214|consen 1019 HMVDDKIHSRARGPVQILTRQPVEGRSRDGGLR 1051 (1141)
T ss_pred HhhhheeeecccCCceeeeccccccccccCCee
Confidence 999999999999999999999999999999984
No 2
>KOG0215|consensus
Probab=100.00 E-value=7.6e-189 Score=1644.95 Aligned_cols=760 Identities=58% Similarity=0.951 Sum_probs=663.4
Q ss_pred eccccccccchHHHHhhhccccc----------------cceecccccccccccc-cccceeeeeccccccCCCCHHHHH
Q psy4067 52 VDFGDSKVVSLRELLSHVTYQKR----------------LYRLTVQPNWLGTVKA-VHGTYLTMVTDETSKLKDSPEIRD 114 (1384)
Q Consensus 52 ~~~~~~~~~sd~~~~~~i~~~~~----------------~~~~~~~~~~~~~~~~-~~g~~~~~~~~e~~~~~~~~~~~~ 114 (1384)
|+|+|+|++||+||.+.|+-|.. +++|.+||+|+|.+.- .+|+ -.+. ..+..
T Consensus 259 iv~ka~g~~sd~ei~~~vg~~~~y~~~~~~s~ee~~~~~v~tqqqal~y~~~kvk~~~~t---~~~~-------~~e~~- 327 (1153)
T KOG0215|consen 259 IVLKAMGLESDQEIVQLVGGDSKYQDIFAPSLEECVSLGVYTQQQALEYIGSKVKVKRGT---TPTK-------DEEAL- 327 (1153)
T ss_pred EEEeeccccchHHHHHHhhcchHHHHhhccchhhhhhhhhHHHHHHHHHhhheEEeccCC---CCCc-------hHHHH-
Confidence 89999999999999999997663 9999999999998843 2552 1111 11111
Q ss_pred HHHHHHHHHHhcCccccccCh-------hhHHHHHHHHHHHHHhcCcCC-CCChhhhhhHHhhhhc--------------
Q psy4067 115 KWKLVLSFLKEKGLVKPHIDS-------FDYFINVEIKKLMQANANIYS-DVDPLFYLKYLDIHVG-------------- 172 (1384)
Q Consensus 115 ~~~~~~~~~~~kgl~~~hi~~-------~~~f~~~~i~~~~~~~~~~~~-d~~d~f~~k~~d~~~~-------------- 172 (1384)
+.+.. .++.|+-. ++.|++.|+++++++...... |++|.+++||+.++|.
T Consensus 328 ------~~l~~--~~lahv~v~~~~~r~K~~yi~~m~rr~~~a~l~~~~~ddrd~~gnkrlelagqllsllfeD~fk~~n 399 (1153)
T KOG0215|consen 328 ------EVLST--TVLAHVPVPDLNFRMKAIYIGLMVRRVIQAMLNKLAMDDRDYVGNKRLELAGQLLSLLFEDLFKRFN 399 (1153)
T ss_pred ------HHHHh--hheeceeccCCCCcceeehHHHHHHHHHHHHhCcccccchhhhccchHHHHHHHHHHHHHHHHHHHH
Confidence 11111 15556432 569999999999999777655 6667778999999885
Q ss_pred -----chhhhccc-cccccccccccc--chhhHHHHHHHHHHhCCcccccccccccceeeeecccchhhccccccccccc
Q psy4067 173 -----IADKIIPK-IKAAQFDIVNHM--RQDTITNALTAAIQTGNWTIRRFKMERQGVTQVLSRLSYISGLGMMTRINSQ 244 (1384)
Q Consensus 173 -----~~~k~~~~-~~~~~~~~~~~~--~~~~IT~~l~~alsTGNW~~~~~~~~r~GvsQvL~Rln~ls~lshlrRv~s~ 244 (1384)
..+|.+.+ .+..+||+.+++ ++++||++|.+|+|||||..|+|+|+|+||+|||+|+||+|+|++|+|+||+
T Consensus 400 ~e~k~~~dk~l~k~~ra~~fD~~~~~n~~~~~it~~l~ra~stgnw~iKrfrmer~gvt~VlsrlSyisaLgmmtri~s~ 479 (1153)
T KOG0215|consen 400 SELKKNIDKILKKPIRAQEFDALKHLNVRANMITSGLERAISTGNWSIKRFRMERAGVTQVLSRLSYISALGMMTRINSQ 479 (1153)
T ss_pred HHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHHHhhcCchHHHHhhhhhccceeeehhhhhhhhhhhheehhhh
Confidence 23344455 356789999988 7899999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccccCCChHHHHHHHHHcCceeccccCCcccCCCCeEE
Q psy4067 245 FEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITTENDEKNMLKIMYNIGIEHIAMFNGEELSSPGVYL 324 (1384)
Q Consensus 245 ~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~~~~~~~i~~~l~~lG~~~~~~~~~~~~~~~~~~~ 324 (1384)
|++++|+++||+||||||||+||+|||||++||||||||||+|||++++++|+...+..+|++++..++..+++.+..+.
T Consensus 480 fektrkvsgprSlq~sqwgmlcp~dtpegeacglvknlalmthittd~ee~pi~~~~~k~gv~di~~v~~~e~~~~~~~~ 559 (1153)
T KOG0215|consen 480 FEKTRKVSGPRSLQPSQWGMLCPSDTPEGEACGLVKNLALMTHITTDSEEKPILKLCYKLGVEDIHVVSGRELHTPDSFL 559 (1153)
T ss_pred heeehhccCccccChhhcccccCCCCCCccccccccchHHHhcccCCCCcchhHHHHHHhcceeeeeecccccCCCceEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEECCEEEEEeecCcccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCceeeeeeeeeccccceeccccc
Q psy4067 325 VFVNGILAGITCHHKEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVVRSDLVIGRMPIMLQSSKC 404 (1384)
Q Consensus 325 VflNG~~vG~~~~~i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~~~~V~IG~iPIMLrS~~C 404 (1384)
|||||.++|++..|..+ .++++..| +..- ||
T Consensus 560 v~Lng~iig~~~~~~~~-----v~~~r~lr--------------------------------r~G~-i~----------- 590 (1153)
T KOG0215|consen 560 VFLNGLIIGITRRPQYF-----VNSFRRLR--------------------------------RKGK-IG----------- 590 (1153)
T ss_pred EEecceeeccccchHHH-----HHHHHHHH--------------------------------HcCc-cc-----------
Confidence 99999999999999887 66666665 2222 22
Q ss_pred cccCCcccccccceeeeeEEEeccccccchhhhHHhhccccccccCCChhhHHHHhhhccccccccccccchhhhHHHHH
Q psy4067 405 VLRNKTEYTSSSRRASTSSVTMHSQRTSPLLSCKKLRQKRFQTYKKTPVDDARDFLSSTCIAHIPVINMRFKMKAMYLAV 484 (1384)
Q Consensus 405 vL~g~~~~is~~~~~s~t~i~~~~~~~~P~~e~~~~~~~~~~~~~~~~~~ea~e~L~~~~LpHv~v~~~~~~~Ka~yLg~ 484 (1384)
+++| +.....++
T Consensus 591 ------~fvs--------v~~~~~q~------------------------------------------------------ 602 (1153)
T KOG0215|consen 591 ------EFVS--------VFTNTTQR------------------------------------------------------ 602 (1153)
T ss_pred ------ceee--------eeeeeeeE------------------------------------------------------
Confidence 1111 00000001
Q ss_pred HHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhccccceeccccceeecccCceeEeecCcc
Q psy4067 485 MIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNLSGVVNLVSGWWFELKYGNKIYIRSPSR 564 (1384)
Q Consensus 485 MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~~~i~sl~~g~w~~~~~~n~~~i~t~~r 564 (1384)
-++++||
T Consensus 603 -----------------------------------------------------------------------~v~i~sd-- 609 (1153)
T KOG0215|consen 603 -----------------------------------------------------------------------CVYIASD-- 609 (1153)
T ss_pred -----------------------------------------------------------------------EEEEecC--
Confidence 1789999
Q ss_pred cccccCCCCCCCcccccCCCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeeccCCCCcccccccccceeee
Q psy4067 565 KLLAAGFSGPHSGRVRLMPEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLGGGGILPSIQRQTTCLLTL 644 (1384)
Q Consensus 565 ~~~a~Gvh~sh~GRicp~pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~~g~i~~~~~~~~~~~l~~ 644 (1384)
.||+| ||+|++ +++.+ .++..|.
T Consensus 610 -----------ggr~c----rp~Iiv-----~~~~~-------~v~~~h~------------------------------ 632 (1153)
T KOG0215|consen 610 -----------GGRVC----RPLIIV-----DNGRP-------RVKQHHM------------------------------ 632 (1153)
T ss_pred -----------CCeEe----eeEEEE-----eCCcc-------hhhhhhH------------------------------
Confidence 99999 999998 56666 5555555
Q ss_pred EeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEeccCCCcceEEEeCCCCCCCc
Q psy4067 645 ILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRPG 724 (1384)
Q Consensus 645 v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~~ 724 (1384)
+.+++ +...|+||+.+|.|||||+||||++.||+.+.++.+
T Consensus 633 ------~el~~--------------------------------g~r~F~DFl~~glvEYLDVNEEND~~Ialye~~I~~- 673 (1153)
T KOG0215|consen 633 ------DELLD--------------------------------GKRTFDDFLKDGLIEYLDVNEENDSLIALYEEDIGP- 673 (1153)
T ss_pred ------HHHHH--------------------------------hhhhHHHHHHhchhheeecccccCceEEechhhcCC-
Confidence 33333 667899999999999999999999999999999998
Q ss_pred cceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCc
Q psy4067 725 VTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRP 804 (1384)
Q Consensus 725 ~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~P 804 (1384)
.+||+||.||+|||+||| |||||+|||||||+|||
T Consensus 674 ~TTHLEIEPFTiLGv~AG--------------LIPYPHHNQSPRNTYQC------------------------------- 708 (1153)
T KOG0215|consen 674 ETTHLEIEPFTILGVVAG--------------LIPYPHHNQSPRNTYQC------------------------------- 708 (1153)
T ss_pred Ccceeeecchhhhhhhcc--------------ccCCCCCCCCCcchhhh-------------------------------
Confidence 799999999999999999 55555555555555555
Q ss_pred eeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccccccccccccccchhhccccc
Q psy4067 805 MVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQ 884 (1384)
Q Consensus 805 iv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 884 (1384)
T Consensus 709 -------------------------------------------------------------------------------- 708 (1153)
T KOG0215|consen 709 -------------------------------------------------------------------------------- 708 (1153)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceee
Q psy4067 885 YFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVE 964 (1384)
Q Consensus 885 ~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~ 964 (1384)
||||||||.++||+.+|+|+++|.|+|||+|+|+
T Consensus 709 ----------------------------------------------AMGKQAmG~IaYNQ~~RiDtlmYll~YPq~PmVk 742 (1153)
T KOG0215|consen 709 ----------------------------------------------AMGKQAMGAIAYNQKKRIDSLLYLLVYPQRPMVK 742 (1153)
T ss_pred ----------------------------------------------hhhhhhhhhhhhhhhhhHHHHHHHHhcCCCcccc
Confidence 5555555567899999999999999999999999
Q ss_pred eeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCCC
Q psy4067 965 SKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRK 1044 (1384)
Q Consensus 965 T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~ 1044 (1384)
|+++++++|+++|+||||.||||||+||++|||+|+||+|+||||+||.+|++.++.+++|.+...|++.+|..+..+++
T Consensus 743 TKTIELi~ydKLPAGQNAtVAVMSYSGYDIEDALVLNKsSlDRGfGRC~Vyk~~~~~~kkY~N~T~Drimgp~~d~~t~k 822 (1153)
T KOG0215|consen 743 TKTIELINYDKLPAGQNATVAVMSYSGYDIEDALVLNKSSIDRGFGRCEVYKKTTTTLKKYANGTFDRIMGPQLDPNTRK 822 (1153)
T ss_pred ceeEEeeccccCCCCCccEEEEEeccCCchhhhhhcccchhccCcceEEEEeeeeeeeeecCCCchhhhcccccCCCcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999888999
Q ss_pred CcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHHhh
Q psy4067 1045 PVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLL 1124 (1384)
Q Consensus 1045 p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~i 1124 (1384)
|.+..+-||+|||+.||+.|.+++|+|+|..|.....
T Consensus 823 pi~kh~vLd~DGl~~pG~~V~~~qi~iNK~mP~vt~~------------------------------------------- 859 (1153)
T KOG0215|consen 823 PIWKHQVLDDDGLATPGERVQPGQIYINKQMPTVTGT------------------------------------------- 859 (1153)
T ss_pred cchhhcccCcccCCCCccEeccCcEEEeccCCCcccc-------------------------------------------
Confidence 9999999999999999999999999999988754210
Q ss_pred hccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEEec
Q psy4067 1125 RQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSS 1204 (1384)
Q Consensus 1125 rq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~ 1204 (1384)
|..-++. ...||++.+..|+|.+++++|+|+++.
T Consensus 860 ---------------------------------------------~~~~~~~-~~~~Yk~~pitykgpepsyidkVmls~ 893 (1153)
T KOG0215|consen 860 ---------------------------------------------SLPGLSA-SQVQYKAVPITYKGPEPSYIDRVMLTS 893 (1153)
T ss_pred ---------------------------------------------cCCCCCc-cccccccccceecCCCcchhheeEeec
Confidence 0000111 122799999999999999999999999
Q ss_pred CCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHh
Q psy4067 1205 NSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGL 1284 (1384)
Q Consensus 1205 ~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~ 1284 (1384)
++++..++||.+||+|+||+|||||||||||||||+|++||||||...||+|||||||||||||||||+++|.+.||||+
T Consensus 894 n~~dq~LIK~llRQTRrPElGDKFSSRHGQKGVcGlIv~QEDMPFnD~GIcPDiIMNPHGFPSRMTVGK~iELlsGKAGV 973 (1153)
T KOG0215|consen 894 NDEDQFLIKVLLRQTRRPELGDKFSSRHGQKGVCGLIVQQEDMPFNDQGICPDIIMNPHGFPSRMTVGKMIELLSGKAGV 973 (1153)
T ss_pred CccccHHHHHHHhhccCcccccccccccCCCceeeEEeeccCCCCcccCCCcccccCCCCCcccchHHHHHHHhccccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCeeeeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCccceeeccCCcccccc
Q psy4067 1285 MEGNYKEGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLTR 1364 (1384)
Q Consensus 1285 ~~g~~~d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LTr 1364 (1384)
+.|.+.+||+|+|.+++++++.|.++||+|.||+.+|+|+|||+++|+||+||+|||||||||.||||||||||+..|||
T Consensus 974 l~G~~hYGTaFGgskVed~~~~Lv~hGfnY~GKD~ltSGITGepLeAYIffGPiYYQKLKHMVlDKMHARARGPRAvLTR 1053 (1153)
T KOG0215|consen 974 LEGTFHYGTAFGGSKVEDISEELVEHGFNYSGKDMLTSGITGEPLEAYIFFGPIYYQKLKHMVLDKMHARARGPRAVLTR 1053 (1153)
T ss_pred eeeeEeeccccCCchHHHHHHHHHHhccCccCccccccCCCCCcceeeEEechHHHHHHHHHHHHHHhhhccCCceeeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccccccCCC
Q psy4067 1365 QPTGRRWKLTFT 1376 (1384)
Q Consensus 1365 QP~eGRsr~~~~ 1376 (1384)
||||||||-||-
T Consensus 1054 QPTEGRSrdGGL 1065 (1153)
T KOG0215|consen 1054 QPTEGRSRDGGL 1065 (1153)
T ss_pred CCCCCcCCCCCc
Confidence 999999999984
No 3
>PRK08565 DNA-directed RNA polymerase subunit B; Provisional
Probab=100.00 E-value=1e-168 Score=1622.30 Aligned_cols=775 Identities=37% Similarity=0.614 Sum_probs=648.7
Q ss_pred EEEEEEecceeeEeccchhe-----eccccccccchHHHHhhhccccc--------------c-ceeccccccccccccc
Q psy4067 32 YIFFLLEGLQAILFLPLFKQ-----VDFGDSKVVSLRELLSHVTYQKR--------------L-YRLTVQPNWLGTVKAV 91 (1384)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~sd~~~~~~i~~~~~--------------~-~~~~~~~~~~~~~~~~ 91 (1384)
.+.....| ++.+.+++... ++|||||+.||+||++.|+.|.+ + .+|+.||.|||++- +
T Consensus 192 ~l~~~~~g-~i~~~~~~~~~~IPi~illkALG~~sD~eI~~~i~~~~~~~~~l~~~l~~~~~~~~t~~~al~~ig~~~-~ 269 (1103)
T PRK08565 192 TVERRKDG-TIYVSFPAVPGKIPFVILMRALGLETDRDIVYAVSLDPEIQQELLPSLEQASSIAATVEDALDYIGKRV-A 269 (1103)
T ss_pred EEEEecCC-eEEEEEcCcccEeeHHHHHHHcCCCCHHHHHHHhcccHHHHHHHHHHHHHhhccccCHHHHHHHHHHhc-c
Confidence 33333334 37778888743 99999999999999999988762 4 78899999999985 3
Q ss_pred ccceeeeeccccccCCCCHHHHHHHHHHHHHHHhcCccccccCh-------hhHHHHHHHHHHHHHhcCcCC-CCChhhh
Q psy4067 92 HGTYLTMVTDETSKLKDSPEIRDKWKLVLSFLKEKGLVKPHIDS-------FDYFINVEIKKLMQANANIYS-DVDPLFY 163 (1384)
Q Consensus 92 ~g~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~kgl~~~hi~~-------~~~f~~~~i~~~~~~~~~~~~-d~~d~f~ 163 (1384)
+| ..+|. +...+++..++. +++|++. +.+|+++|+++++.+..+... ||.|||.
T Consensus 270 ~~-----~~~~~-~~e~~~~~L~~~------------ll~Hig~~~~~~~~K~~~L~~Mi~kLl~l~~g~~~~DD~D~l~ 331 (1103)
T PRK08565 270 IG-----QPREY-RIERAEQILDKY------------LLPHLGTSPEDRIKKAYFLGQMASKLLELYLGRREPDDKDHYA 331 (1103)
T ss_pred CC-----CCCcc-HHHHHHHHHHhh------------CcccCCCcccchhHHHHHHHHHHHHHHhhhcCCCCCCCccccC
Confidence 55 22331 222222222222 6689984 789999999999999776655 8889999
Q ss_pred hhHHhhhhcchh-----------hhc----ccc--cccccccccccchhhHHHHHHHHHHhCCcccccccccccceeeee
Q psy4067 164 LKYLDIHVGIAD-----------KII----PKI--KAAQFDIVNHMRQDTITNALTAAIQTGNWTIRRFKMERQGVTQVL 226 (1384)
Q Consensus 164 ~k~~d~~~~~~~-----------k~~----~~~--~~~~~~~~~~~~~~~IT~~l~~alsTGNW~~~~~~~~r~GvsQvL 226 (1384)
|||++++|..+. +.+ .+. +...+++..+++++.||++|++|||||||.. +++||||+|
T Consensus 332 NKRv~l~G~Ll~~~fr~~l~~~~~~ik~~l~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~-----~~sGvSq~l 406 (1103)
T PRK08565 332 NKRLRLAGDLLAELFRVAFKQLVKDLKYQLEKSYARGRKLDLRAIVRPDIITERIRHALATGNWVG-----GRTGVSQLL 406 (1103)
T ss_pred CcEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHhcccchhhHHHHHHHhcCcccc-----CCcceEEec
Confidence 999999985322 111 110 2245677788888999999999999999985 569999999
Q ss_pred cccchhhcccccccccccccccccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccccCCChHHHHHHHHHcCc
Q psy4067 227 SRLSYISGLGMMTRINSQFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITTENDEKNMLKIMYNIGI 306 (1384)
Q Consensus 227 ~Rln~ls~lshlrRv~s~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~~~~~~~i~~~l~~lG~ 306 (1384)
+|+||+|+|||+||++|++.|++|.++||+||||||||+||+|||||++||||||||++|+||++.+.+++.++|.++|+
T Consensus 407 dr~N~l~~lSh~Rrv~s~~~r~~~~~~vR~Lhps~wG~iCPveTPEG~~cGLv~~LA~~a~It~~~~~~~i~~~l~~~G~ 486 (1103)
T PRK08565 407 DRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLALMAQISVGVDEEEVEEILYELGV 486 (1103)
T ss_pred ccCCHHHHHHHHhhccCCcccCCCCccccccChhhccccCCCCCCCccccchhhhhhcccccccCCChHHHHHHHHHcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeccccCCcccCCCCeEEEEECCEEEEEeecCcccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCceee
Q psy4067 307 EHIAMFNGEELSSPGVYLVFVNGILAGITCHHKEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVV 386 (1384)
Q Consensus 307 ~~~~~~~~~~~~~~~~~~VflNG~~vG~~~~~i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~ 386 (1384)
+++..+.+++ .+..++|||||.|+|++.+|..+ .+.+|..|
T Consensus 487 ~~~~~~~~~~--~~~~~~V~lnG~~iG~~~~~~~l-----~~~lR~~R-------------------------------- 527 (1103)
T PRK08565 487 VPVEEAREEE--YISWSRVYLNGRLIGYHPDGEEL-----AEKIRELR-------------------------------- 527 (1103)
T ss_pred CchhhcCccc--CCCceEEEECCEEEEEECCHHHH-----HHHHHHHh--------------------------------
Confidence 9987665433 24569999999999999998777 77777766
Q ss_pred eeeeeeccccceeccccccccCCcccccccceeeeeEEEeccccccchhhhHHhhccccccccCCChhhHHHHhhhcccc
Q psy4067 387 RSDLVIGRMPIMLQSSKCVLRNKTEYTSSSRRASTSSVTMHSQRTSPLLSCKKLRQKRFQTYKKTPVDDARDFLSSTCIA 466 (1384)
Q Consensus 387 ~~~V~IG~iPIMLrS~~CvL~g~~~~is~~~~~s~t~i~~~~~~~~P~~e~~~~~~~~~~~~~~~~~~ea~e~L~~~~Lp 466 (1384)
++ |.||-++ .+.....
T Consensus 528 r~----g~i~~~v----------------------~I~~~~~-------------------------------------- 543 (1103)
T PRK08565 528 RS----GKISDEV----------------------NVAYIET-------------------------------------- 543 (1103)
T ss_pred hc----CCCCCeE----------------------EEEEccc--------------------------------------
Confidence 22 3344332 0000000
Q ss_pred ccccccccchhhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhccccceecccc
Q psy4067 467 HIPVINMRFKMKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNLSGVVNLVSG 546 (1384)
Q Consensus 467 Hv~v~~~~~~~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~~~i~sl~~g 546 (1384)
T Consensus 544 -------------------------------------------------------------------------------- 543 (1103)
T PRK08565 544 -------------------------------------------------------------------------------- 543 (1103)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ceeecccCceeEeecCcccccccCCCCCCCcccccCCCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeecc
Q psy4067 547 WWFELKYGNKIYIRSPSRKLLAAGFSGPHSGRVRLMPEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLG 626 (1384)
Q Consensus 547 ~w~~~~~~n~~~i~t~~r~~~a~Gvh~sh~GRicp~pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~ 626 (1384)
..-+.+++.|| .||+| ||++++ ++|+. .++.+++
T Consensus 544 -----~~~~~i~I~sd-------------~GRl~----RP~~~v-----~~g~~-------~~~~~~~------------ 577 (1103)
T PRK08565 544 -----GEINEVYVNCD-------------SGRVR----RPLIVV-----ENGKP-------KLTREHV------------ 577 (1103)
T ss_pred -----cccceEEEecC-------------Cceee----eeEEEE-----ecCce-------eccHHHH------------
Confidence 00123899999 99999 999988 45554 3444333
Q ss_pred CCCCcccccccccceeeeEeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEecc
Q psy4067 627 GGGILPSIQRQTTCLLTLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDV 706 (1384)
Q Consensus 627 ~g~i~~~~~~~~~~~l~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~ 706 (1384)
+.++. +.++|+||+++|.|||||+
T Consensus 578 ------------------------~~l~~--------------------------------~~~~~~~l~~~g~iEyid~ 601 (1103)
T PRK08565 578 ------------------------EKLKK--------------------------------GELTFDDLVKMGVIEYLDA 601 (1103)
T ss_pred ------------------------HHhhc--------------------------------cccchhhHhhcCcEEeeCH
Confidence 22222 3468999999999999999
Q ss_pred CCCcceEEEeCCCCCCCccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccc
Q psy4067 707 NEGNDSHIAVSESGIRPGVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYN 786 (1384)
Q Consensus 707 ~e~~~~~ia~~~~~~~~~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~ 786 (1384)
+||+++.||++++++.. .+||+||+|+++|||+|| ||||+||||||||||||||+|||||+|++|
T Consensus 602 ~Ee~~~~Ia~~~~~l~~-~~th~Ei~p~~ilsv~as--------------liPF~~hNqspRn~yq~~M~KQa~g~~~~n 666 (1103)
T PRK08565 602 EEEENAYVALDPEDLTP-EHTHLEIWPPAILGITAS--------------IIPYPEHNQSPRNTYQAAMAKQSLGLYAAN 666 (1103)
T ss_pred HHhcCcEEeccccccCc-ceeccccCCccccceeee--------------ccCCcccCcccchhhhhhhhhccccccccc
Confidence 99999999999998865 579999999999999999 999999999999999999999999999999
Q ss_pred cccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccccc
Q psy4067 787 QQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQ 866 (1384)
Q Consensus 787 ~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~ 866 (1384)
++.|+|+++|+|+|||+|||+|+.++.+
T Consensus 667 ~~~r~d~~~~~l~~pQ~Plv~t~~~~~~---------------------------------------------------- 694 (1103)
T PRK08565 667 FRIRTDTRGHLLHYPQRPLVQTRALEII---------------------------------------------------- 694 (1103)
T ss_pred ceEeecCCcceeecCceeEEEecccccc----------------------------------------------------
Confidence 9999999999999999999999433332
Q ss_pred cccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeecccc
Q psy4067 867 GVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQN 946 (1384)
Q Consensus 867 ~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~ 946 (1384)
T Consensus 695 -------------------------------------------------------------------------------- 694 (1103)
T PRK08565 695 -------------------------------------------------------------------------------- 694 (1103)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ceeeeeeeeeccCCceeeeeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecC
Q psy4067 947 RIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYP 1026 (1384)
Q Consensus 947 RiDt~~~~L~ypQkPLV~T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~ 1026 (1384)
+++++|+|+|++||||||+||||||||||||+|+||||||+.+|++|.++++++.
T Consensus 695 -------------------------~~~~~p~G~N~iVAv~sy~GYn~EDaiIink~s~~rG~~~s~~~~~~~~~~~~~~ 749 (1103)
T PRK08565 695 -------------------------GYNDRPAGQNAVVAVLSYTGYNIEDAIIMNKASIERGLARSTFFRTYETEERKYP 749 (1103)
T ss_pred -------------------------ccccCCCCeeEEEEEEcccCcchHHhhhhhhhhhhcCCceEEEEEEEEEEeeecC
Confidence 3456678889999999999999999999999999999999999999999888776
Q ss_pred CCccceeeCCccccCCCCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccce
Q psy4067 1027 NQTHDRILGPLLEADTRKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLE 1106 (1384)
Q Consensus 1027 ~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd 1106 (1384)
.+..|.+..|........+...|++||+||++++|++|++|||||||++|..+.. +.+.
T Consensus 750 ~~~~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~G~~v~~gdili~k~~p~~~~~-------~~~~-------------- 808 (1103)
T PRK08565 750 GGQEDKIEIPEPNVRGYRGEEYYRKLDEDGIVSPEVEVKGGDVLIGKTSPPRFLE-------ELEE-------------- 808 (1103)
T ss_pred CCCceEEecCCCcccccCchhhhhcCCCCCCcCCCcEEcCCCEEEEEecCCCCCc-------chhh--------------
Confidence 6666777766432211112234899999999999999999999999999854220 0000
Q ss_pred EEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeec
Q psy4067 1107 KVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVP 1186 (1384)
Q Consensus 1107 ~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s 1186 (1384)
. + ......++++
T Consensus 809 ------------------------------~---~-----------------------------------~~~~~~~~~s 820 (1103)
T PRK08565 809 ------------------------------L---S-----------------------------------LGLQERRDTS 820 (1103)
T ss_pred ------------------------------c---c-----------------------------------ccCCccccce
Confidence 0 0 0012357788
Q ss_pred ccccCCccceeeEEEEecCCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCC
Q psy4067 1187 VSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYP 1266 (1384)
Q Consensus 1187 ~~~k~~e~~~vd~V~i~~~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~P 1266 (1384)
+.++..|+|+||+|.++.++++.+.|||++|+.|+|+||||||||||||||||+|+|+||||||+||++|||||||||||
T Consensus 821 ~~~~~~e~g~V~~V~~~~~~~~~~~vkv~ir~~R~p~iGDKfssRhGqKGv~s~i~~~edmPf~~~G~~pDiI~NPh~~P 900 (1103)
T PRK08565 821 VTVRHGEKGIVDTVLITESPEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIP 900 (1103)
T ss_pred EEecCCCceEEEEEEEEecCCCcEEEEEEEEEEecCchhhhhhhhccCcceeeeecccccCCcCCCCCCccEEECCCCCc
Confidence 89999999999999999998899999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhhhHHhhhhHHHhhcCCeeeeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccc
Q psy4067 1267 SRMTVGKLIELLAGKAGLMEGNYKEGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHM 1346 (1384)
Q Consensus 1267 SRMTIGql~E~l~Gk~~~~~g~~~d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHM 1346 (1384)
||||||||+|+++||++++.|.+.|+|||.+..++++.+.|+++||+++|+|.||||+||++|+++||+||+|||||+||
T Consensus 901 SRMtiG~l~E~~~gk~~~~~g~~~d~t~F~~~~~~~~~~~L~~~g~~~~G~e~l~~G~tG~~~~~~if~G~~yy~rL~Hm 980 (1103)
T PRK08565 901 SRMTVGQLLESIAGKVAALEGRFVDATPFYGEPEEELRKELLKLGYKPDGTEVMYDGRTGEKIKAPIFIGVVYYQKLHHM 980 (1103)
T ss_pred ccccHHHHHHHHHHHHHHhcCceeeecCcCCchHHHHHHHHHHcCCCCCCcEEEEcCCCCCCcccceEEeehhheechhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCccceeeccCCccccccCCCccccccCCCc
Q psy4067 1347 VQDKIHARSRGPRVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1347 V~DKiHaRsrGP~~~LTrQP~eGRsr~~~~~ 1377 (1384)
|+||+||||+||++.|||||++||||.|||-
T Consensus 981 V~DK~~~R~~Gp~~~lt~QP~~Gr~~~GG~R 1011 (1103)
T PRK08565 981 VADKIHARARGPVQILTRQPTEGRAREGGLR 1011 (1103)
T ss_pred hchhhhhccCCCcchhhhCCccccccCCCee
Confidence 9999999999999999999999999999983
No 4
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=100.00 E-value=1e-161 Score=1498.32 Aligned_cols=737 Identities=29% Similarity=0.426 Sum_probs=634.2
Q ss_pred eccccccccchHHHHhhhccc----c---c----------------cceecccccccccccccccceeeeeccccccCCC
Q psy4067 52 VDFGDSKVVSLRELLSHVTYQ----K---R----------------LYRLTVQPNWLGTVKAVHGTYLTMVTDETSKLKD 108 (1384)
Q Consensus 52 ~~~~~~~~~sd~~~~~~i~~~----~---~----------------~~~~~~~~~~~~~~~~~~g~~~~~~~~e~~~~~~ 108 (1384)
+++||||+.||+||+++++++ + + ++.++ |++|||.+.+.+.-+- .+| .+++.
T Consensus 195 ilLRALG~~tDeeI~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~i~~~~-a~~~i~~r~~~~~~~~---~~~-gR~k~ 269 (1060)
T COG0085 195 ILLRALGLETDEEIIEAFGGDELTDLVPPEGEEALLEIYEEAKGEKITARN-ALELIGSRVFVVKRYD---AKE-GRYKR 269 (1060)
T ss_pred HHHHHhCCCcHHHHHHHhcccccccccchHHHHHhHHHHhhccCCCcchHH-HHHHHhcccccccccc---cch-hhhhh
Confidence 899999999999999999984 2 1 33333 9999999977544110 234 46666
Q ss_pred CHHHHHHHHHHHHHHHhcCccccccCh-----------hhHHHHHHHHHHHHHhcCcCC-CCChhhhhhHHhhhhcchhh
Q psy4067 109 SPEIRDKWKLVLSFLKEKGLVKPHIDS-----------FDYFINVEIKKLMQANANIYS-DVDPLFYLKYLDIHVGIADK 176 (1384)
Q Consensus 109 ~~~~~~~~~~~~~~~~~kgl~~~hi~~-----------~~~f~~~~i~~~~~~~~~~~~-d~~d~f~~k~~d~~~~~~~k 176 (1384)
+++..++. +++|+.. +.+|+..|++.++++..+... ||.||++|||+.+.|..++.
T Consensus 270 ~~~vl~~~------------~L~hL~~~~~~~~l~~~~k~~di~~mi~~l~~L~~G~~~~DDiDHlGNKRlrlvGeLl~n 337 (1060)
T COG0085 270 AKYVLDKE------------LLPHLGEAGERYDLSRVGKAKDIIAMIKYLIELRLGKGEEDDIDHLGNRRLRLVGELLEN 337 (1060)
T ss_pred hhhhhhhh------------HHhhhcccccccchhhhHHHHHHHHHHHHHHHHhcCCCCCCCCccccccchhhHHHHHHH
Confidence 66666664 6667664 357999999999999888766 77799999999999865442
Q ss_pred hcc-------ccccc---cccc-ccccchhhHHHHHHHHHHhCCcccccccccccceeeeecccchhhcccccccccc-c
Q psy4067 177 IIP-------KIKAA---QFDI-VNHMRQDTITNALTAAIQTGNWTIRRFKMERQGVTQVLSRLSYISGLGMMTRINS-Q 244 (1384)
Q Consensus 177 ~~~-------~~~~~---~~~~-~~~~~~~~IT~~l~~alsTGNW~~~~~~~~r~GvsQvL~Rln~ls~lshlrRv~s-~ 244 (1384)
.+. +.-.+ ..+. ...+.+++||.++.+|++||||+ ++||||+|||+||||+|||+||+++ +
T Consensus 338 ~fR~gl~rmer~ikerm~~~~~r~~i~p~dlIn~k~~~Alitgffg-------~sqlSQfmDqtNpLSeLSHkRRIsAlg 410 (1060)
T COG0085 338 LFRVGLSRMERDVKERLEKADKRDTLVPQDLINAKPIHALITGFFG-------RSQLSQFMDQTNPLSELSHKRRLSALG 410 (1060)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhhccCchhhcchhHHHHHHhcccc-------ccceeeeeecCChHHhhhhhhceeccC
Confidence 211 10011 2233 45678999999999999999998 8999999999999999999999999 9
Q ss_pred ccccccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccc-cCCChHHHHHHHH-HcCceeccccCCcccCCCCe
Q psy4067 245 FEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHIT-TENDEKNMLKIMY-NIGIEHIAMFNGEELSSPGV 322 (1384)
Q Consensus 245 ~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It-~~~~~~~i~~~l~-~lG~~~~~~~~~~~~~~~~~ 322 (1384)
|+|+++.+++|+|||||||||||+|||||+|||||||||++|+|+ .|+++.|..+++. .+|+++++.+++.+
T Consensus 411 LsRera~fEvRDvHpTHyGRiCPiETPEGpNiGLI~sLA~~A~Vn~~Gf~etPy~kv~~g~~~v~~i~~l~~~~------ 484 (1060)
T COG0085 411 LSRERAGFEVRDVHPTHYGRICPIETPEGPNIGLIKSLALYARINEYGFLETPYRKVLDGSLVVDEIEYLSADE------ 484 (1060)
T ss_pred cCccCCCCcccccCcccccccCCCCCCCCcchhHHHHHHHHeEecccCCCCCceEEEEeccccccceeeecccc------
Confidence 999999999999999999999999999999999999999999999 8999999999999 59999999887654
Q ss_pred EEEEECCEEEEEeecCcccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCceeeeeeeeeccccceeccc
Q psy4067 323 YLVFVNGILAGITCHHKEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVVRSDLVIGRMPIMLQSS 402 (1384)
Q Consensus 323 ~~VflNG~~vG~~~~~i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~~~~V~IG~iPIMLrS~ 402 (1384)
..+|+||.++|.++++-.+ .+..+..| + |
T Consensus 485 ~~~~~~~~~~~~~~~~~~~-----~~~~~~~R--------------------------------~-----~--------- 513 (1060)
T COG0085 485 EDVYVIGQANGTLDEPGEL-----VEELVECR--------------------------------R-----G--------- 513 (1060)
T ss_pred cceEEEeEeeeeecCCCce-----eeeEEEEe--------------------------------e-----c---------
Confidence 6899999999999888777 33211111 0 0
Q ss_pred cccccCCcccccccceeeeeEEEeccccccchhhhHHhhccccccccCCChhhHHHHhhhccccccccccccchhhhHHH
Q psy4067 403 KCVLRNKTEYTSSSRRASTSSVTMHSQRTSPLLSCKKLRQKRFQTYKKTPVDDARDFLSSTCIAHIPVINMRFKMKAMYL 482 (1384)
Q Consensus 403 ~CvL~g~~~~is~~~~~s~t~i~~~~~~~~P~~e~~~~~~~~~~~~~~~~~~ea~e~L~~~~LpHv~v~~~~~~~Ka~yL 482 (1384)
T Consensus 514 -------------------------------------------------------------------------------- 513 (1060)
T COG0085 514 -------------------------------------------------------------------------------- 513 (1060)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhccccceeccccceeecccCceeEeecC
Q psy4067 483 AVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNLSGVVNLVSGWWFELKYGNKIYIRSP 562 (1384)
Q Consensus 483 g~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~~~i~sl~~g~w~~~~~~n~~~i~t~ 562 (1384)
T Consensus 514 -------------------------------------------------------------------------------- 513 (1060)
T COG0085 514 -------------------------------------------------------------------------------- 513 (1060)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccccCCCCCCCcccccCCCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeeccCCCCccccccccccee
Q psy4067 563 SRKLLAAGFSGPHSGRVRLMPEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLGGGGILPSIQRQTTCLL 642 (1384)
Q Consensus 563 ~r~~~a~Gvh~sh~GRicp~pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~~g~i~~~~~~~~~~~l 642 (1384)
+- +..-++ .
T Consensus 514 ----------------~~----~~~~~~-------------------~-------------------------------- 522 (1060)
T COG0085 514 ----------------GS----GEVSVA-------------------D-------------------------------- 522 (1060)
T ss_pred ----------------cc----ccceee-------------------c--------------------------------
Confidence 00 000000 0
Q ss_pred eeEeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEeccCCCcceEEEeCCCCCC
Q psy4067 643 TLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIR 722 (1384)
Q Consensus 643 ~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~ 722 (1384)
T Consensus 523 -------------------------------------------------------------------------------- 522 (1060)
T COG0085 523 -------------------------------------------------------------------------------- 522 (1060)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCC
Q psy4067 723 PGVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQ 802 (1384)
Q Consensus 723 ~~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ 802 (1384)
+...+++..+|.+..++.++ ++||.+|+++.|.+++.+|+||+.| |..|.
T Consensus 523 ~~~~~~~dv~~~~~~~~~~~--------------~~P~l~~dd~~~~l~~~~mqr~~~~----------------l~~~~ 572 (1060)
T COG0085 523 PEGVDYMDVSPKQVVSVGRS--------------LIPFLEHDDANRALMGSNMQRQAVP----------------LLRTE 572 (1060)
T ss_pred CccccceeccceEEeccccc--------------cCceeEEcCchHhhhhhhhhhhccc----------------ccccc
Confidence 00124455678889999999 9999999999999999999999999 99999
Q ss_pred CceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccccccccccccccchhhccc
Q psy4067 803 RPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRK 882 (1384)
Q Consensus 803 ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 882 (1384)
.|+|+| |+|.+.|.||++++||.-.+.+.+..++.++|.
T Consensus 573 ~~lv~t---------------------G~E~~~a~e~~~~~ia~~~~~~~~ve~~~~~I~-------------------- 611 (1060)
T COG0085 573 APLVGT---------------------GMEYLDAEDSGAAVIAKRPGVVTHVEISPIVIL-------------------- 611 (1060)
T ss_pred cccccC---------------------CceeeccccccceeEeccCCcEEEEeeeeeEEE--------------------
Confidence 999999 999999999999999944333322222222221
Q ss_pred ccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCce
Q psy4067 883 FQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPM 962 (1384)
Q Consensus 883 ~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPL 962 (1384)
...+++|||++|||+|||||||+|+||++|++..|+..|.|+..|.++|+|.|+
T Consensus 612 --------------------------~~~~~~~~~~~~n~~~~n~~~~~~~~Q~~~~~~~~~~~~~d~~~~~~~~~~~P~ 665 (1060)
T COG0085 612 --------------------------GIEASLIPYPEHNQSPYNLYKFARSNQATGINQRPLVKRGDTVEKGLVYADGPS 665 (1060)
T ss_pred --------------------------eeccccCCccccCcChHHHHHHhhhhcccCCCcccceeccccccccceecCCCc
Confidence 145679999999999999999999999999999999999999999999999999
Q ss_pred eeeeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCC
Q psy4067 963 VESKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADT 1042 (1384)
Q Consensus 963 V~T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~ 1042 (1384)
+++ +++|+|||++||||||+|||+|||||||+++++||+|||++|++|++++++++.+.+|.+..|...
T Consensus 666 ~~~--------~e~~~GqN~~VA~m~~~GYn~EDAiiin~~~v~~~~~ts~~~~~~~~~~r~~~~g~e~~~~iP~~~--- 734 (1060)
T COG0085 666 VDT--------GELALGQNALVAFMPWNGYNYEDAIIISERSVERDLFTSIHIEEYETEARDTKLGPEEIRDIPNVS--- 734 (1060)
T ss_pred ccc--------CcccCCceeEEEEecccCcChhHheecccchhhcCCceEEEEEEEeeeeeccCCCccccccCCCcC---
Confidence 988 899999999999999999999999999999999999999999999999999999999987766532
Q ss_pred CCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHH
Q psy4067 1043 RKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKM 1122 (1384)
Q Consensus 1043 ~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki 1122 (1384)
...|++||+|||+++|++|++|||||||++|+.+.+ .+||++++. .|.
T Consensus 735 ---e~~~~~Lde~Gii~ig~~V~~gdilvgk~tP~~~~~----~~~ee~ll~-i~~------------------------ 782 (1060)
T COG0085 735 ---EEALRNLDEDGIIRIGAEVKGGDILVGKVTPKGETE----LTPEERLLR-IFG------------------------ 782 (1060)
T ss_pred ---HHHHhcCCccCccccccEEcCCCEEEEeeCCCCCCC----CCchhhhhc-ccc------------------------
Confidence 335899999999999999999999999999998874 566655443 221
Q ss_pred hhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEE
Q psy4067 1123 LLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLV 1202 (1384)
Q Consensus 1123 ~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i 1202 (1384)
.+++|+|+.+++.++|+||.|.+
T Consensus 783 ---------------------------------------------------------ek~rdtsl~~~~g~~G~V~~V~~ 805 (1060)
T COG0085 783 ---------------------------------------------------------EKVRDTSLRVPHGEEGIVDDVQV 805 (1060)
T ss_pred ---------------------------------------------------------ceeeccceeecCCCCeEEEEEEE
Confidence 11578899999999999999999
Q ss_pred ecCCC----CcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhh
Q psy4067 1203 SSNSE----DAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELL 1278 (1384)
Q Consensus 1203 ~~~~~----~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l 1278 (1384)
+++++ +.++|||+||++|+|++|||||||||||||||+|+|+||||||+||++||||+|||||||||||||++|++
T Consensus 806 ~~~~~~~~g~~~~vkV~v~~~R~~~~GDK~a~RHG~KGVis~i~p~eDMPf~~~G~~~DiilNP~gvPSRM~iGqilE~~ 885 (1060)
T COG0085 806 FTREDGDPGVNKLVKVYVAQKRKPQIGDKMAGRHGNKGVVSKIVPQEDMPFLEDGTPPDIILNPLGVPSRMNIGQILETH 885 (1060)
T ss_pred EeccCCCcCceEEEEEEEEEeccCCccccccccCCCCceeeeecCcccCCcCCCCCcccEEECCCCCCccccHHHHHHHH
Confidence 99877 88999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhcCCeeeeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCccceeeccCC
Q psy4067 1279 AGKAGLMEGNYKEGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGP 1358 (1384)
Q Consensus 1279 ~Gk~~~~~g~~~d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP 1358 (1384)
+||||++.|...|+|+|+|.+.+++.+.|.++||++.||+.||||+|||+|+++||||++|||||+|||+||||||||||
T Consensus 886 lG~a~~~~G~~~~~~~F~g~~~~~~~~~l~~~g~~~~Gk~~lydG~TGe~~~~~i~vG~~Y~~kL~HmV~dK~HaRs~GP 965 (1060)
T COG0085 886 LGKAAALLGIPVDTPVFDGAPEEDIRELLKEAGFPYSGKEVLYDGRTGEPFDAPIFVGVMYYQKLHHMVDDKIHARSTGP 965 (1060)
T ss_pred HHHHHHhcCceeccCCcCCCCHHHHHHHHHHcCCCCCCCEEeecCCCCCcccccEEEEehHHHhHHhhhcccceeeccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCccccccCCCc
Q psy4067 1359 RVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1359 ~~~LTrQP~eGRsr~~~~~ 1377 (1384)
||+|||||++||||+|||-
T Consensus 966 ~s~lT~QP~~Gka~~GG~R 984 (1060)
T COG0085 966 YSLVTQQPLGGKAQFGGQR 984 (1060)
T ss_pred ceeeecCCCCcccccCCcc
Confidence 9999999999999999994
No 5
>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=8.8e-150 Score=1430.21 Aligned_cols=741 Identities=25% Similarity=0.388 Sum_probs=566.4
Q ss_pred cccCCcccccccccccccCCcccccccccccceEEEEEEEeeCC----ceeeeeeeeeccccceeccccccccCCcccc-
Q psy4067 339 KEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGS----QRVVRSDLVIGRMPIMLQSSKCVLRNKTEYT- 413 (1384)
Q Consensus 339 i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~----~~~~~~~V~IG~iPIMLrS~~CvL~g~~~~i- 413 (1384)
+++++|.+ +|+|||+||+||+|||||+++++..+ +.+.+++|+||+||+|.+.+.+++||.++.+
T Consensus 70 ~~l~~P~~----------~p~Ear~r~lTYsa~l~v~v~l~~~~~~~~~~i~~~~V~iG~iPiMt~gGyFIINGsERVIV 139 (1065)
T TIGR02013 70 YRLGEPKY----------SVEECKERGLTYSAPLKVKLRLINKEEDGTKEIKEQDVYMGDIPLMTDRGTFIINGAERVVV 139 (1065)
T ss_pred EEeCCCCC----------CHHHHHHhCCCcceeEEEEEEEEEeccCCccceeeeeEEEeCCCccCCCceEEECCcEEEEE
Confidence 55666655 69999999999999999999997532 3556678999999999999999999988874
Q ss_pred -----cccc--------------eeeeeEEEeccccc-------------------cchh---hh-------HH------
Q psy4067 414 -----SSSR--------------RASTSSVTMHSQRT-------------------SPLL---SC-------KK------ 439 (1384)
Q Consensus 414 -----s~~~--------------~~s~t~i~~~~~~~-------------------~P~~---e~-------~~------ 439 (1384)
|-++ .++.+++...++|. +|+. .| +.
T Consensus 140 ~Qe~rspg~~~~~~~~~~~~~~~~~~a~iis~rgswl~~e~~~~~~i~v~i~~~~kIPi~illrALG~~sd~eI~~~i~~ 219 (1065)
T TIGR02013 140 SQLHRSPGVFFSSEKDTHKSGKVLFSARIIPYRGSWLEFETDKKDVLYVRIDRKRKLPATVLLRALGYTIDTLILNRLGS 219 (1065)
T ss_pred EEeecCCCEEEEEccccCCCCceEEEEEEEeCCCCceEEEEecCCeEEEEecCCCceeHHHHHHHcCCCcchhhhhhcCc
Confidence 1111 22333443333322 2420 00 00
Q ss_pred -------hhc--------------cccccccCCChhhHHHHhhhcccc-------ccccccccc------------hhhh
Q psy4067 440 -------LRQ--------------KRFQTYKKTPVDDARDFLSSTCIA-------HIPVINMRF------------KMKA 479 (1384)
Q Consensus 440 -------~~~--------------~~~~~~~~~~~~ea~e~L~~~~Lp-------Hv~v~~~~~------------~~Ka 479 (1384)
+.. +++........+.|+++|++.++| |++....|. ..|+
T Consensus 220 ~~~i~~~l~~~~~~~~e~Al~~i~~~~~~g~~~~~~~a~~~l~~~f~~~~rY~LghiGr~kln~Kl~~~~~~~~~~l~k~ 299 (1065)
T TIGR02013 220 GEYIRNTLRKDPTNSEEEALVEIYRKLRPGEPPTVEAARSLLENLFFDPKRYDLGRVGRYKLNKKLGLDVPEDIGVLTKE 299 (1065)
T ss_pred hHHHHHHHHhccccCHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhcCcccccccccchhhhhhhcCcCcCcccceehHH
Confidence 000 011000112347899999999876 999532211 2489
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhcc--------------c-cce---
Q psy4067 480 MYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNL--------------S-GVV--- 541 (1384)
Q Consensus 480 ~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~--------------~-~i~--- 541 (1384)
.+|+ |++++|++.+|...+||||||||||+++||+||+.||+.+|++|.+++++... + .++
T Consensus 300 d~l~-mi~~Ll~~~~g~~~~DD~Dhl~NKRvr~aGeLL~~~fr~~l~rl~k~ik~~l~~~~~~~~~~~~~i~~~~it~~i 378 (1065)
T TIGR02013 300 DIIA-TIKYLIKLRNGKGEIDDIDHLGNRRIRSVGELLQNQFRVGLARMERIVRERMSTQDTDTLTPQDLINAKPISAAI 378 (1065)
T ss_pred HHHH-HHHHHHHhhcCCCCCcchhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCHHHhcCccchHHHH
Confidence 9998 99999999999999999999999999999999999999999999999976431 0 111
Q ss_pred --eccccceeec-ccCcee-------Eeec-------Cccccc-ccCCCCCCCcccccC--CCCCeEEEecccccCCcch
Q psy4067 542 --NLVSGWWFEL-KYGNKI-------YIRS-------PSRKLL-AAGFSGPHSGRVRLM--PEGPTILLNSCLRSGGKAQ 601 (1384)
Q Consensus 542 --sl~~g~w~~~-~~~n~~-------~i~t-------~~r~~~-a~Gvh~sh~GRicp~--pEgp~i~~~~~~~~~~~~~ 601 (1384)
.|.+|-.+.. ..-|.. .+++ ..+..+ ++++|+||||||||+ ||||+|.+.
T Consensus 379 ~~ff~tgglSQ~Ldr~NpLs~lsh~RRlsslgpggl~r~~~~~~~RdlHpShyGrICPiETPEG~n~GLV---------- 448 (1065)
T TIGR02013 379 KEFFGSSQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLI---------- 448 (1065)
T ss_pred HHHhccCCcccccccCCHHHhhhhhceecccCCCCcCccccCCccCccCccccccccCCCCCCCCccccc----------
Confidence 1333322211 111211 1111 113333 577899999999999 999998552
Q ss_pred hhhHHHhhcccccccccccceeeccCCCCcccccccccceeeeEeeeccccccccccccccccCCCCCCCCCCCCCcccc
Q psy4067 602 HEALYNAVQRHATKCCTLNFLFFLGGGGILPSIQRQTTCLLTLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFL 681 (1384)
Q Consensus 602 ~~~~~~~lk~~~~~~~~~~~~~fl~~g~i~~~~~~~~~~~l~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~ 681 (1384)
++.++++. |+..+. -++|.++
T Consensus 449 --------knLA~~a~-----------------------------i~~~G~----------------------i~~P~~~ 469 (1065)
T TIGR02013 449 --------NSLSTYAR-----------------------------VNEYGF----------------------IETPYRK 469 (1065)
T ss_pred --------cchhhhcc-----------------------------cCcceE----------------------EeCCeEE
Confidence 22212000 001122 2234432
Q ss_pred cccccccccccccccccCcEEEeccCCCcceEEEeCCCCCCC----------------------ccceeecccCcccccc
Q psy4067 682 NMHQFLGFKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRP----------------------GVTTHLEIAPFTLLGV 739 (1384)
Q Consensus 682 ~~~~~~~~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~----------------------~~~th~ei~p~~~l~v 739 (1384)
+.. +. ....|.|||||++||+++.||..+..+.. ..+||+||+|.++|||
T Consensus 470 V~n---g~-----~~~~~~i~yl~a~eE~~~~Ia~~~~~l~~~~~~~~~~i~~r~~~~f~~~~~~~vt~~ei~p~~ilsv 541 (1065)
T TIGR02013 470 VKD---GK-----VVVTDEVDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYRGEITLVSPDQVDYMDVSPKQVVSV 541 (1065)
T ss_pred EEC---Ce-----EeccceeEECChHHhCCcEEEecCcCcCccCccccceeeEEEcCceeecChhHeeEEeeChhhhhhh
Confidence 211 10 23568999999999999999998876532 2569999999999999
Q ss_pred cchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCceeeccccccccCCCC
Q psy4067 740 CAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKL 819 (1384)
Q Consensus 740 ~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~ 819 (1384)
+|| ||||+||||||||+|||+|+||||| |.+|++|+|.|
T Consensus 542 ~as--------------lIPFleHNds~R~lmgsnM~kQavp----------------l~~~e~p~VgT----------- 580 (1065)
T TIGR02013 542 AAS--------------LIPFLEHDDANRALMGSNMQRQAVP----------------LLRSEAPLVGT----------- 580 (1065)
T ss_pred Hhh--------------cCCCccccCCcchhhhhhhhhhhhc----------------ccccCCCEEEc-----------
Confidence 999 9999999999999999999999999 99999999999
Q ss_pred CCCccccCCCCccchhhcccccceeEEeecccceeeeccccccccccc------ccccccccchhhcccccccccchhhh
Q psy4067 820 PAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQG------VHQLSEEKEPRLLRKFQYFDVRTPYR 893 (1384)
Q Consensus 820 p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~d~~~~~~ 893 (1384)
|+|.++|+||+++++|..++.+.|++...+.+...... .+.|.
T Consensus 581 ----------g~E~~v~~ds~~~i~a~~~G~v~~v~~~~~~~r~d~~~~~~~~~~~~y~--------------------- 629 (1065)
T TIGR02013 581 ----------GMEAKVARDSGAVIVAKRGGVVEYVDAKRIVIRYDEDEDEPDGGIDIYR--------------------- 629 (1065)
T ss_pred ----------CcchhhhccccceeEeccCCEEEEEccceEEEEecCCcccccccceEEE---------------------
Confidence 99999999999999996666655555443333221100 00011
Q ss_pred hhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceeeee----eEe
Q psy4067 894 LRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESK----TIR 969 (1384)
Q Consensus 894 ~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~----~i~ 969 (1384)
|..|..+|| .++|||+|||+|+ ..+
T Consensus 630 --------------------L~~~~~snq-------------------------------~~~~~q~Plv~~~~~v~~~~ 658 (1065)
T TIGR02013 630 --------------------LLKYQRSNQ-------------------------------DTCINQRPIVSVGDRVEAGD 658 (1065)
T ss_pred --------------------eeccccccc-------------------------------CceEEeeeeeccCCeEeeee
Confidence 333332222 5689999999994 555
Q ss_pred ec------ccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCC
Q psy4067 970 IT------NFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTR 1043 (1384)
Q Consensus 970 ~~------~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~ 1043 (1384)
++ .++++|+|+|++||||||+||||||||||||++++||+|+|.+|++|.++++++..+. +.+......
T Consensus 659 ~l~d~~~~~~~e~~~G~N~~VAvm~y~GYn~EDAiiink~~i~rg~~~s~~~~~~~~~~~~~~~g~-e~~~~~~p~---- 733 (1065)
T TIGR02013 659 VLADGPSTDLGELALGRNVLVAFMPWNGYNYEDAILISERLVKDDVFTSIHIEEYEVEARDTKLGP-EEITRDIPN---- 733 (1065)
T ss_pred EecccccccCCcCcCccceEEEEEeeecccccceEEeehhhhcCCceEEEEEEEEEEEeeccCCCc-eEeeccCCC----
Confidence 54 3899999999999999999999999999999999999999999999999988765543 333321111
Q ss_pred CCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHHh
Q psy4067 1044 KPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKML 1123 (1384)
Q Consensus 1044 ~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~ 1123 (1384)
.....|++||+||++++|++|++|||||||++|..+.. .++|.+.+...+
T Consensus 734 ~~~~~~~~Ld~dGi~~~G~~v~~gdilvgk~~p~~~~~----~~~~~~l~~~~~-------------------------- 783 (1065)
T TIGR02013 734 VSEEALRNLDENGIVRIGAEVKAGDILVGKVTPKGETE----LTPEEKLLRAIF-------------------------- 783 (1065)
T ss_pred CchhhhhccCCCCCccCccEeCCCCEEEEEecCCcccc----cChhhhhhhhhc--------------------------
Confidence 11235899999999999999999999999999864321 122221111100
Q ss_pred hhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEEe
Q psy4067 1124 LRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVS 1203 (1384)
Q Consensus 1124 irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~ 1203 (1384)
|. +...++|+|+.++..++|+||+|.++
T Consensus 784 ---------~~-------------------------------------------~~~~~~d~s~~~~~~~~g~V~~V~~~ 811 (1065)
T TIGR02013 784 ---------GE-------------------------------------------KARDVRDTSLRVPPGVEGTVIDVKVF 811 (1065)
T ss_pred ---------cc-------------------------------------------CCccccccceEccCCCCEEEEEEEEE
Confidence 00 01235788999999999999999998
Q ss_pred cCCCC-------cEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHH
Q psy4067 1204 SNSED-------AFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIE 1276 (1384)
Q Consensus 1204 ~~~~~-------~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E 1276 (1384)
.++++ .+.|||++|+.|+|++|||||||||||||||+|+|+||||||+||++|||||||||||||||||||+|
T Consensus 812 ~~~~~~~~~~~~~~~vkv~ir~~R~p~iGDKfasRHGqKGvis~i~~~eDMPf~~~G~~pDiIiNPhg~PSRMtiGqllE 891 (1065)
T TIGR02013 812 SRKQGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILE 891 (1065)
T ss_pred eccCCCccCcCccEEEEEEEeecccccccchhhhcccCceeEEeEecCCCCCccCCCCCccEEECCCCCcccccHHHHHH
Confidence 77665 57899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHhhc--CCeeeecc-CCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCcccee
Q psy4067 1277 LLAGKAGLME--GNYKEGTA-FGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHA 1353 (1384)
Q Consensus 1277 ~l~Gk~~~~~--g~~~d~t~-F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHa 1353 (1384)
|++|||+++. |...++|| |++.+.+++.+.|.++||+++|+|.||||+||++|+++||+||+|||||+|||+||+||
T Consensus 892 ~~~gka~~~~~~~~~~~~tp~f~~~~~~~~~~~l~~~g~~~~G~e~l~~G~TG~~~~~~ifvG~~yy~rL~HmV~DK~ha 971 (1065)
T TIGR02013 892 THLGWAGKRLGRKGVPIATPVFDGASEEEIKEYLEKAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLKLHHLVDDKMHA 971 (1065)
T ss_pred HHHHHHHHhccCCCeEEeccCcCCccHHHHHHHHHHcCCCCCCCEEEEcCCCCCCccccEEEeehheeechhhhcchhhh
Confidence 9999999987 67788999 99999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCccccccCCCccccccCCCc
Q psy4067 1354 RSRGPRVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1354 RsrGP~~~LTrQP~eGRsr~~~~~ 1377 (1384)
||+||++.|||||++||||.|||-
T Consensus 972 Rs~Gp~~~lT~QP~~Grsr~GG~R 995 (1065)
T TIGR02013 972 RSTGPYSLVTQQPLGGKAQFGGQR 995 (1065)
T ss_pred cccCCccceeeCCCcccccCCCee
Confidence 999999999999999999999983
No 6
>PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed
Probab=100.00 E-value=5.3e-147 Score=1411.20 Aligned_cols=446 Identities=28% Similarity=0.410 Sum_probs=371.5
Q ss_pred cceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCc
Q psy4067 725 VTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRP 804 (1384)
Q Consensus 725 ~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~P 804 (1384)
.+||+||+|.++|||+|| ||||+||||||||+|||+|+|||+| |.+|++|
T Consensus 570 ~~~~~~i~p~qi~sv~as--------------lIPFleHnda~R~lmgSnMqrQAvp----------------l~~~~~p 619 (1112)
T PRK00405 570 EVDYMDVSPKQVVSVAAS--------------LIPFLEHDDANRALMGSNMQRQAVP----------------LLRPEAP 619 (1112)
T ss_pred hceEEeechhhhceehhh--------------ccCcccccCCcchhhhhhhhhhhhh----------------hccccCC
Confidence 579999999999999999 9999999999999999999999999 9999999
Q ss_pred eeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccccccccccccccchhhccccc
Q psy4067 805 MVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQ 884 (1384)
Q Consensus 805 iv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 884 (1384)
+|.| |+|.++|+||+.+|+|..++.+.|++...+.+...
T Consensus 620 ~vgT---------------------g~e~~~~~ds~~~i~a~~~G~v~~v~~~~i~ir~~-------------------- 658 (1112)
T PRK00405 620 LVGT---------------------GMERRVARDSGAVVVAKRDGVVEYVDASRIVVRVE-------------------- 658 (1112)
T ss_pred eeec---------------------CcchhhhhhcchheEeccCCEEEEEeCCEEEEeec--------------------
Confidence 9999 99999999999999995444443333322222110
Q ss_pred ccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeee-eeccCCcee
Q psy4067 885 YFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYN-LVYAQRPMV 963 (1384)
Q Consensus 885 ~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~-L~ypQkPLV 963 (1384)
. ..++ .| +...|+ ...|+..|. ++|||+|||
T Consensus 659 ------------------------~----~~~~--~~----------------~~~~y~--L~~~~~sn~~~~~~q~Plv 690 (1112)
T PRK00405 659 ------------------------E----LDPG--ED----------------GVDIYN--LIKFQRSNQNTCINQRPIV 690 (1112)
T ss_pred ------------------------c----cccC--CC----------------CeeEEE--ecccccccccceeecceee
Confidence 0 0000 00 000111 122455555 899999999
Q ss_pred eeee----Eeec------ccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCcccee
Q psy4067 964 ESKT----IRIT------NFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRI 1033 (1384)
Q Consensus 964 ~T~~----i~~~------~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i 1033 (1384)
+|+. .+++ +++++|+|+|++||||||+||||||||||||+++|||||+|++|++|+.+++++..+.. .+
T Consensus 691 ~~~~~v~~g~~lad~~~~~~~e~~~G~N~~VA~~~y~GYn~EDaiiink~si~rg~~~s~~~~~~~~~~~~~~~~~~-~~ 769 (1112)
T PRK00405 691 KVGDRVEKGDVLADGPSTDNGELALGQNVLVAFMPWNGYNFEDAILISERLVKEDVFTSIHIEEYEIEARDTKLGPE-EI 769 (1112)
T ss_pred ecCCeEeeccEeecccccCcccccCCcceEEEEEeecccCccceEEEEhhhhccCceEEEEEeeeeeEeeccCCCce-ee
Confidence 9994 4554 79999999999999999999999999999999999999999999999999887765533 33
Q ss_pred eCCccccCCCCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecC
Q psy4067 1034 LGPLLEADTRKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSN 1113 (1384)
Q Consensus 1034 ~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~ 1113 (1384)
..... ......|++||+||++++|++|++|||||||++|..+.. .++|.+.+...+
T Consensus 770 ~~~~p----~~~~~~~~~Ld~dGi~~~G~~v~~gDiligk~~~~~~~~----~~~~~~~~~~~~---------------- 825 (1112)
T PRK00405 770 TRDIP----NVSEEALRNLDESGIVRIGAEVKPGDILVGKVTPKGETE----LTPEEKLLRAIF---------------- 825 (1112)
T ss_pred cccCC----CCChHHhhccCCCCCccCccEecCCCEEEEEecCCCccc----cChhhhhhhhhh----------------
Confidence 21111 111235899999999999999999999999999864321 222221111100
Q ss_pred cchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCc
Q psy4067 1114 SEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSV 1193 (1384)
Q Consensus 1114 ~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e 1193 (1384)
| . +...++|+|+.++..+
T Consensus 826 -------------------~-----------------------------------------~--~~~~~~d~s~~~~~~~ 843 (1112)
T PRK00405 826 -------------------G-----------------------------------------E--KARDVKDTSLRVPHGE 843 (1112)
T ss_pred -------------------c-----------------------------------------c--cccccccceEEcCCCC
Confidence 0 0 0123578899999999
Q ss_pred cceeeEEEEecC-CCC-------cEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCC
Q psy4067 1194 PSYLEKVLVSSN-SED-------AFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGY 1265 (1384)
Q Consensus 1194 ~~~vd~V~i~~~-~~~-------~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~ 1265 (1384)
+|+||+|.++.+ +++ .+.|||++|+.|+|+||||||||||||||||+|+|+||||||+||++||||||||||
T Consensus 844 ~g~V~~v~~~~~~~~~~~~~~~~~~~vkv~ir~~R~p~iGDKfasRHGqKGvis~i~~~eDMPf~~~G~~pDiIiNPhg~ 923 (1112)
T PRK00405 844 EGTVIDVKVFTRIEQGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGV 923 (1112)
T ss_pred CEEEEEEEEeeccccCCccCcCcceEEEEEEeeecccCcccchhhccCCceeEEeEeccCCCCcCCCCCCCcEEECCCCC
Confidence 999999999877 554 479999999999999999999999999999999999999999999999999999999
Q ss_pred CCccchhhhHHhhhhHHHhhcCCeeeecc-CCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccc
Q psy4067 1266 PSRMTVGKLIELLAGKAGLMEGNYKEGTA-FGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLK 1344 (1384)
Q Consensus 1266 PSRMTIGql~E~l~Gk~~~~~g~~~d~t~-F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLk 1344 (1384)
|||||||||+||++||++++.|.+ ++|| |++.+.+++.+.|.++||+++|+|+||||+||++|+++||+||+|||||+
T Consensus 924 PSRMtiGql~E~~~gk~~~~~g~~-~~tp~f~~~~~~~~~~~l~~~g~~~~G~e~l~~G~tG~~~~~~if~G~~yy~rL~ 1002 (1112)
T PRK00405 924 PSRMNIGQILETHLGWAAKGLGIK-FATPVFDGAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLKLH 1002 (1112)
T ss_pred cccccHHHHHHHHhhHHHHhcCCe-EecCccCCccHHHHHHHHHHcCcCCCCCEEEECCCCCCCCcccEEEEehhheech
Confidence 999999999999999999999987 6777 99999999999999999999999999999999999999999999999999
Q ss_pred cccCccceeeccCCccccccCCCccccccCCCc
Q psy4067 1345 HMVQDKIHARSRGPRVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1345 HMV~DKiHaRsrGP~~~LTrQP~eGRsr~~~~~ 1377 (1384)
|||+||+||||+||++.|||||++||||.|||-
T Consensus 1003 HmV~DK~haRs~Gp~~~lT~QP~~Grsr~GG~R 1035 (1112)
T PRK00405 1003 HLVDDKIHARSTGPYSLVTQQPLGGKAQFGGQR 1035 (1112)
T ss_pred hhhcchhhhcccCCccceeeCCCcccccCCCee
Confidence 999999999999999999999999999999983
No 7
>CHL00001 rpoB RNA polymerase beta subunit
Probab=100.00 E-value=7.2e-143 Score=1360.37 Aligned_cols=722 Identities=24% Similarity=0.287 Sum_probs=549.4
Q ss_pred CCcccccccccccceEEEEEEEeeCC-ceeeeeeeeeccccceeccccccccCCcccc------c------------ccc
Q psy4067 357 TPHECRLRDLTYSAPITVDIEYTRGS-QRVVRSDLVIGRMPIMLQSSKCVLRNKTEYT------S------------SSR 417 (1384)
Q Consensus 357 ~P~EcRlrd~TYsa~i~V~v~~~~~~-~~~~~~~V~IG~iPIMLrS~~CvL~g~~~~i------s------------~~~ 417 (1384)
+|.|||+||+||+||+||+++++..+ +.+.+++|+||+||+|-..+.|++||.++.+ | +..
T Consensus 65 ~p~ear~r~lTYsa~l~v~v~l~~~~~~~i~~~~V~iG~iPlMt~gG~FIING~ERVIVsQ~~rSpg~~~~~~~~~~~~~ 144 (1070)
T CHL00001 65 KERDAVYESLTYSSELYVPAGLIWKKSRDMQEQTVFIGNIPLMNSLGTFIINGIYRVVINQILRSPGIYYRSELDHNGIS 144 (1070)
T ss_pred CHHHHHHhCCCCCceeEEEEEEEEcCceeEEEeEEEEecCCccCCCcEEEEcCcEEEEEEEEeccCCEEEEEecCCCCce
Confidence 79999999999999999999998544 3466778999999999999999999998874 1 111
Q ss_pred eeeeeEEEeccccc-------------------cch---------hhhHH---h------------h-------c-----
Q psy4067 418 RASTSSVTMHSQRT-------------------SPL---------LSCKK---L------------R-------Q----- 442 (1384)
Q Consensus 418 ~~s~t~i~~~~~~~-------------------~P~---------~e~~~---~------------~-------~----- 442 (1384)
.++.+++...++|. +|+ .+-++ . . +
T Consensus 145 ~y~a~iis~rgswl~~e~d~~~~i~vri~~~~kiPi~ilLrALG~sd~eIl~~~~~~~~l~~~l~~~~~~~~~t~e~Al~ 224 (1070)
T CHL00001 145 VYTGTIISDWGGRLELEIDRKARIWARVSRKQKISILVLLSAMGLNLREILDNVCYPEIFLSFLNDKEKKKIGSKENAIL 224 (1070)
T ss_pred eEEEEEEecCCCceEEEEecCCeEEEEecCCCcccHHHHHHHcCCCHHHHHHHhCcHHHHHHHHHHHhhccccCHHHHHH
Confidence 23334444333322 242 00000 0 0 0
Q ss_pred ---cccc--cccCCChhhHHHHhhhccccc------cccccccch------hhhHHH-----HHHHHHHHHhhcCCCCCC
Q psy4067 443 ---KRFQ--TYKKTPVDDARDFLSSTCIAH------IPVINMRFK------MKAMYL-----AVMIRRMVLALSDPDMLD 500 (1384)
Q Consensus 443 ---~~~~--~~~~~~~~ea~e~L~~~~LpH------v~v~~~~~~------~Ka~yL-----g~MvRr~l~~~~~~~~~D 500 (1384)
+++. ..+....+.|+++|.+.+++| ++....|.+ .|+++| +.|+++++++..|...+|
T Consensus 225 ~i~~~l~~r~~~~~~~~~a~~~l~~~ff~~rY~Lg~vGr~~~n~kl~~~~~~~~~~L~~~Di~~~i~~Ll~l~~G~~~~D 304 (1070)
T CHL00001 225 EFYQQFACVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNMNRKLNLDIPENNTFLLPQDVLAAADYLIGMKFGMGTLD 304 (1070)
T ss_pred HHHHhhccCCCCcchHHHHHHHHHHHhccccccccccCchhhhhhhcccccccceEecHHHHHHHHHHHHHhhcCCCCcc
Confidence 0110 011123477999999999988 998877776 788878 999999999999999999
Q ss_pred CCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhcc-----------------ccce----e-ccc-cceeecccCcee
Q psy4067 501 DRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNL-----------------SGVV----N-LVS-GWWFELKYGNKI 557 (1384)
Q Consensus 501 DrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~-----------------~~i~----s-l~~-g~w~~~~~~n~~ 557 (1384)
|+|||||||+++||+||+.||+.+|+||.+.+|+... ..++ . |.+ +..+....-|..
T Consensus 305 DiDhLgNKRvr~vGeLL~~qfr~~l~r~~r~ik~~m~~~~~~~~~~~~~~lin~~~It~~ik~ff~ts~LSQflDqtNpL 384 (1070)
T CHL00001 305 DIDHLKNKRIRSVADLLQDQFGLALNRLENAVRGTICGAIRRKLIPTPQNLVTSTPLTTTYESFFGSHPLSQFLDQTNPL 384 (1070)
T ss_pred chhHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCHHHhhCcchHHHHHHhhhcCCcceeeeccCCHH
Confidence 9999999999999999999999999999999976321 0111 1 222 222222222222
Q ss_pred EeecC--------------ccccc-ccCCCCCCCcccccC--CCCCeEEEeccccc---CC-cchhhhHHHhhccccccc
Q psy4067 558 YIRSP--------------SRKLL-AAGFSGPHSGRVRLM--PEGPTILLNSCLRS---GG-KAQHEALYNAVQRHATKC 616 (1384)
Q Consensus 558 ~i~t~--------------~r~~~-a~Gvh~sh~GRicp~--pEgp~i~~~~~~~~---~~-~~~~~~~~~~lk~~~~~~ 616 (1384)
...|. .+..+ ++++|+||||||||+ ||||+|.+...|+. .. ..++++++-.+..
T Consensus 385 seltHkRRlsslGpgglsr~~a~fevRdvHpShyGRICPIETPEG~NiGLI~sLA~~A~In~~GfietP~~~v~~----- 459 (1070)
T CHL00001 385 TEIVHGRKLSSLGPGGLTGRTASFRVRDIHPSHYGRICPIDTSEGINAGLIGSLAIHARIGHWGSLESPFYEISE----- 459 (1070)
T ss_pred HhhhhhhcccccCCCCccccccCCcccccCccccccccCCCCCCcccccchhhhhhhcccccCCCcccceeeecc-----
Confidence 11122 23332 566899999999999 99999765331111 00 1112222111110
Q ss_pred ccccceeeccCCCCcccccccccceeeeEeeeccccccccccccccccCCCCCCCCCCCCCccccccccccccccccccc
Q psy4067 617 CTLNFLFFLGGGGILPSIQRQTTCLLTLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFL 696 (1384)
Q Consensus 617 ~~~~~~~fl~~g~i~~~~~~~~~~~l~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~ 696 (1384)
-.
T Consensus 460 ------------------------------------------------------------------------------~~ 461 (1070)
T CHL00001 460 ------------------------------------------------------------------------------RS 461 (1070)
T ss_pred ------------------------------------------------------------------------------cc
Confidence 00
Q ss_pred ccCcEEEeccCCCcc-----------------------------eEEEeCCCCCCCccceeecccCcccccccchhhhhh
Q psy4067 697 YEGKIEYLDVNEGND-----------------------------SHIAVSESGIRPGVTTHLEIAPFTLLGVCAGIELLQ 747 (1384)
Q Consensus 697 ~~~~~e~~~~~e~~~-----------------------------~~ia~~~~~~~~~~~th~ei~p~~~l~v~a~~~~~~ 747 (1384)
....++|+.+.|++. +.||+. ..||+||+|.+++||+||
T Consensus 462 ~~~~i~ylsa~ee~~~~Ia~g~~~~~~~~~~~~~~~~~r~~~e~~~i~~~-------~i~~~dIsP~qi~svaas----- 529 (1070)
T CHL00001 462 KEERMVYLSPSEDEYYMIAAGNSLALNQGIQEEQVVPARYRQEFLTIAWE-------QIHLRSIFPFQYFSIGAS----- 529 (1070)
T ss_pred ccceeEEccccccCceEEEeCceeeccCCccccceeEEEecCeEEEEchH-------HCcEEeeChhhhhhhhhh-----
Confidence 111233333333333 344333 359999999999999999
Q ss_pred cccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccC
Q psy4067 748 YNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQIS 827 (1384)
Q Consensus 748 ~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~ 827 (1384)
||||+||||||||+|||+|+|||+| |.+|++|+|.|
T Consensus 530 ---------LIPFleHndanRalmgsnMqrQAvp----------------ll~~~~p~VgT------------------- 565 (1070)
T CHL00001 530 ---------LIPFLEHNDANRALMGSNMQRQAVP----------------LSRSEKCIVGT------------------- 565 (1070)
T ss_pred ---------cCCCccccCcchhhhhhccchhccc----------------cccCCCCEeec-------------------
Confidence 9999999999999999999999999 99999999999
Q ss_pred CCCccchhhcccccceeEEeecccceeeecccccccccccccccccccchhhcccccccccchhhhhhhccccceeeccc
Q psy4067 828 PGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNK 907 (1384)
Q Consensus 828 ~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k 907 (1384)
|+|.++|+||+.+|+|..++.+.|++.+.|+|.+.+. ...|.
T Consensus 566 --G~E~~~~~ds~~~i~a~~~G~V~~vd~~~I~i~~~~~-~~~y~----------------------------------- 607 (1070)
T CHL00001 566 --GLERQVALDSGVVAIAEHEGKIIYTDTDKIILSGNGD-TLSIP----------------------------------- 607 (1070)
T ss_pred --CcchhhhhcccceeEEccCCEEEEEeCCEEEEEcCCC-eEEEE-----------------------------------
Confidence 9999999999999999666666665555555543111 01111
Q ss_pred cCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceeeeeeEee----------cccCCCC
Q psy4067 908 RFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRI----------TNFHKLP 977 (1384)
Q Consensus 908 ~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i~~----------~~~~elp 977 (1384)
|..|..+||.. +++|||||+++..-- +.++++|
T Consensus 608 ------l~~y~rsnq~t-------------------------------~~~QkPlV~~g~~v~~g~~ladg~~~~~gel~ 650 (1070)
T CHL00001 608 ------LVMYQRSNKNT-------------------------------CMHQKPQVRRGKCVKKGQILADGAATVGGELA 650 (1070)
T ss_pred ------eeceeccCCCc-------------------------------ccccCCEEecCCEEccCCEeccChhhcccccc
Confidence 56666666643 679999999994321 3489999
Q ss_pred CCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCCCCcccccccCCCCc
Q psy4067 978 AGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYRHRALDQDGI 1057 (1384)
Q Consensus 978 ~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGi 1057 (1384)
+|+|++||||||+||||||||||||++++||+|+|++|++|+++++++..+. |.+....+. .....|++||+||+
T Consensus 651 ~G~N~~VA~m~~~GYn~EDAiiin~~~v~~g~~~s~~~~~~~~~~~~~~~g~-e~i~~~~p~----~~~~~~~~Ld~dGi 725 (1070)
T CHL00001 651 LGKNVLVAYMPWEGYNFEDAVLISERLVYEDIYTSFHIRKYEIQTHVTSQGP-ERITKEIPH----LEAHLLRNLDKNGI 725 (1070)
T ss_pred CCccceeeeeeccccccchhhhhhhhhhcCCceEEEEEeeeeEEEeccCCCc-ceEeccCCC----CchhhhhccCCCCC
Confidence 9999999999999999999999999999999999999999999998776553 555431111 11235899999999
Q ss_pred ccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHHhhhcccccccccccc
Q psy4067 1058 VAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFS 1137 (1384)
Q Consensus 1058 v~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfs 1137 (1384)
+++|++|++|||||||++|....+ ...+||.+.+.+.|..
T Consensus 726 ~~~G~~v~~gDilvgK~~p~~~~~--~~~~~~~~~~~~if~~-------------------------------------- 765 (1070)
T CHL00001 726 VMLGSWVETGDILVGKLTPQEAEE--SSYAPEGRLLRAIFGI-------------------------------------- 765 (1070)
T ss_pred ccCCcEecCCCEEEEEecCCcccc--cccCcchhhhhhhhcc--------------------------------------
Confidence 999999999999999999962111 1233443333222210
Q ss_pred ccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEEec----CCCCcEEEE
Q psy4067 1138 SRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSS----NSEDAFLIK 1213 (1384)
Q Consensus 1138 sRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~----~~~~~~~vk 1213 (1384)
+...++|+++.++..++|+|++|.+.. +.++.+.||
T Consensus 766 ----------------------------------------~~~~~~d~sl~~~~~~~g~V~~v~~~~~~~~~~~~~~~vk 805 (1070)
T CHL00001 766 ----------------------------------------QVSTSKETCLKLPIGGRGRVIDVRWIQKKGGSSYNPETIH 805 (1070)
T ss_pred ----------------------------------------ccCcceeCeEECCCCCceEEEEEEEEecccCCCCCcEEEE
Confidence 112357788889999999999999877 345678999
Q ss_pred EEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCeeeec
Q psy4067 1214 MLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYKEGT 1293 (1384)
Q Consensus 1214 V~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~d~t 1293 (1384)
|++|+.|+|++|||||||||||||||+|+|+|||||++||++|||||||||||||||||||+||++||||++.|...|+|
T Consensus 806 v~i~~~R~~~vGDK~asRHGqKGvvs~i~~~eDMPf~~dG~~pDiIlNP~gvPSRMtiGqllE~~~G~a~~~~g~~~~~~ 885 (1070)
T CHL00001 806 VYILQKREIQVGDKVAGRHGNKGIISKILPRQDMPYLQDGTPVDMVLNPLGVPSRMNVGQIFECLLGLAGDLLNRHYRIA 885 (1070)
T ss_pred EEEEEEecCCCCcccccccCCcceEeeeecccCCCcccCCCCCceeeccccccccccHHHHHHHHhHHHHhhcCceeeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCHHHHH-----HHHHHcCC----------CCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCccceeeccCC
Q psy4067 1294 AFGGTKLVDVQ-----EELIRHGY----------NYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGP 1358 (1384)
Q Consensus 1294 ~F~~~~~~~i~-----~~L~~~G~----------~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP 1358 (1384)
||++...++++ ..|.++|+ ++.||+.||||+||++|+++||+||+|||||+|||+|||||||+||
T Consensus 886 pf~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Gk~~l~dG~TG~~~~~~i~vG~~Yy~kL~HmV~DKihaRs~Gp 965 (1070)
T CHL00001 886 PFDERYEQEASRKLVFSELYEASKQTANPWVFEPEYPGKSRLFDGRTGDPFEQPVTIGKAYILKLIHQVDDKIHARSSGP 965 (1070)
T ss_pred cCCCcchhhhhhhhhhHHHHHHHHhcCCceeccCCCCCeEEEEcCCCCCCccceEEEEecceeEchhhccccceeeccCC
Confidence 99988887777 56777776 4459999999999999999999999999999999999999999999
Q ss_pred ccccccCCCccccccCCCc
Q psy4067 1359 RVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1359 ~~~LTrQP~eGRsr~~~~~ 1377 (1384)
|+.|||||++||||.|||-
T Consensus 966 ~~~lT~QP~~Grsr~GG~R 984 (1070)
T CHL00001 966 YALVTQQPLRGRSKQGGQR 984 (1070)
T ss_pred CcccccCCCCcccCCCCee
Confidence 9999999999999999983
No 8
>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=1.3e-139 Score=1329.44 Aligned_cols=648 Identities=42% Similarity=0.670 Sum_probs=523.9
Q ss_pred cccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCce-eeeeeeeeccccceeccccccccCCccc-----
Q psy4067 339 KEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQR-VVRSDLVIGRMPIMLQSSKCVLRNKTEY----- 412 (1384)
Q Consensus 339 i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~-~~~~~V~IG~iPIMLrS~~CvL~g~~~~----- 412 (1384)
+.+++|.+.+. ...++++|+|||+|++||+||++|+++++..+.. ..++.|+||+||||++|+.|+|+|+++.
T Consensus 43 i~i~~P~~~~~-~~~~~l~P~ecRlr~lTYs~~l~v~i~~~~~~~~~~~~~~v~iG~iPIMv~S~~C~L~~~~~~el~~~ 121 (866)
T cd00653 43 IYLGKPKVEEG-GVTRKLTPNECRLRDLTYSAPLYVDIRLTVNDKGKIKEQEVFIGEIPIMLRSKLCNLNGLTPEELIKL 121 (866)
T ss_pred EEECCcccccc-CccccCCHHHHHhhCCccceeEEEEEEEEEecceeEEEEEEEEeeCCcccCcccccccCCCHHHHHhc
Confidence 45777887665 4557899999999999999999999999865544 3667899999999999999999999884
Q ss_pred ------------ccccce--------eeeeEEEeccccc-------cch--------hhhHHhh-cccccc-ccCCChhh
Q psy4067 413 ------------TSSSRR--------ASTSSVTMHSQRT-------SPL--------LSCKKLR-QKRFQT-YKKTPVDD 455 (1384)
Q Consensus 413 ------------is~~~~--------~s~t~i~~~~~~~-------~P~--------~e~~~~~-~~~~~~-~~~~~~~e 455 (1384)
++++++ +.+.++....... .+. .+.+.+. ...++. -...+.++
T Consensus 122 ~E~p~d~GGYFIInG~EkVIi~qi~~~~N~~~~~~~~~~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~i~~~i~~~~~~~ 201 (866)
T cd00653 122 GECPLDPGGYFIINGTEKVIINQEQRSPNVIIVEDSKGKRIYTKTSIPSYSPYRGSWLEVKSDKKKDRIYVRIDLKRQEE 201 (866)
T ss_pred CCCcccCCCEEEECCceeEEEEEEeccCCeEEEecCCCcEEEEEEEccCCCcCccEEEEEEEccCCCeEEEEecccCHHH
Confidence 255553 3333221100000 000 0000010 111221 01112577
Q ss_pred HHHHhhhccccccccccccchhhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhh
Q psy4067 456 ARDFLSSTCIAHIPVINMRFKMKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKET 535 (1384)
Q Consensus 456 a~e~L~~~~LpHv~v~~~~~~~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~ 535 (1384)
|++.|.+.+ .+|++|+|+++++..|...+||||||+|||+++||+||+.||++.|+++++.+++.
T Consensus 202 al~~ig~~~---------------~~L~~Mi~kLl~~~~g~~~~Dd~D~~~NkRv~~~G~Ll~~lfr~~l~~~~~~~k~~ 266 (866)
T cd00653 202 ALKYIGKRF---------------EDLIYMIRKLILLVLGKGKLDDIDHLGNKRVRLAGELLQNLFRSGLKRLEREVKEK 266 (866)
T ss_pred HHHHHHHHH---------------HHHHHHHHHHHHHhcCCCCCCCchhhhCeEEeeHHHHHHHHHHHHHHHHHHHHHHH
Confidence 888777775 89999999999999999999999999999999999999999999999999998653
Q ss_pred c---------------------cccc-eeccccceeeccc-----C--------ceeEeec------------Ccccccc
Q psy4067 536 N---------------------LSGV-VNLVSGWWFELKY-----G--------NKIYIRS------------PSRKLLA 568 (1384)
Q Consensus 536 ~---------------------~~~i-~sl~~g~w~~~~~-----~--------n~~~i~t------------~~r~~~a 568 (1384)
. +.++ ..|+||+|..... | |.....| +.+.+.+
T Consensus 267 l~~~~~~~~~~~~~~~~~~~~It~~i~~~~~TGnw~~~~~~~~~~Gvsq~ldr~N~ls~lsh~Rrv~~~~~~~~~k~~~~ 346 (866)
T cd00653 267 LQKQLSKKKDLTPQLLINSKPITSGIKEFLATGNWGSKRFLMQRSGLSQVLDRLNPLSELSHKRRISSLGLFRERKGFEV 346 (866)
T ss_pred HHhhhhcccccCHHHhccchHHHHHHHHHhhcCCccccccccccceEEEEcccCCHHHHHHhhhhcccccccccccCCcc
Confidence 2 1122 3588999987542 1 1110001 1122225
Q ss_pred cCCCCCCCcccccC--CCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeeccCCCCcccccccccceeeeEe
Q psy4067 569 AGFSGPHSGRVRLM--PEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLGGGGILPSIQRQTTCLLTLIL 646 (1384)
Q Consensus 569 ~Gvh~sh~GRicp~--pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~~g~i~~~~~~~~~~~l~~v~ 646 (1384)
+.+|++|||++||+ |||+.+-+ +++.+++| .
T Consensus 347 R~lhps~~G~iCPveTPEG~~cGL------------------v~~LA~~a---------------------------~-- 379 (866)
T cd00653 347 RDLHPSHWGRICPIETPEGENCGL------------------VKNLALMA---------------------------R-- 379 (866)
T ss_pred cccCcccCCccCCCCCCCCccccc------------------hhhhhceE---------------------------e--
Confidence 66899999999999 99999844 23322211 0
Q ss_pred eeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEeccCCCcceEEEeCCCCCCCccc
Q psy4067 647 FSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRPGVT 726 (1384)
Q Consensus 647 v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~~~~ 726 (1384)
| +||-+||++.+. ..+
T Consensus 380 I------------------------sGr~~rP~~~v~----------------------------------------~~~ 395 (866)
T cd00653 380 I------------------------SGRIERPYRIVE----------------------------------------KEV 395 (866)
T ss_pred e------------------------eeEeeeeEEEec----------------------------------------cce
Confidence 0 166677776321 258
Q ss_pred eeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCcee
Q psy4067 727 THLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMV 806 (1384)
Q Consensus 727 th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv 806 (1384)
||+||+|+++||++|| ||||+||||||||||||||+|||||+|++|+++|+|++.|+|+|||+|||
T Consensus 396 th~ei~~~~~ls~~as--------------liPf~~hNqspRn~~~~~M~kQa~g~~~~n~~~r~d~~~~~l~~pq~plv 461 (866)
T cd00653 396 THIEISPSQILSVAAS--------------LIPFPEHNQSPRNLYQSNMQKQAVGTPALNQQYRMDTKLYLLLYPQKPLV 461 (866)
T ss_pred EEEEeCccceeeeeee--------------ccCCCCcccccchhhhhcccCCccCchhccccccccchheeeccCCCCcc
Confidence 9999999999999999 99999999999999999999999999999999999999999999999999
Q ss_pred eccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccccccccccccccchhhccccccc
Q psy4067 807 ESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYF 886 (1384)
Q Consensus 807 ~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 886 (1384)
+|..++.+
T Consensus 462 ~T~~~~~~------------------------------------------------------------------------ 469 (866)
T cd00653 462 GTGIEEYI------------------------------------------------------------------------ 469 (866)
T ss_pred ccchHHHh------------------------------------------------------------------------
Confidence 99443332
Q ss_pred ccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceeeee
Q psy4067 887 DVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESK 966 (1384)
Q Consensus 887 d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~ 966 (1384)
T Consensus 470 -------------------------------------------------------------------------------- 469 (866)
T cd00653 470 -------------------------------------------------------------------------------- 469 (866)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred eEeecccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCCCCc
Q psy4067 967 TIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPV 1046 (1384)
Q Consensus 967 ~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~ 1046 (1384)
+++++|+|+|++||||||+|||||||||+||+++||||||+.+|++|.++++++.....+.+... ......
T Consensus 470 -----~~~~~~~G~N~~VAv~~y~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~ 540 (866)
T cd00653 470 -----AFGELPLGQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSIHYKKYEIELRKTKNGPEEITRGD----IPNVSE 540 (866)
T ss_pred -----CCCccCCCceEEEEEeccccccccceeeeehhhhhcCceeEEEEEEEEEEEEecCCCcceEecCC----CCCCCh
Confidence 12678899999999999999999999999999999999999999999999988766555443311 111223
Q ss_pred ccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHHhhhc
Q psy4067 1047 YRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQ 1126 (1384)
Q Consensus 1047 ~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq 1126 (1384)
..|++||+||++++|++|++||||+||++|....+ .. + +
T Consensus 541 ~~~~~ld~dGi~~~g~~v~~gd~li~k~~~~~~~~---------~~---------~--~--------------------- 579 (866)
T cd00653 541 EKLKNLDEDGIIRPGARVEPGDILVGKITPKGETE---------ST---------P--I--------------------- 579 (866)
T ss_pred HHhhccCCCCCcCCCCEecCCCEEEEEecCccccc---------cc---------c--c---------------------
Confidence 45899999999999999999999999998853221 00 0 0
Q ss_pred cccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEEec--
Q psy4067 1127 TRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSS-- 1204 (1384)
Q Consensus 1127 ~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~-- 1204 (1384)
| . .+....+|.++.++..++|+||+|.++.
T Consensus 580 ------------------------------~-----------------~-~~~~~~~~~~~~~~~~~~g~v~~v~~~~~~ 611 (866)
T cd00653 580 ------------------------------F-----------------G-EKARDVRDTSLKYPGGEKGIVDDVKIFSRE 611 (866)
T ss_pred ------------------------------c-----------------c-ccCCcceEEEEEecCCCceEEEEEEEeccc
Confidence 0 0 0112357788999999999999999988
Q ss_pred -CCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHH
Q psy4067 1205 -NSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAG 1283 (1384)
Q Consensus 1205 -~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~ 1283 (1384)
+.++...|||++|+.|+|+||||||||||||||||+|+|+||||||+||++|||||||||||||||||||+|+++||++
T Consensus 612 ~~~~~~~~v~v~~r~~R~p~iGDKfssRhGqKGv~s~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~ 691 (866)
T cd00653 612 LNDGGNKLVKVYIRQKRKPQIGDKFASRHGQKGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLESLLGKAG 691 (866)
T ss_pred cCCCCcEEEEEEEeEEecCCcccccccccCCCcEEEEEeccccCCcccCCCCCcEEecCCcCcccccHHHHHHHHHHHHH
Confidence 5678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCeeeeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCccceeeccCCccccc
Q psy4067 1284 LMEGNYKEGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLT 1363 (1384)
Q Consensus 1284 ~~~g~~~d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LT 1363 (1384)
++.|.+.|+|||++...+++.+.|.++||+++|+|.||||+||++++++||+||+|||||+|||+||+|||++||++.||
T Consensus 692 ~~~g~~~d~t~f~~~~~~~~~~~l~~~g~~~~G~e~~y~g~tG~~~~~~if~G~~yyqrL~Hmv~DK~~~R~~Gp~~~lT 771 (866)
T cd00653 692 ALLGKFGDATPFDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEPLEAPIFVGPVYYQRLKHMVDDKIHARSTGPYSLLT 771 (866)
T ss_pred HhcCCcccccccCcchHHHHHHHHHHcCCCCCCcEEEEcCCCCCCcccceEEeehhhhhhhhhhchhhhhcccCCcchhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCccccccCCCc
Q psy4067 1364 RQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1364 rQP~eGRsr~~~~~ 1377 (1384)
|||++||||.|||-
T Consensus 772 ~QP~~Gr~~~GG~R 785 (866)
T cd00653 772 RQPLKGRSRGGGQR 785 (866)
T ss_pred cCcCccccccCCeE
Confidence 99999999999983
No 9
>KOG0216|consensus
Probab=100.00 E-value=3.2e-136 Score=1206.45 Aligned_cols=759 Identities=30% Similarity=0.439 Sum_probs=617.3
Q ss_pred CEEEEEeecCcccCCccccccc--ccccccCCcccccccccccceEEEEEEEeeCCceeeeeeeeeccccceeccccccc
Q psy4067 329 GILAGITCHHKEVCKPEIEESF--NYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVVRSDLVIGRMPIMLQSSKCVL 406 (1384)
Q Consensus 329 G~~vG~~~~~i~ig~Psv~e~~--~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~~~~V~IG~iPIMLrS~~CvL 406 (1384)
|.-+-+.-..+.+.+|.+.... ...|+++|.|||.|.+||++.+.|++.|..++..+...+..+|.+||||||+.|+|
T Consensus 51 g~kis~~ve~i~iakP~l~~~~~ss~~r~lyPaEcRqR~~TY~Gkl~v~v~wsVNg~~~~~e~~dlG~vPIMlrSklChL 130 (1111)
T KOG0216|consen 51 GDKISMKVESIQIAKPMLSDKVHSSDTRKLYPAECRQRGLTYKGKLVVRVSWSVNGGHVVIEKRDLGHVPIMLRSKLCHL 130 (1111)
T ss_pred CCceeEEEEEEEecCCCCCccccccccccccchhHhhccceecceEEEEEEEEECCeeeeeeeeecCccceEEecccccc
Confidence 4444455556778889887643 34689999999999999999999999999999888788889999999999999999
Q ss_pred cCCccc-----------------ccccce---------------------------------------------------
Q psy4067 407 RNKTEY-----------------TSSSRR--------------------------------------------------- 418 (1384)
Q Consensus 407 ~g~~~~-----------------is~~~~--------------------------------------------------- 418 (1384)
+|+++. +|++++
T Consensus 131 ~g~sp~eLV~hkEe~~EmGGYFIvNGIEKvIRmLIm~RRNHPiAiIR~Sfk~RG~~yS~yGVsmRcVReDqSsvtn~LHY 210 (1111)
T KOG0216|consen 131 NGASPKELVKHKEESSEMGGYFIVNGIEKVIRMLIMPRRNHPIAIIRPSFKDRGSSYSDYGVSMRCVREDQSSVTNVLHY 210 (1111)
T ss_pred CCCChHHHhhccCchhhcCcEEEEcChHHhhhhheeccCCCceEEechhhhhcCCCccccceEEEEeccccccceeEEEE
Confidence 999885 133331
Q ss_pred ---eeeeEEEeccccc--cch---hhh-------HH---------------------hh-----------------cccc
Q psy4067 419 ---ASTSSVTMHSQRT--SPL---LSC-------KK---------------------LR-----------------QKRF 445 (1384)
Q Consensus 419 ---~s~t~i~~~~~~~--~P~---~e~-------~~---------------------~~-----------------~~~~ 445 (1384)
.++..-+.|+... +|+ .+| ++ ++ ..+|
T Consensus 211 LnnGtv~~~F~~rK~eylvPv~lILKAL~~tsDeEIf~~lv~g~~gdqfl~~rv~~mLr~v~ee~l~trtqcl~yLGs~F 290 (1111)
T KOG0216|consen 211 LNNGTVMFRFSHRKREYLVPVVLILKALTNTTDEEIFEGLVGGDEGDQFLTSRVELMLREVQEENLFTRTQCLQYLGSRF 290 (1111)
T ss_pred ecCCcEEEEEEEeeeeehhhHHHHHHHHhccCHHHHHHHHhCCccCceeHHHHHHHHHHHHhhcccccHHHHHHHHhhhh
Confidence 1111112233222 453 111 00 00 0234
Q ss_pred cc-----ccCCChhhHHHHhhhccccccccccccchhhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHH
Q psy4067 446 QT-----YKKTPVDDARDFLSSTCIAHIPVINMRFKMKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLM 520 (1384)
Q Consensus 446 ~~-----~~~~~~~ea~e~L~~~~LpHv~v~~~~~~~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~l 520 (1384)
++ ......|-|+.+|+++++-|+.- ...|.-.|.+|+|+++....|...+||.|-..|..+-|.|.|++..
T Consensus 291 RaVl~~v~~~~D~evg~fILr~~VlvHLd~----~~DKF~lLifmiqKL~slv~ge~~~dnpDs~q~qEil~~ghl~~~~ 366 (1111)
T KOG0216|consen 291 RAVLDFVPEQPDLEVGRFILREYVLVHLDS----DEDKFNLLIFMIQKLYSLVDGECTPDNPDSPQNQEILLPGHLYGSI 366 (1111)
T ss_pred hhhhcCCCCCchHHHHHHHHHhheEEEecc----cHHHHHHHHHHHHHHHHHhcCCcCCCCCCChhhhhcccccchHHHH
Confidence 32 11122356677999999999975 4678899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHH----HHHhhccc--cceeccccceeecccCce-eEeecCcccccccCCCCCCCcccccCCCCCeEEEec-
Q psy4067 521 FEDVFKRFNS----ELKETNLS--GVVNLVSGWWFELKYGNK-IYIRSPSRKLLAAGFSGPHSGRVRLMPEGPTILLNS- 592 (1384)
Q Consensus 521 Fe~~fk~~~~----~~k~~~~~--~i~sl~~g~w~~~~~~n~-~~i~t~~r~~~a~Gvh~sh~GRicp~pEgp~i~~~~- 592 (1384)
+++-.+.|.+ .+|+.... .-.++.+-..-.....+. ..|-+.--+++++|...+++|+..|+..|..++++.
T Consensus 367 LkEriEe~l~~~~~~vr~~l~~~~~~~~~~~~~~i~~~~~r~~~~Ig~~me~fLsTGnl~s~sgldLqQ~sG~tv~AEri 446 (1111)
T KOG0216|consen 367 LKERIEEWLRFISAQVRRDLYKLGFKEDFLDISAIRKVFMRTNGNIGRKMEYFLSTGNLVSRSGLDLQQTSGYTVVAERI 446 (1111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCchhHhHHHHHHHHhhccccHHHHHHHHHhcCCeeeccchhhHhhcCcEEehhhh
Confidence 9999999988 44443211 001111000000000000 111111256668888899999999888788887754
Q ss_pred -------ccccCCcchhhhHHHhhcccccccccccceeec-----cCCCCcccccc-cccceeee---------------
Q psy4067 593 -------CLRSGGKAQHEALYNAVQRHATKCCTLNFLFFL-----GGGGILPSIQR-QTTCLLTL--------------- 644 (1384)
Q Consensus 593 -------~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl-----~~g~i~~~~~~-~~~~~l~~--------------- 644 (1384)
|||..++. ++|..+++..++++.+++|+|| ++|.||+++|| .++|-.++
T Consensus 447 Nf~RflShFRavhRG---a~f~~mrTTtvRKLlPEsWGFlCPVHTPDG~PCGlLnH~t~~c~I~t~~dd~s~ip~~L~~~ 523 (1111)
T KOG0216|consen 447 NFYRFLSHFRAVHRG---AFFAEMRTTTVRKLLPESWGFLCPVHTPDGAPCGLLNHMTRTCRIVTRPDDVSFIPSILFEL 523 (1111)
T ss_pred hHHHHHHHHHHHhcc---cchhheeehhhHhhCchhhcccccccCCCCCchhHHHhhhhheeEeecCcchhhhhHHHHhc
Confidence 88888777 8888999999999999999999 89999999999 77887743
Q ss_pred ---------------Eeeeccccc---------ccccccccccc-----------CCCCCCCCCCCCCcccccccccccc
Q psy4067 645 ---------------ILFSLNGDG---------KRGARNSQQYC-----------DCPDGYSSGCQPRPTFLNMHQFLGF 689 (1384)
Q Consensus 645 ---------------v~v~~~~~l---------~~~~r~~r~~~-----------d~~~~~~~gr~~rPl~~~~~~~~~~ 689 (1384)
.+|.+|+++ +.+.+.+|.|+ +|+++|++-+.++|++|-++...++
T Consensus 524 Gm~p~~~~~~~G~~l~~VlldGk~vG~~s~~~a~~i~~~lR~~Kv~~p~~iP~~leIg~Vp~s~~gqyPglyi~s~~aR~ 603 (1111)
T KOG0216|consen 524 GMVPSSHLVEAGEPLYPVLLDGKVVGWVSSPLAKKIVDYLRYYKVEAPAVIPNDLEIGYVPTSTNGQYPGLYIFSGPARM 603 (1111)
T ss_pred CCCchhccccCCCceeEEEECCEEEEeeccHHHHHHHHHHHHHhhcCcccCCCcceEeeeecCCCCCCceeEEecCchhh
Confidence 178888765 33455555553 6888999999999999988877778
Q ss_pred cccccccccCcEEEeccCCCcceEEEeCCCCCCCccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccc
Q psy4067 690 KRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRPGVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRN 769 (1384)
Q Consensus 690 ~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn 769 (1384)
.|....+.-|.+|||++.||.++.||+.+.++.++++||.|++|+.+||++|+ |||||||||||||
T Consensus 604 ~RpV~nl~~~~~e~iG~fEQvym~i~~~~~e~~~~v~th~E~~pt~~ls~~an--------------liP~sD~NQSPRN 669 (1111)
T KOG0216|consen 604 IRPVKNLSLDSVEWIGPFEQVYMNIAIDPKEIFPDVTTHVELHPTGILSIVAN--------------LIPFSDHNQSPRN 669 (1111)
T ss_pred hhehhccccCchhhcccHHHhhhhhccchhhcCCCcceeEEecccchHhHhhc--------------CccccccCCCchh
Confidence 88888899999999999999999999999999999999999999999999999 9999999999999
Q ss_pred hhhhhhccccccccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeec
Q psy4067 770 TYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISF 849 (1384)
Q Consensus 770 ~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~ 849 (1384)
||||||||||||+|+++|+.|+|+|+|+|++||+|+||+++|+.|++|+||+|.
T Consensus 670 mYQCQMgKQtmg~p~~a~~~radnklYrlqt~qsP~vr~~~y~~y~~d~yp~Gt-------------------------- 723 (1111)
T KOG0216|consen 670 MYQCQMGKQTMGTPGHALRTRADNKLYRLQTPQSPIVRPELYDTYGMDDYPNGT-------------------------- 723 (1111)
T ss_pred HHHhhhhhhhcCCccccchhcccCceEEecCCCCceeecccccccccccCCCCc--------------------------
Confidence 999999999999999999999999999999999999999999999999888884
Q ss_pred ccceeeecccccccccccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhh
Q psy4067 850 SISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQ 929 (1384)
Q Consensus 850 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq 929 (1384)
T Consensus 724 -------------------------------------------------------------------------------- 723 (1111)
T KOG0216|consen 724 -------------------------------------------------------------------------------- 723 (1111)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hcccccccceeeeccccceeeeeeeeeccCCceeeeeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccCC
Q psy4067 930 CAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGF 1009 (1384)
Q Consensus 930 ~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~ 1009 (1384)
||+|||.||+||++|||+|+||+|++|||
T Consensus 724 ---------------------------------------------------NaiVAVisyTgyDMeDAmiiNK~s~eRGf 752 (1111)
T KOG0216|consen 724 ---------------------------------------------------NAIVAVISYTGYDMEDAMIINKSSYERGF 752 (1111)
T ss_pred ---------------------------------------------------ceEEEEEeecccChhhhhhhchhhhhccc
Confidence 56788899999999999999999999999
Q ss_pred ceeeEEecceeeeeecCCCccceeeCCccccCCCCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCc
Q psy4067 1010 GRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPE 1089 (1384)
Q Consensus 1010 ~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e 1089 (1384)
+...+|++.++.+.+.... ...|.. ..++|. ..+||+||++.+|.++..||.+.--...
T Consensus 753 ~~G~vykte~i~L~~~~~r-~~~F~~-----~p~~~~--~~~ld~dgLP~~G~kl~~~dp~~~y~d~------------- 811 (1111)
T KOG0216|consen 753 AYGTVYKTEKIDLSKKRSR-SKHFGR-----SPGEPE--LKKLDADGLPSIGQKLEYGDPYYAYFDE------------- 811 (1111)
T ss_pred cceeEEeeeeechhhcccc-eeeeee-----CCCCcc--ccccCCCCCCCCcccccCCCcEEEEEcc-------------
Confidence 9999999988766432211 111111 122232 6789999999999999999876532110
Q ss_pred cccccccccccccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeC
Q psy4067 1090 YKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMN 1169 (1384)
Q Consensus 1090 ~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiN 1169 (1384)
T Consensus 812 -------------------------------------------------------------------------------- 811 (1111)
T KOG0216|consen 812 -------------------------------------------------------------------------------- 811 (1111)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCCCCcccccceeeecccccCCccceeeEEEEecCCCCc--EEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCC
Q psy4067 1170 PHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSSNSEDA--FLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDM 1247 (1384)
Q Consensus 1170 P~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~~~~~~--~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDM 1247 (1384)
..++. -...|.+.|+++||.|.+..++.+. +.+-|.+|..|.|.||||||||||||||||..||.+||
T Consensus 812 --------~t~~~--~~~~~~~~ep~~vd~vr~~~~~~~~~~k~~~i~~Ri~R~p~IGDKFsSRhGQKGicS~~wP~~dm 881 (1111)
T KOG0216|consen 812 --------ETGKT--RIKKYHGTEPGIVDEVRVLGNDMGDQEKCATITLRIPRNPIIGDKFSSRHGQKGICSQKWPTIDM 881 (1111)
T ss_pred --------cCCce--EEEEecCCCCeeeEEEEEccccCCCccceEEEEEEecCCCcccchhhhhccccccccccCCCCCC
Confidence 00011 1235778889999999988887665 78999999999999999999999999999999999999
Q ss_pred CCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCeeeeccCC----CCCHHHHHHHHHHcCCCCCCceEEeeC
Q psy4067 1248 PFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYKEGTAFG----GTKLVDVQEELIRHGYNYQGKDIFYSG 1323 (1384)
Q Consensus 1248 Pft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~d~t~F~----~~~~~~i~~~L~~~G~~~~Gke~lydG 1323 (1384)
|||+.|++|||||||||||||||||+++|+++||+||+.|...|+|||. ...++.+.+.|.++||+++|+|.||+|
T Consensus 882 PFtesGm~PDii~NPH~FPSRMTIgM~iEs~AgK~~alhG~~~Datpf~~~E~~t~~dyfg~~L~~~GyNyyGnE~~YSG 961 (1111)
T KOG0216|consen 882 PFTESGMVPDIIINPHAFPSRMTIGMLIESMAGKAGALHGNAQDATPFIFSEENTAIDYFGEMLKKAGYNYYGNEPMYSG 961 (1111)
T ss_pred CccccCcCcceeeCCCCCcccccHHHHHHHHhchhhccccccccCCceeecCcccHHHHHHHHHHHcCcCccCCcccccc
Confidence 9999999999999999999999999999999999999999999999994 235788999999999999999999999
Q ss_pred CCCcEEEeeEeEeeehhhccccccCccceeeccCCccccccCCCccccccCCC
Q psy4067 1324 ITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLTRQPTGRRWKLTFT 1376 (1384)
Q Consensus 1324 ~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LTrQP~eGRsr~~~~ 1376 (1384)
.+|+.+++.||+|++|||||+|||.||+++|++||+..+|+||++||+|.||-
T Consensus 962 v~G~e~~adIf~GvVyYQRLrHMv~DKfQVRstG~v~~~T~QPvkGRkr~GGi 1014 (1111)
T KOG0216|consen 962 VDGREMRADIFFGVVYYQRLRHMVSDKFQVRSTGPVDSLTHQPVKGRKRGGGI 1014 (1111)
T ss_pred cccceeeeeEEEeehhHHHHHHHhcceeeeeeccCccccccCCccCcccCCCc
Confidence 99999999999999999999999999999999999999999999999999983
No 10
>CHL00207 rpoB RNA polymerase beta subunit; Provisional
Probab=100.00 E-value=1.7e-134 Score=1277.57 Aligned_cols=729 Identities=24% Similarity=0.343 Sum_probs=563.4
Q ss_pred cCCcccccccccccceEEEEEEEeeCCc-eeeeeeeeeccccceeccccccccCCcccc------------------ccc
Q psy4067 356 TTPHECRLRDLTYSAPITVDIEYTRGSQ-RVVRSDLVIGRMPIMLQSSKCVLRNKTEYT------------------SSS 416 (1384)
Q Consensus 356 i~P~EcRlrd~TYsa~i~V~v~~~~~~~-~~~~~~V~IG~iPIMLrS~~CvL~g~~~~i------------------s~~ 416 (1384)
++|.||++|++||+||+||+++++.++. .+.+++|++|+||+|-..++|++||.++.+ ++.
T Consensus 59 ~~~~Ea~~r~~TYsa~l~v~~~l~~~~~~~i~~~~V~lG~iPlMT~~GtFIING~ERViVsQl~RSPGiyf~~~~~k~~~ 138 (1077)
T CHL00207 59 YNLLSAKSYDSNYSIQIYLPLKFINLKTNKIKFINYLIGNLPKMTQRGTFIINGLERVIVSQIIRSPGIYFKKEIKKNSN 138 (1077)
T ss_pred CCHHHHHHhCCccceeEEEEEEEEEcCCceEEEEEEEEeccCccCCCCEEEEcCceeEEEEEeccCCeEEEEEecCcCCc
Confidence 6899999999999999999999986553 456778999999999999999999999874 112
Q ss_pred ceeeeeEEEeccccc-------------------cch---hhh------HH---hhc--------------c--------
Q psy4067 417 RRASTSSVTMHSQRT-------------------SPL---LSC------KK---LRQ--------------K-------- 443 (1384)
Q Consensus 417 ~~~s~t~i~~~~~~~-------------------~P~---~e~------~~---~~~--------------~-------- 443 (1384)
..++.+++...++|. +|+ ..| ++ .+. .
T Consensus 139 ~~y~a~IIp~rGswl~~e~d~k~~i~vridr~rKipit~lLrALGls~~eIl~~~~~~~~~~~~~~~l~~~~~~~~e~Al 218 (1077)
T CHL00207 139 KIYSATLIPNRGSWIKFELDKNKEIWIRIDKNRKKPLIIFLKALGLTDQDIYSRLTKSEFLKKLKPILLNSNSYTNEEIL 218 (1077)
T ss_pred eEEEEEEEcCCCceEEEEEcCCCeEEEEecCCceeeHHHHHHHhCCCHHHHHHHHhccchHHHHHHHHhccCcccHHHHH
Confidence 235566666655544 131 111 00 000 0
Q ss_pred -cc-cccc--C-CChhhHHHHh-------hhccccccccccc-----------cchhhhHHHHHHHHHHHHhhcCCCCCC
Q psy4067 444 -RF-QTYK--K-TPVDDARDFL-------SSTCIAHIPVINM-----------RFKMKAMYLAVMIRRMVLALSDPDMLD 500 (1384)
Q Consensus 444 -~~-~~~~--~-~~~~ea~e~L-------~~~~LpHv~v~~~-----------~~~~Ka~yLg~MvRr~l~~~~~~~~~D 500 (1384)
.+ ...+ . ...+.|++.| +++-|+|++.-.. ...-++.++..|++.+++...|....|
T Consensus 219 ~~Iy~~lrp~~~~~~~~a~~~l~~~ff~~~rYdLg~vGR~klN~kl~~~~~~~~~~l~~~Dil~~i~~Li~l~~g~~~~D 298 (1077)
T CHL00207 219 LEIYKNLSPIEPATVNDANQNLFSRFFDPKNYDLGKVGRYKINNKLNLNIPERVRNLTYEDILSIIDKLINLKINKGNFD 298 (1077)
T ss_pred HHHHHhcCCCCCccHHHHHHHHHHHhcChhcccccccchhhhhhhccCCcCccCceecHHHHHHHHHHHHHhhcCCCccc
Confidence 00 0000 0 1124455554 5778899996332 233455688999999999998888999
Q ss_pred CCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhcc---------------ccce----eccc----------------
Q psy4067 501 DRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNL---------------SGVV----NLVS---------------- 545 (1384)
Q Consensus 501 DrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~---------------~~i~----sl~~---------------- 545 (1384)
|+||+||||++++|+||+.||+.+|+||.+.+|+... ..++ .|+.
T Consensus 299 DiDHL~NRRvrsvGELlq~qfr~gl~rler~ike~m~~~~~~~~tp~~lin~k~lt~~ikeFFgss~LSQfmDQtNpLse 378 (1077)
T CHL00207 299 DIDHLKNRRVRSVGELLQNQFRIGLKRLERILRNRMTICDIDSLSKFNLINPKPLIALIREFFGSSQLSQYMDQTNPLSE 378 (1077)
T ss_pred chhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHhhhcccccCChhhcccchhHHHHHHHhhccCCccceecccChHHh
Confidence 9999999999999999999999999999999987431 0111 1221
Q ss_pred ----cceeecccCceeEeecCccccc-ccCCCCCCCcccccC--CCCCeEEEecccccCCcchhhhHHHhhccccccccc
Q psy4067 546 ----GWWFELKYGNKIYIRSPSRKLL-AAGFSGPHSGRVRLM--PEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCT 618 (1384)
Q Consensus 546 ----g~w~~~~~~n~~~i~t~~r~~~-a~Gvh~sh~GRicp~--pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~ 618 (1384)
++.+++++|.. |+.|..+ ++++|+||||||||+ ||||+|-+...|+. ++.
T Consensus 379 lTHKRRlsaLGpGGL----sR~ra~fevRdvH~thyGRiCPIETPEG~n~Gli~~la~---------~~~---------- 435 (1077)
T CHL00207 379 LTHKRRISILGPGGL----DKDRISFAVRDIHPSHYGRICPIETPEGPNCGLIGSLAT---------NAR---------- 435 (1077)
T ss_pred hhccceeeccCCCcc----cccccCCcccccCccccccccCCCCCCCcccccccchhh---------hcc----------
Confidence 23333333222 2224444 477899999999999 99999865321111 100
Q ss_pred ccceeeccCCCCcccccccccceeeeEeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccc-ccc-
Q psy4067 619 LNFLFFLGGGGILPSIQRQTTCLLTLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFD-DFL- 696 (1384)
Q Consensus 619 ~~~~~fl~~g~i~~~~~~~~~~~l~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~-~~~- 696 (1384)
|.-.+.|+. ++++.. ..+
T Consensus 436 ----------------------------in~~Gfiet--------------------------------Py~~v~~g~v~ 455 (1077)
T CHL00207 436 ----------------------------INKFGFIET--------------------------------PFYKVINGKVK 455 (1077)
T ss_pred ----------------------------ccCCCceeC--------------------------------ceEEEEcCccc
Confidence 111133322 111111 111
Q ss_pred ccCcEEEeccCCCcceEEEeCCCCCCC----------------------ccceeecccCcccccccchhhhhhcccccCC
Q psy4067 697 YEGKIEYLDVNEGNDSHIAVSESGIRP----------------------GVTTHLEIAPFTLLGVCAGIELLQYNKRFHS 754 (1384)
Q Consensus 697 ~~~~~e~~~~~e~~~~~ia~~~~~~~~----------------------~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~ 754 (1384)
....++||++.||+...||.....+.. ...+++.++|.+++||.||
T Consensus 456 ~~~~i~ylsa~~e~~~~Ia~~~~~~~~~~~~~~~~v~~r~~~ef~~~~~~~v~~~~vsp~Q~~Svaas------------ 523 (1077)
T CHL00207 456 KFGNPIYLTADSEDLYRIAPNDINLNKNNYFKKNIIPVRYKQEFKTVNPSKVDFIAISPIQVFSIAES------------ 523 (1077)
T ss_pred ccCceeecChHHhcCcEEEecCccCCCCCcccCCEEEEEECCcEEEEChHHceEEEeCcchhcchhhh------------
Confidence 235788999999999999976544321 1468899999999999999
Q ss_pred CCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccch
Q psy4067 755 PGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEEL 834 (1384)
Q Consensus 755 ~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~ 834 (1384)
||||.|||+++|++||++|++||++ |.+|++|+|.| |+|.+
T Consensus 524 --LIPFLehdDanRaLMGsnMqrQaVP----------------ll~~e~p~VgT---------------------g~e~~ 564 (1077)
T CHL00207 524 --LIPFLEHNDANRALMGSNMQRQAVP----------------LLYPEKPIVGT---------------------GYEKQ 564 (1077)
T ss_pred --cCCcccccccchhhhhhcccccccc----------------ccccCCCeEEC---------------------CcchH
Confidence 9999999999999999999999999 99999999999 99999
Q ss_pred hhcccccceeEEeecccceeeecccccccccccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCcc
Q psy4067 835 TARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGL 914 (1384)
Q Consensus 835 ~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~gl 914 (1384)
+|+||+.+|+|..++.+.|++...|++.+.+.+...|. |
T Consensus 565 ~a~ds~~~i~a~~~G~v~~v~~~~I~i~~~~~~~~~y~-----------------------------------------l 603 (1077)
T CHL00207 565 IALDSGMTIISLTEGIVVSVSAYKIIIQDDNNRYIHYY-----------------------------------------L 603 (1077)
T ss_pred hhhhcchheEeccCcEEEEecCcEEEEEeCCCceeEEE-----------------------------------------e
Confidence 99999999999777777777776676655433333333 7
Q ss_pred ccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceeeeeeEe----------ecccCCCCCCcceEE
Q psy4067 915 VPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIR----------ITNFHKLPAGQNATI 984 (1384)
Q Consensus 915 IPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i~----------~~~~~elp~GqN~iV 984 (1384)
+.|..+||.. ++.|||+|..+... .+.++++|+|+|++|
T Consensus 604 ~~~~rsNq~t-------------------------------~i~qrp~V~~G~~v~~G~iladg~~~~~~el~lG~N~lV 652 (1077)
T CHL00207 604 QKYQRSNQNT-------------------------------CINYRPIVWVGEKINIGQILADGSDIDNSELALGQNVLV 652 (1077)
T ss_pred ccccccccCc-------------------------------eeecccccCCCCEEecCCEEecchhccCCcccCCcccEE
Confidence 7788888754 45577777765432 357899999999999
Q ss_pred EEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCCCCcccccccCCCCcccCCcee
Q psy4067 985 AVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYRHRALDQDGIVAPGEQI 1064 (1384)
Q Consensus 985 Avmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V 1064 (1384)
|||||+|||||||||||+++++||+|+|++|++|+++++++..+. +.+.... .......|++||+||++++|++|
T Consensus 653 A~m~y~GYN~EDAiiink~~v~rg~f~Si~~~~~~~e~~~~~~g~-e~i~~~~----p~~~~~~~~~LD~dGiv~iG~~V 727 (1077)
T CHL00207 653 AYMPWEGYNFEDAILINKRLVYEDLFTSIHIEKYEIELRQTKLGS-EEITRNI----PNVSEYSLKNLDENGIISIGSKV 727 (1077)
T ss_pred EEEeeeccccchhhhhhhhhhcCCceEEEEEEEeeeEEeecCCCc-eEEeccC----CCCChHHhhccCccCCCcCCcEe
Confidence 999999999999999999999999999999999999888765543 3333111 11113358999999999999999
Q ss_pred ecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcc
Q psy4067 1065 CERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKG 1144 (1384)
Q Consensus 1065 ~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKG 1144 (1384)
++|||||||++|..+. ..+||++++.+.|..
T Consensus 728 ~~gDilvgK~tp~~~~----~~~~~~~ll~~i~~~--------------------------------------------- 758 (1077)
T CHL00207 728 LAGDILVGKITPKGES----DQLPEGKLLRAIFGE--------------------------------------------- 758 (1077)
T ss_pred CCCCEEEEEecCcccc----ccChhhhhhhhhhcc---------------------------------------------
Confidence 9999999999996433 234555444332210
Q ss_pred eeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEEecCC--CC-----cEEEEEEEE
Q psy4067 1145 VIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSSNS--ED-----AFLIKMLLR 1217 (1384)
Q Consensus 1145 Vis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~~~--~~-----~~~vkV~ir 1217 (1384)
+...++|+|+.++..+.|+||+|.+..++ ++ ...|||++|
T Consensus 759 ---------------------------------~~~~~kd~sl~~~~~~~g~V~~V~~~~~~~~~~~~~~~~~~vkv~i~ 805 (1077)
T CHL00207 759 ---------------------------------KAKDVKDTSLRMPNGGYGRVIKVEIFSRSKGDELKFGYYLKIRVFIA 805 (1077)
T ss_pred ---------------------------------CCCcceEeEEEcCCCCcEEEEEEEEEecCCCCcccccccEEEEEEEE
Confidence 01236788999999999999999988753 22 246999999
Q ss_pred eecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCeeeeccCCC
Q psy4067 1218 QTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYKEGTAFGG 1297 (1384)
Q Consensus 1218 ~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~d~t~F~~ 1297 (1384)
+.|+|++|||||||||||||||+|+|+|||||++||++|||||||||||||||||||+||++||||++.|...++|||++
T Consensus 806 ~~R~p~vGDKfasRHGqKGVvs~i~p~eDMPf~~dG~~pDiIlNPhg~PSRMtiGqllE~~lGka~~~l~~~~~~tpF~~ 885 (1077)
T CHL00207 806 QIRKIQVGDKLAGRHGNKGIISRILPRQDMPYLPDGTPPDIILNPLGVPSRMNVGQLFECLLGLAGDNLNKRFKILPFDE 885 (1077)
T ss_pred EEecCCcccccccccCCceeEEeeeccCCCCccCCCCCccEEECCccccccccHHHHHHHHHHHHHHhcCCcEeeccCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999998887788999999
Q ss_pred CCHHHHHHHHHHc---------------CCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCccceeeccCCcccc
Q psy4067 1298 TKLVDVQEELIRH---------------GYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVL 1362 (1384)
Q Consensus 1298 ~~~~~i~~~L~~~---------------G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~L 1362 (1384)
.+.+++++.|... +|+++||+.||||+|||+|+++||+||+|||||+|||+|||||||+|||+.|
T Consensus 886 ~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~Gk~~lydG~TGe~~~~~i~vG~~Yy~kL~HmV~DKihaRs~Gp~s~l 965 (1077)
T CHL00207 886 MYGSEYSRILINNKLNQASIKNNEYWLFNSYHPGKMVLRDGRTGYKFKNPVTVGIAYMLKLIHLVDDKIHARTTGPYSLV 965 (1077)
T ss_pred CcHHHHHHHHHhhhhhhccchhccccccCCCCCCCEEEECCCCCCCccCceEEEecceeEchhhccccceeeccCCCccc
Confidence 9988888877765 3888999999999999999999999999999999999999999999999999
Q ss_pred ccCCCccccccCCCc
Q psy4067 1363 TRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1363 TrQP~eGRsr~~~~~ 1377 (1384)
||||++||||.|||-
T Consensus 966 TqQP~~Grsr~GG~R 980 (1077)
T CHL00207 966 TQQPLGGKAQHGGQR 980 (1077)
T ss_pred ccCCCCccccCCCee
Confidence 999999999999983
No 11
>PRK07225 DNA-directed RNA polymerase subunit B'; Validated
Probab=100.00 E-value=2.2e-131 Score=1200.78 Aligned_cols=428 Identities=46% Similarity=0.738 Sum_probs=388.9
Q ss_pred ccccccccccCcEEEeccCCCcceEEEeCCCCCCCccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCcc
Q psy4067 689 FKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRPGVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPR 768 (1384)
Q Consensus 689 ~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspR 768 (1384)
.++|+||+++|.|||||++||+++.||+.++++.. .+||+||+|+++|||+|| +|||+|||||||
T Consensus 86 ~~~~~dl~~~G~IEyida~EE~~~~IA~~~~~l~~-~~th~Ei~p~~ilgv~As--------------lIPF~~hNQSPR 150 (605)
T PRK07225 86 ELTFDDLVKQGVIEYLDAEEEENAYIAVYEEDLTE-EHTHLEIDPSLILGIGAG--------------MIPYPEHNASPR 150 (605)
T ss_pred CCChHHHHhCCCeeecChhhhcCeEeccchhhhcc-cccccccCCcceeEEEee--------------ccCCCCCCccch
Confidence 46899999999999999999999999999998864 589999999999999999 999999999999
Q ss_pred chhhhhhccccccccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEee
Q psy4067 769 NTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIIS 848 (1384)
Q Consensus 769 n~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~ 848 (1384)
|||||||+|||||+|++|+..|+|+++|+|+|||+|||+|+.++.+
T Consensus 151 n~yq~~M~KQa~g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~---------------------------------- 196 (605)
T PRK07225 151 ITMGAGMIKQSLGLPAANYKLRPDTRGHLLHYPQVPLVKTQTQEII---------------------------------- 196 (605)
T ss_pred hhhhhhhhhcccCccccceeeecCCcccEEeeCCcceEEccchHhh----------------------------------
Confidence 9999999999999999999999999999999999999999444333
Q ss_pred cccceeeecccccccccccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchh
Q psy4067 849 FSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTY 928 (1384)
Q Consensus 849 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRnty 928 (1384)
T Consensus 197 -------------------------------------------------------------------------------- 196 (605)
T PRK07225 197 -------------------------------------------------------------------------------- 196 (605)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hhcccccccceeeeccccceeeeeeeeeccCCceeeeeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccC
Q psy4067 929 QCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRG 1008 (1384)
Q Consensus 929 q~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG 1008 (1384)
+++++|+|+|++||||||+||||||||||||+|+|||
T Consensus 197 -------------------------------------------~~~~~p~G~N~iVAvmsy~GYn~EDAiIiNkssidRG 233 (605)
T PRK07225 197 -------------------------------------------GFDERPAGQNFVVAVMSYEGYNIEDALIMNKASIERG 233 (605)
T ss_pred -------------------------------------------CCCccCCCeeEEEEEECcCCCChhHeeeeehhhhhcC
Confidence 3456788889999999999999999999999999999
Q ss_pred CceeeEEecceeeeeecCCCccceeeCCccccCCCCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCC
Q psy4067 1009 FGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATP 1088 (1384)
Q Consensus 1009 ~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~ 1088 (1384)
|||+.+|++|..+++++..+..|.+..|..+.........|++||+|||+++|++|++|||||||++|..+.+
T Consensus 234 lf~s~~~k~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~LD~dGi~~~G~~v~~gdiligk~sp~~~~~------- 306 (605)
T PRK07225 234 LGRSHFFRTYEGEERRYPGGQEDRFEIPDKDVRGYRGEEAYRHLDEDGLVNPETEVKEGDVLIGKTSPPRFLE------- 306 (605)
T ss_pred ceEEEEEEEEEEEeeecCCCcceEEecCCchhccccChHHhhcCCCCCCccCCCEECCCCEEEEEecCCCCcc-------
Confidence 9999999999999998887777888777542211112235899999999999999999999999999854221
Q ss_pred ccccccccccccccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceee
Q psy4067 1089 EYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIM 1168 (1384)
Q Consensus 1089 e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIi 1168 (1384)
+ . . . | |
T Consensus 307 ~----~--------~-------------------------------~---------------------~---~------- 312 (605)
T PRK07225 307 E----P--------D-------------------------------D---------------------F---G------- 312 (605)
T ss_pred c----h--------h-------------------------------h---------------------h---c-------
Confidence 0 0 0 0 0 0
Q ss_pred CCCCCCCcccccceeeecccccCCccceeeEEEEecCCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCC
Q psy4067 1169 NPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMP 1248 (1384)
Q Consensus 1169 NP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMP 1248 (1384)
......+++++.++..|+|+||+|.++.++++.++|||++|+.|+|+||||||||||||||||+|+||||||
T Consensus 313 --------~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~vkv~ir~~R~p~iGDKfssRHGQKGvvs~i~~~eDMP 384 (605)
T PRK07225 313 --------ISPEKRRETSVTMRSGEEGIVDTVILTETEEGSRLVKVRVRDLRIPELGDKFASRHGQKGVIGLIVPQEDMP 384 (605)
T ss_pred --------ccccCcceeeEEecCCCcEEEEEEEEEecCCCCEEEEEEEEEEEeccccchhhhcccCceeEEeEeccccCC
Confidence 001235788899999999999999999988899999999999999999999999999999999999999999
Q ss_pred CCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCeeeeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcE
Q psy4067 1249 FNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYKEGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEA 1328 (1384)
Q Consensus 1249 ft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~ 1328 (1384)
||++|++|||||||||||||||||||+|+++||++++.|.+.|+|||.+.+++++.+.|.++||+++|+|.||||+||++
T Consensus 385 ft~~G~~PDiIiNPhg~PSRMTiGql~E~~~gk~~~~~g~~~d~t~F~~~~~~~~~~~L~~~g~~~~G~e~my~G~TG~~ 464 (605)
T PRK07225 385 FTESGVVPDLIINPHAIPSRMTVGHVLEMIGGKVGSLEGRRVDGTAFSGEDEEDLREALEKLGFEHTGKEVMYDGITGEK 464 (605)
T ss_pred cCCCCCcccEEECcccccccCcHHHHHHHHHHHHHHhcCceEeecCCCCchHHHHHHHHHHhCcCCCCeEEEEcCCCCCE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeEeEeeehhhccccccCccceeeccCCccccccCCCccccccCCCc
Q psy4067 1329 LEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1329 l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LTrQP~eGRsr~~~~~ 1377 (1384)
|+++||+||+|||||+|||+||+||||+||++.|||||+|||||.|||-
T Consensus 465 ~~~~if~G~~yYqrL~HmV~DK~haR~~Gp~~~lTrQP~~GR~r~GG~R 513 (605)
T PRK07225 465 IEAEIFVGVIYYQKLHHMVANKLHARSRGPVQVLTRQPTEGRAREGGLR 513 (605)
T ss_pred ecccEEEeehheeechhhhcchhhhccCCCCcccccCCccccccCCCee
Confidence 9999999999999999999999999999999999999999999999983
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=1.5e-130 Score=1192.38 Aligned_cols=428 Identities=45% Similarity=0.735 Sum_probs=387.8
Q ss_pred ccccccccccCcEEEeccCCCcceEEEeCCCCCCCccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCcc
Q psy4067 689 FKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRPGVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPR 768 (1384)
Q Consensus 689 ~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspR 768 (1384)
.++|+||+++|.|||||++||+++.||+.++++.. .+||+||+|+++|||+|| +|||+|||||||
T Consensus 80 ~~~~~~ll~~G~IEyida~Ee~~~~IA~~~~~l~~-~~th~Ei~p~~ilgv~As--------------lIPF~~hNqSpR 144 (599)
T TIGR03670 80 ELTWDDLVKQGVIEYLDAEEEENAYIALDPEELTP-EHTHLEIDPSAILGIIAS--------------TIPYPEHNQSPR 144 (599)
T ss_pred CCCHHHHHhcCCeEecCchhhcCeEEecchHHhcc-CcCccccCCcceeeEEee--------------ccCCCCcCcchh
Confidence 46899999999999999999999999999998865 589999999999999999 999999999999
Q ss_pred chhhhhhccccccccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEee
Q psy4067 769 NTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIIS 848 (1384)
Q Consensus 769 n~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~ 848 (1384)
|||||||+|||||+|++|++.|+||++|+|+|||+|||+|+.++.+++
T Consensus 145 n~YQc~M~KQamG~~~~n~~~R~D~~~~~l~ypQ~Plv~t~~~~~~~~-------------------------------- 192 (599)
T TIGR03670 145 NTMGAAMAKQSLGLYAANYRIRLDTRGHLLHYPQKPLVKTRVLELIGY-------------------------------- 192 (599)
T ss_pred hHHHHhhhhccccccccChhhcccccceEEcCCCCceeeeeeHHHhCc--------------------------------
Confidence 999999999999999999999999999999999999999966555433
Q ss_pred cccceeeecccccccccccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchh
Q psy4067 849 FSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTY 928 (1384)
Q Consensus 849 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRnty 928 (1384)
T Consensus 193 -------------------------------------------------------------------------------- 192 (599)
T TIGR03670 193 -------------------------------------------------------------------------------- 192 (599)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hhcccccccceeeeccccceeeeeeeeeccCCceeeeeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccC
Q psy4067 929 QCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRG 1008 (1384)
Q Consensus 929 q~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG 1008 (1384)
+++|+|+|++||||||+||||||||||||+|+|||
T Consensus 193 ---------------------------------------------~~~p~G~N~iVAvmsy~GYn~EDAiIink~si~rG 227 (599)
T TIGR03670 193 ---------------------------------------------DDRPAGQNFVVAVMSYEGYNIEDALIMNKASIERG 227 (599)
T ss_pred ---------------------------------------------cccCCCeeEEEEEEcccCcChhHeeeechhhhhcC
Confidence 45667778899999999999999999999999999
Q ss_pred CceeeEEecceeeeeecCCCccceeeCCccccCCCCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCC
Q psy4067 1009 FGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATP 1088 (1384)
Q Consensus 1009 ~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~ 1088 (1384)
|||+.+|++|..+++++..+..|.+..|........+...|++||+||++++|++|++|||||||++|..+.+
T Consensus 228 ~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~LD~dGi~~~G~~v~~gdiligk~~p~~~~~------- 300 (599)
T TIGR03670 228 LARSTFFRTYEAEERRYPGGQEDRFEIPEPDVRGYRGEEAYKHLDEDGIVYPEVEVKGGDVLIGKTSPPRFLE------- 300 (599)
T ss_pred CeEEEEEEEEEEEeeccCCCCceEEecCCchhccccchhhhccCCCCCCcCCCcEeCCCCEEEEEecCCCCcc-------
Confidence 9999999999999988877777777766432111122335899999999999999999999999999854221
Q ss_pred ccccccccccccccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceee
Q psy4067 1089 EYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIM 1168 (1384)
Q Consensus 1089 e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIi 1168 (1384)
+ .. . | |
T Consensus 301 ~----~~-----------------------------------~-------------------------~---~------- 306 (599)
T TIGR03670 301 E----LR-----------------------------------E-------------------------L---G------- 306 (599)
T ss_pred c----hh-----------------------------------h-------------------------h---c-------
Confidence 0 00 0 0 0
Q ss_pred CCCCCCCcccccceeeecccccCCccceeeEEEEecCCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCC
Q psy4067 1169 NPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMP 1248 (1384)
Q Consensus 1169 NP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMP 1248 (1384)
......++.++.++..|+|+||+|+++.++++.+.|||++|+.|+|+||||||||||||||||+|+||||||
T Consensus 307 --------~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~vkv~~r~~R~p~iGDKfssRHGQKGvvs~i~~~eDMP 378 (599)
T TIGR03670 307 --------LVTERRRDTSVTVRHGEKGIVDKVIITETEEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMIVPQEDMP 378 (599)
T ss_pred --------cccccCceEEEEecCCCcEEEEEEEEEecCCCcEEEEEEEeeeecCcchhhhhhhccCcceEEeEeccCCCC
Confidence 001235788899999999999999999998899999999999999999999999999999999999999999
Q ss_pred CCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCeeeeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcE
Q psy4067 1249 FNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYKEGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEA 1328 (1384)
Q Consensus 1249 ft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~ 1328 (1384)
||+||++|||||||||||||||||||+|+++||++++.|.+.|+|||++.+++++.+.|.++||+++|+|.||||+||++
T Consensus 379 ft~~G~~pDiIiNPhg~PSRMTiGqllE~~~gk~~~~~g~~~d~t~F~~~~~~~~~~~L~~~g~~~~G~e~ly~G~TG~~ 458 (599)
T TIGR03670 379 FTEDGIVPDLIINPHAIPSRMTVGQLLEMIAGKVAALEGRRVDGTPFEGEPEEELRKELLKLGFKPDGKEVMYDGITGEK 458 (599)
T ss_pred cCCCCCCCCEEECcccccccccHHHHHHHHHHHHHHhcCCEEEeCCCCCccHHHHHHHHHHcCCCCCCCEEEEcCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeEeEeeehhhccccccCccceeeccCCccccccCCCccccccCCCc
Q psy4067 1329 LEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1329 l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LTrQP~eGRsr~~~~~ 1377 (1384)
|+++||+||+|||||+|||+||+||||+||++.|||||++||||.|||-
T Consensus 459 ~~~~if~G~~yyqrL~HmV~DK~h~Rs~Gp~~~lTrQP~~Gr~r~GG~R 507 (599)
T TIGR03670 459 LEAEIFIGVIYYQKLHHMVADKIHARSRGPVQVLTRQPTEGRAREGGLR 507 (599)
T ss_pred ccccEEEEehhheechhhhcchhhhcccCCCcccccCCccccccCCCee
Confidence 9999999999999999999999999999999999999999999999983
No 13
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=100.00 E-value=5.4e-125 Score=1225.01 Aligned_cols=629 Identities=24% Similarity=0.352 Sum_probs=475.5
Q ss_pred chhhhHHHHHHHHHHHHhhcCCC----------------------------CCCCCccccCcEeeehhhHHHHHHHHHHH
Q psy4067 475 FKMKAMYLAVMIRRMVLALSDPD----------------------------MLDDRDYYGNKRLELAGSLLSLMFEDVFK 526 (1384)
Q Consensus 475 ~~~Ka~yLg~MvRr~l~~~~~~~----------------------------~~DDrD~ygNKRlelAG~Lls~lFe~~fk 526 (1384)
|.+|.|.||.++|..++.++|.. ..||+||+||||++++|+||+.||+.+|+
T Consensus 402 Fn~~rYdLg~vGR~klN~kL~l~~~~~~~~Lt~~Dil~~i~~li~l~~g~~~~DDiDhL~NRRvr~vGELl~~qfr~gl~ 481 (2890)
T PRK09603 402 FDPERYDLTMVGRMKMNHKLGLHVPDYITTLTHEDIITTVKYLMKIKNNQGKIDDRDHLGNRRIRAVGELLANELHSGLV 481 (2890)
T ss_pred cCcccccccccchhhhHhhhCCCCCCcccEecchhHHHHHHHHHHHHhCCCCCCcchhhhcchhhhHHHHHHHHHHHHHH
Confidence 44577889999999999998754 33999999999999999999999999999
Q ss_pred HHHHHHHhhccc-----------------cce----eccc--------------------cceeecccCceeEeecCccc
Q psy4067 527 RFNSELKETNLS-----------------GVV----NLVS--------------------GWWFELKYGNKIYIRSPSRK 565 (1384)
Q Consensus 527 ~~~~~~k~~~~~-----------------~i~----sl~~--------------------g~w~~~~~~n~~~i~t~~r~ 565 (1384)
|+.+.+|+.... ++. .||. ++.+++++|+. |+.|.
T Consensus 482 rler~irerm~~~~~~~~~~~p~~lin~k~i~~~ikeFFgssqLSQfmDQtNpLseltHKRRlSaLGPGGl----sr~ra 557 (2890)
T PRK09603 482 KMQKTIKDKLTTMSGAFDSLMPHDLVNSKMITSTIMEFFMGGQLSQFMDQTNPLSEVTHKRRLSALGEGGL----VKDRV 557 (2890)
T ss_pred HHHHHHHHHHHhhhccccccChhhhhccHHHHHHHHHHhccCchhhhhcccChhhhhhhcccccccCCCCc----ccccc
Confidence 999999874310 110 1221 44555555444 33345
Q ss_pred cc-ccCCCCCCCcccccC--CCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeeccCCCCccccccccccee
Q psy4067 566 LL-AAGFSGPHSGRVRLM--PEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLGGGGILPSIQRQTTCLL 642 (1384)
Q Consensus 566 ~~-a~Gvh~sh~GRicp~--pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~~g~i~~~~~~~~~~~l 642 (1384)
.+ .+++|+||||||||+ ||||++.+...|+. |+.
T Consensus 558 ~fevRdVH~shYGRiCPIETPEG~NiGLI~SLa~---------~a~---------------------------------- 594 (2890)
T PRK09603 558 GFEARDVHPTHYGRICPIETPEGQNIGLINTLST---------FTR---------------------------------- 594 (2890)
T ss_pred CCcccccCcccccccCCCCCCCCCcccchhhhhh---------hee----------------------------------
Confidence 55 477899999999999 99999866431111 111
Q ss_pred eeEeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEeccCCCcceEEEeCCCCCC
Q psy4067 643 TLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIR 722 (1384)
Q Consensus 643 ~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~ 722 (1384)
|.-.+.|+. ++++..+-.-...++||++.||+...||.....+.
T Consensus 595 ----in~~Gfiet--------------------------------Py~kV~~g~v~~~i~ylsa~eE~~~~IA~a~~~~~ 638 (2890)
T PRK09603 595 ----VNDLGFIEA--------------------------------PYKKVVDGKVVGETIYLTAIQEDSHIIAPASTPID 638 (2890)
T ss_pred ----cccCcceec--------------------------------ceEEEecCccccceeeeCHHHhcCceEeccCCccC
Confidence 111133333 22222111112368899999999999997654432
Q ss_pred C----------------------ccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccc
Q psy4067 723 P----------------------GVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAM 780 (1384)
Q Consensus 723 ~----------------------~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~ 780 (1384)
. ...+++.++|.+++||.|| ||||.|||+++|.+|||+|++||+
T Consensus 639 ~~~~~~~~~v~~R~~~e~~~~~~~~v~~~dvsp~Q~vSvaas--------------LIPFLEhdDAnRALMGSNMQRQAV 704 (2890)
T PRK09603 639 EEGNILGDLIETRVEGEIVLNEKSKVTLMDLSSSMLVGVAAS--------------LIPFLEHDDANRALMGTNMQRQAV 704 (2890)
T ss_pred CCCcccCCeEeEEECCceEEEChHHceEEEeCccceeeehhh--------------cCCccccCccccccccccchhhhh
Confidence 1 1457899999999999999 999999999999999999999999
Q ss_pred cccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccc
Q psy4067 781 GCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVW 860 (1384)
Q Consensus 781 g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~ 860 (1384)
+ |.+|++|+|.| |+|.++|+||+.+|+|.-++.+.|++.+.|+
T Consensus 705 P----------------Ll~~e~piVgT---------------------G~E~~va~dSg~~i~a~~~G~V~yvd~~~I~ 747 (2890)
T PRK09603 705 P----------------LLRSDAPIVGT---------------------GIEKIIARDSWGAIKANRAGVVEKIDSKNIY 747 (2890)
T ss_pred h----------------hccccCCeEec---------------------CcchhhhccccceeEecCCeEEEEecCcEEE
Confidence 9 99999999999 9999999999999999766666666666665
Q ss_pred ccccc---ccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhccccccc
Q psy4067 861 LGDVK---QGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAM 937 (1384)
Q Consensus 861 ~~~~~---~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAi 937 (1384)
+.... .++..|. |+-|...||..
T Consensus 748 i~~~~~~~~~~~~Y~-----------------------------------------L~Ky~RSNQ~T------------- 773 (2890)
T PRK09603 748 ILGEGKEEAYIDAYS-----------------------------------------LQKNLRTNQNT------------- 773 (2890)
T ss_pred EEecCCCCceeeEEe-----------------------------------------eccccccCCCc-------------
Confidence 53211 1112222 45555556543
Q ss_pred ceeeeccccceeeeeeeeeccCCceeeeeeEe----------ecccCCCCCCcceEEEEeeecccccccceeeccccccc
Q psy4067 938 GCIGYNQQNRIDTLMYNLVYAQRPMVESKTIR----------ITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDR 1007 (1384)
Q Consensus 938 G~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i~----------~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidR 1007 (1384)
++.|+|+|..+... .+..+||++|+|.+||+|||.|||+|||||+|++.+.+
T Consensus 774 ------------------cinqrPiV~~Gd~V~kGdilADG~st~~GELALG~NvlVAfmpW~GYNfEDAIlISERlV~e 835 (2890)
T PRK09603 774 ------------------SFNQVPIVKVGDKVEAGQIIADGPSMDRGELALGKNVRVAFMPWNGYNFEDAIVVSERITKD 835 (2890)
T ss_pred ------------------eeeeccEecCCCEeccCCEEecCcccccCeeccCcccEEEEeeeccccCccccccchhhhcC
Confidence 56688888766542 35789999999999999999999999999999999999
Q ss_pred CCceeeEEecceeeeeecCCCccceeeCCccccCCCC-Ccc---cccccCCCCcccCCceeecCceEEeeeccCcccccc
Q psy4067 1008 GFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRK-PVY---RHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAI 1083 (1384)
Q Consensus 1008 G~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~-p~~---~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~ 1083 (1384)
+.|.|++. ++|+.+.+|+..||+ ++|.+ |+. ..++||++|||++|++|++|||||||++|+.++
T Consensus 836 D~fTSIHI-------ee~ei~~r~Tk~G~E--eITrdIPnvse~~l~~LDe~GII~iGa~V~~GDILVGKvTPkge~--- 903 (2890)
T PRK09603 836 DIFTSTHI-------YEKEVDARELKHGVE--EFTADIPDVKEEALAHLDESGIVKVGTYVSAGMILVGKTSPKGEI--- 903 (2890)
T ss_pred ccceEEEE-------eeeEEEEEecCCCCc--EEeccCCCCCHHHHhcCCCCCCEeeCCEECCCCEEEEeeccCCCC---
Confidence 98876655 445555566666664 34444 543 478899999999999999999999999999776
Q ss_pred ccCCCccccccccccc----------cccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecC
Q psy4067 1084 SMATPEYKEVPVSYKG----------SVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQE 1153 (1384)
Q Consensus 1084 ~~~~~e~k~~~~~~k~----------~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~e 1153 (1384)
.++||++++++.|.. ++|.+++|++++..
T Consensus 904 -~~tPEekLLraIFGeka~~vkDtSLrvp~G~~G~Vidv~---------------------------------------- 942 (2890)
T PRK09603 904 -KSTPEERLLRAIFGDKAGHVVNKSLYCPPSLEGTVIDVK---------------------------------------- 942 (2890)
T ss_pred -CCChHHHHHHHHhcccccccccCceecCCCCcEEEEEEE----------------------------------------
Confidence 489999999988853 44444444443210
Q ss_pred CCCCCCCCCcCceeeCCCCCCCc--------ccc---------------------------ccee-----eecccccC-C
Q psy4067 1154 DMPFNESGICPDIIMNPHGLKGC--------DRI---------------------------TEYK-----EVPVSYKG-S 1192 (1384)
Q Consensus 1154 DMPfte~Gi~pDIIiNP~gvpsr--------~~i---------------------------~~~~-----e~s~~~k~-~ 1192 (1384)
+++..+..-. +.. ++.. .....++. .
T Consensus 943 -------------~f~r~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1009 (2890)
T PRK09603 943 -------------VFTKKGYEKDARVLSAYEEEKAKLDMEHFDRLTMLNREELLRVSSLLSQAILEEPFSHNGKDYKEGD 1009 (2890)
T ss_pred -------------EecccccchhHHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHhhhhhccccccccccccccccccccc
Confidence 1221110000 000 0000 00000000 0
Q ss_pred ----------------------c-------------------------cceeeEEEEecC----CCCcEEEEEEEEeecC
Q psy4067 1193 ----------------------V-------------------------PSYLEKVLVSSN----SEDAFLIKMLLRQTRR 1221 (1384)
Q Consensus 1193 ----------------------e-------------------------~~~vd~V~i~~~----~~~~~~vkV~ir~~R~ 1221 (1384)
. ....++ +..+ ....+.|||+||+.|+
T Consensus 1010 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~--~~~gdeL~~Gv~~~VkV~ia~kR~ 1087 (2890)
T PRK09603 1010 QIPKEEIASINRFTLASLVKKYSKEVQNHYEITKNNFLEQKKVLGEEHEEKLSI--LEKDDILPNGVIKKVKLYIATKRK 1087 (2890)
T ss_pred cccHHHHhhCCHHHhhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhcCCcCCCCcceEEEEEEEEeec
Confidence 0 000000 0011 1236899999999999
Q ss_pred CCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCe------------
Q psy4067 1222 PEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNY------------ 1289 (1384)
Q Consensus 1222 p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~------------ 1289 (1384)
|++|||||||||||||||.|+|+|||||++||++||||+||||||||||||||+|+++||||+..|..
T Consensus 1088 ~qvGDK~AgRHGnKGViS~I~p~EDMPfl~dG~~pDIIlNPlGvPSRMnIGQilE~~LG~aa~~lg~~i~~~~~~~~~~~ 1167 (2890)
T PRK09603 1088 LKVGDKMAGRHGNKGIVSNIVPVADMPYTADGEPVDIVLNPLGVPSRMNIGQILEMHLGLVGKEFGKQIASMLEDKTKDF 1167 (2890)
T ss_pred ccccchhhhccCCCeeEEEEEchhcCCCCCCCCCCcEEECCCCCCccccHHHHHHHHHHHHHHhcCcChhhhhhhcchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999987643
Q ss_pred ---------------------------------------------eeecc-CCCCCHHHHHHHHHHcCCCCCCceEEeeC
Q psy4067 1290 ---------------------------------------------KEGTA-FGGTKLVDVQEELIRHGYNYQGKDIFYSG 1323 (1384)
Q Consensus 1290 ---------------------------------------------~d~t~-F~~~~~~~i~~~L~~~G~~~~Gke~lydG 1323 (1384)
.++|| |++.+.+++.+.|.++||+++|++.||||
T Consensus 1168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~tpvF~g~~~~~i~~~l~~aG~~~~Gk~~LyDG 1247 (2890)
T PRK09603 1168 AKELRAKMLEIANAINEKDPLTIHALENCSDEELLEYAKDWSKGVKMAIPVFEGISQEKFYKLFELAKIAMDGKMDLYDG 1247 (2890)
T ss_pred hHHHHHHHHhhhcccccccccccccccccchHHHHhhhhhhccCCcccCCCCCCCCHHHHHHHHHHcCCCCCCCEEEEcC
Confidence 23667 99999999999999999999999999999
Q ss_pred CCCcEEEeeEeEeeehhhccccccCccceeeccCCccccccCCCccccccCCCc
Q psy4067 1324 ITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLTRQPTGRRWKLTFTP 1377 (1384)
Q Consensus 1324 ~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LTrQP~eGRsr~~~~~ 1377 (1384)
+|||+|+++||+|++|||||+|||+|||||||+|||++|||||++||||+|||-
T Consensus 1248 rTGe~f~~~V~vG~~YylKL~HmVdDKiHaRstGPyslvTqQPl~GKs~~GGqR 1301 (2890)
T PRK09603 1248 RTGEKMRERVNVGYMYMIKLHHLVDEKVHARSTGPYSLVTHQPVGGKALFGGQR 1301 (2890)
T ss_pred CCCCCccceEEEEeeceeechhhccchhhhccCCCcchhhhCCCcccccCCCce
Confidence 999999999999999999999999999999999999999999999999999994
No 14
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=100.00 E-value=4.4e-120 Score=1175.05 Aligned_cols=646 Identities=25% Similarity=0.374 Sum_probs=471.3
Q ss_pred chhhhHHHHHHHHHHHHhhcCCC----------------------------CCCCCccccCcEeeehhhHHHHHHHHHHH
Q psy4067 475 FKMKAMYLAVMIRRMVLALSDPD----------------------------MLDDRDYYGNKRLELAGSLLSLMFEDVFK 526 (1384)
Q Consensus 475 ~~~Ka~yLg~MvRr~l~~~~~~~----------------------------~~DDrD~ygNKRlelAG~Lls~lFe~~fk 526 (1384)
|.+|.|.||.++|..++.++|.. .+||+||+||||++++|+||+.||+.+|+
T Consensus 411 f~~~~YdLg~vGR~k~N~kl~~~~~~~~~~l~~~Dii~~i~~Li~l~~g~~~~DDiDhL~NRRvr~vGeLl~~qfr~gl~ 490 (2836)
T PRK14844 411 FSPEYYDLSNIGRLKLNSYLGLNYDEDLTVLTHEDIIEIVRKIVLLRDGQGSVDDIDHLGNRRVRSVGEFIENQFRTGLL 490 (2836)
T ss_pred cCccccccccchhhhhhhhhccCCCCCCcEecHHHHHHHHHHHHHHhcCCCcccchhhhhccccchHHHHHHHHHHHHHH
Confidence 33466677777777777776654 44999999999999999999999999999
Q ss_pred HHHHHHHhhcc---------------ccce----ecc-c-------------------cceeecccCceeEeecCccccc
Q psy4067 527 RFNSELKETNL---------------SGVV----NLV-S-------------------GWWFELKYGNKIYIRSPSRKLL 567 (1384)
Q Consensus 527 ~~~~~~k~~~~---------------~~i~----sl~-~-------------------g~w~~~~~~n~~~i~t~~r~~~ 567 (1384)
|+.+.++.... ..++ .|+ + ++.+++++|.. +..|..+
T Consensus 491 r~~~~i~e~~~~~~~~~~~p~~lin~~~l~~~i~~ff~ss~LSQfmDQtNpLseltHkRRlsaLGPGGL----~r~~a~f 566 (2836)
T PRK14844 491 KLERAVVDSMSTSSLDKVSPSDFINPKVLTNVLRDFFNSSQLSQFMDQTNPLSEITHKRRLSALGPGGL----TRERAGF 566 (2836)
T ss_pred HHHHHHHHHHhhccccccchhhcccchhHHHHHHHHhcccchhhhccCcChhhhhhhcceecccCCCCc----ccccCCC
Confidence 99999986320 0111 122 1 44444444433 3334444
Q ss_pred -ccCCCCCCCcccccC--CCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeeccCCCCcccccccccceeee
Q psy4067 568 -AAGFSGPHSGRVRLM--PEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLGGGGILPSIQRQTTCLLTL 644 (1384)
Q Consensus 568 -a~Gvh~sh~GRicp~--pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~~g~i~~~~~~~~~~~l~~ 644 (1384)
++++|+||||||||+ ||||++.+...|+ .|+.
T Consensus 567 evRdvH~shyGRiCPIETPEG~NiGLI~SLA---------~yar------------------------------------ 601 (2836)
T PRK14844 567 EVRDVHPTHYGRICPIETPEGQNIGLINSLA---------IYAR------------------------------------ 601 (2836)
T ss_pred cccccCccccccccCCCCCCCCcccchhhhh---------hhee------------------------------------
Confidence 577899999999999 9999986642111 1111
Q ss_pred EeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEeccCCCcceEEEeCCCCCCC-
Q psy4067 645 ILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRP- 723 (1384)
Q Consensus 645 v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~- 723 (1384)
|...+.|+. ++++..+-.-...++||.+.||+...||.....+..
T Consensus 602 --In~~Gfiet--------------------------------Py~kV~~g~v~~~i~ylsa~~E~~~~Ia~a~~~~~~~ 647 (2836)
T PRK14844 602 --INKYGFIES--------------------------------PYRKVVNRVVTDQIEYLSAIDEGLYYIADTSAKLDEN 647 (2836)
T ss_pred --ccCCceEeC--------------------------------CcEEEEcCcCcccccccChHHhcCcEEEeCCccCCCC
Confidence 111233433 222222111234689999999999999987654431
Q ss_pred ---------------------ccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccc
Q psy4067 724 ---------------------GVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGC 782 (1384)
Q Consensus 724 ---------------------~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~ 782 (1384)
...+++.++|.+++||.|| ||||.|||+++|++|||+|++||++
T Consensus 648 ~~~~~~~v~~R~~~ef~~~~~~~v~~~dvsp~Q~~Svaas--------------LIPFLEhdDAnRALMGSNMQRQAVP- 712 (2836)
T PRK14844 648 NCFVDDMLYCRYAGSFVMVSSDQVSYIDVSPKQVISVAAS--------------LIPFLENDDANRALMGSNMQRQAVP- 712 (2836)
T ss_pred CcccCCeEEEecCCceEEecHHHceEEEeCcchhhhhHhh--------------cCCccccCccccccccccccccccc-
Confidence 1467899999999999999 9999999999999999999999999
Q ss_pred cccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccc
Q psy4067 783 IGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLG 862 (1384)
Q Consensus 783 ~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~ 862 (1384)
|.+|++|+|.| |+|.++|+||+.+|+|.-++.+.|++.+.|.|.
T Consensus 713 ---------------Ll~~e~PiVGT---------------------G~E~~vA~DSg~~v~A~~~G~V~yVda~kIvI~ 756 (2836)
T PRK14844 713 ---------------LLKPTAPLVAT---------------------GMESFVASGSGAVVLAKRDGIVDSSDSNSIVIR 756 (2836)
T ss_pred ---------------cccCCCCeEec---------------------CcchhhhhcccceEEeccCceEEEEcCCEEEEE
Confidence 99999999999 999999999999999976666666666556554
Q ss_pred cccccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeee
Q psy4067 863 DVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGY 942 (1384)
Q Consensus 863 ~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~y 942 (1384)
........+. +.+. +. |+.|...||..
T Consensus 757 ~~~~~~~~~~---------~~~~--Y~------------------------L~ky~RSNQ~T------------------ 783 (2836)
T PRK14844 757 AFDKERVNYL---------DVDI--YH------------------------LRKFQRSNHNT------------------ 783 (2836)
T ss_pred eCCCcccccc---------ccce--EE------------------------eccccccccce------------------
Confidence 3111100000 0000 11 66677777643
Q ss_pred ccccceeeeeeeeeccCCceeeeeeEe----------ecccCCCCCCcceEEEEeeecccccccceeecccccccCCcee
Q psy4067 943 NQQNRIDTLMYNLVYAQRPMVESKTIR----------ITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRC 1012 (1384)
Q Consensus 943 N~~~RiDt~~~~L~ypQkPLV~T~~i~----------~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs 1012 (1384)
++.|+|+|..+... .+..+||++|+|.+||+|||.|||+||||++|++.+.+++|+|
T Consensus 784 -------------cinQrPiV~~Gd~V~kGdilADG~st~~GELALG~NvlVAfmpW~GYNfEDAIliSErlv~eD~fTS 850 (2836)
T PRK14844 784 -------------CINQKPLVCVGDYVKEGDVIADGPAINSGELALGQNLLVAFMSWQGYNFEDSIIISSEVVKKDLFTS 850 (2836)
T ss_pred -------------eeeecceecCCCEeccCCEeccChhhcccccccccceEEEEeccCCcccccccccchhhccCceeEE
Confidence 45678888766542 3578999999999999999999999999999999999999887
Q ss_pred eEEecceeeeeecCCCccceeeCCccccCCCC-Ccc---cccccCCCCcccCCceeecCceEEeeeccCccccccccCCC
Q psy4067 1013 LVYRNSKCVLKQYPNQTHDRILGPLLEADTRK-PVY---RHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATP 1088 (1384)
Q Consensus 1013 ~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~-p~~---~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~ 1088 (1384)
++.+.|+++ .+|+..||+ ++|.+ |+. ..++||++|||++|++|++|||||||++|+.++ .++|
T Consensus 851 iHIee~ei~-------~r~Tk~G~E--eITrdIPnv~e~~lr~LDe~GIV~iGa~V~~GDILVGKvtPk~e~----~~tP 917 (2836)
T PRK14844 851 IHIEEFECV-------VHDTPLGSE--KITRAIPGVNEENLYHLDDSGIVKIGTRVGPGYILVGKVTPKPSL----SLPP 917 (2836)
T ss_pred EeecceEEE-------EEeccCCCc--eecccCCCCChHHHhcCCCCCCeecCCEECCCCEEEEeecCCCCC----CCCH
Confidence 766655554 455556654 33443 443 478899999999999999999999999999876 4899
Q ss_pred ccccccccccc----------cccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCC
Q psy4067 1089 EYKEVPVSYKG----------SVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFN 1158 (1384)
Q Consensus 1089 e~k~~~~~~k~----------~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPft 1158 (1384)
|++++.++|.. ++|.+++|++++.. + |+
T Consensus 918 EekLL~aIFGek~~~vkdtSLrvp~G~~G~Vidv~-----------------------------------~-------f~ 955 (2836)
T PRK14844 918 ETKLLMTIFGEKSFDCADSSLYTSPDVEGTVIDVQ-----------------------------------V-------FT 955 (2836)
T ss_pred HHHHHHHHhCCcccccccCceecCCCCCEEEEEEE-----------------------------------E-------Ec
Confidence 99999988863 44444444443211 0 11
Q ss_pred CCCCcCce---eeCCCCCCCc--ccccc-----------eeeecccccC-------------------Cc----------
Q psy4067 1159 ESGICPDI---IMNPHGLKGC--DRITE-----------YKEVPVSYKG-------------------SV---------- 1193 (1384)
Q Consensus 1159 e~Gi~pDI---IiNP~gvpsr--~~i~~-----------~~e~s~~~k~-------------------~e---------- 1193 (1384)
..|...|. .+--...... ....+ ..+...+-.+ ..
T Consensus 956 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1035 (2836)
T PRK14844 956 RRGVEENERALLIKQKEINDFEKERDYIINVTSEYFYDELKKLLINSGSQDREKFDSIEREQWWGIGLKNQSISEQVKSL 1035 (2836)
T ss_pred ccccccchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhcccccccHHHHhhccHHhhhhcccCCHHHHHHHHHH
Confidence 11111110 0000000000 00000 0000000000 00
Q ss_pred ---------------cceeeEEEEecC----CCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCC
Q psy4067 1194 ---------------PSYLEKVLVSSN----SEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGI 1254 (1384)
Q Consensus 1194 ---------------~~~vd~V~i~~~----~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi 1254 (1384)
...+++ +..+ ....+.|||+|+++|.+|+|||||||||||||||.|+|.|||||++||+
T Consensus 1036 ~~~~~~~~~~~~~~~~~k~~~--~~~gdeL~~gv~~~VkVyia~KRkiqvGDKmAGRHGNKGVIS~IlP~eDMPyL~DGt 1113 (2836)
T PRK14844 1036 KKDFDEKVSHAIAQFKRKVEK--LHEGYDLPQGVSMSVKVFIAVKHSLQPGDKMAGRHGNKGVISRVVPVEDMPYLEDGT 1113 (2836)
T ss_pred HHHHHHHHHHHHHHHHHHHHh--ccCCCcCCCCCceEEEEEEEEeecCCccccccccCCCCceEeEEcccCCCCcCCCCC
Confidence 000011 0111 1235789999999999999999999999999999999999999999999
Q ss_pred cceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCe---------------------------------------------
Q psy4067 1255 CPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNY--------------------------------------------- 1289 (1384)
Q Consensus 1255 ~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~--------------------------------------------- 1289 (1384)
++|||+||+|+||||||||++||++|+||...|..
T Consensus 1114 pvDIvLNPLGVPSRMNvGQilE~hLG~A~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~ 1193 (2836)
T PRK14844 1114 PVDIILNPLGVPSRMNVGQILETHVGWACKKLGEKVGNILDEINKIKSAFCKGIRSLNDDNFTKFAAAYLDNKKIENIDD 1193 (2836)
T ss_pred CceEEeCCCCCCccccHHHHHHHHHHHHHhhhhhhhHhhhhhhhcccccccccccccccccccccccccccccccccccc
Confidence 99999999999999999999999999999876411
Q ss_pred ------------------------------------------------------------------------------ee
Q psy4067 1290 ------------------------------------------------------------------------------KE 1291 (1384)
Q Consensus 1290 ------------------------------------------------------------------------------~d 1291 (1384)
..
T Consensus 1194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 1273 (2836)
T PRK14844 1194 DEITASVLNTPNKNALNDELNELVENYLNSCKSAYSNLRNFLIEVYSCGSNVSICNNIRDISDNNLIEFARKLRDGIPVA 1273 (2836)
T ss_pred ccccccccccccccccccccccchhccccccchhhHHHHHHHHHhhhcccccccccccccccHHHHHHHHhhhccCCeec
Confidence 01
Q ss_pred eccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCccceeeccCCccccccCCCcccc
Q psy4067 1292 GTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLTRQPTGRRW 1371 (1384)
Q Consensus 1292 ~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LTrQP~eGRs 1371 (1384)
.+.|+|.+.++|.+.|.++||+++||+.||||+|||+|+++||+|++|||||+|||+||+||||+|||+.|||||++|||
T Consensus 1274 tpvf~g~~~~~i~~~L~~~g~~~~Gk~~l~dG~TGe~f~~~v~vG~~yy~kL~HmV~DKihaRs~Gp~s~lT~QPl~Gr~ 1353 (2836)
T PRK14844 1274 APVFEGPKDEQIAKLFELAGLDNSGQAVLYDGCSGEKFDRKVTVGYMYMLKLHHLVDGKIHARSVGPYSLVTQQPLGGKS 1353 (2836)
T ss_pred CCCcCCCCHHHHHHHHHHhCcCCCCCEEEEcCCCCCccchhheeCcchhhhhhhhhcchhhhcccCCCcccccCCCcccc
Confidence 23588899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCc
Q psy4067 1372 KLTFTP 1377 (1384)
Q Consensus 1372 r~~~~~ 1377 (1384)
|.|||-
T Consensus 1354 ~~GG~R 1359 (2836)
T PRK14844 1354 HFGGQR 1359 (2836)
T ss_pred cCCCce
Confidence 999984
No 15
>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=3.5e-102 Score=912.28 Aligned_cols=368 Identities=47% Similarity=0.817 Sum_probs=313.9
Q ss_pred CCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceeeee-eEeecc---------cCCCCC
Q psy4067 909 FHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESK-TIRITN---------FHKLPA 978 (1384)
Q Consensus 909 s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~-~i~~~~---------~~elp~ 978 (1384)
|+.|++|||++||||||++|||+|+|||||++..|+..|.|... +|||+|||+|+ .++..+ ++++|+
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 46788999999999999999999999999999999999999876 99999999999 787777 999999
Q ss_pred CcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCCCCcccccccCCCCcc
Q psy4067 979 GQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYRHRALDQDGIV 1058 (1384)
Q Consensus 979 GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv 1058 (1384)
|+|++||||||+||||||||||||++++||+|++++|++ ..+++.+..+..+.+..+.. ..+...|++||+||++
T Consensus 78 G~N~iVAvmsy~GYN~EDAiIiNkssv~rG~f~s~~~k~-~~~~~~~~~g~~e~~~~~~~----~~~~~~~~~LD~dGii 152 (386)
T PF00562_consen 78 GQNAIVAVMSYTGYNQEDAIIINKSSVDRGLFTSIHYKT-EIEIRDNKGGPSEEIFRPIP----NVKEYNYSKLDEDGII 152 (386)
T ss_dssp SEEEEEEESBSSSTTTSSEEEEECHHHHTTTTEEEEEEE-EEEEEEETTSEEBBESS--T----SSTSTTGGGBCTTSBB
T ss_pred eeeeeEEeeehhcccchhhhhhhhhhhhcCeeeEEEEEE-EeeeecccCCcccccccccc----cchhhhhhhccccccc
Confidence 999999999999999999999999999999999999999 77777776666454443321 1145678999999999
Q ss_pred cCCceeecCceEEeeec-cCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHHhhhcccccccccccc
Q psy4067 1059 APGEQICERQVLVNKSM-PTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFS 1137 (1384)
Q Consensus 1059 ~~G~~V~~gDILIgKvs-p~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfs 1137 (1384)
++|+.|++|||||||++ |.... + ..+...
T Consensus 153 ~~G~~v~~gDiligk~~~~~~~~-------~------------------------------~~~~~~------------- 182 (386)
T PF00562_consen 153 KIGSRVEKGDILIGKITSPPRFS-------P------------------------------LLKKIF------------- 182 (386)
T ss_dssp -TTCEEETTSEEEEEEESTSC---------H------------------------------HHHHHH-------------
T ss_pred ccCcEEecceeEEEEEecccccc-------c------------------------------chhhcc-------------
Confidence 99999999999999996 21110 0 000000
Q ss_pred ccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEE-------ecCCCCcE
Q psy4067 1138 SRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLV-------SSNSEDAF 1210 (1384)
Q Consensus 1138 sRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i-------~~~~~~~~ 1210 (1384)
..+...++|+++.++..+.|+||+|.+ ..+.++..
T Consensus 183 --------------------------------------~~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~~~~~~~ 224 (386)
T PF00562_consen 183 --------------------------------------GEKNRNYRDTSIKYKSGESGRVDKVIIFSNEKKDTSNNEGYK 224 (386)
T ss_dssp --------------------------------------HSSSCSEEEEEEES-TT-EEEEEEEEEECCCSSBEEETTCEE
T ss_pred --------------------------------------ccccccccceeecccccEEeEeccccccccccccccccCcce
Confidence 001123688999999999999999999 67788999
Q ss_pred EEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCee
Q psy4067 1211 LIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYK 1290 (1384)
Q Consensus 1211 ~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~ 1290 (1384)
.|||++|+.|+|++|||||||||||||||+|+|+||||||++|++|||||||||||||||||||+|+++||++++.|.+.
T Consensus 225 ~iki~ir~~R~p~iGDKfssRHGqKGVvs~i~~~eDMPft~~G~~pDiIiNPhgiPSRMtiGqllE~~~g~~~~~~g~~~ 304 (386)
T PF00562_consen 225 KIKIRIRSTRRPQIGDKFSSRHGQKGVVSKILPQEDMPFTEDGIVPDIIINPHGIPSRMTIGQLLESLLGKAGALNGRFV 304 (386)
T ss_dssp EEEEEEEEEEE--TTEEEEETTSEEEEEEEEE-TTTSEEETTSEB-SEEE-GGGSTTTTBTHHHHHHHHHHHHHHSTCEE
T ss_pred EEEEEecccccchhHHHHhhhhcCceEEeeeeccccCccccCCCcceeeecccccccccchHHHHhhhhhhhhhccccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeccCCCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeEeeehhhccccccCccceeeccCCccccccCCCccc
Q psy4067 1291 EGTAFGGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYSGPVYYQKLKHMVQDKIHARSRGPRVVLTRQPTGRR 1370 (1384)
Q Consensus 1291 d~t~F~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~IfiGp~YYqRLkHMV~DKiHaRsrGP~~~LTrQP~eGR 1370 (1384)
|+|||++.+.+++.+.|.++||+++|+|+||||+||++++++||+||+|||||+|||+||+||||+||++.|||||+|||
T Consensus 305 ~~t~F~~~~~~~i~~~l~~~g~~~~g~~~l~~g~tG~~~~~~i~~G~~yy~rL~Hmv~DK~h~Rs~Gp~~~lT~QP~~Gr 384 (386)
T PF00562_consen 305 DATPFDESSEEDISELLKKAGYNYPGKEVLYDGRTGEKFEAPIFIGPVYYQRLKHMVDDKIHARSRGPYSLLTRQPVEGR 384 (386)
T ss_dssp B-TTTSSS-HHHHHHHHHHTTSHTTSEEEEBESSSSSBESSEEEEEEEEEEEBSTCGGGSTEEESS--BBSSSSSB-SSS
T ss_pred ecCCCCCcchhhhHhhhhcccccccceEEEEcCccCceEEeEEEeeeEEeccceEeCCcEEEEEecCCCccccCCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cc
Q psy4067 1371 WK 1372 (1384)
Q Consensus 1371 sr 1372 (1384)
||
T Consensus 385 ~r 386 (386)
T PF00562_consen 385 SR 386 (386)
T ss_dssp SS
T ss_pred CC
Confidence 97
No 16
>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=1.5e-68 Score=684.12 Aligned_cols=224 Identities=13% Similarity=0.149 Sum_probs=177.2
Q ss_pred ceeeEeccchhe----eccccccccchHHHHhhhccccc---------cceecccccccccccccccceeeeeccccccC
Q psy4067 40 LQAILFLPLFKQ----VDFGDSKVVSLRELLSHVTYQKR---------LYRLTVQPNWLGTVKAVHGTYLTMVTDETSKL 106 (1384)
Q Consensus 40 ~~~~~~~~~~~~----~~~~~~~~~sd~~~~~~i~~~~~---------~~~~~~~~~~~~~~~~~~g~~~~~~~~e~~~~ 106 (1384)
..+.+.+|.++. ++|||||+.||+||+++|++|.. .++++.||.|||++. .||+ + ..+
T Consensus 184 ~~i~v~i~~~~kIPi~illrALG~~sd~eI~~~i~~~~~i~~~l~~~~~~~~e~Al~~i~~~~-~~g~-------~-~~~ 254 (1065)
T TIGR02013 184 DVLYVRIDRKRKLPATVLLRALGYTIDTLILNRLGSGEYIRNTLRKDPTNSEEEALVEIYRKL-RPGE-------P-PTV 254 (1065)
T ss_pred CeEEEEecCCCceeHHHHHHHcCCCcchhhhhhcCchHHHHHHHHhccccCHHHHHHHHHhhc-CCCC-------c-chH
Confidence 346789999877 99999999999999999998773 567889999999986 4772 2 111
Q ss_pred CCCHHHHHHHHHHHHHHHhcCccccccC-------------------hhhHHHHHHHHHHHHHhcCcCC-CCChhhhhhH
Q psy4067 107 KDSPEIRDKWKLVLSFLKEKGLVKPHID-------------------SFDYFINVEIKKLMQANANIYS-DVDPLFYLKY 166 (1384)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~kgl~~~hi~-------------------~~~~f~~~~i~~~~~~~~~~~~-d~~d~f~~k~ 166 (1384)
..+.+..++ .||..+=.-++||| .+.+|++ |+++++++..+... ||.|||.|||
T Consensus 255 ~~a~~~l~~-----~f~~~~rY~LghiGr~kln~Kl~~~~~~~~~~l~k~d~l~-mi~~Ll~~~~g~~~~DD~Dhl~NKR 328 (1065)
T TIGR02013 255 EAARSLLEN-----LFFDPKRYDLGRVGRYKLNKKLGLDVPEDIGVLTKEDIIA-TIKYLIKLRNGKGEIDDIDHLGNRR 328 (1065)
T ss_pred HHHHHHHHH-----HhcCcccccccccchhhhhhhcCcCcCcccceehHHHHHH-HHHHHHHhhcCCCCCcchhhhhccc
Confidence 112222222 12222222234665 2578886 99999999777644 8889999999
Q ss_pred Hhhhhcchh-----------hhc----ccccccccccccccchhhHHHHHHHHHHhCCcccccccccccceeeeecccch
Q psy4067 167 LDIHVGIAD-----------KII----PKIKAAQFDIVNHMRQDTITNALTAAIQTGNWTIRRFKMERQGVTQVLSRLSY 231 (1384)
Q Consensus 167 ~d~~~~~~~-----------k~~----~~~~~~~~~~~~~~~~~~IT~~l~~alsTGNW~~~~~~~~r~GvsQvL~Rln~ 231 (1384)
++++|..++ |.+ .+.....+++..+++++.||+++++||+|| ||||+|+|+||
T Consensus 329 vr~aGeLL~~~fr~~l~rl~k~ik~~l~~~~~~~~~~~~~i~~~~it~~i~~ff~tg------------glSQ~Ldr~Np 396 (1065)
T TIGR02013 329 IRSVGELLQNQFRVGLARMERIVRERMSTQDTDTLTPQDLINAKPISAAIKEFFGSS------------QLSQFMDQTNP 396 (1065)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCHHHhcCccchHHHHHHHhccC------------CcccccccCCH
Confidence 999996443 111 111113456667889999999999999998 99999999999
Q ss_pred hhcccccccccc----cccccccccCCCcCCCCCcccccCCCCCCCccccchhhccccccccc
Q psy4067 232 ISGLGMMTRINS----QFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITT 290 (1384)
Q Consensus 232 ls~lshlrRv~s----~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~ 290 (1384)
||+|||+||++| ++++++|.++||+|||||||||||+|||||+|||||||||++|+|+.
T Consensus 397 Ls~lsh~RRlsslgpggl~r~~~~~~~RdlHpShyGrICPiETPEG~n~GLVknLA~~a~i~~ 459 (1065)
T TIGR02013 397 LAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNE 459 (1065)
T ss_pred HHhhhhhceecccCCCCcCccccCCccCccCccccccccCCCCCCCCccccccchhhhcccCc
Confidence 999999999999 79999999999999999999999999999999999999999999984
No 17
>CHL00001 rpoB RNA polymerase beta subunit
Probab=100.00 E-value=4.8e-66 Score=658.17 Aligned_cols=275 Identities=15% Similarity=0.148 Sum_probs=209.4
Q ss_pred EEEEEEec-ceeeEeccchhe----eccccccccchHHHHhhhcccc------------ccceeccccccccccccc-cc
Q psy4067 32 YIFFLLEG-LQAILFLPLFKQ----VDFGDSKVVSLRELLSHVTYQK------------RLYRLTVQPNWLGTVKAV-HG 93 (1384)
Q Consensus 32 ~~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~sd~~~~~~i~~~~------------~~~~~~~~~~~~~~~~~~-~g 93 (1384)
++-|-+.- ..+.+.++..+. ++|||||+ ||+||++.++|+. .+.+++.||.+|+++-+. +|
T Consensus 157 wl~~e~d~~~~i~vri~~~~kiPi~ilLrALG~-sd~eIl~~~~~~~~l~~~l~~~~~~~~~t~e~Al~~i~~~l~~r~~ 235 (1070)
T CHL00001 157 RLELEIDRKARIWARVSRKQKISILVLLSAMGL-NLREILDNVCYPEIFLSFLNDKEKKKIGSKENAILEFYQQFACVGG 235 (1070)
T ss_pred ceEEEEecCCeEEEEecCCCcccHHHHHHHcCC-CHHHHHHHhCcHHHHHHHHHHHhhccccCHHHHHHHHHHhhccCCC
Confidence 34444432 346688888866 99999999 6999999998863 156778899999988532 44
Q ss_pred ceeeeeccccccCCCCHHHHHHHHHHHHHHHhcCccccccC-------------hhhHHH-----HHHHHHHHHHhcCcC
Q psy4067 94 TYLTMVTDETSKLKDSPEIRDKWKLVLSFLKEKGLVKPHID-------------SFDYFI-----NVEIKKLMQANANIY 155 (1384)
Q Consensus 94 ~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~kgl~~~hi~-------------~~~~f~-----~~~i~~~~~~~~~~~ 155 (1384)
++. ....+.+... ..|+..+ .-+.||| .+.+|+ .+|++.++++..+..
T Consensus 236 -------~~~-~~~~a~~~l~-----~~ff~~r-Y~Lg~vGr~~~n~kl~~~~~~~~~~L~~~Di~~~i~~Ll~l~~G~~ 301 (1070)
T CHL00001 236 -------DPV-FSESLCKELQ-----KKFFQQR-CELGRIGRRNMNRKLNLDIPENNTFLLPQDVLAAADYLIGMKFGMG 301 (1070)
T ss_pred -------Ccc-hHHHHHHHHH-----HHhcccc-ccccccCchhhhhhhcccccccceEecHHHHHHHHHHHHHhhcCCC
Confidence 221 1111111111 1133222 3333455 234666 899999999987764
Q ss_pred C-CCChhhhhhHHhhhhcchh-----------hhc----cc--ccccccccccccchhhHHHHHHHHHHhCCcccccccc
Q psy4067 156 S-DVDPLFYLKYLDIHVGIAD-----------KII----PK--IKAAQFDIVNHMRQDTITNALTAAIQTGNWTIRRFKM 217 (1384)
Q Consensus 156 ~-d~~d~f~~k~~d~~~~~~~-----------k~~----~~--~~~~~~~~~~~~~~~~IT~~l~~alsTGNW~~~~~~~ 217 (1384)
. ||.|||.|||++.+|..++ |.+ .+ .+.+.+++..+++++.||++|++||+|
T Consensus 302 ~~DDiDhLgNKRvr~vGeLL~~qfr~~l~r~~r~ik~~m~~~~~~~~~~~~~~lin~~~It~~ik~ff~t---------- 371 (1070)
T CHL00001 302 TLDDIDHLKNKRIRSVADLLQDQFGLALNRLENAVRGTICGAIRRKLIPTPQNLVTSTPLTTTYESFFGS---------- 371 (1070)
T ss_pred CccchhHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCHHHhhCcchHHHHHHhhhcC----------
Confidence 4 8889999999999885433 221 11 012356777889999999999999987
Q ss_pred cccceeeeecccchhhcccccccccc--ccccccccc--CCCcCCCCCcccccCCCCCCCccccchhhcccccccc-cCC
Q psy4067 218 ERQGVTQVLSRLSYISGLGMMTRINS--QFEKTRKVS--GPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHIT-TEN 292 (1384)
Q Consensus 218 ~r~GvsQvL~Rln~ls~lshlrRv~s--~~~~~~K~~--~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It-~~~ 292 (1384)
+||||+|||+||||+|+|+||+++ |.+.+++.+ +||++||||||||||+|||||+|||||||||++|+|+ .|+
T Consensus 372 --s~LSQflDqtNpLseltHkRRlsslGpgglsr~~a~fevRdvHpShyGRICPIETPEG~NiGLI~sLA~~A~In~~Gf 449 (1070)
T CHL00001 372 --HPLSQFLDQTNPLTEIVHGRKLSSLGPGGLTGRTASFRVRDIHPSHYGRICPIDTSEGINAGLIGSLAIHARIGHWGS 449 (1070)
T ss_pred --CcceeeeccCCHHHhhhhhhcccccCCCCccccccCCcccccCccccccccCCCCCCcccccchhhhhhhcccccCCC
Confidence 799999999999999999999999 888877766 9999999999999999999999999999999999999 699
Q ss_pred ChHHHHHHHHHcCceeccccCCcccCCCCeEEEEECCEEEEEeec
Q psy4067 293 DEKNMLKIMYNIGIEHIAMFNGEELSSPGVYLVFVNGILAGITCH 337 (1384)
Q Consensus 293 ~~~~i~~~l~~lG~~~~~~~~~~~~~~~~~~~VflNG~~vG~~~~ 337 (1384)
.+.|+++++..++.+.+..+++.+ ...++|+ ||+|+|...+
T Consensus 450 ietP~~~v~~~~~~~~i~ylsa~e---e~~~~Ia-~g~~~~~~~~ 490 (1070)
T CHL00001 450 LESPFYEISERSKEERMVYLSPSE---DEYYMIA-AGNSLALNQG 490 (1070)
T ss_pred cccceeeeccccccceeEEccccc---cCceEEE-eCceeeccCC
Confidence 999999999888888888777654 3458999 9999996543
No 18
>KOG0214|consensus
Probab=100.00 E-value=5.8e-61 Score=572.91 Aligned_cols=745 Identities=20% Similarity=0.192 Sum_probs=495.0
Q ss_pred cccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCc-----eeeeeeeeeccccceeccccccccCCccc-
Q psy4067 339 KEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQ-----RVVRSDLVIGRMPIMLQSSKCVLRNKTEY- 412 (1384)
Q Consensus 339 i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~-----~~~~~~V~IG~iPIMLrS~~CvL~g~~~~- 412 (1384)
+.+.+|++.|.|.....++|+|||+||+|||||+|||+..+.... ..+.+.|+||+|||||||..|.|+|+++.
T Consensus 67 iylskP~~~e~dg~~~~m~p~eARlrnLTYSspLyVd~~k~~~~~~~~~~~~~~qkvfIGkIPiMlrS~~C~l~~~~d~d 146 (1141)
T KOG0214|consen 67 IYLSKPTHTESDGSTSTMFPNEARLRNLTYSSPLYVDATKIVKTSRDEVEDMQEQKVFIGKIPIMLRSSYCLLSGLTDKD 146 (1141)
T ss_pred EEEecccccccCCCccccCchhhHhhhcccccceEEEeEEEEeeccccccccccceeeEeccceeeehhhhhhcccchhh
Confidence 568899999999999999999999999999999999997774333 24567899999999999999999999863
Q ss_pred ----------------ccccce--------eeeeEEEe------------------cc-cc-------------------
Q psy4067 413 ----------------TSSSRR--------ASTSSVTM------------------HS-QR------------------- 430 (1384)
Q Consensus 413 ----------------is~~~~--------~s~t~i~~------------------~~-~~------------------- 430 (1384)
+|++++ +++++... ++ ++
T Consensus 147 l~~l~eCp~DqgGyfIINGseKVlIAQe~matn~vyvf~k~~p~~~ay~~EirS~le~~sR~~stl~v~~~ar~~~gq~i 226 (1141)
T KOG0214|consen 147 LTELGECPYDQGGYFIINGSEKVLIAQEKMATNIVYVFKKAHPGTYAYTGEIRSCLERSSRFISTLSVNMDARAGKGQEI 226 (1141)
T ss_pred hhhccCCCcCCCceEEEcCceeeeeehhhccCceEEEEecCCCCceeEeeeeehhhhccCCCcceeeeeeccccCCCceE
Confidence 133331 11111110 00 00
Q ss_pred ---------ccch------------------------------------hhhHHhh-c-----------cccccccCCCh
Q psy4067 431 ---------TSPL------------------------------------LSCKKLR-Q-----------KRFQTYKKTPV 453 (1384)
Q Consensus 431 ---------~~P~------------------------------------~e~~~~~-~-----------~~~~~~~~~~~ 453 (1384)
.+|+ +|+.... + ..+.+.+..++
T Consensus 227 ~~tlpyikqeIPI~ilfrALG~v~dreILehIcYd~~D~em~e~lkpsieeafviq~qn~ALdfig~rga~~Gvtkekri 306 (1141)
T KOG0214|consen 227 IATLPYIKQEIPILILFRALGFVSDREILEHICYDFDDAEMFESLKPSIEEAFVIQEQNVALDFIGQRGACIGVTKEKRI 306 (1141)
T ss_pred EEEeeeecccCcEEEEehhhcCCccHHHHHhhcCCCCcHHHHHHhhhhhhhhhhhhhhHHHHHHHHhcCCCCCCCcchhh
Confidence 0131 1110000 0 12334555677
Q ss_pred hhHHHHhhhccccccccccccchhhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHH
Q psy4067 454 DDARDFLSSTCIAHIPVINMRFKMKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELK 533 (1384)
Q Consensus 454 ~ea~e~L~~~~LpHv~v~~~~~~~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k 533 (1384)
+-|+|+|.+.+|||+++.....++||+|||+|++|+|.+++|++.+|||||||||||+|||.||+.||+.+|+++.+++.
T Consensus 307 ~yakdiLqKe~lPhi~~~e~~etkKA~fLGYmi~rlll~aLgRr~~ddRDHfG~KRLDlaGpLLa~lfR~lf~~l~rd~~ 386 (1141)
T KOG0214|consen 307 KYAKEILQKELLPHVGLGEICETKKAYFLGYMVHRLLLAALGRRELDDRDHFGNKRLDLAGPLLAKLFRSLFAKLLRDVT 386 (1141)
T ss_pred HHHHHHHHHHhccccccchhhhhhHHHHHHhhHHHHHHHHcCCCCccchhhccccchhhchhHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred hhc---------------------cccc-eeccccceeecccC-----------ceeEeecCc---cccc-ccC------
Q psy4067 534 ETN---------------------LSGV-VNLVSGWWFELKYG-----------NKIYIRSPS---RKLL-AAG------ 570 (1384)
Q Consensus 534 ~~~---------------------~~~i-~sl~~g~w~~~~~~-----------n~~~i~t~~---r~~~-a~G------ 570 (1384)
++. ++|+ ++++|||||.++.+ |+++.+|++ |+++ |.|
T Consensus 387 ~~mQk~le~~~dfni~~aika~iIt~gl~yslaTgnwgdq~ka~~~ragVsQVLnR~t~~sTLsHlRR~n~Pigr~GKlA 466 (1141)
T KOG0214|consen 387 RYMQKCLENGVDFNIELAIKAKIITNGLNYALATGNWGDQKKAMQGRAGVSQVLNRLNPLSTLSHLRRTNSPIGRTGKLA 466 (1141)
T ss_pred HHHHHHHhcCccceEEEEEEeeeecccceeeeccCCccchhHHhhccccHHHHhccccHHHHHHHHhhcCCccccccccC
Confidence 622 4566 78999999988776 677777764 7777 565
Q ss_pred ----CCCCCCcccccC--CCCCeEEE--ec---ccccCCc---chhhhHHHhhcccccc----cccccceeeccCCCCcc
Q psy4067 571 ----FSGPHSGRVRLM--PEGPTILL--NS---CLRSGGK---AQHEALYNAVQRHATK----CCTLNFLFFLGGGGILP 632 (1384)
Q Consensus 571 ----vh~sh~GRicp~--pEgp~i~~--~~---~~~~~~~---~~~~~~~~~lk~~~~~----~~~~~~~~fl~~g~i~~ 632 (1384)
.||||||||||+ |||+++.+ |+ +..|+|. |++|.+..+-..+-.+ ..+..+.+|++ |.|-
T Consensus 467 kpRqlHnthwGmvCPaeTPEGqacGLVKNLSLmayIsvGS~~sPi~EfLeewgmE~le~~~ps~~~datkvfvN--G~wv 544 (1141)
T KOG0214|consen 467 KPRQLHNSHWGMVCPAETPEGQACGLVKNLSLMAYISVGSLESPIVEFLEEWGMENLEEISPSPSPDATKVFVN--GVWV 544 (1141)
T ss_pred CccccCcccceeeccccCCCcceeeccccceEEEEEecCCCccHHHHHHHHhchhhHhhcCCCcCCCceEEEEc--ccEE
Confidence 499999999999 99997544 44 5556664 3777777665442221 12555668886 5666
Q ss_pred ccccccccee-----------eeEeeeccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcE
Q psy4067 633 SIQRQTTCLL-----------TLILFSLNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKI 701 (1384)
Q Consensus 633 ~~~~~~~~~l-----------~~v~v~~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~ 701 (1384)
.+++++..+. ...+|++.+++++ +|+|+|+| +||..||+|+++.+. -+++...|
T Consensus 545 Glhrdp~~l~~tlr~lRR~~di~~Evs~vRDIr~--kE~ri~tD------aGR~~rPLliven~~-------l~~~k~hi 609 (1141)
T KOG0214|consen 545 GLHRDPEELVATLKRLRRQFDIIAEVSMVRDIRD--KEIRIFTD------AGRSLRPLLIVENAK-------LLIKKRHI 609 (1141)
T ss_pred EecCCHHHHHHHHHHHHHhhccchhhhhhccccc--cceeeeec------cCccccceEEEechh-------hhhhhHHH
Confidence 6665443333 2358999999998 89999999 999999999766431 01111111
Q ss_pred EEeccCCCcceEEEeCCCCCCCccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhcccccc
Q psy4067 702 EYLDVNEGNDSHIAVSESGIRPGVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMG 781 (1384)
Q Consensus 702 e~~~~~e~~~~~ia~~~~~~~~~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g 781 (1384)
..|-..+.+
T Consensus 610 ~~L~~~~~~----------------------------------------------------------------------- 618 (1141)
T KOG0214|consen 610 RALKQSKPN----------------------------------------------------------------------- 618 (1141)
T ss_pred HHHhhCchh-----------------------------------------------------------------------
Confidence 111000000
Q ss_pred ccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeeccccc
Q psy4067 782 CIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWL 861 (1384)
Q Consensus 782 ~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~ 861 (1384)
.|++.-+|.. |.-.++.++.|+.++.+++-.-++-..
T Consensus 619 -----------------~~~w~~lv~~-------------G~ie~idteeEEtvmiam~~~dL~~~~------------- 655 (1141)
T KOG0214|consen 619 -----------------EYRWAHLLSS-------------GEVEYIDTEEEETVMIAMGPKDLAESA------------- 655 (1141)
T ss_pred -----------------hcchhhhccc-------------cceeeeccchhhhHHHhcCHHHHhhcc-------------
Confidence 0111111111 223334456677777776666555100
Q ss_pred ccccccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceee
Q psy4067 862 GDVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIG 941 (1384)
Q Consensus 862 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~ 941 (1384)
-.+.|+... +-++.-+ -+.+++||||+|||+||||||++|+|| .-
T Consensus 656 -----~~~~~THCE------------iHpsmIL--------------gv~asiIpFpdh~qspr~tYQsa~~kq----am 700 (1141)
T KOG0214|consen 656 -----YPKTYTHCE------------IHPSMIL--------------GVCASIIPFPDHNQSPRNTYQSAMGKQ----AM 700 (1141)
T ss_pred -----CCccccccc------------ccHHHhh--------------hhceeeeecCCCCCchHHHHHHHHhhh----cc
Confidence 011222111 0001111 167889999999999999999999998 55
Q ss_pred eccccceeeeeeeeeccCCceeeeeeEeecccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceee
Q psy4067 942 YNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCV 1021 (1384)
Q Consensus 942 yN~~~RiDt~~~~L~ypQkPLV~T~~i~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~ 1021 (1384)
.++..+.+...-.|.+++.++-++......-....+.+.++-+....+.+++.++....|--..+.++.|.+++.. .
T Consensus 701 g~y~tn~~vR~dtl~~~l~ypqkpl~tt~~~e~l~~~eL~aG~NaiVAi~~~~GYNqEDsvimn~s~v~rg~FrS~---~ 777 (1141)
T KOG0214|consen 701 GVYHTNPQVRMDTLAKVLYYPQKPLVTTRAMEYLRFRELPAGQNAIVAIACYSGYNQEDSVIMNQSSVDRGLFRSF---F 777 (1141)
T ss_pred eeeeecchhhhhhhhhcccccccchhhHHHHhhhhhhhcccccceEEEEecccCccHHHHHHHHhhhhhcchhhhh---h
Confidence 5555555555555666666665555444433445568999999999999999999998888888999998876543 3
Q ss_pred eeecCCCccceeeCCccccCCCCCcccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccc
Q psy4067 1022 LKQYPNQTHDRILGPLLEADTRKPVYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSV 1101 (1384)
Q Consensus 1022 i~~~~~~~~d~i~~p~~~~~~~~p~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~ 1101 (1384)
+++|.......-.+++ +....
T Consensus 778 ~RsYk~q~~~~~~~~e--e~~~~--------------------------------------------------------- 798 (1141)
T KOG0214|consen 778 IRSYKDQEHKKDQGPE--EIFEE--------------------------------------------------------- 798 (1141)
T ss_pred hhHHHhhhhhcccccc--ccccc---------------------------------------------------------
Confidence 4444322111111111 10000
Q ss_pred cccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCC---cCceeeCC-CCCCCcc
Q psy4067 1102 PSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGI---CPDIIMNP-HGLKGCD 1177 (1384)
Q Consensus 1102 p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi---~pDIIiNP-~gvpsr~ 1177 (1384)
|.-+.+.-.|||.-.- + +|=++..-|. -.|++|.- ...|..
T Consensus 799 ----------------------------~~~~~~~~mr~~~~dk----L--dddG~i~~G~~vs~~Dv~iGk~t~~~~~- 843 (1141)
T KOG0214|consen 799 ----------------------------PPRGEGRGMRNGKYDK----L--DDDGIIMPGSRVSGGDVLIGKTTPQPAK- 843 (1141)
T ss_pred ----------------------------cccccccccccccccc----c--cccCCccccceeecCCEEeccccCCccc-
Confidence 1111111112211000 0 0000000000 02343320 000110
Q ss_pred cccceeeeccc-ccCCccceeeEEEEecCCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCCCCCCCCcc
Q psy4067 1178 RITEYKEVPVS-YKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICP 1256 (1384)
Q Consensus 1178 ~i~~~~e~s~~-~k~~e~~~vd~V~i~~~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMPft~dGi~P 1256 (1384)
|.... -.....+..+++.+..++.| ...+|.+.+ .+.|+||+.+|++++.+..|-...++++-..|+++
T Consensus 844 ------~~~~~~~~~~~t~~d~s~~Lr~~e~G-ivd~V~vt~---n~~G~kF~kv~vr~~ripqiGDKfasrHgqKG~ig 913 (1141)
T KOG0214|consen 844 ------EDESGPEDRLYTKRDHSTKLRHTERG-IVDQVWVTK---NSEGPKFVKVRVRQVRIPQIGDKFASRHGQKGTIG 913 (1141)
T ss_pred ------chhccccccccccccceeecccCCcc-eEEEEEEec---CCCCCceeEEEEeecccccccchhccccccCcccc
Confidence 00110 01111446678888888888 667777755 89999999999999999999999999999999999
Q ss_pred eEeeCCCCCCCccchhhhHHhhhhHHHhhcCCeeeeccCC-CCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeEeE
Q psy4067 1257 DIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYKEGTAFG-GTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYIYS 1335 (1384)
Q Consensus 1257 DIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~d~t~F~-~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~Ifi 1335 (1384)
+++.+++..+++|++-..+++-. .++. ..+++.+-+.|.. -...++...+++.++.. -+-.++
T Consensus 914 ~~~~qedmpft~eGi~pDiiiNP-------------haiPSRmtig~liEc~lg--k~~a~~~e~~~atpFs~-v~v~~i 977 (1141)
T KOG0214|consen 914 ITYRQEDMPFTIEGIVPDIIINP-------------HAIPSRMTIGQLIECLLG--KVAAYEGEEGDATPFSD-VTVSKI 977 (1141)
T ss_pred ceeecCCCCccccCCCcceEECc-------------ccCccccchhhhHHHhhh--hhhhcccccccCCCCCc-cchhcc
Confidence 99999999999999876655321 1221 2345555544432 24445566777777777 566789
Q ss_pred eeehhhccccccCccceeeccCCccccccCCCccccc
Q psy4067 1336 GPVYYQKLKHMVQDKIHARSRGPRVVLTRQPTGRRWK 1372 (1384)
Q Consensus 1336 Gp~YYqRLkHMV~DKiHaRsrGP~~~LTrQP~eGRsr 1372 (1384)
+..+++...|+..++.+++.+++..+.+++++++...
T Consensus 978 s~~l~~~g~~~~G~e~~ynGrtG~~~~~~if~Gptyy 1014 (1141)
T KOG0214|consen 978 SANLHVYGYQYRGNERMYNGRTGRKLRAQIFIGPTYY 1014 (1141)
T ss_pred cchHHHhccccCCCEEEecCCCCceeeeeeecCchHH
Confidence 9999999999999999999999999999999988643
No 19
>PRK08565 DNA-directed RNA polymerase subunit B; Provisional
Probab=100.00 E-value=2.1e-57 Score=588.23 Aligned_cols=254 Identities=29% Similarity=0.426 Sum_probs=185.8
Q ss_pred cccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCceeeeeeeeeccccceeccccccccCCccc------
Q psy4067 339 KEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVVRSDLVIGRMPIMLQSSKCVLRNKTEY------ 412 (1384)
Q Consensus 339 i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~~~~V~IG~iPIMLrS~~CvL~g~~~~------ 412 (1384)
+++++|++.+.+...+.++|+|||+|++||+||++|+++++.++....++.++||+||||++|+.|+|+|+++.
T Consensus 54 i~l~~P~~~~~~~~~~~l~P~ecR~r~lTYsa~l~v~i~~~~~~~~~~~~~v~iG~iPIMv~S~~C~L~~~s~~el~~~~ 133 (1103)
T PRK08565 54 IRVGEPEIKEADGSERPITPMEARLRNLTYAAPLYLTMIPVENGIEYEPEEVKIGDLPIMVKSKICPLSGLSPDELIEIG 133 (1103)
T ss_pred EEECCCcccccccccCCCCHHHHHhcCCCcceEEEEEEEEEECCeeeEEEEEEeccCCeEeCCCcccCCCCCHHHHHhcC
Confidence 55788888665555678999999999999999999999998776666667899999999999999999999884
Q ss_pred -----------ccccce--------eee----------------eEEEe-c---------------------c--ccccc
Q psy4067 413 -----------TSSSRR--------AST----------------SSVTM-H---------------------S--QRTSP 433 (1384)
Q Consensus 413 -----------is~~~~--------~s~----------------t~i~~-~---------------------~--~~~~P 433 (1384)
++|+++ +.+ ..+.+ . . .+.+|
T Consensus 134 E~p~D~GGYFIING~ERVI~~q~~~s~n~~~~~~~~~~~~~~~~a~i~s~~~~~~~~~~l~~~~~g~i~~~~~~~~~~IP 213 (1103)
T PRK08565 134 EDPKDPGGYFIINGSERVIVSQEDLAPNRVLVDKGEAGSSITHTAKVISSRAGYRAQVTVERRKDGTIYVSFPAVPGKIP 213 (1103)
T ss_pred CCccCCCCeEEECCcEEEEEEEEecCCCEEEEEEecCCCcceEEEEEEeccCCCcceEEEEEecCCeEEEEEcCcccEee
Confidence 144431 000 00000 0 0 11245
Q ss_pred h---hhh-------HH-----------------------h-h---------ccccccc--cCCChhhHHHHhhhcccccc
Q psy4067 434 L---LSC-------KK-----------------------L-R---------QKRFQTY--KKTPVDDARDFLSSTCIAHI 468 (1384)
Q Consensus 434 ~---~e~-------~~-----------------------~-~---------~~~~~~~--~~~~~~ea~e~L~~~~LpHv 468 (1384)
+ ..| ++ . . .++|+.. +..+.+.|+++|++.+|||+
T Consensus 214 i~illkALG~~sD~eI~~~i~~~~~~~~~l~~~l~~~~~~~~t~~~al~~ig~~~~~~~~~~~~~e~~~~~L~~~ll~Hi 293 (1103)
T PRK08565 214 FVILMRALGLETDRDIVYAVSLDPEIQQELLPSLEQASSIAATVEDALDYIGKRVAIGQPREYRIERAEQILDKYLLPHL 293 (1103)
T ss_pred HHHHHHHcCCCCHHHHHHHhcccHHHHHHHHHHHHHhhccccCHHHHHHHHHHhccCCCCCccHHHHHHHHHHhhCcccC
Confidence 2 000 00 0 0 0122221 11234789999999999999
Q ss_pred ccccccchhhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhc------------
Q psy4067 469 PVINMRFKMKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETN------------ 536 (1384)
Q Consensus 469 ~v~~~~~~~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~------------ 536 (1384)
+....+++.|+.+|++|+|+++++..|...+||+|||+|||+++||+||+.||+++|+++++++|+..
T Consensus 294 g~~~~~~~~K~~~L~~Mi~kLl~l~~g~~~~DD~D~l~NKRv~l~G~Ll~~~fr~~l~~~~~~ik~~l~~~~~~~~~~~~ 373 (1103)
T PRK08565 294 GTSPEDRIKKAYFLGQMASKLLELYLGRREPDDKDHYANKRLRLAGDLLAELFRVAFKQLVKDLKYQLEKSYARGRKLDL 373 (1103)
T ss_pred CCcccchhHHHHHHHHHHHHHHhhhcCCCCCCCccccCCcEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCH
Confidence 98887788999999999999999999999999999999999999999999999999999999886521
Q ss_pred ---------cccc-eeccccceeecccC--------ceeEeecCcccc----------c-ccCCCCCCCcccccC--CCC
Q psy4067 537 ---------LSGV-VNLVSGWWFELKYG--------NKIYIRSPSRKL----------L-AAGFSGPHSGRVRLM--PEG 585 (1384)
Q Consensus 537 ---------~~~i-~sl~~g~w~~~~~~--------n~~~i~t~~r~~----------~-a~Gvh~sh~GRicp~--pEg 585 (1384)
+.++ ++|+||||..+..| |.....|..|+. . ++.+|++|||++||+ |||
T Consensus 374 ~~~i~~~~It~~i~~~~sTGnw~~~~sGvSq~ldr~N~l~~lSh~Rrv~s~~~r~~~~~~vR~Lhps~wG~iCPveTPEG 453 (1103)
T PRK08565 374 RAIVRPDIITERIRHALATGNWVGGRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRICPFETPEG 453 (1103)
T ss_pred HHhcccchhhHHHHHHHhcCccccCCcceEEecccCCHHHHHHHHhhccCCcccCCCCccccccChhhccccCCCCCCCc
Confidence 1122 35889999987655 111111111222 2 566799999999999 999
Q ss_pred CeEEEec
Q psy4067 586 PTILLNS 592 (1384)
Q Consensus 586 p~i~~~~ 592 (1384)
+.|.+..
T Consensus 454 ~~cGLv~ 460 (1103)
T PRK08565 454 PNCGLVK 460 (1103)
T ss_pred cccchhh
Confidence 9876644
No 20
>KOG0215|consensus
Probab=100.00 E-value=6.6e-59 Score=548.61 Aligned_cols=726 Identities=25% Similarity=0.320 Sum_probs=448.5
Q ss_pred HHHHHHHHHHhc----CccccccChhhHHHHHHHHHHHHHhcCcCCCC----ChhhhhhHHhhhhc--------------
Q psy4067 115 KWKLVLSFLKEK----GLVKPHIDSFDYFINVEIKKLMQANANIYSDV----DPLFYLKYLDIHVG-------------- 172 (1384)
Q Consensus 115 ~~~~~~~~~~~k----gl~~~hi~~~~~f~~~~i~~~~~~~~~~~~d~----~d~f~~k~~d~~~~-------------- 172 (1384)
+++++.+.|..+ -+-.+.+|++||..|+++..+++....++.|. ++.+.+++..+...
T Consensus 347 ~K~~yi~~m~rr~~~a~l~~~~~ddrd~~gnkrlelagqllsllfeD~fk~~n~e~k~~~dk~l~k~~ra~~fD~~~~~n 426 (1153)
T KOG0215|consen 347 MKAIYIGLMVRRVIQAMLNKLAMDDRDYVGNKRLELAGQLLSLLFEDLFKRFNSELKKNIDKILKKPIRAQEFDALKHLN 426 (1153)
T ss_pred ceeehHHHHHHHHHHHHhCcccccchhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhhhHHHHHHH
Confidence 344555544444 44455679999999999998888766555443 23333444443331
Q ss_pred ----chhhhcccccccccccccccchhhHHHHHHHHHHhCCcccccccccccceeeeecccchhhccccccccccccccc
Q psy4067 173 ----IADKIIPKIKAAQFDIVNHMRQDTITNALTAAIQTGNWTIRRFKMERQGVTQVLSRLSYISGLGMMTRINSQFEKT 248 (1384)
Q Consensus 173 ----~~~k~~~~~~~~~~~~~~~~~~~~IT~~l~~alsTGNW~~~~~~~~r~GvsQvL~Rln~ls~lshlrRv~s~~~~~ 248 (1384)
+.+-.+++.....+...+.++.+.++.+.-.+..|++|....+.+.++++.|+..+..|.|...+..++-.|+.+.
T Consensus 427 ~~~~~it~~l~ra~stgnw~iKrfrmer~gvt~VlsrlSyisaLgmmtri~s~fektrkvsgprSlq~sqwgmlcp~dtp 506 (1153)
T KOG0215|consen 427 VRANMITSGLERAISTGNWSIKRFRMERAGVTQVLSRLSYISALGMMTRINSQFEKTRKVSGPRSLQPSQWGMLCPSDTP 506 (1153)
T ss_pred HHHHHHHHHHHHHhhcCchHHHHhhhhhccceeeehhhhhhhhhhhheehhhhheeehhccCccccChhhcccccCCCCC
Confidence 0111112222345677788888888888899999999999888889999999999999999999999999999999
Q ss_pred ccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccccCCChHHHHHHHHHcCceeccccCCcccCCCCeEEEEEC
Q psy4067 249 RKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITTENDEKNMLKIMYNIGIEHIAMFNGEELSSPGVYLVFVN 328 (1384)
Q Consensus 249 ~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~~~~~~~i~~~l~~lG~~~~~~~~~~~~~~~~~~~VflN 328 (1384)
.+.+.++-.++++|+.|||.++||+..|+++|+.+.+.|+..+....+.-.++.-|+...+......++..++...++.+
T Consensus 507 egeacglvknlalmthittd~ee~pi~~~~~k~gv~di~~v~~~e~~~~~~~~v~Lng~iig~~~~~~~~v~~~r~lrr~ 586 (1153)
T KOG0215|consen 507 EGEACGLVKNLALMTHITTDSEEKPILKLCYKLGVEDIHVVSGRELHTPDSFLVFLNGLIIGITRRPQYFVNSFRRLRRK 586 (1153)
T ss_pred CccccccccchHHHhcccCCCCcchhHHHHHHhcceeeeeecccccCCCceEEEEecceeeccccchHHHHHHHHHHHHc
Confidence 99999999999999999999999999999999999999999987766666666667666665544444444455667888
Q ss_pred CEEEEEeecCcccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCceeeeeeeeeccccceeccccccccC
Q psy4067 329 GILAGITCHHKEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVVRSDLVIGRMPIMLQSSKCVLRN 408 (1384)
Q Consensus 329 G~~vG~~~~~i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~~~~V~IG~iPIMLrS~~CvL~g 408 (1384)
|++-++....... .+ | |++ ...++.+ +++--
T Consensus 587 G~i~~fvsv~~~~-----~q-----~------~v~--------------i~sdggr-------~crp~------------ 617 (1153)
T KOG0215|consen 587 GKIGEFVSVFTNT-----TQ-----R------CVY--------------IASDGGR-------VCRPL------------ 617 (1153)
T ss_pred Ccccceeeeeeee-----ee-----E------EEE--------------EecCCCe-------EeeeE------------
Confidence 8877766544322 11 1 111 0011111 11111
Q ss_pred CcccccccceeeeeEEEeccccccchhhhHHhhccccccccCCChhhHHHHhhhccccccccccccchhhhHHHHHHHHH
Q psy4067 409 KTEYTSSSRRASTSSVTMHSQRTSPLLSCKKLRQKRFQTYKKTPVDDARDFLSSTCIAHIPVINMRFKMKAMYLAVMIRR 488 (1384)
Q Consensus 409 ~~~~is~~~~~s~t~i~~~~~~~~P~~e~~~~~~~~~~~~~~~~~~ea~e~L~~~~LpHv~v~~~~~~~Ka~yLg~MvRr 488 (1384)
+++..+...+ +. + | .|.
T Consensus 618 --------------Iiv~~~~~~v----------------~~---~------------h------------------~~e 634 (1153)
T KOG0215|consen 618 --------------IIVDNGRPRV----------------KQ---H------------H------------------MDE 634 (1153)
T ss_pred --------------EEEeCCcchh----------------hh---h------------h------------------HHH
Confidence 1111100000 00 0 0 000
Q ss_pred HHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhccccceeccccceeecccCceeEeecCcccccc
Q psy4067 489 MVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETNLSGVVNLVSGWWFELKYGNKIYIRSPSRKLLA 568 (1384)
Q Consensus 489 ~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~~~~i~sl~~g~w~~~~~~n~~~i~t~~r~~~a 568 (1384)
+.. |. .-|+|+++
T Consensus 635 l~~---g~----------------------r~F~DFl~------------------------------------------ 647 (1153)
T KOG0215|consen 635 LLD---GK----------------------RTFDDFLK------------------------------------------ 647 (1153)
T ss_pred HHH---hh----------------------hhHHHHHH------------------------------------------
Confidence 000 00 12444444
Q ss_pred cCCCCCCCcccccCCCCCeEEEecccccCCcchhhhHHHhhcccccccccccceeeccCCCCcccccccccceeeeEeee
Q psy4067 569 AGFSGPHSGRVRLMPEGPTILLNSCLRSGGKAQHEALYNAVQRHATKCCTLNFLFFLGGGGILPSIQRQTTCLLTLILFS 648 (1384)
Q Consensus 569 ~Gvh~sh~GRicp~pEgp~i~~~~~~~~~~~~~~~~~~~~lk~~~~~~~~~~~~~fl~~g~i~~~~~~~~~~~l~~v~v~ 648 (1384)
.|.|- ++=|| +. +.+++-|-...|.|..+|
T Consensus 648 -------~glvE------YLDVN----EE---------------------ND~~Ialye~~I~~~TTH------------ 677 (1153)
T KOG0215|consen 648 -------DGLIE------YLDVN----EE---------------------NDSLIALYEEDIGPETTH------------ 677 (1153)
T ss_pred -------hchhh------eeecc----cc---------------------cCceEEechhhcCCCcce------------
Confidence 12211 11010 00 000000000001111111
Q ss_pred ccccccccccccccccCCCCCCCCCCCCCcccccccccccccccccccccCcEEEeccCCCcceEEEeCCCCCCCcccee
Q psy4067 649 LNGDGKRGARNSQQYCDCPDGYSSGCQPRPTFLNMHQFLGFKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRPGVTTH 728 (1384)
Q Consensus 649 ~~~~l~~~~r~~r~~~d~~~~~~~gr~~rPl~~~~~~~~~~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~~~~th 728 (1384)
|+ ++-|+ .-++-|| +- -|-|
T Consensus 678 ----LE-----IEPFT--iLGv~AG-----------------------------------------------LI--PYPH 697 (1153)
T KOG0215|consen 678 ----LE-----IEPFT--ILGVVAG-----------------------------------------------LI--PYPH 697 (1153)
T ss_pred ----ee-----ecchh--hhhhhcc-----------------------------------------------cc--CCCC
Confidence 00 00111 0000011 11 2455
Q ss_pred ecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCceeec
Q psy4067 729 LEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVES 808 (1384)
Q Consensus 729 ~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t 808 (1384)
-.=+|-+----.-| |||||..++|+..|+||-+|.|.|||+|+|+|
T Consensus 698 HNQSPRNTYQCAMG----------------------------------KQAmG~IaYNQ~~RiDtlmYll~YPq~PmVkT 743 (1153)
T KOG0215|consen 698 HNQSPRNTYQCAMG----------------------------------KQAMGAIAYNQKKRIDSLLYLLVYPQRPMVKT 743 (1153)
T ss_pred CCCCCcchhhhhhh----------------------------------hhhhhhhhhhhhhhHHHHHHHHhcCCCccccc
Confidence 55666666655567 99999999999999999999999999999999
Q ss_pred cccccccCCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccccccccccccccchhhccccccccc
Q psy4067 809 KTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFDV 888 (1384)
Q Consensus 809 ~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ 888 (1384)
++.+.++||..|+|||. .|||.||+| ||+
T Consensus 744 KTIELi~ydKLPAGQNA-----------------tVAVMSYSG----------------------------------YDI 772 (1153)
T KOG0215|consen 744 KTIELINYDKLPAGQNA-----------------TVAVMSYSG----------------------------------YDI 772 (1153)
T ss_pred eeEEeeccccCCCCCcc-----------------EEEEEeccC----------------------------------Cch
Confidence 99999999999999855 678888886 899
Q ss_pred chhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceeeeeeE
Q psy4067 889 RTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTI 968 (1384)
Q Consensus 889 ~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i 968 (1384)
| ||.++||+|+++|+= -|-.-|-+-. +.
T Consensus 773 E-----------DALVLNKsSlDRGfG-------------RC~Vyk~~~~----------------------------~~ 800 (1153)
T KOG0215|consen 773 E-----------DALVLNKSSIDRGFG-------------RCEVYKKTTT----------------------------TL 800 (1153)
T ss_pred h-----------hhhhcccchhccCcc-------------eEEEEeeeee----------------------------ee
Confidence 9 889999999999930 0111111000 00
Q ss_pred eecccCCCCCCcceEEEEeeecccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCCCCccc
Q psy4067 969 RITNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYR 1048 (1384)
Q Consensus 969 ~~~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~ 1048 (1384)
.+++.+.-..|.-+ +=|+ -.|-.+| +....+.|.+..|-..+..+....+
T Consensus 801 -----kkY~N~T~Drimgp------~~d~-----------~t~kpi~--------kh~vLd~DGl~~pG~~V~~~qi~iN 850 (1153)
T KOG0215|consen 801 -----KKYANGTFDRIMGP------QLDP-----------NTRKPIW--------KHQVLDDDGLATPGERVQPGQIYIN 850 (1153)
T ss_pred -----eecCCCchhhhccc------ccCC-----------CcCCcch--------hhcccCcccCCCCccEeccCcEEEe
Confidence 11111111111000 0000 0001111 2233444555544322211111111
Q ss_pred ccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEEecCcchhhhHHHhhhccc
Q psy4067 1049 HRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTR 1128 (1384)
Q Consensus 1049 ~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R 1128 (1384)
..---.++..-+| . +..+..|++.+..||+-+|+++|+|.++.++++.+++|+.+||+|
T Consensus 851 K~mP~vt~~~~~~------------------~---~~~~~~Yk~~pitykgpepsyidkVmls~n~~dq~LIK~llRQTR 909 (1153)
T KOG0215|consen 851 KQMPTVTGTSLPG------------------L---SASQVQYKAVPITYKGPEPSYIDRVMLTSNDEDQFLIKVLLRQTR 909 (1153)
T ss_pred ccCCCcccccCCC------------------C---CccccccccccceecCCCcchhheeEeecCccccHHHHHHHhhcc
Confidence 0000011111111 0 112346899999999999999999999999999999999999999
Q ss_pred cccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccceeeEEEEecC-CC
Q psy4067 1129 RPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSYLEKVLVSSN-SE 1207 (1384)
Q Consensus 1129 ~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~vd~V~i~~~-~~ 1207 (1384)
+|++|||||||||||||+|.|++||||||.+.|||||||+|||||||||+++...|..-+-+ |+++.-.-..+ ..
T Consensus 910 rPElGDKFSSRHGQKGVcGlIv~QEDMPFnD~GIcPDiIMNPHGFPSRMTVGK~iELlsGKA----GVl~G~~hYGTaFG 985 (1153)
T KOG0215|consen 910 RPELGDKFSSRHGQKGVCGLIVQQEDMPFNDQGICPDIIMNPHGFPSRMTVGKMIELLSGKA----GVLEGTFHYGTAFG 985 (1153)
T ss_pred CcccccccccccCCCceeeEEeeccCCCCcccCCCcccccCCCCCcccchHHHHHHHhcccc----ceeeeeEeeccccC
Confidence 99999999999999999999999999999999999999999999999999999887654433 44443222111 11
Q ss_pred CcEEEEEEEEeecCCCcCC--cccccCCCceeEEEEeecCCCCCCC-CC--CcceEeeCCCCCC--CccchhhhHHhhhh
Q psy4067 1208 DAFLIKMLLRQTRRPEIGD--KFSSRHGQKGVIGLIVEQEDMPFNE-SG--ICPDIIMNPHGYP--SRMTVGKLIELLAG 1280 (1384)
Q Consensus 1208 ~~~~vkV~ir~~R~p~iGD--KfsSRHGQKGvvg~i~~qeDMPft~-dG--i~PDIIiNPhg~P--SRMTIGql~E~l~G 1280 (1384)
|.+ |-| .---|||- -+.-.||-++- .| ...-|.|.|.-+- -.|..-++.....|
T Consensus 986 gsk-------------Ved~~~~Lv~hGf------nY~GKD~ltSGITGepLeAYIffGPiYYQKLKHMVlDKMHARARG 1046 (1153)
T KOG0215|consen 986 GSK-------------VEDISEELVEHGF------NYSGKDMLTSGITGEPLEAYIFFGPIYYQKLKHMVLDKMHARARG 1046 (1153)
T ss_pred Cch-------------HHHHHHHHHHhcc------CccCccccccCCCCCcceeeEEechHHHHHHHHHHHHHHhhhccC
Confidence 110 001 01125552 34445665552 22 2457888888776 68999999999999
Q ss_pred HHHhhcCCeeeeccCC-CCCHHHHH-HHHHHcCCCCCCceEEeeCCCCcEEEeeE--------eEeeehhhc
Q psy4067 1281 KAGLMEGNYKEGTAFG-GTKLVDVQ-EELIRHGYNYQGKDIFYSGITGEALEAYI--------YSGPVYYQK 1342 (1384)
Q Consensus 1281 k~~~~~g~~~d~t~F~-~~~~~~i~-~~L~~~G~~~~Gke~lydG~TGe~l~~~I--------fiGp~YYqR 1342 (1384)
.-++++..++.|..-+ |..+.|++ +.|+.+|.+..--|+|. ++-..|+++| |-|+|-|.|
T Consensus 1047 PRAvLTRQPTEGRSrdGGLRLGEMERDCLIaYGASmLl~ERLM--iSSDaFeVdVC~~CGllgykgwC~~Ck 1116 (1153)
T KOG0215|consen 1047 PRAVLTRQPTEGRSRDGGLRLGEMERDCLIAYGASMLLLERLM--ISSDAFEVDVCRQCGLLGYKGWCTTCK 1116 (1153)
T ss_pred CceeeecCCCCCcCCCCCcccchhhhhhhhhccHHHHHHHHHh--hcCcceeeeeccccccceechhhhhcc
Confidence 9899998888887664 67888887 78888887655444433 2334444443 356665554
No 21
>CHL00207 rpoB RNA polymerase beta subunit; Provisional
Probab=100.00 E-value=5e-57 Score=572.90 Aligned_cols=242 Identities=18% Similarity=0.209 Sum_probs=174.5
Q ss_pred CCCccEEEEEEecceee-Eeccchhe----eccccccccchHHHHhhhcc--ccc----------cceeccccccccccc
Q psy4067 27 TPGPAYIFFLLEGLQAI-LFLPLFKQ----VDFGDSKVVSLRELLSHVTY--QKR----------LYRLTVQPNWLGTVK 89 (1384)
Q Consensus 27 ~~~~~~~~~~~~~~~~~-~~~~~~~~----~~~~~~~~~sd~~~~~~i~~--~~~----------~~~~~~~~~~~~~~~ 89 (1384)
.-| +|+-|-+....++ +-++-.+. +++||||+ ||+||++.+.| +++ ..+++.|+..|+++-
T Consensus 148 ~rG-swl~~e~d~k~~i~vridr~rKipit~lLrALGl-s~~eIl~~~~~~~~~~~~~~~l~~~~~~~~e~Al~~Iy~~l 225 (1077)
T CHL00207 148 NRG-SWIKFELDKNKEIWIRIDKNRKKPLIIFLKALGL-TDQDIYSRLTKSEFLKKLKPILLNSNSYTNEEILLEIYKNL 225 (1077)
T ss_pred CCC-ceEEEEEcCCCeEEEEecCCceeeHHHHHHHhCC-CHHHHHHHHhccchHHHHHHHHhccCcccHHHHHHHHHHhc
Confidence 344 6777777766444 45555444 88999999 99999999987 221 334566666666554
Q ss_pred ccccceeeeeccccccCCCCHHHHHHHHHHHH-HHHhcCccccccChh------------------hHHHHHHHHHHHHH
Q psy4067 90 AVHGTYLTMVTDETSKLKDSPEIRDKWKLVLS-FLKEKGLVKPHIDSF------------------DYFINVEIKKLMQA 150 (1384)
Q Consensus 90 ~~~g~~~~~~~~e~~~~~~~~~~~~~~~~~~~-~~~~kgl~~~hi~~~------------------~~f~~~~i~~~~~~ 150 (1384)
.|| ..++.+.+.+++-. |+..+-.-+.|+|.+ ...+-.+++.++++
T Consensus 226 -rp~--------------~~~~~~~a~~~l~~~ff~~~rYdLg~vGR~klN~kl~~~~~~~~~~l~~~Dil~~i~~Li~l 290 (1077)
T CHL00207 226 -SPI--------------EPATVNDANQNLFSRFFDPKNYDLGKVGRYKINNKLNLNIPERVRNLTYEDILSIIDKLINL 290 (1077)
T ss_pred -CCC--------------CCccHHHHHHHHHHHhcChhcccccccchhhhhhhccCCcCccCceecHHHHHHHHHHHHHh
Confidence 355 11223333444433 443333333444431 12344788888888
Q ss_pred hcCc-CCCCChhhhhhHHhhhhcchh-----------hhccc----ccccccccccccchhhHHHHHHHHHHhCCccccc
Q psy4067 151 NANI-YSDVDPLFYLKYLDIHVGIAD-----------KIIPK----IKAAQFDIVNHMRQDTITNALTAAIQTGNWTIRR 214 (1384)
Q Consensus 151 ~~~~-~~d~~d~f~~k~~d~~~~~~~-----------k~~~~----~~~~~~~~~~~~~~~~IT~~l~~alsTGNW~~~~ 214 (1384)
..+. ..||-||+.|||+...|..++ |.+.. .....+.....+.++.||..|+.+|+
T Consensus 291 ~~g~~~~DDiDHL~NRRvrsvGELlq~qfr~gl~rler~ike~m~~~~~~~~tp~~lin~k~lt~~ikeFFg-------- 362 (1077)
T CHL00207 291 KINKGNFDDIDHLKNRRVRSVGELLQNQFRIGLKRLERILRNRMTICDIDSLSKFNLINPKPLIALIREFFG-------- 362 (1077)
T ss_pred hcCCCcccchhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHhhhcccccCChhhcccchhHHHHHHHhhc--------
Confidence 7654 347779999999998775433 22211 01123445567888999999999996
Q ss_pred ccccccceeeeecccchhhcccccccccc----cccccccccCCCcCCCCCcccccCCCCCCCccccchhhccccccccc
Q psy4067 215 FKMERQGVTQVLSRLSYISGLGMMTRINS----QFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITT 290 (1384)
Q Consensus 215 ~~~~r~GvsQvL~Rln~ls~lshlrRv~s----~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~ 290 (1384)
++++||+|||+|+||+|+|+||+++ +++|++..+++|++||||||||||+|||||+|||||+|||++|.|+.
T Consensus 363 ----ss~LSQfmDQtNpLselTHKRRlsaLGpGGLsR~ra~fevRdvH~thyGRiCPIETPEG~n~Gli~~la~~~~in~ 438 (1077)
T CHL00207 363 ----SSQLSQYMDQTNPLSELTHKRRISILGPGGLDKDRISFAVRDIHPSHYGRICPIETPEGPNCGLIGSLATNARINK 438 (1077)
T ss_pred ----cCCccceecccChHHhhhccceeeccCCCcccccccCCcccccCccccccccCCCCCCCcccccccchhhhccccC
Confidence 5699999999999999999999999 99999999999999999999999999999999999999999999987
Q ss_pred -CCChHHH
Q psy4067 291 -ENDEKNM 297 (1384)
Q Consensus 291 -~~~~~~i 297 (1384)
|+.+.|.
T Consensus 439 ~GfietPy 446 (1077)
T CHL00207 439 FGFIETPF 446 (1077)
T ss_pred CCceeCce
Confidence 6766664
No 22
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=100.00 E-value=7.2e-55 Score=543.85 Aligned_cols=411 Identities=26% Similarity=0.406 Sum_probs=305.1
Q ss_pred ccccccccccCcEEEeccCCCcceEEEeCCCCCCCccceeecccCcccccccchhhhhhcccccCCCCCCCCCCCCCCcc
Q psy4067 689 FKRFDDFLYEGKIEYLDVNEGNDSHIAVSESGIRPGVTTHLEIAPFTLLGVCAGIELLQYNKRFHSPGLVPYPHHNQAPR 768 (1384)
Q Consensus 689 ~~~~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~~~~~th~ei~p~~~l~v~a~~~~~~~~~~~~~~~lipf~~hNqspR 768 (1384)
...|.+|+..| +||++++|++++.||..+.+ +||+|++|..|++++|+ ++||+|||||||
T Consensus 569 ~~~~~~lv~tG-~E~~~a~e~~~~~ia~~~~~-----~~~ve~~~~~I~~~~~~--------------~~~~~~~n~~~~ 628 (1060)
T COG0085 569 LRTEAPLVGTG-MEYLDAEDSGAAVIAKRPGV-----VTHVEISPIVILGIEAS--------------LIPYPEHNQSPY 628 (1060)
T ss_pred cccccccccCC-ceeeccccccceeEeccCCc-----EEEEeeeeeEEEeeccc--------------cCCccccCcChH
Confidence 46899999999 99999999999999998764 89999999999999999 999999999999
Q ss_pred chhhhhhccccccccccccccccccceeeeccCCCceeeccccccccCCCCCCCccccCCCCccchhhcccccceeEEee
Q psy4067 769 NTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRITNFHKLPAGKCQISPGGAEELTARESCHEVLKIIS 848 (1384)
Q Consensus 769 n~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~~~~~~~~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~ 848 (1384)
|||||+|+||++|++.+|+..|.|+..|.++|||.|+|+| +++|+|||+ +||+.+
T Consensus 629 n~~~~~~~~Q~~~~~~~~~~~~~d~~~~~~~~~~~P~~~~--------~e~~~GqN~-----------------~VA~m~ 683 (1060)
T COG0085 629 NLYKFARSNQATGINQRPLVKRGDTVEKGLVYADGPSVDT--------GELALGQNA-----------------LVAFMP 683 (1060)
T ss_pred HHHHHhhhhcccCCCcccceeccccccccceecCCCcccc--------CcccCCcee-----------------EEEEec
Confidence 9999999999999999999999999999999999999999 999999976 677777
Q ss_pred cccceeeecccccccccccccccccccchhhcccccccccchhhhhhhccccceeeccccCCCCccccCCCCCCCccchh
Q psy4067 849 FSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFDVRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTY 928 (1384)
Q Consensus 849 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRnty 928 (1384)
|+| ||+| ||+|+||+++.+++
T Consensus 684 ~~G----------------------------------Yn~E-----------DAiiin~~~v~~~~-------------- 704 (1060)
T COG0085 684 WNG----------------------------------YNYE-----------DAIIISERSVERDL-------------- 704 (1060)
T ss_pred ccC----------------------------------cChh-----------HheecccchhhcCC--------------
Confidence 765 8888 88999999888884
Q ss_pred hhcccccccceeeeccccceeeeeeeeeccCCceeeeeeEee--cccCCCCCCcceEEEEeeecccccccceeecccccc
Q psy4067 929 QCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKTIRI--TNFHKLPAGQNATIAVMSYSGYDIEDALIMNKASLD 1006 (1384)
Q Consensus 929 q~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~i~~--~~~~elp~GqN~iVAvmsy~GYN~EDAIIiNkssid 1006 (1384)
+++.+++. ....+.+.|..-+.-+... | |+|
T Consensus 705 ----------------------------------~ts~~~~~~~~~~r~~~~g~e~~~~iP~~-~---e~~--------- 737 (1060)
T COG0085 705 ----------------------------------FTSIHIEEYETEARDTKLGPEEIRDIPNV-S---EEA--------- 737 (1060)
T ss_pred ----------------------------------ceEEEEEEEeeeeeccCCCccccccCCCc-C---HHH---------
Confidence 12222221 1345566777666333222 2 222
Q ss_pred cCCceeeEEecceeeeeecCCCccceeeCCccccCCCCCccc-------ccccCCCCcccCCceeecCceEEeeeccCcc
Q psy4067 1007 RGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKPVYR-------HRALDQDGIVAPGEQICERQVLVNKSMPTIS 1079 (1384)
Q Consensus 1007 RG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p~~~-------~~~LDedGiv~~G~~V~~gDILIgKvsp~~~ 1079 (1384)
|...+.|.+..+..++..++...+ .+.-.+.++.+ |+.
T Consensus 738 ------------------~~~Lde~Gii~ig~~V~~gdilvgk~tP~~~~~~~~ee~ll~---------i~~-------- 782 (1060)
T COG0085 738 ------------------LRNLDEDGIIRIGAEVKGGDILVGKVTPKGETELTPEERLLR---------IFG-------- 782 (1060)
T ss_pred ------------------HhcCCccCccccccEEcCCCEEEEeeCCCCCCCCCchhhhhc---------ccc--------
Confidence 122333333333333333332221 00011112111 110
Q ss_pred ccccccCCCccccccccccccccccceEEEEecCcc----hhhhHHHhhhccccccccccccccCCCcceeeeEeecCCC
Q psy4067 1080 VSAISMATPEYKEVPVSYKGSVPSYLEKVLVSSNSE----DAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDM 1155 (1384)
Q Consensus 1080 ~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii~~~~~----~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDM 1155 (1384)
.+.++++..+++.++++|+.|.++++++ +..+|||++|++|+|++|||||||||||||+|++||+|||
T Consensus 783 --------ek~rdtsl~~~~g~~G~V~~V~~~~~~~~~~g~~~~vkV~v~~~R~~~~GDK~a~RHG~KGVis~i~p~eDM 854 (1060)
T COG0085 783 --------EKVRDTSLRVPHGEEGIVDDVQVFTREDGDPGVNKLVKVYVAQKRKPQIGDKMAGRHGNKGVVSKIVPQEDM 854 (1060)
T ss_pred --------ceeeccceeecCCCCeEEEEEEEEeccCCCcCceEEEEEEEEEeccCCccccccccCCCCceeeeecCcccC
Confidence 1247788888999999999999998766 7899999999999999999999999999999999999999
Q ss_pred CCCCCCCcCceeeCCCCCCCcccccceeeecccccCCccce-eeEEEEecCCCCcEEEEEEEEeecCCCcCC-------c
Q psy4067 1156 PFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSVPSY-LEKVLVSSNSEDAFLIKMLLRQTRRPEIGD-------K 1227 (1384)
Q Consensus 1156 Pfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e~~~-vd~V~i~~~~~~~~~vkV~ir~~R~p~iGD-------K 1227 (1384)
||+++|++||||+|||||||||+++|+.|+.+++.+...|. +|...+....+.. ++ ..--+-|. -
T Consensus 855 Pf~~~G~~~DiilNP~gvPSRM~iGqilE~~lG~a~~~~G~~~~~~~F~g~~~~~--~~-----~~l~~~g~~~~Gk~~l 927 (1060)
T COG0085 855 PFLEDGTPPDIILNPLGVPSRMNIGQILETHLGKAAALLGIPVDTPVFDGAPEED--IR-----ELLKEAGFPYSGKEVL 927 (1060)
T ss_pred CcCCCCCcccEEECCCCCCccccHHHHHHHHHHHHHHhcCceeccCCcCCCCHHH--HH-----HHHHHcCCCCCCCEEe
Confidence 99999999999999999999999999999999998887664 4443333222111 00 00011222 1
Q ss_pred ccccCCCce----eEEEEeecCCCCCCCCCCcceEeeCCCCCCCccchhhhHHhhhhHHHhhcCCeeeecc-CCCCCHHH
Q psy4067 1228 FSSRHGQKG----VIGLIVEQEDMPFNESGICPDIIMNPHGYPSRMTVGKLIELLAGKAGLMEGNYKEGTA-FGGTKLVD 1302 (1384)
Q Consensus 1228 fsSRHGQKG----vvg~i~~qeDMPft~dGi~PDIIiNPhg~PSRMTIGql~E~l~Gk~~~~~g~~~d~t~-F~~~~~~~ 1302 (1384)
|.||.|+|= +||.++-|.- .+|.=.++.....|..+.++-++..|-+ |+|....|
T Consensus 928 ydG~TGe~~~~~i~vG~~Y~~kL--------------------~HmV~dK~HaRs~GP~s~lT~QP~~Gka~~GG~RfGE 987 (1060)
T COG0085 928 YDGRTGEPFDAPIFVGVMYYQKL--------------------HHMVDDKIHARSTGPYSLVTQQPLGGKAQFGGQRFGE 987 (1060)
T ss_pred ecCCCCCcccccEEEEehHHHhH--------------------HhhhcccceeeccCCceeeecCCCCcccccCCccccc
Confidence 455555442 4444443322 5677777777888888888888877764 78888988
Q ss_pred HH-HHHHHcCCCCCCceEE
Q psy4067 1303 VQ-EELIRHGYNYQGKDIF 1320 (1384)
Q Consensus 1303 i~-~~L~~~G~~~~Gke~l 1320 (1384)
++ ..|+.+|..+.-+|.|
T Consensus 988 ME~~aL~ayGAa~~LqE~L 1006 (1060)
T COG0085 988 MEVWALEAYGAAYTLQERL 1006 (1060)
T ss_pred hHHHHHHHHhHHHHHHHHh
Confidence 88 6888888776666554
No 23
>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=3.8e-53 Score=539.18 Aligned_cols=152 Identities=35% Similarity=0.499 Sum_probs=134.1
Q ss_pred HHHHHHHHHHHHHhcCcCC-CCChhhhhhHHhhhhcchhhhc---------------ccc--cccccccccccchhhHHH
Q psy4067 138 YFINVEIKKLMQANANIYS-DVDPLFYLKYLDIHVGIADKII---------------PKI--KAAQFDIVNHMRQDTITN 199 (1384)
Q Consensus 138 ~f~~~~i~~~~~~~~~~~~-d~~d~f~~k~~d~~~~~~~k~~---------------~~~--~~~~~~~~~~~~~~~IT~ 199 (1384)
+|+.+|+++++++..+... |+.|||.+||++++|......+ .+. +...+++...++++.||+
T Consensus 211 ~~L~~Mi~kLl~~~~g~~~~Dd~D~~~NkRv~~~G~Ll~~lfr~~l~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~~It~ 290 (866)
T cd00653 211 EDLIYMIRKLILLVLGKGKLDDIDHLGNKRVRLAGELLQNLFRSGLKRLEREVKEKLQKQLSKKKDLTPQLLINSKPITS 290 (866)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCchhhhCeEEeeHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccCHHHhccchHHHH
Confidence 8999999999999887654 8889999999999985433111 000 112356666778889999
Q ss_pred HHHHHHHhCCcccccccccccceeeeecccchhhcccccccccc-cccccccccCCCcCCCCCcccccCCCCCCCccccc
Q psy4067 200 ALTAAIQTGNWTIRRFKMERQGVTQVLSRLSYISGLGMMTRINS-QFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGL 278 (1384)
Q Consensus 200 ~l~~alsTGNW~~~~~~~~r~GvsQvL~Rln~ls~lshlrRv~s-~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGL 278 (1384)
+|++||+||||..+++.++++||||+|+|+||+|+|||+||+++ ++++++|+++||+|||||||++||+|||||++|||
T Consensus 291 ~i~~~~~TGnw~~~~~~~~~~Gvsq~ldr~N~ls~lsh~Rrv~~~~~~~~~k~~~~R~lhps~~G~iCPveTPEG~~cGL 370 (866)
T cd00653 291 GIKEFLATGNWGSKRFLMQRSGLSQVLDRLNPLSELSHKRRISSLGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGL 370 (866)
T ss_pred HHHHHhhcCCccccccccccceEEEEcccCCHHHHHHhhhhcccccccccccCCcccccCcccCCccCCCCCCCCccccc
Confidence 99999999999988889999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred hhhcccccccc
Q psy4067 279 VKNLALMTHIT 289 (1384)
Q Consensus 279 VKnLAl~a~It 289 (1384)
|||||++|+|+
T Consensus 371 v~~LA~~a~Is 381 (866)
T cd00653 371 VKNLALMARIS 381 (866)
T ss_pred hhhhhceEeee
Confidence 99999999998
No 24
>KOG0216|consensus
Probab=100.00 E-value=1.3e-50 Score=480.65 Aligned_cols=266 Identities=21% Similarity=0.321 Sum_probs=191.6
Q ss_pred eccccccccchHHHHhhhcccc--------------------ccceeccccccccccc-cc-ccceeeeeccccccCCCC
Q psy4067 52 VDFGDSKVVSLRELLSHVTYQK--------------------RLYRLTVQPNWLGTVK-AV-HGTYLTMVTDETSKLKDS 109 (1384)
Q Consensus 52 ~~~~~~~~~sd~~~~~~i~~~~--------------------~~~~~~~~~~~~~~~~-~~-~g~~~~~~~~e~~~~~~~ 109 (1384)
.+.+||==-||+||-+-++--. ++++|+++|+|||.+= |+ .+ +.++ .-+...
T Consensus 233 lILKAL~~tsDeEIf~~lv~g~~gdqfl~~rv~~mLr~v~ee~l~trtqcl~yLGs~FRaVl~~-----v~~~-~D~evg 306 (1111)
T KOG0216|consen 233 LILKALTNTTDEEIFEGLVGGDEGDQFLTSRVELMLREVQEENLFTRTQCLQYLGSRFRAVLDF-----VPEQ-PDLEVG 306 (1111)
T ss_pred HHHHHHhccCHHHHHHHHhCCccCceeHHHHHHHHHHHHhhcccccHHHHHHHHhhhhhhhhcC-----CCCC-chHHHH
Confidence 5668888889999988775322 1999999999999983 32 22 2221 011111
Q ss_pred HHHHHHHHHHHHHHHhcCccccccChh---hHHHHHHHHHHHHHhcCcCCCCC-h-----------hhh----hhHHhhh
Q psy4067 110 PEIRDKWKLVLSFLKEKGLVKPHIDSF---DYFINVEIKKLMQANANIYSDVD-P-----------LFY----LKYLDIH 170 (1384)
Q Consensus 110 ~~~~~~~~~~~~~~~~kgl~~~hi~~~---~~f~~~~i~~~~~~~~~~~~d~~-d-----------~f~----~k~~d~~ 170 (1384)
..+.++. |.=|+|+. =.++-+||++|.....+-...++ | |.+ +.|++-.
T Consensus 307 ~fILr~~------------VlvHLd~~~DKF~lLifmiqKL~slv~ge~~~dnpDs~q~qEil~~ghl~~~~LkEriEe~ 374 (1111)
T KOG0216|consen 307 RFILREY------------VLVHLDSDEDKFNLLIFMIQKLYSLVDGECTPDNPDSPQNQEILLPGHLYGSILKERIEEW 374 (1111)
T ss_pred HHHHHhh------------eEEEecccHHHHHHHHHHHHHHHHHhcCCcCCCCCCChhhhhcccccchHHHHHHHHHHHH
Confidence 2222222 77798873 36777999999999777555333 2 212 2222222
Q ss_pred hc----chhhhcccc-ccccc-cc---cccc-c-hhhHHHHHHHHHHhCCccccc--ccccccceeeeecccchhhcccc
Q psy4067 171 VG----IADKIIPKI-KAAQF-DI---VNHM-R-QDTITNALTAAIQTGNWTIRR--FKMERQGVTQVLSRLSYISGLGM 237 (1384)
Q Consensus 171 ~~----~~~k~~~~~-~~~~~-~~---~~~~-~-~~~IT~~l~~alsTGNW~~~~--~~~~r~GvsQvL~Rln~ls~lsh 237 (1384)
.. +..+.+.+. ....| |+ .+.+ + ...|+++|+++|||||..... +.|+++|.|.+++|+|++--|||
T Consensus 375 l~~~~~~vr~~l~~~~~~~~~~~~~~i~~~~~r~~~~Ig~~me~fLsTGnl~s~sgldLqQ~sG~tv~AEriNf~RflSh 454 (1111)
T KOG0216|consen 375 LRFISAQVRRDLYKLGFKEDFLDISAIRKVFMRTNGNIGRKMEYFLSTGNLVSRSGLDLQQTSGYTVVAERINFYRFLSH 454 (1111)
T ss_pred HHHHHHHHHHHHHhhcCCchhHhHHHHHHHHhhccccHHHHHHHHHhcCCeeeccchhhHhhcCcEEehhhhhHHHHHHH
Confidence 21 222222221 11111 22 2222 2 357999999999999998766 67999999999999999999999
Q ss_pred cccccc-cccccccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccccC-CChHHHHHHHHHcCceeccccCCc
Q psy4067 238 MTRINS-QFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITTE-NDEKNMLKIMYNIGIEHIAMFNGE 315 (1384)
Q Consensus 238 lrRv~s-~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~~-~~~~~i~~~l~~lG~~~~~~~~~~ 315 (1384)
.|-|+. .++.+.+++.+|+|.|..||++||++||+|.+|||+++||..|.|++. +|.+.+.++|.++||.+.....+
T Consensus 455 FRavhRGa~f~~mrTTtvRKLlPEsWGFlCPVHTPDG~PCGlLnH~t~~c~I~t~~dd~s~ip~~L~~~Gm~p~~~~~~- 533 (1111)
T KOG0216|consen 455 FRAVHRGAFFAEMRTTTVRKLLPESWGFLCPVHTPDGAPCGLLNHMTRTCRIVTRPDDVSFIPSILFELGMVPSSHLVE- 533 (1111)
T ss_pred HHHHhcccchhheeehhhHhhCchhhcccccccCCCCCchhHHHhhhhheeEeecCcchhhhhHHHHhcCCCchhcccc-
Confidence 988887 789999999999999999999999999999999999999999999994 67789999999999998763321
Q ss_pred ccCCCCeEEEEECCEEEEEeecC
Q psy4067 316 ELSSPGVYLVFVNGILAGITCHH 338 (1384)
Q Consensus 316 ~~~~~~~~~VflNG~~vG~~~~~ 338 (1384)
..+..+.|++||+++|.+..+
T Consensus 534 --~G~~l~~VlldGk~vG~~s~~ 554 (1111)
T KOG0216|consen 534 --AGEPLYPVLLDGKVVGWVSSP 554 (1111)
T ss_pred --CCCceeEEEECCEEEEeeccH
Confidence 122358999999999998876
No 25
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=100.00 E-value=1.6e-47 Score=499.97 Aligned_cols=147 Identities=16% Similarity=0.253 Sum_probs=119.7
Q ss_pred HHHHHHHHHhcCcC-CCCChhhhhhHHhhhhcchhhh-----------cc----cccccccccccccchhhHHHHHHHHH
Q psy4067 142 VEIKKLMQANANIY-SDVDPLFYLKYLDIHVGIADKI-----------IP----KIKAAQFDIVNHMRQDTITNALTAAI 205 (1384)
Q Consensus 142 ~~i~~~~~~~~~~~-~d~~d~f~~k~~d~~~~~~~k~-----------~~----~~~~~~~~~~~~~~~~~IT~~l~~al 205 (1384)
.+++.++++..+.. .||-||+.|||+...|..++.+ +. ......+....++.++.||..++++|
T Consensus 448 ~~i~~Li~l~~g~~~~DDiDhL~NRRvr~vGeLl~~qfr~gl~r~~~~i~e~~~~~~~~~~~p~~lin~~~l~~~i~~ff 527 (2836)
T PRK14844 448 EIVRKIVLLRDGQGSVDDIDHLGNRRVRSVGEFIENQFRTGLLKLERAVVDSMSTSSLDKVSPSDFINPKVLTNVLRDFF 527 (2836)
T ss_pred HHHHHHHHHhcCCCcccchhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhhcccchhHHHHHHHHh
Confidence 46677777755533 3666888888888776433321 11 11124456667889999999999999
Q ss_pred HhCCcccccccccccceeeeecccchhhcccccccccc----cccccccccCCCcCCCCCcccccCCCCCCCccccchhh
Q psy4067 206 QTGNWTIRRFKMERQGVTQVLSRLSYISGLGMMTRINS----QFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKN 281 (1384)
Q Consensus 206 sTGNW~~~~~~~~r~GvsQvL~Rln~ls~lshlrRv~s----~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKn 281 (1384)
+| +++||+|||+||||+|+|+||+++ +++++++.+++|++||||||||||+|||||+|||||+|
T Consensus 528 ~s------------s~LSQfmDQtNpLseltHkRRlsaLGPGGL~r~~a~fevRdvH~shyGRiCPIETPEG~NiGLI~S 595 (2836)
T PRK14844 528 NS------------SQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGQNIGLINS 595 (2836)
T ss_pred cc------------cchhhhccCcChhhhhhhcceecccCCCCcccccCCCcccccCccccccccCCCCCCCCcccchhh
Confidence 76 599999999999999999999999 89999999999999999999999999999999999999
Q ss_pred ccccccccc-CCChHHHHHH
Q psy4067 282 LALMTHITT-ENDEKNMLKI 300 (1384)
Q Consensus 282 LAl~a~It~-~~~~~~i~~~ 300 (1384)
||++|+|+. |+.+.|.+++
T Consensus 596 LA~yarIn~~GfietPy~kV 615 (2836)
T PRK14844 596 LAIYARINKYGFIESPYRKV 615 (2836)
T ss_pred hhhheeccCCceEeCCcEEE
Confidence 999999998 7777775444
No 26
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=100.00 E-value=2e-45 Score=482.24 Aligned_cols=99 Identities=22% Similarity=0.387 Sum_probs=89.1
Q ss_pred ccccchhhHHHHHHHHHHhCCcccccccccccceeeeecccchhhcccccccccc----cccccccccCCCcCCCCCccc
Q psy4067 189 VNHMRQDTITNALTAAIQTGNWTIRRFKMERQGVTQVLSRLSYISGLGMMTRINS----QFEKTRKVSGPRSLQGSQWGM 264 (1384)
Q Consensus 189 ~~~~~~~~IT~~l~~alsTGNW~~~~~~~~r~GvsQvL~Rln~ls~lshlrRv~s----~~~~~~K~~~pR~LhpsqwG~ 264 (1384)
...+.++.|+..++.+|.++ -+||+||++|+||.|+|.||+++ .+.+++..+.+|++|||||||
T Consensus 504 ~~lin~k~i~~~ikeFFgss------------qLSQfmDQtNpLseltHKRRlSaLGPGGlsr~ra~fevRdVH~shYGR 571 (2890)
T PRK09603 504 HDLVNSKMITSTIMEFFMGG------------QLSQFMDQTNPLSEVTHKRRLSALGEGGLVKDRVGFEARDVHPTHYGR 571 (2890)
T ss_pred hhhhccHHHHHHHHHHhccC------------chhhhhcccChhhhhhhcccccccCCCCccccccCCcccccCcccccc
Confidence 45678889999999999766 38999999999999999999976 566899999999999999999
Q ss_pred ccCCCCCCCccccchhhccccccccc-CCChHHHHH
Q psy4067 265 LCPSDTPEGEACGLVKNLALMTHITT-ENDEKNMLK 299 (1384)
Q Consensus 265 iCP~eTPEG~~cGLVKnLAl~a~It~-~~~~~~i~~ 299 (1384)
|||+|||||+|||||++||++|+|+. |+.+.|.++
T Consensus 572 iCPIETPEG~NiGLI~SLa~~a~in~~GfietPy~k 607 (2890)
T PRK09603 572 ICPIETPEGQNIGLINTLSTFTRVNDLGFIEAPYKK 607 (2890)
T ss_pred cCCCCCCCCCcccchhhhhhheecccCcceecceEE
Confidence 99999999999999999999999998 777777533
No 27
>PRK09606 DNA-directed RNA polymerase subunit B''; Validated
Probab=100.00 E-value=4.8e-44 Score=433.14 Aligned_cols=247 Identities=26% Similarity=0.452 Sum_probs=202.4
Q ss_pred ecceeeEeccchhe-----eccccccccchHHHHhhhccccc-------------cceecccccccccccccccceeeee
Q psy4067 38 EGLQAILFLPLFKQ-----VDFGDSKVVSLRELLSHVTYQKR-------------LYRLTVQPNWLGTVKAVHGTYLTMV 99 (1384)
Q Consensus 38 ~~~~~~~~~~~~~~-----~~~~~~~~~sd~~~~~~i~~~~~-------------~~~~~~~~~~~~~~~~~~g~~~~~~ 99 (1384)
.|. +.+.+++.+. ++|||||+.||+||++.|++|.+ +.+|+.||.|||.+-. +| .
T Consensus 203 ~g~-i~~~~~~~~~~iPi~~llkALg~~sd~eI~~~i~~~~~~~~~l~~~~~~~~~~t~~~al~~ig~~~~-~~-----~ 275 (494)
T PRK09606 203 DGL-LEVSFPSVPGSIPFVILMRALGLETDEEIVEAVSDDPEIVKFMLENLEEAEVDTQEEALEYIGKRVA-PG-----Q 275 (494)
T ss_pred CCe-EEEEEcCccccccHHHHHHHcCCCCHHHHHHHhCCcHHHHHHHHHHHHhcccCCHHHHHHHHHHhcC-CC-----C
Confidence 344 6677787643 99999999999999999998762 5789999999999853 55 2
Q ss_pred ccccccCCCCHHHHHHHHHHHHHHHhcCccccccCh-------hhHHHHHHHHHHHHHhcCcCC-CCChhhhhhHHhhhh
Q psy4067 100 TDETSKLKDSPEIRDKWKLVLSFLKEKGLVKPHIDS-------FDYFINVEIKKLMQANANIYS-DVDPLFYLKYLDIHV 171 (1384)
Q Consensus 100 ~~e~~~~~~~~~~~~~~~~~~~~~~~kgl~~~hi~~-------~~~f~~~~i~~~~~~~~~~~~-d~~d~f~~k~~d~~~ 171 (1384)
.++. .+..+.+..++ .+.|||+. +.+|+.+|+++++.+..+... |+.|||.|||++++|
T Consensus 276 ~~~~-~~~~~~~~l~~------------~~l~hig~~~~~~~~K~~~L~~m~~kLl~~~~g~~~~Dd~D~l~nkRv~~~G 342 (494)
T PRK09606 276 TKEY-RIKRAEYVIDR------------YLLPHLGVEPEVRRAKAHYLGRMAEACFELALGRREEDDKDHYANKRLKLAG 342 (494)
T ss_pred Ccch-HHHHHHHHHHH------------hhhcccCCCcchhhHHHHHHHHHHHHHHHHhcCCCCCCCcccccCceeeccc
Confidence 2331 11111122222 37889984 679999999999999776654 888999999999988
Q ss_pred cchh-----------hhc----ccc--cccccccccccchhhHHHHHHHHHHhCCcccccccccccceeeeecccchhhc
Q psy4067 172 GIAD-----------KII----PKI--KAAQFDIVNHMRQDTITNALTAAIQTGNWTIRRFKMERQGVTQVLSRLSYISG 234 (1384)
Q Consensus 172 ~~~~-----------k~~----~~~--~~~~~~~~~~~~~~~IT~~l~~alsTGNW~~~~~~~~r~GvsQvL~Rln~ls~ 234 (1384)
..++ +.+ .+. +...+++..+++++.||++|++|||||||.. +++||||+|+|+||+|+
T Consensus 343 ~Ll~~~fr~~l~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~~It~~l~~~~~TGnw~~-----~~~glSq~ldr~N~la~ 417 (494)
T PRK09606 343 DLMEDLFRVAFNRLARDVKYQLERANMRNRELSIKTAVRSDVLTERLEHAMATGNWVG-----GRTGVSQLLDRTDYMAT 417 (494)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHhcCchhhhHHHHHHhhcccccC-----CCceEEEEccCCCHHHH
Confidence 5332 111 110 2245677778888999999999999999986 36999999999999999
Q ss_pred ccccccccccccccccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccccCCChHHHHHHHHHcCceec
Q psy4067 235 LGMMTRINSQFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHITTENDEKNMLKIMYNIGIEHI 309 (1384)
Q Consensus 235 lshlrRv~s~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It~~~~~~~i~~~l~~lG~~~~ 309 (1384)
|||+||++|++++++|.++||+||||||||+||+|||||++||||||||++|+|+++.+.+++.++|.++||+++
T Consensus 418 lSh~Rrv~s~~~r~~~~~~vR~lhps~~G~iCPveTPEG~~cGLv~~La~~a~V~~~~~~~~i~~~l~~lg~~~~ 492 (494)
T PRK09606 418 LSHLRRVVSPLSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVKNFAQMVEISTGEDEEEVKEILKELGVEPE 492 (494)
T ss_pred hhHHHhccCCccccCccccccccCcccceecccCcCCCCCcccHHHhhhceEEEeCCCChHHHHHHHHHCcCeeC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999875
No 28
>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=2.7e-45 Score=431.46 Aligned_cols=280 Identities=34% Similarity=0.593 Sum_probs=182.5
Q ss_pred cccchhhhhhcccccCCCCCCCCCCCCCCccchhhhhhccccccccccccccccccceeeeccCCCceeecc-cccccc-
Q psy4067 738 GVCAGIELLQYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESK-TIRITN- 815 (1384)
Q Consensus 738 ~v~a~~~~~~~~~~~~~~~lipf~~hNqspRn~yq~~m~kQ~~g~~~~~~~~R~D~~~~~l~~pQ~Piv~t~-~~~~~~- 815 (1384)
||+|+ +|||++|||||||+|||+|+|||||+|..|+..|+|++. .|||+|||+|. .++..+
T Consensus 1 si~As--------------~ipf~~hn~s~R~~~~~~m~kQa~~~y~~~~~~R~d~~~---~~~q~Plv~~~~~~~~~~i 63 (386)
T PF00562_consen 1 SIVAS--------------LIPFPEHNQSPRNLYQCNMQKQAIGTYSLNKFNRSDQNT---CYPQKPLVKTGDRVEKGQI 63 (386)
T ss_dssp -THGG--------------TSSSGGGC-HHHHHHHHHHGCGBCSEEETTTTTS-TSSE---SS-BEESSBSSSTBTTTTE
T ss_pred CEEeC--------------CCCEEEEEcCCcEEEEeCcCCCcccceeeeeeeccCcce---eccccceEEeeccccccCc
Confidence 68999 999999999999999999999999999999999999999 99999999999 999999
Q ss_pred --------CCCCCCCccccCCCCccchhhcccccceeEEeecccceeeecccccccccccccccccccchhhcccccccc
Q psy4067 816 --------FHKLPAGKCQISPGGAEELTARESCHEVLKIISFSISVAVFDSVWLGDVKQGVHQLSEEKEPRLLRKFQYFD 887 (1384)
Q Consensus 816 --------~~~~p~G~n~~~~~g~e~~~~~~~~~~vva~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d 887 (1384)
++++|+|+|+ +||+++|+| ||
T Consensus 64 lad~~~~~~~e~~~G~N~-----------------iVAvmsy~G----------------------------------YN 92 (386)
T PF00562_consen 64 LADGPSTKFGELPLGQNA-----------------IVAVMSYTG----------------------------------YN 92 (386)
T ss_dssp CEE-TTECTTTS-SSEEE-----------------EEEESBSSS----------------------------------TT
T ss_pred cccccccccccCcceeee-----------------eEEeeehhc----------------------------------cc
Confidence 9999999876 567777776 89
Q ss_pred cchhhhhhhccccceeeccccCCCCccccCCCCCCCccchhhhcccccccceeeeccccceeeeeeeeeccCCceeeeee
Q psy4067 888 VRTPYRLRRLLCWECVLYNKRFHSPGLVPYPHHNQAPRNTYQCAMGKQAMGCIGYNQQNRIDTLMYNLVYAQRPMVESKT 967 (1384)
Q Consensus 888 ~~~~~~~~~~~~~~~~~~~k~s~s~glIPF~~HNqSPRntyq~~M~KQAiG~~~yN~~~RiDt~~~~L~ypQkPLV~T~~ 967 (1384)
+| |++|+||+++.+|+. +..+ +++ .
T Consensus 93 ~E-----------DAiIiNkssv~rG~f-------------------------------------~s~~------~k~-~ 117 (386)
T PF00562_consen 93 QE-----------DAIIINKSSVDRGLF-------------------------------------TSIH------YKT-E 117 (386)
T ss_dssp TS-----------SEEEEECHHHHTTTT-------------------------------------EEEE------EEE-E
T ss_pred ch-----------hhhhhhhhhhhcCee-------------------------------------eEEE------EEE-E
Confidence 99 999999999999841 0111 111 1
Q ss_pred EeecccCCCCCCc-ceEEEEeee-cccccccceeecccccccCCceeeEEecceeeeeecCCCccceeeCCccccCCCCC
Q psy4067 968 IRITNFHKLPAGQ-NATIAVMSY-SGYDIEDALIMNKASLDRGFGRCLVYRNSKCVLKQYPNQTHDRILGPLLEADTRKP 1045 (1384)
Q Consensus 968 i~~~~~~elp~Gq-N~iVAvmsy-~GYN~EDAIIiNkssidRG~~rs~~yr~~~~~i~~~~~~~~d~i~~p~~~~~~~~p 1045 (1384)
++.. +...|. .-+..-.+. .-+ .|...+.|.+..+...+..++.
T Consensus 118 ~~~~---~~~~g~~e~~~~~~~~~~~~-------------------------------~~~~LD~dGii~~G~~v~~gDi 163 (386)
T PF00562_consen 118 IEIR---DNKGGPSEEIFRPIPNVKEY-------------------------------NYSKLDEDGIIKIGSRVEKGDI 163 (386)
T ss_dssp EEEE---EETTSEEBBESS--TSSTST-------------------------------TGGGBCTTSBB-TTCEEETTSE
T ss_pred eeee---cccCCcccccccccccchhh-------------------------------hhhhcccccccccCcEEeccee
Confidence 1100 000000 000000000 000 0111122222222111111111
Q ss_pred cccccccCCCCcccCCceeecCceEEeeeccCccccccccCCCccccccccccccccccceEEEE-------ecCcchhh
Q psy4067 1046 VYRHRALDQDGIVAPGEQICERQVLVNKSMPTISVSAISMATPEYKEVPVSYKGSVPSYLEKVLV-------SSNSEDAF 1118 (1384)
Q Consensus 1046 ~~~~~~LDedGiv~~G~~V~~gDILIgKvsp~~~~~~~~~~~~e~k~~~~~~k~~~p~~vd~Vii-------~~~~~~~~ 1118 (1384)
..+... ....+ .+ ++-+... .....+++.+..++..+++.||+|.+ ..+.++..
T Consensus 164 ligk~~-~~~~~-------~~---~~~~~~~--------~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~~~~~~~ 224 (386)
T PF00562_consen 164 LIGKIT-SPPRF-------SP---LLKKIFG--------EKNRNYRDTSIKYKSGESGRVDKVIIFSNEKKDTSNNEGYK 224 (386)
T ss_dssp EEEEEE-STSC---------H---HHHHHHH--------SSSCSEEEEEEES-TT-EEEEEEEEEECCCSSBEEETTCEE
T ss_pred EEEEEe-ccccc-------cc---chhhccc--------cccccccceeecccccEEeEeccccccccccccccccCcce
Confidence 111000 00000 00 0000000 00112456677788889999999998 55667888
Q ss_pred hHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeCCCCCCCcccccceeeecccccCCc
Q psy4067 1119 LIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMNPHGLKGCDRITEYKEVPVSYKGSV 1193 (1384)
Q Consensus 1119 ~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiNP~gvpsr~~i~~~~e~s~~~k~~e 1193 (1384)
.++|++|+.|+|++|||||||||||||+|.+||+|||||+++|++||||+|||||||||+++|+.|+.++..+..
T Consensus 225 ~iki~ir~~R~p~iGDKfssRHGqKGVvs~i~~~eDMPft~~G~~pDiIiNPhgiPSRMtiGqllE~~~g~~~~~ 299 (386)
T PF00562_consen 225 KIKIRIRSTRRPQIGDKFSSRHGQKGVVSKILPQEDMPFTEDGIVPDIIINPHGIPSRMTIGQLLESLLGKAGAL 299 (386)
T ss_dssp EEEEEEEEEEE--TTEEEEETTSEEEEEEEEE-TTTSEEETTSEB-SEEE-GGGSTTTTBTHHHHHHHHHHHHHH
T ss_pred EEEEEecccccchhHHHHhhhhcCceEEeeeeccccCccccCCCcceeeecccccccccchHHHHhhhhhhhhhc
Confidence 999999999999999999999999999999999999999999999999999999999999999999887665544
No 29
>PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed
Probab=100.00 E-value=1.6e-40 Score=428.59 Aligned_cols=235 Identities=20% Similarity=0.312 Sum_probs=158.9
Q ss_pred cCCcccccccccccceEEEEEEEeeCC-ceeeeeeeeeccccceeccccccccCCcccc------ccc------------
Q psy4067 356 TTPHECRLRDLTYSAPITVDIEYTRGS-QRVVRSDLVIGRMPIMLQSSKCVLRNKTEYT------SSS------------ 416 (1384)
Q Consensus 356 i~P~EcRlrd~TYsa~i~V~v~~~~~~-~~~~~~~V~IG~iPIMLrS~~CvL~g~~~~i------s~~------------ 416 (1384)
++|+|||+||+||+|||||+++++..+ +.+.+++|+||+||||...+.+++||.++.+ |-+
T Consensus 81 ~tp~Ear~r~lTYSaplyv~v~l~~~~~~~i~~~~V~iG~iPiMt~gGyFIING~ERVIVsQe~rSPg~~~~~~~~k~~~ 160 (1112)
T PRK00405 81 YDVEECKERGLTYSAPLRVKLRLINKETGEIKEQEVYMGDIPLMTENGTFIINGTERVIVSQLHRSPGVYFDHDKDKTSS 160 (1112)
T ss_pred CCHHHHHHhCCCCCeeEEEEEEEEEeccCceeeeeEEEeccccccCCceEEECCeEEEEEEEeecCCCEEEEEeccccCC
Confidence 689999999999999999999998543 3556679999999999999999999988874 111
Q ss_pred --ceeeeeEEEeccccc-------------------cchh---h---------hHHhhc---------------------
Q psy4067 417 --RRASTSSVTMHSQRT-------------------SPLL---S---------CKKLRQ--------------------- 442 (1384)
Q Consensus 417 --~~~s~t~i~~~~~~~-------------------~P~~---e---------~~~~~~--------------------- 442 (1384)
..++.+++...++|. +|+. . ++....
T Consensus 161 ~k~~y~a~Iis~rGswl~~e~d~k~~I~vri~~~~kIPi~iLLrALGlsd~eIl~~i~~~~~~~~~~~~~~~~~~~~~~~ 240 (1112)
T PRK00405 161 GKLLYSARIIPYRGSWLEFEFDPKDILYVRIDRRRKLPVTVLLRALGYSDEEILDLFYEKEEFGKEIEVPVEYLLGKVLA 240 (1112)
T ss_pred CceeEEEEEEECCCCcEEEEEecCCeEEEEecCCCcccHHHHHHHcCCCHHHHHHHhcccccccceeccchHHhcccchh
Confidence 113334444333332 2420 0 000000
Q ss_pred ------------------------------------------------cccccccCCChhhHHHHhhhccc-------cc
Q psy4067 443 ------------------------------------------------KRFQTYKKTPVDDARDFLSSTCI-------AH 467 (1384)
Q Consensus 443 ------------------------------------------------~~~~~~~~~~~~ea~e~L~~~~L-------pH 467 (1384)
+++........+.|+++|++.++ ||
T Consensus 241 ~~~~~~~~~ei~~~~~~~~~~~~~~~~i~~~l~~~~~~t~e~Al~~I~k~l~~g~~~~~e~a~~~l~~~ff~~~rYdL~h 320 (1112)
T PRK00405 241 EDIVDEETGEVLAEANDEITEELDGPYIRNTLEKDPTSSREEALVEIYRRLRPGEPPTVEAARSLLENLFFDPKRYDLSK 320 (1112)
T ss_pred hhhcccccceeeeccCCccchhhhhHHHHHHHhhccccCHHHHHHHHHhhcCCCCcchHHHHHHHHHHHhcCcccccccc
Confidence 00000001123678899998775 99
Q ss_pred cccccccc--------hh---hhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhc
Q psy4067 468 IPVINMRF--------KM---KAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETN 536 (1384)
Q Consensus 468 v~v~~~~~--------~~---Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~ 536 (1384)
++....|. .. +..+++.|++++|++..|...+||+|||||||+++||+||+.||+.+|++|.+++|+..
T Consensus 321 iGr~k~nkKl~l~~~~~~~~L~~~d~~~mi~~Ll~l~~g~~~~DDiDhl~NKRvr~aGeLL~~~fr~~~~rl~k~ik~~l 400 (1112)
T PRK00405 321 VGRYKLNKKLGLDEDEDVRVLTKEDIIATIKYLINLRNGKGEVDDIDHLGNRRVRSVGELLQNQFRIGLSRMERAVRERM 400 (1112)
T ss_pred CCceecchhcccCcccccccccHHHHHHHHHHHHhhhcccCCCcchhHHhcchhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99866552 21 33467999999999999999999999999999999999999999999999999997632
Q ss_pred c---------------ccce-----eccccceeec-ccCceeEeecCc--------------cccc-ccCCCCCCCcccc
Q psy4067 537 L---------------SGVV-----NLVSGWWFEL-KYGNKIYIRSPS--------------RKLL-AAGFSGPHSGRVR 580 (1384)
Q Consensus 537 ~---------------~~i~-----sl~~g~w~~~-~~~n~~~i~t~~--------------r~~~-a~Gvh~sh~GRic 580 (1384)
. ..++ .|.+|-.+.. ..-|.....|.+ +..+ ++.+|+|||||||
T Consensus 401 ~~~~~~~~~~~~lin~~~it~~i~~ff~tgglSQ~Ldq~NpLselshkRRlss~gpggl~r~~a~~~~R~lH~ShyGriC 480 (1112)
T PRK00405 401 SLQDLDTLTPQDLINAKPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRIC 480 (1112)
T ss_pred hhcccccCCHHHhhCchhHHHHHHHhhccCCcceeeccCCHHHhhhhhceecccCCCCcCccccCCcccccCcccccccc
Confidence 1 0111 1333322211 111222111222 3333 5668999999999
Q ss_pred cC--CCCCeEEE
Q psy4067 581 LM--PEGPTILL 590 (1384)
Q Consensus 581 p~--pEgp~i~~ 590 (1384)
|+ |||++|.+
T Consensus 481 PiETPEG~n~GL 492 (1112)
T PRK00405 481 PIETPEGPNIGL 492 (1112)
T ss_pred CcCCCCCCcccc
Confidence 99 99999755
No 30
>PRK09606 DNA-directed RNA polymerase subunit B''; Validated
Probab=100.00 E-value=7.7e-39 Score=387.88 Aligned_cols=254 Identities=28% Similarity=0.404 Sum_probs=182.7
Q ss_pred cccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCceeeeeeeeeccccceeccccccccCCccc------
Q psy4067 339 KEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQRVVRSDLVIGRMPIMLQSSKCVLRNKTEY------ 412 (1384)
Q Consensus 339 i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~~~~~~~V~IG~iPIMLrS~~CvL~g~~~~------ 412 (1384)
+++++|++.+.+...+.++|+|||+|++||++++||++.++.++.....+.++||+||||++|+.|+|+|+++.
T Consensus 59 ~~l~~P~~~~~~~~~~~l~P~eaR~r~~TYs~~l~v~i~~~~~~~~~~~~~v~iG~iPiMv~S~~C~L~~~~~~~l~~~~ 138 (494)
T PRK09606 59 IRVGKPVVKEADGSEREIYPMEARLRNLTYSAPLYLEMSPVEGGEEEEPEEVYIGELPVMVGSKICNLYGLSEEELIEVG 138 (494)
T ss_pred EEECCCcccccCCccccCCHHHHHhcCCCccceEEEEEEEEECCCceEEeeEEeccCCeEeccCcccCCCCCHHHHHhcC
Confidence 55788887655555578999999999999999999999998766555667899999999999999999999874
Q ss_pred -----------ccccce--------ee-----------------eeEEEecc-----------------------ccccc
Q psy4067 413 -----------TSSSRR--------AS-----------------TSSVTMHS-----------------------QRTSP 433 (1384)
Q Consensus 413 -----------is~~~~--------~s-----------------~t~i~~~~-----------------------~~~~P 433 (1384)
++|+++ +. .++++..+ .+.+|
T Consensus 139 E~~~d~GGyFIING~ErVi~~q~~~~~n~~~~~~~~~~~~~~~~~~i~s~~~~~~~~~~l~~~~~g~i~~~~~~~~~~iP 218 (494)
T PRK09606 139 EDPLDPGGYFIVNGSERVLMTLEDLAPNKILVEKDERYGDRIEVAKVFSQRRGYRALVTVERNRDGLLEVSFPSVPGSIP 218 (494)
T ss_pred CCcCCCCCeEEECCCeEEEEEEEeccCCeeEEEeccCCCccceEEEEEcccccceeeEEEEEecCCeEEEEEcCcccccc
Confidence 144431 00 11111111 01235
Q ss_pred h---hhh-------HH-------------h----h------c--------cccccc--cCCChhhHHHHhhhcccccccc
Q psy4067 434 L---LSC-------KK-------------L----R------Q--------KRFQTY--KKTPVDDARDFLSSTCIAHIPV 470 (1384)
Q Consensus 434 ~---~e~-------~~-------------~----~------~--------~~~~~~--~~~~~~ea~e~L~~~~LpHv~v 470 (1384)
+ ..| ++ . . + ++++.. +....+.|+++|++.+|||++.
T Consensus 219 i~~llkALg~~sd~eI~~~i~~~~~~~~~l~~~~~~~~~~t~~~al~~ig~~~~~~~~~~~~~~~~~~~l~~~~l~hig~ 298 (494)
T PRK09606 219 FVILMRALGLETDEEIVEAVSDDPEIVKFMLENLEEAEVDTQEEALEYIGKRVAPGQTKEYRIKRAEYVIDRYLLPHLGV 298 (494)
T ss_pred HHHHHHHcCCCCHHHHHHHhCCcHHHHHHHHHHHHhcccCCHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHhhhcccCC
Confidence 2 000 00 0 0 0 122211 1112367889999999999998
Q ss_pred ccccchhhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhhc--------------
Q psy4067 471 INMRFKMKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKETN-------------- 536 (1384)
Q Consensus 471 ~~~~~~~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~~-------------- 536 (1384)
+..++..|+.||++|+++++.+..|...+||+|||+|||+++||+||+.||+++|+++++.+|...
T Consensus 299 ~~~~~~~K~~~L~~m~~kLl~~~~g~~~~Dd~D~l~nkRv~~~G~Ll~~~fr~~l~~~~~~~k~~l~~~~~~~~~~~~~~ 378 (494)
T PRK09606 299 EPEVRRAKAHYLGRMAEACFELALGRREEDDKDHYANKRLKLAGDLMEDLFRVAFNRLARDVKYQLERANMRNRELSIKT 378 (494)
T ss_pred CcchhhHHHHHHHHHHHHHHHHhcCCCCCCCcccccCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHH
Confidence 877888999999999999999999999999999999999999999999999999999999986211
Q ss_pred -------cccc-eeccccceeecccC-----cee---EeecCccc----------cc-ccCCCCCCCcccccC--CCCCe
Q psy4067 537 -------LSGV-VNLVSGWWFELKYG-----NKI---YIRSPSRK----------LL-AAGFSGPHSGRVRLM--PEGPT 587 (1384)
Q Consensus 537 -------~~~i-~sl~~g~w~~~~~~-----n~~---~i~t~~r~----------~~-a~Gvh~sh~GRicp~--pEgp~ 587 (1384)
+.++ +.|+||||+.+..| .+. ...|..|+ .+ ++.+|++||||+||+ |||++
T Consensus 379 ~~~~~~It~~l~~~~~TGnw~~~~~glSq~ldr~N~la~lSh~Rrv~s~~~r~~~~~~vR~lhps~~G~iCPveTPEG~~ 458 (494)
T PRK09606 379 AVRSDVLTERLEHAMATGNWVGGRTGVSQLLDRTDYMATLSHLRRVVSPLSRSQPHFEARDLHPTQWGRICPSETPEGPN 458 (494)
T ss_pred hcCchhhhHHHHHHhhcccccCCCceEEEEccCCCHHHHhhHHHhccCCccccCccccccccCcccceecccCcCCCCCc
Confidence 1122 35889999876544 111 11111122 22 466899999999999 99998
Q ss_pred EEEec
Q psy4067 588 ILLNS 592 (1384)
Q Consensus 588 i~~~~ 592 (1384)
|.+..
T Consensus 459 cGLv~ 463 (494)
T PRK09606 459 CGLVK 463 (494)
T ss_pred ccHHH
Confidence 86543
No 31
>PRK07225 DNA-directed RNA polymerase subunit B'; Validated
Probab=99.93 E-value=7.2e-27 Score=286.44 Aligned_cols=211 Identities=31% Similarity=0.486 Sum_probs=153.5
Q ss_pred cccccccccccccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeC
Q psy4067 1090 YKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMN 1169 (1384)
Q Consensus 1090 ~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiN 1169 (1384)
+++.+..++..++++||+|+++.+.++...+||++|+.|+|++|||||||||||||+|.+||+|||||+++|++||||+|
T Consensus 318 ~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~vkv~ir~~R~p~iGDKfssRHGQKGvvs~i~~~eDMPft~~G~~PDiIiN 397 (605)
T PRK07225 318 RRETSVTMRSGEEGIVDTVILTETEEGSRLVKVRVRDLRIPELGDKFASRHGQKGVIGLIVPQEDMPFTESGVVPDLIIN 397 (605)
T ss_pred cceeeEEecCCCcEEEEEEEEEecCCCCEEEEEEEEEEEeccccchhhhcccCceeEEeEeccccCCcCCCCCcccEEEC
Confidence 46677788899999999999988777778899999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccccceeeecccccCCccc-eeeEEEEecCCCCcEEEEEEEEeecCCCcCCcccccCCC--ceeEEEEeecCC
Q psy4067 1170 PHGLKGCDRITEYKEVPVSYKGSVPS-YLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQ--KGVIGLIVEQED 1246 (1384)
Q Consensus 1170 P~gvpsr~~i~~~~e~s~~~k~~e~~-~vd~V~i~~~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQ--KGvvg~i~~qeD 1246 (1384)
||||||||+++|..|+..+..+...| .+|...+.... + -.+++.+ -+||- -|---+.-.
T Consensus 398 Phg~PSRMTiGql~E~~~gk~~~~~g~~~d~t~F~~~~---------~-----~~~~~~L-~~~g~~~~G~e~my~G--- 459 (605)
T PRK07225 398 PHAIPSRMTVGHVLEMIGGKVGSLEGRRVDGTAFSGED---------E-----EDLREAL-EKLGFEHTGKEVMYDG--- 459 (605)
T ss_pred cccccccCcHHHHHHHHHHHHHHhcCceEeecCCCCch---------H-----HHHHHHH-HHhCcCCCCeEEEEcC---
Confidence 99999999999999998887766544 23322221110 0 1122211 11220 011101000
Q ss_pred CCCCCCCCcceEeeCCCCCC--CccchhhhHHhhhhHHHhhcCCeeeeccC-CCCCHHHHH-HHHHHcCCCCCCceEE
Q psy4067 1247 MPFNESGICPDIIMNPHGYP--SRMTVGKLIELLAGKAGLMEGNYKEGTAF-GGTKLVDVQ-EELIRHGYNYQGKDIF 1320 (1384)
Q Consensus 1247 MPft~dGi~PDIIiNPhg~P--SRMTIGql~E~l~Gk~~~~~g~~~d~t~F-~~~~~~~i~-~~L~~~G~~~~Gke~l 1320 (1384)
.|-.-+.-+|.+.|--+. -.|.-.++.-...|....++.++..|..- +|.+..|++ +.|..+|..+.-+|.|
T Consensus 460 --~TG~~~~~~if~G~~yYqrL~HmV~DK~haR~~Gp~~~lTrQP~~GR~r~GG~RfGEMErd~lia~Gas~~L~Erl 535 (605)
T PRK07225 460 --ITGEKIEAEIFVGVIYYQKLHHMVANKLHARSRGPVQVLTRQPTEGRAREGGLRFGEMERDVLIGHGAAMLLKERL 535 (605)
T ss_pred --CCCCEecccEEEeehheeechhhhcchhhhccCCCCcccccCCccccccCCCeeeeeeehhhhhhhhhHHHHHHHH
Confidence 011112357777777776 67888888888889989998888877654 567777777 5777788665544444
No 32
>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=99.92 E-value=1.3e-26 Score=283.85 Aligned_cols=210 Identities=29% Similarity=0.496 Sum_probs=154.7
Q ss_pred cccccccccccccccceEEEEecCcchhhhHHHhhhccccccccccccccCCCcceeeeEeecCCCCCCCCCCcCceeeC
Q psy4067 1090 YKEVPVSYKGSVPSYLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMPFNESGICPDIIMN 1169 (1384)
Q Consensus 1090 ~k~~~~~~k~~~p~~vd~Vii~~~~~~~~~vki~irq~R~p~IGDKfssRHGqKGVis~ilp~eDMPfte~Gi~pDIIiN 1169 (1384)
+++.+..++..++++||+|++..++++...+||++|+.|+|++|||||||||||||+|++||+|||||+++|++||||+|
T Consensus 312 ~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~vkv~~r~~R~p~iGDKfssRHGQKGvvs~i~~~eDMPft~~G~~pDiIiN 391 (599)
T TIGR03670 312 RRDTSVTVRHGEKGIVDKVIITETEEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLIIN 391 (599)
T ss_pred CceEEEEecCCCcEEEEEEEEEecCCCcEEEEEEEeeeecCcchhhhhhhccCcceEEeEeccCCCCcCCCCCCCCEEEC
Confidence 46667788899999999999988877778899999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccccceeeecccccCCccc-eeeEEEEecCCCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCC
Q psy4067 1170 PHGLKGCDRITEYKEVPVSYKGSVPS-YLEKVLVSSNSEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMP 1248 (1384)
Q Consensus 1170 P~gvpsr~~i~~~~e~s~~~k~~e~~-~vd~V~i~~~~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMP 1248 (1384)
||||||||+++|+.|+..+..+...| ..|...++... .-.+++... ++|-. +.-.+.-
T Consensus 392 Phg~PSRMTiGqllE~~~gk~~~~~g~~~d~t~F~~~~--------------~~~~~~~L~-~~g~~------~~G~e~l 450 (599)
T TIGR03670 392 PHAIPSRMTVGQLLEMIAGKVAALEGRRVDGTPFEGEP--------------EEELRKELL-KLGFK------PDGKEVM 450 (599)
T ss_pred cccccccccHHHHHHHHHHHHHHhcCCEEEeCCCCCcc--------------HHHHHHHHH-HcCCC------CCCCEEE
Confidence 99999999999999998877765444 22321111110 012222221 12200 0001111
Q ss_pred C---CCCCCcceEeeCCCCCC--CccchhhhHHhhhhHHHhhcCCeeeeccC-CCCCHHHHH-HHHHHcCCCCCCceEE
Q psy4067 1249 F---NESGICPDIIMNPHGYP--SRMTVGKLIELLAGKAGLMEGNYKEGTAF-GGTKLVDVQ-EELIRHGYNYQGKDIF 1320 (1384)
Q Consensus 1249 f---t~dGi~PDIIiNPhg~P--SRMTIGql~E~l~Gk~~~~~g~~~d~t~F-~~~~~~~i~-~~L~~~G~~~~Gke~l 1320 (1384)
| |-.-+.-+|.+.|--+. -.|.--++.-...|....++.++..|..- +|.+..|++ +.|..||..+.-+|.|
T Consensus 451 y~G~TG~~~~~~if~G~~yyqrL~HmV~DK~h~Rs~Gp~~~lTrQP~~Gr~r~GG~RfGEMErd~lia~Gas~~L~ErL 529 (599)
T TIGR03670 451 YDGITGEKLEAEIFIGVIYYQKLHHMVADKIHARSRGPVQVLTRQPTEGRAREGGLRFGEMERDVLIGHGAAMLLKERL 529 (599)
T ss_pred EcCCCCCCccccEEEEehhheechhhhcchhhhcccCCCcccccCCccccccCCCeeeeeeehhhHhhcchHHHHHHHH
Confidence 1 11112457888888777 78888888888889999998888877654 567888887 6778888665555544
No 33
>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=99.91 E-value=9.9e-26 Score=204.41 Aligned_cols=66 Identities=53% Similarity=0.858 Sum_probs=60.1
Q ss_pred eeecccchhhccccccccc--ccccccccccCCCcCCCCCcccccCCCCCCCccccchhhcccccccc
Q psy4067 224 QVLSRLSYISGLGMMTRIN--SQFEKTRKVSGPRSLQGSQWGMLCPSDTPEGEACGLVKNLALMTHIT 289 (1384)
Q Consensus 224 QvL~Rln~ls~lshlrRv~--s~~~~~~K~~~pR~LhpsqwG~iCP~eTPEG~~cGLVKnLAl~a~It 289 (1384)
|+|+|+|++++|+|+||++ +++.++.|.+++|+|||||||+|||+|||||++||||||||++|.||
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 8999999999999999999 69999999999999999999999999999999999999999999986
No 34
>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=99.70 E-value=5.4e-18 Score=184.68 Aligned_cols=74 Identities=41% Similarity=0.684 Sum_probs=60.6
Q ss_pred cccCCcccccccccccccCCcccccccccccceEEEEEEEeeCCc-eeeeeeeeeccccceeccccccccCCccc
Q psy4067 339 KEVCKPEIEESFNYTRQTTPHECRLRDLTYSAPITVDIEYTRGSQ-RVVRSDLVIGRMPIMLQSSKCVLRNKTEY 412 (1384)
Q Consensus 339 i~ig~Psv~e~~~~~R~i~P~EcRlrd~TYsa~i~V~v~~~~~~~-~~~~~~V~IG~iPIMLrS~~CvL~g~~~~ 412 (1384)
+++++|.+.+.+...++++|+|||+|++||+|+++|+++++.++. ......+.||+||||++|+.|+|+|+++.
T Consensus 44 ~~i~~P~~~~~~~~~~~l~P~ecR~r~~TYs~~l~v~i~~~~~~~~~~~~~~v~iG~iPiMv~S~~C~L~~~~~~ 118 (203)
T PF04563_consen 44 IRIGKPTYSESDGRERPLYPRECRLRGLTYSAPLYVDIELTVNNKKEIKEQEVFIGKIPIMVRSKRCNLNGLSPK 118 (203)
T ss_dssp EEEESESSEHTTSCEEE--HHHHHHTT-B-EEEEEEEEEEEESSTTEEEESEEEEEEEE-BTTTTTSGGGT--HH
T ss_pred EEEeeeeeccccccccCCCHHHHHhcCCCCCCccceEEEEEeeccceEEeeEEEEeeCCeEeecceeeCCCCCHH
Confidence 567889988866777899999999999999999999999999887 77788899999999999999999998775
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=98.79 E-value=2.6e-09 Score=91.14 Aligned_cols=42 Identities=40% Similarity=0.653 Sum_probs=34.5
Q ss_pred cccccccCcEEEeccCCCcceEEEeCCCCCC------CccceeecccC
Q psy4067 692 FDDFLYEGKIEYLDVNEGNDSHIAVSESGIR------PGVTTHLEIAP 733 (1384)
Q Consensus 692 ~~~~~~~~~~e~~~~~e~~~~~ia~~~~~~~------~~~~th~ei~p 733 (1384)
|++|+++|.|||||++||++++||+++++++ ...||||||+|
T Consensus 1 w~~ll~~G~vE~id~eEEe~~~Iam~~~dl~~~~~~~~~~~TH~EI~P 48 (48)
T PF04567_consen 1 WDDLLKEGVVEYIDAEEEETCMIAMSPEDLESTNEDITHTYTHCEIHP 48 (48)
T ss_dssp HHHHHHTTSEEEEETTTCTT--EESSCCCCCHSGGCCSST-SEEES-G
T ss_pred ChhHhhCCCEEEecchhccccEEEEecccccccCCCCCCccEEEeEeC
Confidence 7899999999999999999999999987775 34799999998
No 36
>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=98.66 E-value=8.3e-09 Score=110.12 Aligned_cols=128 Identities=15% Similarity=0.198 Sum_probs=82.4
Q ss_pred cEEEEEEecceeeEeccchhe-----eccccccccchHHHHhhhccccc-----------------cceecccccccccc
Q psy4067 31 AYIFFLLEGLQAILFLPLFKQ-----VDFGDSKVVSLRELLSHVTYQKR-----------------LYRLTVQPNWLGTV 88 (1384)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~sd~~~~~~i~~~~~-----------------~~~~~~~~~~~~~~ 88 (1384)
.++.+--.+..++...|..+. ++|||||++||+||++.|+|+.+ +.+++.||+|||++
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~IPi~ilLrALG~~sd~eI~~~i~~~~~~~~~~~~~~~~~~~~~~~~t~~~al~~i~~~ 109 (190)
T PF04561_consen 30 SWHYLEKDKKIIIFSRPKKKFKIPIVILLRALGIESDKEIIELICYSEEDFEDIEELMLSELEEEEIYTQEQALEYIGKK 109 (190)
T ss_dssp EEEEEECETTTEEEEETTSSSEEEHHHHHHHTT--STCHHHHHHCCCSTCHSCSTTTHHHHCCCTSSCSCHHHHHHHHHC
T ss_pred eEEEEecCCcEEEEEEcCcccccceEEeehhhcCcCcccccceeecccccccccccccccccccccccccccceeEeccc
Confidence 456666777778888888886 99999999999999999998332 89999999999983
Q ss_pred ccc-ccceeeeeccccccCCCCHHHHHHHHHHHHHHHhcCccccccCh---------hhHHHHHHHHHHHHHhcCcCC-C
Q psy4067 89 KAV-HGTYLTMVTDETSKLKDSPEIRDKWKLVLSFLKEKGLVKPHIDS---------FDYFINVEIKKLMQANANIYS-D 157 (1384)
Q Consensus 89 ~~~-~g~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~kgl~~~hi~~---------~~~f~~~~i~~~~~~~~~~~~-d 157 (1384)
... +| ++ ...+.+.+... ..+.++++.. =++.+|++. +.+|+++|+++++.+..+... |
T Consensus 110 ~~~~~~-------~~-~~~~~~~~~l~-~~y~l~~i~r-~~l~~hl~~~~~~~~~~~k~~~l~~m~~~ll~~~~g~~~~D 179 (190)
T PF04561_consen 110 FRFRQG-------KP-PKVEEARNFLQ-KRYDLGFIGR-YKLNKHLGSDEPNENDRLKAEDLGLMIRKLLKLANGECEPD 179 (190)
T ss_dssp CHSSSS-------CH-CCHCHHHHHHT-TCSSTCCCHH-HCCHTTTTSSSSSSSSSCHHHHHHHHHHHHHHHHTTSS-S-
T ss_pred eeeecc-------cc-cchhhhhcccc-cccccccccc-cceeeeeeeeecccccccchhhHHHHHHHHHHHhcCCCCCC
Confidence 221 33 22 11111111110 0000011111 123336542 689999999999999877655 8
Q ss_pred CChhhhhhHHh
Q psy4067 158 VDPLFYLKYLD 168 (1384)
Q Consensus 158 ~~d~f~~k~~d 168 (1384)
+.|||.|||++
T Consensus 180 d~D~l~NkRv~ 190 (190)
T PF04561_consen 180 DRDHLGNKRVR 190 (190)
T ss_dssp STTSCCCEEEE
T ss_pred CccccCCcCCc
Confidence 88999999864
No 37
>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=98.59 E-value=4.4e-08 Score=104.62 Aligned_cols=61 Identities=33% Similarity=0.441 Sum_probs=50.9
Q ss_pred CChhhHHHHh---------hhcccc-ccccccccch--hhhHHHHHHHHHHHHhhcCCCCCCCCccccCcEee
Q psy4067 451 TPVDDARDFL---------SSTCIA-HIPVINMRFK--MKAMYLAVMIRRMVLALSDPDMLDDRDYYGNKRLE 511 (1384)
Q Consensus 451 ~~~~ea~e~L---------~~~~Lp-Hv~v~~~~~~--~Ka~yLg~MvRr~l~~~~~~~~~DDrD~ygNKRle 511 (1384)
...+.++++| .+.+|| |++....++. .|+.+|++|+|+++.+..|...+||+|||||||+|
T Consensus 118 ~~~~~~~~~l~~~y~l~~i~r~~l~~hl~~~~~~~~~~~k~~~l~~m~~~ll~~~~g~~~~Dd~D~l~NkRv~ 190 (190)
T PF04561_consen 118 PKVEEARNFLQKRYDLGFIGRYKLNKHLGSDEPNENDRLKAEDLGLMIRKLLKLANGECEPDDRDHLGNKRVR 190 (190)
T ss_dssp CCHCHHHHHHTTCSSTCCCHHHCCHTTTTSSSSSSSSSCHHHHHHHHHHHHHHHHTTSS-S-STTSCCCEEEE
T ss_pred cchhhhhcccccccccccccccceeeeeeeeecccccccchhhHHHHHHHHHHHhcCCCCCCCccccCCcCCc
Confidence 4456777776 688888 9998876444 49999999999999999999999999999999996
No 38
>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=96.93 E-value=0.00047 Score=62.53 Aligned_cols=25 Identities=32% Similarity=0.608 Sum_probs=22.2
Q ss_pred EEECCEEEEEeecCcccCCccccccccccc
Q psy4067 325 VFVNGILAGITCHHKEVCKPEIEESFNYTR 354 (1384)
Q Consensus 325 VflNG~~vG~~~~~i~ig~Psv~e~~~~~R 354 (1384)
|||||.|+|+|++|..+ .+.++.+|
T Consensus 1 VFlNG~~iG~~~~p~~l-----~~~lr~~R 25 (63)
T PF04566_consen 1 VFLNGVWIGIHSDPEEL-----VKTLRNLR 25 (63)
T ss_dssp EEETTEEEEEESSHHHH-----HHHHHHHH
T ss_pred CEECCEEEEEEcCHHHH-----HHHHHHHh
Confidence 89999999999999988 77777776
No 39
>PHA03394 lef-8 DNA-directed RNA polymerase subunit beta-like protein; Provisional
Probab=92.79 E-value=0.11 Score=66.26 Aligned_cols=142 Identities=21% Similarity=0.297 Sum_probs=84.3
Q ss_pred cccCCccceeeEEEEecC-CCCcEEEEEEEEeecCCCcCCcccccCCCceeEEEEeecCCCC-C-CCCCCcceEeeCCCC
Q psy4067 1188 SYKGSVPSYLEKVLVSSN-SEDAFLIKMLLRQTRRPEIGDKFSSRHGQKGVIGLIVEQEDMP-F-NESGICPDIIMNPHG 1264 (1384)
Q Consensus 1188 ~~k~~e~~~vd~V~i~~~-~~~~~~vkV~ir~~R~p~iGDKfsSRHGQKGvvg~i~~qeDMP-f-t~dGi~PDIIiNPhg 1264 (1384)
.++....-.|++|--+-+ .++...+|+.+-..=.--.|=|.||=||||||.. ..||+- | .|||++|-|.+.|.+
T Consensus 673 YfR~~~~Q~ie~l~s~m~~~nd~v~lKl~~Vtst~dLeGlKICgIHGQKGVln---~seDLtew~aeDg~~aQIclSPiS 749 (865)
T PHA03394 673 YFRQIKNQRIERLDSEMTVINDTVYLKIRLVTSTSDLEGLKICGIHGQKGVLN---GSEDLTEWMAEDGTHAQICLSPIS 749 (865)
T ss_pred EEEecCCeEEEEEeeEEEEcCCEEEEEEEEEEEecCcceeEEeeecccccccC---CcchhhhhhccCCCcceEEechHH
Confidence 344444444555432211 2335667776665555567999999999999974 355543 2 269999999999999
Q ss_pred CCCccchhhhHHhhhhHHHhhcCCeeee---------ccC--CCCCHHHHHHHHHHcCCCCCCceEEeeCCCCcEEEeeE
Q psy4067 1265 YPSRMTVGKLIELLAGKAGLMEGNYKEG---------TAF--GGTKLVDVQEELIRHGYNYQGKDIFYSGITGEALEAYI 1333 (1384)
Q Consensus 1265 ~PSRMTIGql~E~l~Gk~~~~~g~~~d~---------t~F--~~~~~~~i~~~L~~~G~~~~Gke~lydG~TGe~l~~~I 1333 (1384)
+-||.|. ++-+--|-....|...|. .|+ =..+.++|.+++.+ -+..|-|.+=--+...+--...
T Consensus 750 yLsRQtn---f~~~~~Ky~v~gg~~~~~~~~rypi~~IPYm~FnnTPDnI~kEf~~--~n~TG~EKvEGTRlDqwTINqs 824 (865)
T PHA03394 750 YLSRQTN---FDDIERKYVVRGGDHSDPNAKRYPIFNIPYMLFNNTPDNIYKEFIK--KNYTGHEKVEGTRLDQWTINQS 824 (865)
T ss_pred hhccccc---cccCceEEEEECCCcCCCCCcccceEecceehhcCCchHHHHHHhc--cCCcceeecceeeccceeEcce
Confidence 9999987 233333434444554433 122 13467888887765 3455655543222333333456
Q ss_pred eEee
Q psy4067 1334 YSGP 1337 (1384)
Q Consensus 1334 fiGp 1337 (1384)
|+|-
T Consensus 825 F~gN 828 (865)
T PHA03394 825 FVGN 828 (865)
T ss_pred eccc
Confidence 6664
No 40
>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=92.32 E-value=0.035 Score=51.22 Aligned_cols=25 Identities=20% Similarity=0.341 Sum_probs=20.4
Q ss_pred ccccccCCCCCCCcccccC--CCCCeE
Q psy4067 564 RKLLAAGFSGPHSGRVRLM--PEGPTI 588 (1384)
Q Consensus 564 r~~~a~Gvh~sh~GRicp~--pEgp~i 588 (1384)
+.+.++.+|+++||+|||+ |||+.+
T Consensus 29 ~~~~~R~lh~s~~G~iCPveTPEG~~~ 55 (68)
T PF04565_consen 29 KSTEPRQLHPSQYGRICPVETPEGENC 55 (68)
T ss_dssp SSSTTTSTTGGGTTTBSSSSS-SSTST
T ss_pred cccccccccccceeEEeecccCCCccE
Confidence 3444788999999999999 999975
No 41
>PHA03394 lef-8 DNA-directed RNA polymerase subunit beta-like protein; Provisional
Probab=60.29 E-value=4.1 Score=52.78 Aligned_cols=47 Identities=30% Similarity=0.410 Sum_probs=37.0
Q ss_pred cccccccccccCCCcceeeeEeecCCCC--CCCCCCcCceeeCCCCCCCccc
Q psy4067 1129 RPEIGDKFSSRHGQKGVIGLIVEQEDMP--FNESGICPDIIMNPHGLKGCDR 1178 (1384)
Q Consensus 1129 ~p~IGDKfssRHGqKGVis~ilp~eDMP--fte~Gi~pDIIiNP~gvpsr~~ 1178 (1384)
.-..|=|.+|-||||||+.. .||.- -.|||+.+-|.++|.++-||..
T Consensus 707 ~dLeGlKICgIHGQKGVln~---seDLtew~aeDg~~aQIclSPiSyLsRQt 755 (865)
T PHA03394 707 SDLEGLKICGIHGQKGVLNG---SEDLTEWMAEDGTHAQICLSPISYLSRQT 755 (865)
T ss_pred cCcceeEEeeecccccccCC---cchhhhhhccCCCcceEEechHHhhcccc
Confidence 44578899999999999763 33432 3478999999999999988754
No 42
>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=37.90 E-value=32 Score=44.52 Aligned_cols=38 Identities=18% Similarity=0.292 Sum_probs=31.2
Q ss_pred CCCCCccccCcEeeehhhHHHHHHHHHHHHHHHHHHhh
Q psy4067 498 MLDDRDYYGNKRLELAGSLLSLMFEDVFKRFNSELKET 535 (1384)
Q Consensus 498 ~~DDrD~ygNKRlelAG~Lls~lFe~~fk~~~~~~k~~ 535 (1384)
..=..|-+.||=+=--..||.+++.-.++.+..-+...
T Consensus 209 i~Y~IDsLsNKiIYkh~yLl~l~y~~~L~~~~~~~~~~ 246 (748)
T PF04941_consen 209 INYSIDSLSNKIIYKHSYLLELTYKPILKKYENLIEMN 246 (748)
T ss_pred CCceecccccceeeCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34457889999999999999999999999888776543
No 43
>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=37.08 E-value=22 Score=39.55 Aligned_cols=24 Identities=25% Similarity=0.383 Sum_probs=22.0
Q ss_pred ccccccccchhhHHHHHHHHHHhC
Q psy4067 185 QFDIVNHMRQDTITNALTAAIQTG 208 (1384)
Q Consensus 185 ~~~~~~~~~~~~IT~~l~~alsTG 208 (1384)
.+++..+++++.||++|++|||||
T Consensus 180 ~~~~~~~i~~~~It~~~~~f~~TG 203 (203)
T PF04563_consen 180 KFNPKSLINSKIITNGIRYFFSTG 203 (203)
T ss_dssp CSSCTTSSHSHHHHHHHHHHHHTS
T ss_pred ccCHHHccCchHHHHHHHHHHcCC
Confidence 577888899999999999999998
No 44
>PF08259 Periviscerokin: Periviscerokinin family; InterPro: IPR013231 Perviscerokinin neuropeptides are found in the abdominal perisympathetic organs of insects. They mediate visceral muscle contractile activity (myotropic activity). CAPA, which are in the periviscerokinin and pyrokinin peptide families, has potential medical importance. This is due to its myotropic effects on, for example, heart muscles and due to its occurrence in the Ixodoidea (ticks), which are important vectors in the transmission of many animal diseases []. These peptides also have a strong diuretic or anti-diuretic effect, suggesting they have significant medical implications [].
Probab=35.29 E-value=17 Score=22.55 Aligned_cols=9 Identities=56% Similarity=1.376 Sum_probs=7.3
Q ss_pred CCCCCCCCC
Q psy4067 754 SPGLVPYPH 762 (1384)
Q Consensus 754 ~~~lipf~~ 762 (1384)
|.||||||.
T Consensus 2 ssGlI~fpR 10 (11)
T PF08259_consen 2 SSGLIPFPR 10 (11)
T ss_pred CccccccCC
Confidence 568999984
No 45
>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=29.81 E-value=9.1 Score=35.16 Aligned_cols=20 Identities=25% Similarity=0.345 Sum_probs=16.3
Q ss_pred cccccccCCCCCCCCCCCCCcccccc
Q psy4067 658 RNSQQYCDCPDGYSSGCQPRPTFLNM 683 (1384)
Q Consensus 658 r~~r~~~d~~~~~~~gr~~rPl~~~~ 683 (1384)
+++++|+| +||.+||+|+++
T Consensus 43 ~ei~I~tD------~GR~~RPL~vV~ 62 (63)
T PF04566_consen 43 KEIRINTD------AGRLCRPLFVVE 62 (63)
T ss_dssp TEEEEE-S------SCEEEEEEEEES
T ss_pred CEEEEEcc------CCcccceeEEec
Confidence 67889999 999999998653
Done!