Query psy13848
Match_columns 409
No_of_seqs 397 out of 1403
Neff 5.5
Searched_HMMs 46136
Date Fri Aug 16 21:59:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13848.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13848hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0261|consensus 100.0 1.8E-89 4E-94 727.4 22.7 286 1-299 303-879 (1386)
2 TIGR02390 RNA_pol_rpoA1 DNA-di 100.0 2E-78 4.3E-83 667.7 25.0 292 2-306 260-836 (868)
3 PRK14977 bifunctional DNA-dire 100.0 3.6E-78 7.9E-83 682.6 25.1 285 2-299 273-866 (1321)
4 PRK08566 DNA-directed RNA poly 100.0 7.2E-78 1.6E-82 664.6 24.7 292 2-306 264-841 (882)
5 KOG0260|consensus 100.0 4.9E-77 1.1E-81 642.4 20.2 295 2-309 281-859 (1605)
6 KOG0262|consensus 100.0 4.2E-70 9.2E-75 590.9 18.4 141 146-299 857-1001(1640)
7 TIGR02386 rpoC_TIGR DNA-direct 100.0 1.6E-56 3.5E-61 497.2 18.9 258 2-299 274-764 (1140)
8 PRK14906 DNA-directed RNA poly 100.0 3.8E-55 8.3E-60 488.2 20.1 257 2-299 370-872 (1460)
9 PRK00566 DNA-directed RNA poly 100.0 1.2E-54 2.7E-59 482.6 18.1 258 2-299 282-773 (1156)
10 COG0086 RpoC DNA-directed RNA 100.0 2E-54 4.3E-59 472.4 13.9 309 2-332 238-806 (808)
11 PRK09603 bifunctional DNA-dire 100.0 3.8E-52 8.2E-57 481.8 19.8 258 2-299 1681-2171(2890)
12 PRK14844 bifunctional DNA-dire 100.0 1.1E-49 2.5E-54 460.0 18.7 258 2-299 1724-2227(2836)
13 smart00663 RPOLA_N RNA polymer 100.0 9E-35 2E-39 286.7 7.0 153 2-159 58-268 (295)
14 CHL00018 rpoC1 RNA polymerase 100.0 1.6E-32 3.5E-37 291.7 3.6 158 2-159 321-513 (663)
15 PRK02625 rpoC1 DNA-directed RN 100.0 4.5E-32 9.8E-37 286.1 6.2 157 3-159 301-492 (627)
16 TIGR02387 rpoC1_cyan DNA-direc 100.0 5.1E-32 1.1E-36 285.4 5.6 157 3-159 294-485 (619)
17 PF05000 RNA_pol_Rpb1_4: RNA p 99.9 2.1E-27 4.5E-32 202.7 4.4 106 134-239 2-108 (108)
18 TIGR02388 rpoC2_cyan DNA-direc 99.9 9.5E-25 2.1E-29 244.4 12.0 157 103-299 43-205 (1227)
19 PRK02597 rpoC2 DNA-directed RN 99.9 6.8E-24 1.5E-28 239.2 11.0 144 116-299 60-206 (1331)
20 CHL00117 rpoC2 RNA polymerase 99.9 9.6E-23 2.1E-27 231.7 12.1 153 103-299 50-212 (1364)
21 PF00623 RNA_pol_Rpb1_2: RNA p 99.9 2.6E-24 5.6E-29 196.9 -0.8 104 54-157 1-162 (166)
22 KOG0262|consensus 99.8 1.1E-20 2.4E-25 207.6 3.6 332 2-382 398-759 (1640)
23 KOG0261|consensus 99.8 1.1E-19 2.3E-24 196.0 5.8 106 277-397 553-663 (1386)
24 TIGR02390 RNA_pol_rpoA1 DNA-di 99.5 5.4E-15 1.2E-19 164.8 4.8 71 302-382 525-600 (868)
25 PRK14977 bifunctional DNA-dire 99.5 1.1E-15 2.4E-20 175.3 -1.6 180 169-382 431-622 (1321)
26 PRK08566 DNA-directed RNA poly 99.5 2.9E-15 6.4E-20 167.2 -2.3 183 169-382 415-605 (882)
27 PF04998 RNA_pol_Rpb1_5: RNA p 99.1 3.8E-12 8.2E-17 122.3 -2.4 41 246-299 1-41 (277)
28 KOG0260|consensus 99.1 6.2E-11 1.4E-15 131.4 5.1 99 274-383 518-621 (1605)
29 PF04983 RNA_pol_Rpb1_3: RNA p 98.5 2.7E-08 5.9E-13 89.5 1.4 61 305-383 50-111 (158)
30 COG0086 RpoC DNA-directed RNA 97.0 0.00046 1E-08 77.4 3.7 76 306-389 481-560 (808)
31 PRK09603 bifunctional DNA-dire 96.7 0.00061 1.3E-08 83.2 1.9 33 127-159 1841-1873(2890)
32 PRK00566 DNA-directed RNA poly 95.8 0.0033 7.1E-08 72.7 0.8 33 127-159 442-474 (1156)
33 TIGR02386 rpoC_TIGR DNA-direct 90.7 0.076 1.7E-06 61.7 0.1 32 128-159 435-466 (1140)
34 PRK14906 DNA-directed RNA poly 88.3 0.2 4.3E-06 59.3 1.2 33 127-159 530-562 (1460)
35 PRK14844 bifunctional DNA-dire 87.6 0.55 1.2E-05 58.6 4.3 33 127-159 1885-1917(2836)
36 KOG1594|consensus 51.9 6.7 0.00015 39.2 1.0 28 305-332 273-300 (305)
37 PF15278 Sec3_C_2: Sec3 exocys 38.1 17 0.00036 29.7 1.1 38 162-199 45-84 (86)
38 KOG0680|consensus 21.8 47 0.001 34.4 1.3 39 69-114 289-333 (400)
No 1
>KOG0261|consensus
Probab=100.00 E-value=1.8e-89 Score=727.36 Aligned_cols=286 Identities=58% Similarity=0.974 Sum_probs=282.2
Q ss_pred ChhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchH
Q psy13848 1 MIQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPE 80 (409)
Q Consensus 1 ~i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~ 80 (409)
.|+|+||.||.+||.|+||+++|.|..+.+++|.+|++||||||+||||+||+||||||||||||||||||.|||||||.
T Consensus 303 ~imE~Wd~lQl~~AlyINSEl~g~~~~~~p~kp~RGf~QRLKGKqGRFRgNLSGKRVDFSGRTVISPDPNL~IdeVgVP~ 382 (1386)
T KOG0261|consen 303 LIMEDWDFLQLQVALYINSELPGIPINMAPKKPTRGFVQRLKGKQGRFRGNLSGKRVDFSGRTVISPDPNLRIDEVGVPI 382 (1386)
T ss_pred hhhhhhHHHHHHHHHhhcccCCCCCCCCCCCCchHHHHHHhcccCCceeccccCceeeccCceeeCCCCCcceeeccchH
Confidence 47899999999999999999999999989999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCceeccccHHHHHHHHHcCCCCCCCc----------------------------------------------
Q psy13848 81 HVAKILTYPERVHHANKEHLKQLVLNGPDKHPGL---------------------------------------------- 114 (409)
Q Consensus 81 ~~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa---------------------------------------------- 114 (409)
.+|+.|||||+||.+|+++||+||.|||++||||
T Consensus 383 rvAkiLTfpE~Vt~~Ni~klr~lV~NGP~vhPGANyv~~r~~~~kr~L~yg~R~kiA~eLk~GdvVERHL~DgDvVLFNR 462 (1386)
T KOG0261|consen 383 RVAKILTFPERVTRANIRKLRQLVRNGPNVHPGANYVVQRGEGFKRFLKYGNRDKIADELKIGDVVERHLMDGDVVLFNR 462 (1386)
T ss_pred HHHHHhcchhhccHHHHHHHHHHHhcCCCCCCCcchhhhcccchhhHhhcCcHHHHHHhhccchHHHhhcccCCEEEEcC
Confidence 9999999999999999999999999999999999
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 463 QPSLHkmSIM~H~akV~p~RTfRFNEcvCtPYNADFDGDEMNlHvPQTEEAraEA~~LMgvknNlvTPr~GEpiiAAtQD 542 (1386)
T KOG0261|consen 463 QPSLHKMSIMSHRAKVMPWRTFRFNECVCTPYNADFDGDEMNLHVPQTEEARAEALVLMGVKNNLVTPRNGEPIIAATQD 542 (1386)
T ss_pred CchHHHHHHHHHHhhcccCceeeccccccCCcCCCCCcccccccCCchHHHHHHHHHHhccccccccCCCCCceeehhhh
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 543 FiTg~YLlt~KDtF~dRa~~~ql~s~~~d~~~~i~lppPaI~KP~~LwTGKQ~fsvlirpn~~s~v~~Nl~~k~k~~~~~ 622 (1386)
T KOG0261|consen 543 FITGGYLLTHKDTFLDRAEFSQLCSYMSDAMTHIDLPPPAILKPVELWTGKQLFSVLIRPNDDSPVRVNLDAKNKNFSLV 622 (1386)
T ss_pred hhhcceeeecccccccHHHHHHHHHHHhccccccCCCChhhcCceeeeccCEEEEEEeccCCCCceEEeeccccceeecc
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 623 ~~k~~~mc~nDg~v~irns~l~sG~ldKs~lG~g~k~~lfy~llrDyg~~aAa~am~rlaklc~r~lgnrGFSIGi~DVq 702 (1386)
T KOG0261|consen 623 KGKSFEMCPNDGYVIIRNSELISGVLDKSTLGSGKKDSLFYILLRDYGSMAAADAMNRLAKLCARFLGNRGFSIGIDDVQ 702 (1386)
T ss_pred cCCCcccCCCCCeEEEecchhhhcccccccccCCCccceEeeehhhcchHHHHHHHHHHHHhhhhhccccccccccCCCC
Confidence
Q ss_pred -----hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchhhhhcC
Q psy13848 115 -----LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQELHPSNGPLVMALSG 189 (409)
Q Consensus 115 -----~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~l~p~N~~~~M~~sG 189 (409)
.++|+.+++.||.+|+++|.+|..|+|+.||||+.+++||+.+.++|+.+|+++|++|+..|.++|++++|+.||
T Consensus 703 Pg~~L~~~k~~lv~~gY~kc~~~I~e~~kG~L~~qpg~~~eetLEa~I~~~Ls~IRe~~G~~C~~eL~~~NsPliMa~CG 782 (1386)
T KOG0261|consen 703 PGEILSQEKEELVNRGYAKCDEKIEEYNKGKLQLQPGCNEEETLEAEILSELSTIREEAGKICIRELHPRNSPLIMALCG 782 (1386)
T ss_pred ccHHHHHHHHHHHHhHHHHHHHHHHHHhccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccChHHHHHhc
Confidence 568899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcchhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchhhhhhhhhheeeeccccc
Q psy13848 190 SKGSFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIASELKSAYLVWRVAGSISA 269 (409)
Q Consensus 190 sKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~ 269 (409)
||||.+|++||+||||||.+.|+|+|.||.+|+||||++.+..|+|+|||.|||++||+| .|||||+|+||
T Consensus 783 SKGS~INiSQMvACVGQQ~ISG~RvPdGf~dRsLPHF~r~Sk~P~aKGFV~NSFySGLTp------tEFfFHtm~GR--- 853 (1386)
T KOG0261|consen 783 SKGSKINISQMVACVGQQIISGHRVPDGFEDRSLPHFERHSKTPAAKGFVANSFYSGLTP------TEFFFHTMSGR--- 853 (1386)
T ss_pred CCCCcccHHHHHHHhhhhhhcCCcCCCccccccCccccccCCCccccchhhhhcccCCCc------hhhheeecccc---
Confidence 999999999999999999999999999999999999999999999999999999999999 99999999999
Q ss_pred cccccccccccccccCcchHHHHHHhhhcc
Q psy13848 270 RGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 270 ~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
|||+|||+|| +.+||+||+|+|+||-
T Consensus 854 EGLVDTAVKT----AETGYMqRRLmK~LED 879 (1386)
T KOG0261|consen 854 EGLVDTAVKT----AETGYMQRRLMKSLED 879 (1386)
T ss_pred cchhhhhhhh----hhhhhHHHHHHHHHHH
Confidence 9999999999 9999999999999987
No 2
>TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A'. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein.
Probab=100.00 E-value=2e-78 Score=667.69 Aligned_cols=292 Identities=40% Similarity=0.658 Sum_probs=277.8
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCC-CCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQP-KSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPE 80 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~-~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~ 80 (409)
+.+.|+.||.+|++||||+.+|.+.+.++ ++++++|+|||+||+||||+|||||||||||||||+|||||.+||||||.
T Consensus 260 ~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~~i~~~l~gK~G~~R~nl~GKRvd~s~RsVI~pdp~l~~~evGvP~ 339 (868)
T TIGR02390 260 IEDLWELLQYHVATYFDNELPGIPPARHRSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPNISINEVGVPE 339 (868)
T ss_pred hHHHHHHHHHHHHHHHcCCCCCCCccccCCCCCchhhHhhhcccccccccccccccccccCCceeeCCCCCcCCeeeCcH
Confidence 45789999999999999999988766543 58999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCceeccccHHHHHHHHHcCCCCCCCc----------------------------------------------
Q psy13848 81 HVAKILTYPERVHHANKEHLKQLVLNGPDKHPGL---------------------------------------------- 114 (409)
Q Consensus 81 ~~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa---------------------------------------------- 114 (409)
.||++||+||+||.||+++|+++|.|||+.||||
T Consensus 340 ~~A~~Lt~pe~Vt~~N~~~l~~lv~ng~~~~pga~~i~~~~g~~~~l~~~~~~~~~~~l~~g~~v~rhl~dgd~vl~NRq 419 (868)
T TIGR02390 340 QIAKELTVPERVTPWNIDELREYVLNGPDSWPGANYVIRPDGRRIKIRDENKEELAERLEPGWVVERHLIDGDIVLFNRQ 419 (868)
T ss_pred HHHHhCCCCeEEehhhHHHHHHHHHcCCccCCCceEEEcCCCcEEechhhhHHHHHhhcccCCEEEEehhcCccceeccC
Confidence 9999999999999999999999999999999999
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 420 PsLHr~si~a~~~~v~~~~t~r~n~~~c~~~NADFDGDeMn~h~Pqs~~a~aEa~~Lm~~~~~~~sp~~g~p~~~~~QD~ 499 (868)
T TIGR02390 420 PSLHRMSMMGHKVKVLPGKTFRLNLAVCPPYNADFDGDEMNLHVPQTEEARAEARELMLVEEHILTPRYGGPIIGGIHDY 499 (868)
T ss_pred CccccccceeEEEEEecCceEeeccccCCccccCcccceeeEecCCCHHHHHHHHHHhhchhceecCCCCCeeEEeehhh
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 500 l~g~~~LT~~d~f~~~~~~~~l~~~~~~~~~~~~p~i~kp~~lwTGKqi~s~~lp~~~n~~~~~~~~~~~~~~~~~~~~~ 579 (868)
T TIGR02390 500 ISGAYLLTHKSTLFTKEEVQTILGVAGYFGDPPEPAIEKPKEYWTGKQIFSAFLPEDLNFEGRAKICSGSDACKKEECPH 579 (868)
T ss_pred hhheeeeeeccccCCHHHHHHHHhcCCccccCCCceecCCcccccHHHHHHHhcCCCCcceecccccccccccccccCCC
Confidence
Q ss_pred --------------------------------------------------------------------------hhhHHH
Q psy13848 115 --------------------------------------------------------------------------LRAKER 120 (409)
Q Consensus 115 --------------------------------------------------------------------------~~~K~~ 120 (409)
.+++++
T Consensus 580 d~~v~i~~g~ll~G~ldK~~lg~~~~~li~~i~~~yG~~~a~~fl~~~~~l~~~~l~~~GfSigi~D~~~~~~~~~~~~~ 659 (868)
T TIGR02390 580 DAYVVIKNGKLLKGVIDKKAIGAEKGKILHRIVREYGPEAARRFLDSVTRLFIRFITLRGFTTGIDDIDIPKEAKEEIEE 659 (868)
T ss_pred cceEEEecCeEEeeeecHHHhccCcccHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHhccEEeehhheeeCHHHHHHHHH
Confidence 234567
Q ss_pred HHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchhhhhcCCCcchhhHHHH
Q psy13848 121 LLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQELHPSNGPLVMALSGSKGSFINISQM 200 (409)
Q Consensus 121 iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~l~p~N~~~~M~~sGsKGS~~Ni~Qi 200 (409)
++++++++|++++++|+.|.++.+||++.++++|..+++.|+++++++++++.+.++|+|++++|+.||||||.+|++||
T Consensus 660 ~i~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~e~~i~~~l~~~r~~~~~~~~~~l~~~N~~~~M~~sGsKGS~~Ni~Qi 739 (868)
T TIGR02390 660 LIEKAEKRVDNLIERYRNGELEPLPGRTVEETLEMKIMEVLGKARDEAGEVAEKYLDPENHAVIMARTGARGSLLNITQM 739 (868)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcchhhhhhccCCcccccHHHH
Confidence 88899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchhhhhhhhhheeeecccccccccccccccc
Q psy13848 201 IACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGELHPKQKTD 280 (409)
Q Consensus 201 ~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~ 280 (409)
++|||||+++|+|||.||++|+||||.++|.+|+|+|||.|||++||+| +|||||||+|| |||+|||+||
T Consensus 740 ~~~lGQQ~~~g~ri~~~~~~rtlp~f~~~d~~~~~~GfV~~sF~~GL~p------~EfFfH~m~gR---eGLiDTAvKT- 809 (868)
T TIGR02390 740 AAMVGQQSVRGGRIRRGYRNRTLPHFKKGDIGAKARGFVRSSFKKGLDP------TEYFFHAAGGR---EGLVDTAVRT- 809 (868)
T ss_pred HhccCccccCCCcCccccccCCCCCCCCCCCCcccCceecccccCCCCH------HHHHHHHhhhc---cccccccccc-
Confidence 9999999999999999999999999999999999999999999999999 99999999999 9999999999
Q ss_pred ccccCcchHHHHHHhhhcc----ccccCCC
Q psy13848 281 KVRSRNGWLSSVLSSSLRF----REHETSV 306 (409)
Q Consensus 281 ~~tsrsGyl~r~L~~~l~F----~~~~~~~ 306 (409)
|++|||||||+++||. +|++.|.
T Consensus 810 ---a~sGYLqRrLvk~lEdl~v~yD~tVR~ 836 (868)
T TIGR02390 810 ---SQSGYMQRRLINALQDLYVEYDGTVRD 836 (868)
T ss_pred ---cccchhHHHHHHHHhheEEecCCeEEe
Confidence 9999999999999998 5555544
No 3
>PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional
Probab=100.00 E-value=3.6e-78 Score=682.58 Aligned_cols=285 Identities=36% Similarity=0.592 Sum_probs=265.8
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCC--CCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccch
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQP--KSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIP 79 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~--~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP 79 (409)
+.+.|+.||++|++||||+.+|.|.+.++ ++|+|||+|||+||+||||+|||||||||||||||||||||.+||||||
T Consensus 273 ~~~~~~~LQ~~v~~~~dn~~~~~~~~~~~~~~rp~k~i~qrLkgKeGrfR~nlmGKRVdfSaRtVIspDP~L~i~EVGvP 352 (1321)
T PRK14977 273 VEDEVDHLQYHTSTFFDNATAGIPQAHHKGSGRPLKSLFQRLKGKEGRFRGNLIGKRVDFSARTVISPDPMIDIDEVGVP 352 (1321)
T ss_pred HHHHHHHHHHHHHHHhcccccCCCccccccCCCchhHHHHHhccccccccccccccccccccceeEeCCCCcccccccCH
Confidence 56899999999999999999999887664 5999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCCceeccccHHHHHHHHHcCCCCCCCc---------------------------------------------
Q psy13848 80 EHVAKILTYPERVHHANKEHLKQLVLNGPDKHPGL--------------------------------------------- 114 (409)
Q Consensus 80 ~~~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa--------------------------------------------- 114 (409)
..||++||+||+||.||+++|+++|.|||+.||||
T Consensus 353 ~~iA~~LT~Pe~Vt~~Ni~~l~~lv~nG~~~~pGA~~i~~~~g~~~~l~~~~~~~~~~~~~~a~~L~~g~iV~Rhl~dGD 432 (1321)
T PRK14977 353 EAIAMKLTIPEIVNENNIEKMKELVINGPDEFPGANAIRKGDGTKIRLDFLEDKGKDALREAAEQLEIGDIVERHLADGD 432 (1321)
T ss_pred HHHHHhCCCCEEEchhhHHHHHHHHHcCCcccCCcceEEcCCCceeeehhhhhccchhHHHHHHhcccCcEEEEEeecCc
Confidence 99999999999999999999999999999999997
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 433 ~VL~NRQPSLHk~Simah~vkvl~~kT~Rln~~vC~pyNADFDGDEMNlHvPQS~eArAEa~~Lm~v~~niisP~~G~Pi 512 (1321)
T PRK14977 433 IVIFNRQPSLHKLSILAHRVKVLPGATFRLHPAVCPPYNADFDGDEMNLHVPQIEDARAEAIELMGVKDNLISPRTGGPI 512 (1321)
T ss_pred EEEeccCCccccccceEEEEEEecCceEEecccccCcccCCcccceeeeecCCCHHHHHHHHHHHhhhhcEecCCCCCee
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 513 ~gliQD~l~g~~lLT~~d~fl~~~e~~~l~~~~~~~~~lp~PaI~~kp~~lwTGKQi~s~iLp~~~n~~~~~~~~~~~~~ 592 (1321)
T PRK14977 513 IGALQDFITAAYLITKDDALFDKNEASNIAMLAGITDPLPEPAIKTKDGPAWTGKQLFSLFLPKDFNFEGIAKWSAGKAG 592 (1321)
T ss_pred EEeehhhhhhhhhhccCcccCCHHHHHHHHHhCCCccccCCCceecCCCCeeeHHHHHHHHcCCCCCceecccccccccc
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 593 ~~~~~~~~~d~~v~I~~geLl~G~ldK~~~G~~~~~~~~Lih~i~~~yG~~~a~~fL~~l~~l~~~~L~~~GFSigi~D~ 672 (1321)
T PRK14977 593 EAKDPSCLGDGYVLIKEGELISGVIDDNIIGALVEEPESLIDRIAKDYGEAVAIEFLNKILIIAKKEILHYGFSNGPGDL 672 (1321)
T ss_pred cccccCCCCcceEEeecCeEEeeecchHhhccccCCCCcHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHhCCEEEeeCcE
Confidence
Q ss_pred ------hhhHHHHHHhhhhhHHHHHHHhh--------cCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhcCCCCC
Q psy13848 115 ------LRAKERLLSEGYSKCEGYIRAME--------SGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQELHPSN 180 (409)
Q Consensus 115 ------~~~K~~iI~eg~~kc~~~iadf~--------~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~l~p~N 180 (409)
.+++.+.+++++++|.+++.+++ .++++++||++.++++|+.+++.|+++++++++++.+.++|+|
T Consensus 673 ~~~~~~~~~i~~~i~~~~~~v~~l~~~~~~~~~i~~~~~~~~~~~G~~~~~~~e~~i~~~l~~~r~~~~~~~~~~l~~~N 752 (1321)
T PRK14977 673 IIPDEAKQEIEDDIQGMKDEVSDLIDQRKITRKITIYKGKEELLRGMKEEEALEADIVNELDKARDKAGSSANDCIDADN 752 (1321)
T ss_pred ecCHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccchhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 00011123334445555666666 7889999999999999999999999999999999999999999
Q ss_pred cchhhhhcCCCcchhhHHHHHHHhcCcccC--------CcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchh
Q psy13848 181 GPLVMALSGSKGSFINISQMIACVGQQAIN--------GKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIAS 252 (409)
Q Consensus 181 ~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~--------G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~ 252 (409)
++++|+.||||||++|++||+||||||.++ |+|||+||+|||||||.++|.+|+|+|||.|||++||+|
T Consensus 753 ~l~~Mv~SGAKGS~~Ni~Qi~~~lGQQ~ve~~~~~~~~G~Ri~~~~~~RtLPhF~~~d~~p~a~GfV~nsFl~GL~P--- 829 (1321)
T PRK14977 753 AGKIMAKTGARGSMANLAQIAGALGQQKRKTRIGFVLTGGRLHEGYKDRALSHFQEGDDNPDAHGFVKNNYREGLNA--- 829 (1321)
T ss_pred cHHHHhhcccccCHHHHHHHHhccccccccccccccCCCCCCcCCCCCCcCCCCCCCCCCcccccchhhhhcCCCCH---
Confidence 999999999999999999999999999999 999999999999999999999999999999999999999
Q ss_pred hhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 253 ELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 253 ~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
+|||||||+|| |||+|||+|| |+||||||||+++|+.
T Consensus 830 ---~EfFFHaM~GR---EGLiDTAVKT----A~SGYLQRrLvk~lED 866 (1321)
T PRK14977 830 ---AEFFFHAMGGR---EGLIDKARRT----EDSGYFQRRLANALED 866 (1321)
T ss_pred ---HHHHHHhhccc---cccccccccc----CcCchhHHHHHHHhcc
Confidence 99999999999 9999999999 9999999999999998
No 4
>PRK08566 DNA-directed RNA polymerase subunit A'; Validated
Probab=100.00 E-value=7.2e-78 Score=664.57 Aligned_cols=292 Identities=40% Similarity=0.675 Sum_probs=278.1
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCC-CCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQ-PKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPE 80 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~-~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~ 80 (409)
+.+.|+.||.+|++|+||+.+|.|.+.+ .++++++|+|||+||+||||+|||||||||||||||+|||+|.+||||||.
T Consensus 264 ~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~~i~~~l~gK~G~fR~nl~GKRvd~s~RsVI~pdp~l~~~evGvP~ 343 (882)
T PRK08566 264 IEDLWELLQYHVTTYFDNEIPGIPPARHRSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPNLSINEVGVPE 343 (882)
T ss_pred HHHHHHHHHHHHHHHhcCCccCCcccccCCCCCccchHHhcccCCCccccccccccccCcCCceeeCCCCCcCCeeeCcH
Confidence 4678999999999999999998876544 358999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCceeccccHHHHHHHHHcCCCCCCCc----------------------------------------------
Q psy13848 81 HVAKILTYPERVHHANKEHLKQLVLNGPDKHPGL---------------------------------------------- 114 (409)
Q Consensus 81 ~~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa---------------------------------------------- 114 (409)
.||++||+||+||.||+++|+++|.|||+.||||
T Consensus 344 ~~A~~Lt~pe~v~~~N~~~l~~~v~ng~~~~pga~~i~~~~g~~~~l~~~~~~~~~~~l~~g~~v~Rhl~dgd~vl~NRq 423 (882)
T PRK08566 344 AIAKELTVPERVTEWNIEELREYVLNGPEKHPGANYVIRPDGRRIKLTDKNKEELAEKLEPGWIVERHLIDGDIVLFNRQ 423 (882)
T ss_pred HHHHhCCCCeEEchhhHHHHHHHHHcCCCcCCCceEEEcCCCceeeehhhhHHHHHHhccccceehhhhhcCceeeecCC
Confidence 9999999999999999999999999999999998
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 424 PsLHr~si~a~~~~v~~~~t~r~n~~~c~~~NADFDGDeMn~h~Pqs~~a~aEa~~Lm~~~~~~~sp~~g~pi~~~~QD~ 503 (882)
T PRK08566 424 PSLHRMSIMAHRVRVLPGKTFRLNLAVCPPYNADFDGDEMNLHVPQTEEARAEARILMLVQEHILSPRYGGPIIGGIQDH 503 (882)
T ss_pred CcccccccceeEEEEecCceEeeccccCCCccCCccCcEEEEecCCCHHHHHHHHHHhcchhcEecCCCCCeeEEeehHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 504 l~g~~~lt~~d~f~~~~~~~~l~~~~~~~~~~~~~pai~~p~~lwTGKqi~s~~lp~~~~~~~~~~~~~~~~~~~~~~~~ 583 (882)
T PRK08566 504 ISGAYLLTRKSTLFTKEEALDLLRAAGIDELPEPEPAIENGKPYWTGKQIFSLFLPKDLNLEFKAKICSGCDECKKEDCE 583 (882)
T ss_pred HHHHHHHHhccccCCHHHHHHHHHhCCccccccCCcccCCCcccccHHHHHHHHcCCCCCceeeccccccccccccccCC
Confidence
Q ss_pred ---------------------------------------------------------------------------hhhHH
Q psy13848 115 ---------------------------------------------------------------------------LRAKE 119 (409)
Q Consensus 115 ---------------------------------------------------------------------------~~~K~ 119 (409)
.++++
T Consensus 584 ~d~~v~i~~gell~g~ldK~~lg~~~~~li~~i~~~yG~~~a~~fl~~~~~l~~~~l~~~GfSigi~D~~~~~~~~~~~~ 663 (882)
T PRK08566 584 HDAYVVIKNGKLLEGVIDKKAIGAEQGSILDRIVKEYGPERARRFLDSVTRLAIRFIMLRGFTTGIDDEDIPEEAKEEID 663 (882)
T ss_pred CCceEEEecCEEEeccccHHHhhcccchHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHhcCEEeehhhcccCHHHHHHHH
Confidence 23456
Q ss_pred HHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchhhhhcCCCcchhhHHH
Q psy13848 120 RLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQELHPSNGPLVMALSGSKGSFINISQ 199 (409)
Q Consensus 120 ~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~l~p~N~~~~M~~sGsKGS~~Ni~Q 199 (409)
+++++++++|++++++|..|+++++||++.++++|..++++|+++|+++++++.+.++|+|++++|+.||||||++|++|
T Consensus 664 ~~i~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~e~~i~~~l~~~r~~~~~~~~~~l~~~N~~~~M~~SGsKGS~~N~~Q 743 (882)
T PRK08566 664 EIIEEAEKRVEELIEAYENGELEPLPGRTLEETLEMKIMQVLGKARDEAGEIAEKYLGLDNPAVIMARTGARGSMLNLTQ 743 (882)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCccccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcceeeeccccccCHHHHHH
Confidence 78899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchhhhhhhhhheeeeccccccccccccccc
Q psy13848 200 MIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGELHPKQKT 279 (409)
Q Consensus 200 i~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt 279 (409)
|++|||||+++|+|||+||+||+||||.++|.+|+++|||.|||++||+| .|||||||+|| |||+|||+||
T Consensus 744 i~~~lGqQ~~~g~ri~~~~~~rtLP~f~~~d~~~~~~GfV~~sF~~GL~p------~EfffH~m~GR---eGliDTAvkT 814 (882)
T PRK08566 744 MAACVGQQSVRGERIRRGYRDRTLPHFKPGDLGAEARGFVRSSYKSGLTP------TEFFFHAMGGR---EGLVDTAVRT 814 (882)
T ss_pred HHhccCceecCCCcCccCccCccCCCCCCCCCCcccCceeeccccCCCCH------HHHHHHHhhhc---ccccccceee
Confidence 99999999999999999999999999999999999999999999999999 99999999999 9999999999
Q ss_pred cccccCcchHHHHHHhhhcc----ccccCCC
Q psy13848 280 DKVRSRNGWLSSVLSSSLRF----REHETSV 306 (409)
Q Consensus 280 ~~~tsrsGyl~r~L~~~l~F----~~~~~~~ 306 (409)
|++|||||||+++|+. +|++.|.
T Consensus 815 ----a~sGYlqRrLvk~ledl~v~yD~tVR~ 841 (882)
T PRK08566 815 ----SQSGYMQRRLINALQDLKVEYDGTVRD 841 (882)
T ss_pred ----ccCccchHHHHHHHhheEEeeCCceEc
Confidence 9999999999999998 5555554
No 5
>KOG0260|consensus
Probab=100.00 E-value=4.9e-77 Score=642.44 Aligned_cols=295 Identities=37% Similarity=0.584 Sum_probs=287.2
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCC-CCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPK-SKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPE 80 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~-~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~ 80 (409)
+.|...+||.|||+|+||+++|.|.+.+++ +|+|++++|||||+||+|+|||||||||||||||+|||||++||||||+
T Consensus 281 i~e~~~LlqfhVat~~Dn~~pgqp~a~qksGrplkSi~arlKgkegriRgnLmGKRvDFSaRTVItgDPnl~ldevGVP~ 360 (1605)
T KOG0260|consen 281 IEEYEQLLQFHVATYVDNDIPGQPQADQKSGRPLKSISARLKGKEGRIRGNLMGKRVDFSARTVITGDPNLSLDEVGVPR 360 (1605)
T ss_pred HHHHHhHhhhhhhheecccccCCcccccccCCcccchhhhhccccchhhhcccccccCcceeeeecCCCCcchhcccCcH
Confidence 578899999999999999999999998886 9999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCceeccccHHHHHHHHHcCCCCCCCc----------------------------------------------
Q psy13848 81 HVAKILTYPERVHHANKEHLKQLVLNGPDKHPGL---------------------------------------------- 114 (409)
Q Consensus 81 ~~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa---------------------------------------------- 114 (409)
.||+.|||||+||++|+++|++||++|+..||||
T Consensus 361 sIAk~lTfpE~Vtp~NidrLqeLV~~g~~~~pgakyiird~G~Ridlr~~~~~~d~~Lq~G~kVeRhl~DGD~VlfNRqP 440 (1605)
T KOG0260|consen 361 SIAKRLTFPEHVTPFNIDRLQELVRRGLLEHPGAKYIIRDNGDRIDLRYHKRAGDIHLQPGYKVERHLMDGDVVLFNRQP 440 (1605)
T ss_pred HHHhhccCcceeccccHHHHHHHhhCCCCCCCCcceeeecCCcEEEEeecCCccccccccccEEEEeeccCCEEEEcCCC
Confidence 9999999999999999999999999999999998
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 441 SlHKmSmmahrVrVlp~sTfrLNlsvtsPynADFDGDemnlhvPQS~etkAEl~EL~~vpkQiispQsnkpvmgivQDTL 520 (1605)
T KOG0260|consen 441 SLHKMSMMAHRVRVLPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSLETKAELEELAMVPKQIISPQSNKPVMGIVQDTL 520 (1605)
T ss_pred cHHHhhhhhcEEEEccCceEEeCeeecCCccCCCCCceeecccCcchhHHHHHHHHhhhhhhhcCCcCCCcceeeehhhH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 521 ta~R~~t~Rd~Fl~r~~vmnLlm~~p~~d~~~Pa~pai~Kp~PlWTGkQifsliiP~~in~~r~~s~h~d~~~~~~~p~d 600 (1605)
T KOG0260|consen 521 TAVRKMTKRDVFLNRAQVMNLLMYVPDWDGPPPAKPAILKPKPLWTGKQIFSLIIPGGINYIRDHSTHPDSEDELISPGD 600 (1605)
T ss_pred HHHHHHhhHhhhhcHHHHHHHHhhccccCCCCCCCcccCCCCcccchhhheeeecCCCcceecccccCcCCCcccccCCC
Confidence
Q ss_pred -------------------------------------------------------------------------hhhHHHH
Q psy13848 115 -------------------------------------------------------------------------LRAKERL 121 (409)
Q Consensus 115 -------------------------------------------------------------------------~~~K~~i 121 (409)
++.++..
T Consensus 601 t~~lie~g~l~~g~l~Kkt~G~s~g~lvh~i~~e~Gp~~~~~f~~~iQ~lin~wll~~gfsigIgDtiad~~t~~~iq~~ 680 (1605)
T KOG0260|consen 601 TRVLIEGGELLIGVLCKKTVGSSAGGLVHVIFLEKGPKIARGFFDSIQTLINSWLLREGFSIGIGDTIADAATMCVIQNT 680 (1605)
T ss_pred ceEEEeCCceEEEEeeccccccccCceEEEeehhhCHHHHHHHHHHHHHHHHHHHHhcCccccccccccCHHHHHHHHHH
Confidence 5678889
Q ss_pred HHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchhhhhcCCCcchhhHHHHH
Q psy13848 122 LSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQELHPSNGPLVMALSGSKGSFINISQMI 201 (409)
Q Consensus 122 I~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~l~p~N~~~~M~~sGsKGS~~Ni~Qi~ 201 (409)
+.++++.+.+.+++++.+++++.||+|..|+||++++.+||++|+++|.....++...|++..|+.+|||||++||+|++
T Consensus 681 I~~ak~dv~~vi~~a~~~~L~~~pg~tlretfe~~v~~vlndArd~~gssA~~sl~esNn~k~Mv~aGSKGs~inisQ~s 760 (1605)
T KOG0260|consen 681 IKEAKRDVLAVIREAQNNELEPTPGRTLRETFENKVNRVLNDARDKSGSSAQKSLSESNNFKTMVVAGSKGSFINISQVS 760 (1605)
T ss_pred HHHHHHHHHHHHHHHhhccccCCcchhHHHHHHHHHHHHHHHHHHhhhhHHHhhhhhcccHHHHHhhcCCCcceehhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchhhhhhhhhheeeeccccccccccccccccc
Q psy13848 202 ACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGELHPKQKTDK 281 (409)
Q Consensus 202 ~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~ 281 (409)
+|||||++||+|||+||..|+||||.++|++|+++|||+|||+.||+| +|||||+|+|| ||++|||+||
T Consensus 761 aCVGqQnVEgkrIpFGF~~Rtlphf~kDdysPesrGfVENSyL~GLtP------~EfFfHamggR---Eglidtavkt-- 829 (1605)
T KOG0260|consen 761 ACVGQQNVEGKRIPFGFPKRTLPHFSKDDYSPESRGFVENSYLTGLTP------QEFFFHAMGGR---EGLIDTAVKT-- 829 (1605)
T ss_pred hhhccccccccccccCCCcccccccccCCCCccccceeecccccCCCH------HHHHHHHhccc---chhhhhhhcc--
Confidence 999999999999999999999999999999999999999999999999 99999999999 9999999999
Q ss_pred cccCcchHHHHHHhhhcc----ccccCCCCCC
Q psy13848 282 VRSRNGWLSSVLSSSLRF----REHETSVIIP 309 (409)
Q Consensus 282 ~tsrsGyl~r~L~~~l~F----~~~~~~~~lp 309 (409)
+.+|||||+|+++||- +||+.|..+.
T Consensus 830 --aEtGyiqRRL~kameDimv~yDgTVRNs~g 859 (1605)
T KOG0260|consen 830 --AETGYIQRRLMKAMEDIMVAYDGTVRNSLG 859 (1605)
T ss_pred --cccchHHHHHHHHHHHHHhhcCcceecccc
Confidence 9999999999999987 7788887775
No 6
>KOG0262|consensus
Probab=100.00 E-value=4.2e-70 Score=590.95 Aligned_cols=141 Identities=30% Similarity=0.427 Sum_probs=136.2
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHHhhhhh----cCCCCCcchhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCC
Q psy13848 146 GCSAEETLEAVILKELSVIRDHAGKACLQ----ELHPSNGPLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNR 221 (409)
Q Consensus 146 G~t~~EtLE~~v~~~ln~~~~~~g~~~~~----~l~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gR 221 (409)
+-+....||..+...+|.+.+++.+.|+. ..+|.|++..|+.||||||.+|++||+||||||++||+|+|.|.+|+
T Consensus 857 d~~~~~~LD~~~k~~~n~~ts~I~~~cvP~GLlk~FP~N~mqlM~~SGAKGS~VN~~QISclLGQqeLEGkRvPlMvSGK 936 (1640)
T KOG0262|consen 857 DADKLAMLDRVMKSELNGYTSEIVKKCVPDGLLKKFPENNMQLMIQSGAKGSNVNTSQISCLLGQQELEGKRVPLMVSGK 936 (1640)
T ss_pred chhHHHHHHHHHHHHHhhhhHHHHhhhccchhhhcCCcchHHHHHHhcCCcccccHHHHHHhhhhHhhcCCccceeecCC
Confidence 44667889999999999999999999995 57899999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCeeecCCcCCcccchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 222 SLPHFDKFSKDPASKGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 222 tLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
|||+|.++|.+|+|+|||..+|++|+.| +|||||||||| |||||||+|| ||||||||||+|+||+
T Consensus 937 tLPsF~p~e~spraGGfI~~RFlTGi~P------qeyfFHCMAGR---EGLIDTAVKT----SRSGYLQRCLiKhLEg 1001 (1640)
T KOG0262|consen 937 TLPSFAPYETSPRAGGFIDGRFLTGIKP------QEYFFHCMAGR---EGLIDTAVKT----SRSGYLQRCLIKHLEG 1001 (1640)
T ss_pred ccCCcCCCCCCCCCCCcccceeecCCCc------hHHhhhhhccc---cchhhhHHhc----ccchHHHHHHHHhhhh
Confidence 9999999999999999999999999999 99999999999 9999999999 9999999999999998
No 7
>TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form. Bacteria have a single DNA-directed RNA polymerase, with required subunits that include alpha, beta, and beta-prime. This model describes the predominant architecture of the beta-prime subunit in most bacteria. This model excludes from among the bacterial mostly sequences from the cyanobacteria, where RpoC is replaced by two tandem genes homologous to it but also encoding an additional domain.
Probab=100.00 E-value=1.6e-56 Score=497.20 Aligned_cols=258 Identities=25% Similarity=0.330 Sum_probs=228.4
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEH 81 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~ 81 (409)
+.+.|++||.+|++||||+.+|.|...+.++|+|||+|+||||+||||+|||||||||||||||+|||+|.+||||||..
T Consensus 274 i~~~~~~LQ~aV~~liDn~~~g~~~~~~~~rplksls~~LkGK~GrFR~NLlGKRVDySgRSVI~pdP~L~l~e~GlP~~ 353 (1140)
T TIGR02386 274 VRNEKRMLQEAVDALFDNGRRGKPVVGKNNRPLKSLSDMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPELKMYQCGLPKK 353 (1140)
T ss_pred HHHHHHHHHHHHHHHhcccccCCCccCcCCCchhhHHHhhcCCCCcccccccccccCCCCCCeEcCCCCcccccccChHH
Confidence 45789999999999999999999876666799999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCceec-------cccHHHHHHHHHcC-CCCCCC---------------------c------------------
Q psy13848 82 VAKILTYPERVH-------HANKEHLKQLVLNG-PDKHPG---------------------L------------------ 114 (409)
Q Consensus 82 ~a~~lt~pe~v~-------~~N~~~l~~lv~ng-~~~~pG---------------------a------------------ 114 (409)
||.+||+|+.+. ..|+...++++.++ +.+|+- -
T Consensus 354 mA~~L~~Pf~i~~L~~~~~~~~i~~ak~~i~~~~~~v~~vl~~vi~~d~VLlNRqPTLHRlsIqAf~~~l~~gktirlhp 433 (1140)
T TIGR02386 354 MALELFKPFIIKRLIDRELAANIKSAKKMIEQEDPEVWDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPVLVEGKAIRLHP 433 (1140)
T ss_pred HHHHcCchHHHHHHHHcCcccchHHHHHHHHhcCCccceEEEEccCCcEEEecCCCcccccccceeEEEEecCceEEEcc
Confidence 999999998775 57788887777654 433331 1
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 434 lvC~~fNADFDGDeMnvHvPqS~eA~aEa~~Lm~~~~nilsP~~G~Pi~~~~QD~ilG~y~LT~~~~~~~~~~~~F~~~~ 513 (1140)
T TIGR02386 434 LVCTAFNADFDGDQMAVHVPLSPEAQAEARALMLASNNILNPKDGKPIVTPSQDMVLGLYYLTTEKPGAKGEGKIFSNVD 513 (1140)
T ss_pred cccCcccCCCCcceeEeecCCCHHHHHHHHHHhCCcccEecCCCCCceEEeechhhheeeEeeeccccccCcCceeCCHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 514 e~~~~~~~~~i~l~~~i~~~~~g~~~~tt~Gr~if~~ilP~~~~~~n~~~~l~Kk~lg~LI~~i~~~~G~~~t~~~LD~l 593 (1140)
T TIGR02386 514 EAIRAYDNGKVHLHALIGVRTSGEILETTVGRVIFNEILPEGFPYINDNEPLSKKEISSLIDLLYEVHGIEETAEMLDKI 593 (1140)
T ss_pred HHHHHHHcCCccCCCceEEeccccEEEccchHHHHHHHcCCcccccccccccchHHHHHHHHHHHHHhChHHHHHHHHHH
Confidence
Q ss_pred ----------------------hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhh
Q psy13848 115 ----------------------LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKAC 172 (409)
Q Consensus 115 ----------------------~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~ 172 (409)
-.+|.+++++++++|.+++++|+.|.++ .+.++.+++++|+++++++++.+
T Consensus 594 k~Lgf~~at~~GfSigi~Dl~ip~~K~~ii~~a~~~v~~i~~~y~~G~lt-------~~er~~kvi~iw~~~~d~v~~~~ 666 (1140)
T TIGR02386 594 KALGFKYATKSGTTISASDIVVPDEKYEILKEADKEVAKIQKFYNKGLIT-------DEERYRKVVSIWSETKDKVTDAM 666 (1140)
T ss_pred HHHHHHHHHhcCeeeeeccCCCCHHHHHHHHHHHHHHHHHHHHHHcCCCC-------hHHHHHHHHHHHHHHHHHHHHHH
Confidence 2245567788888888888888888764 46678999999999999999999
Q ss_pred hhcCCC----CCcchhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcc
Q psy13848 173 LQELHP----SNGPLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRL 248 (409)
Q Consensus 173 ~~~l~p----~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~ 248 (409)
++++.+ .|++++|+.||||||..|++||+||+|||. .| +||++|+ ||.|||++||+
T Consensus 667 ~~~l~~~~~~~N~i~mMa~SGARGS~~ni~QL~GmrGlma-----~p---~Grii~~------------PI~ssF~eGLt 726 (1140)
T TIGR02386 667 MKLLKKDTYKFNPIFMMADSGARGNISQFRQLAGMRGLMA-----KP---SGDIIEL------------PIKSSFREGLT 726 (1140)
T ss_pred HHhcccccCCCCcHhhhhhcccccCHHHHHHHHhCCCccc-----CC---CCCcccc------------chhhccccCCC
Confidence 999875 599999999999999999999999999987 34 3688875 59999999999
Q ss_pred cchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 249 KIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 249 p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
| .|||||||+|| +||+|||+|| ++||||||+|++.++-
T Consensus 727 p------~EyF~st~GaR---kGLiDTAlKT----AdSGYLtRRLVdv~qD 764 (1140)
T TIGR02386 727 V------LEYFISTHGAR---KGLADTALKT----ADSGYLTRRLVDVAQD 764 (1140)
T ss_pred H------HHHhhhccchh---ccccchheee----cccceeeeehhhhhcc
Confidence 9 99999999999 9999999999 9999999999998876
No 8
>PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional
Probab=100.00 E-value=3.8e-55 Score=488.25 Aligned_cols=257 Identities=26% Similarity=0.338 Sum_probs=223.1
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEH 81 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~ 81 (409)
+.+.|++||.+|+.||||+.+|.|.+...++|+|||+|+|+||+||||+|||||||||||||||+|||+|.++|||||..
T Consensus 370 i~nekr~LQeaVd~liDN~~~g~p~~~~~~rplKsls~~LkGK~GRFRqNLlGKRVDySgRSVIspdP~L~l~e~GlP~~ 449 (1460)
T PRK14906 370 VNNEKRMLQEAVDSLFDNGRRGRPVTGPGNRPLKSLADMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKLHQCGLPSA 449 (1460)
T ss_pred HHHHHHHHHHHHHHHHcCCCcCCCCccccCCchhHHHHHhcccCcccccccccccccCcCCceEeCCCCCccccccCcHH
Confidence 45789999999999999999999887666799999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCcee-------ccccHHHHHHHHHcC----------------------CCCCCCc------------------
Q psy13848 82 VAKILTYPERV-------HHANKEHLKQLVLNG----------------------PDKHPGL------------------ 114 (409)
Q Consensus 82 ~a~~lt~pe~v-------~~~N~~~l~~lv~ng----------------------~~~~pGa------------------ 114 (409)
||.+||+|+.+ ...|+..+++++.++ |+.|..-
T Consensus 450 mA~eLf~Pf~i~~L~~~~~~~nik~ak~~i~~~~~~v~~vle~vi~gd~VLlNRqPTLHRlsIqAf~~~L~~gktIrLhp 529 (1460)
T PRK14906 450 MALELFKPFVMKRLVELEYAANIKAAKRAVDRGASYVWDVLEEVIQDHPVLLNRAPTLHRLGIQAFEPVLVEGKAIKLHP 529 (1460)
T ss_pred HHHhcCchhHHHHHHHhcccccHHHHhhHHhhcCCcceeeeeeeeccceeEeccCcccchhccceeeEEecCCceEEecc
Confidence 99999999866 357888888777654 2222111
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 530 lvC~~fNADFDGDqMnvHvPqS~eA~aEa~~Lm~~~~nilsP~~G~Pi~~~~QD~ilG~y~LT~~~~~~~~~~~~F~~~~ 609 (1460)
T PRK14906 530 LVCTAFNADFDGDQMAVHVPLSTQAQAEARVLMLSSNNIKSPAHGRPLTVPTQDMIIGVYYLTTERDGFEGEGRTFADFD 609 (1460)
T ss_pred cccCccccCCcCceeeeecCCCHHHHHHHHHHhcchhcEecCCCCCeeEEeeeeeeeeeEEeeeccccccccCceeCCHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 610 e~~~a~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~tt~Gr~Ifn~ilP~d~~fvN~~l~KK~Lg~LI~~i 689 (1460)
T PRK14906 610 DALNAYDARADLDLQAKIVVRLSRDMTVRGSYGDLEETKAGERIETTVGRIIFNQVLPEDYPYLNYKMVKKDIGRLVNDC 689 (1460)
T ss_pred HHHHHHhcCCCccccccEEEecCcccccccccccccCCCCCceEECCCCEEEEecccCCCcccccceeeHHHHHHHHHHH
Confidence
Q ss_pred --------------------------------------hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHH
Q psy13848 115 --------------------------------------LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAV 156 (409)
Q Consensus 115 --------------------------------------~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~ 156 (409)
..+|..++++++++|.+++.+|+.|.++ .+..+.+
T Consensus 690 ~~~~G~~~t~~fLD~Ik~LGf~yaT~sG~SIgi~Di~ip~~K~~iI~~A~~~V~ei~~~y~~G~iT-------~~Er~~k 762 (1460)
T PRK14906 690 CNRYSTAEVEPILDGIKKTGFHYATRAGLTVSVYDATIPDDKPEILAEADEKVAAIDEDYEDGFLS-------ERERHKQ 762 (1460)
T ss_pred HHHhCHHHHHHHHHHHHHHHHHHHHhCCEEEeecccccChHHHHHHHHHHHHHHHHHHHHHcCCCc-------HHHHHHH
Confidence 1124445666666777777778877763 3455899
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCcchhhhhcCCCcchhhHHHHHHHhcCcc-cCCcccCCCCCCCCCCCCCCCCCCCCC
Q psy13848 157 ILKELSVIRDHAGKACLQELHPSNGPLVMALSGSKGSFINISQMIACVGQQA-INGKRVPNGFDNRSLPHFDKFSKDPAS 235 (409)
Q Consensus 157 v~~~ln~~~~~~g~~~~~~l~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~-l~G~Rip~g~~gRtLPhF~~~d~~~~a 235 (409)
++++|+++++++++.+++++.+.|+++||+.||||||..|+.||++|+|||. ..|++|.
T Consensus 763 Vi~iw~~a~d~v~~~~~~~l~~~N~i~mMa~SGARGS~~QI~QLaGmRGlma~p~G~iIe-------------------- 822 (1460)
T PRK14906 763 VVDIWTEATEEVGEAMLAGFDEDNPIYMMADSGARGNIKQIRQLAGMRGLMADMKGEIID-------------------- 822 (1460)
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCeEeeeeccCcccHHHHHHHHhcccceecCCCCccc--------------------
Confidence 9999999999999999999999999999999999999999999999999985 5665553
Q ss_pred CCeeecCCcCCcccchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 236 KGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 236 ~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
.+|.|||++||+| .|||||||+|| +||+|||+|| +.||||||+|++.++-
T Consensus 823 -~PI~SnFrEGLt~------~EyFiSt~GaR---KGL~DTALKT----AdSGYLTRRLVdVaQD 872 (1460)
T PRK14906 823 -LPIKANFREGLSV------LEYFISTHGAR---KGLVDTALRT----ADSGYLTRRLVDVAQD 872 (1460)
T ss_pred -cccccccccCCCH------HHHHHHccccc---chhhhhhhhc----cccchHHHHHHHhhhh
Confidence 2699999999999 99999999999 9999999999 9999999999998876
No 9
>PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=100.00 E-value=1.2e-54 Score=482.61 Aligned_cols=258 Identities=24% Similarity=0.305 Sum_probs=218.8
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEH 81 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~ 81 (409)
+.+.|++||.+|++||||+.+|.|.+...++|+|||+|+|+||+||||+|||||||||||||||+|||+|.+||||||..
T Consensus 282 i~~~~~~LQ~aV~~lidn~~~g~~~~~~~~rplksls~~LkGK~GrFR~NLlGKRVDySgRSVI~pdP~L~l~e~GvP~~ 361 (1156)
T PRK00566 282 VRNEKRMLQEAVDALFDNGRRGRPVTGPNNRPLKSLSDMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPELKLHQCGLPKK 361 (1156)
T ss_pred HHHHHHHHHHHHHHHhccCccCCCcccccCCchhHHHHhhcCCCccccccccccccCCCCCceEeCCCCcccccccChHH
Confidence 45789999999999999999998877666799999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCceec-------cccHHHHHHHHHc----------------------CCCCCCCc------------------
Q psy13848 82 VAKILTYPERVH-------HANKEHLKQLVLN----------------------GPDKHPGL------------------ 114 (409)
Q Consensus 82 ~a~~lt~pe~v~-------~~N~~~l~~lv~n----------------------g~~~~pGa------------------ 114 (409)
||.+||+|+.+. ..|+...++++.+ .|+.|..-
T Consensus 362 mA~eL~~Pf~i~~L~~~g~~~~ik~ak~~~~~~~~~v~~vle~vi~gd~VLlNRqPTLHR~sIqAf~~~l~~gktirLhp 441 (1156)
T PRK00566 362 MALELFKPFIMKKLVERGLATTIKSAKKMVEREDPEVWDVLEEVIKEHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHP 441 (1156)
T ss_pred HHHHhCcHHHHHHHHHcCCccchHhhhhhhhhhcCcceEEEEEecCCCEEEecCCCcccccccceeEEEEecCceEEECc
Confidence 999999997432 2344444443332 22222211
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 442 lvC~~fNADFDGDqMnvHvPqS~eA~aEa~~Lm~~~~nilsP~~G~Pi~~~~QD~ilG~y~LT~~~~~~~~~~~~F~~~~ 521 (1156)
T PRK00566 442 LVCTAFNADFDGDQMAVHVPLSLEAQAEARVLMLSSNNILSPANGKPIIVPSQDMVLGLYYLTREREGAKGEGMVFSSPE 521 (1156)
T ss_pred cccCccccccccceeEEecCCCHHHHHHHHHHhCCcccEEecCCCCeeEEeehhhhhhhheeecccccccCCCceeCCHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 522 e~~~~~~~~~i~l~~~i~~~~~~~~~i~tt~Gk~if~~ilP~~~~~~n~~g~ldKk~Lg~LI~~i~~~yG~~~t~~~LD~ 601 (1156)
T PRK00566 522 EALRAYENGEVDLHARIKVRITSKKLVETTVGRVIFNEILPEGLPFINVNKPLKKKEISKIINEVYRRYGLKETVIFLDK 601 (1156)
T ss_pred HHHHHHHcCCCCCCCeEEecCCCCceEEcCcHHHHHHhhccccceeecccceecHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence
Q ss_pred -----------------------hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhh
Q psy13848 115 -----------------------LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKA 171 (409)
Q Consensus 115 -----------------------~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~ 171 (409)
..+|.+++++++++|.++.++|+.|.++ .+..+.+++++|+++++++++.
T Consensus 602 ik~Lgf~yat~~GfSigi~Dl~ip~~K~~ii~~a~~~v~~i~~~y~~G~lt-------~~er~~kvi~~w~~~~d~v~~~ 674 (1156)
T PRK00566 602 IKDLGFKYATRSGISIGIDDIVIPPEKKEIIEEAEKEVAEIEKQYRRGLIT-------DGERYNKVIDIWSKATDEVAKA 674 (1156)
T ss_pred HHHHHHHHHHhcCeEeehhhcCcChHHHHHHHHHHHHHHHHHHHHHcCCCC-------chHHHHHHHHHHHHHHHHHHHH
Confidence 2245668888888888888889888874 2455789999999999999999
Q ss_pred hhhcCCC----CCcchhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCc
Q psy13848 172 CLQELHP----SNGPLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNR 247 (409)
Q Consensus 172 ~~~~l~p----~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL 247 (409)
+++++.+ .|++++|+.||||||..|++||+||+|||. . .+|+++| .||.+||++||
T Consensus 675 ~~~~l~~~~~~~N~i~mMa~SGARGS~~ni~QL~GmrGlma-----~---p~G~iie------------~pI~ssFreGL 734 (1156)
T PRK00566 675 MMKNLSKDQESFNPIYMMADSGARGSASQIRQLAGMRGLMA-----K---PSGEIIE------------TPIKSNFREGL 734 (1156)
T ss_pred HHHhCccccCCCCChheeeeccCCcCHHHHHHHHhhcCccc-----c---CCCCEee------------hhhhhhhhcCC
Confidence 9998875 899999999999999999999999999985 1 2344554 27999999999
Q ss_pred ccchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 248 LKIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 248 ~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
+| .|||||||+|| +||+|||+|| ++||||||||++.++-
T Consensus 735 t~------~EyFfst~GaR---kGLiDTALKT----AdSGYLtRRLVdvaqD 773 (1156)
T PRK00566 735 TV------LEYFISTHGAR---KGLADTALKT----ADSGYLTRRLVDVAQD 773 (1156)
T ss_pred CH------HHHhhcCcchh---hcccchheee----ccceeeehhHHHhhCc
Confidence 99 99999999999 9999999999 9999999999998765
No 10
>COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]
Probab=100.00 E-value=2e-54 Score=472.43 Aligned_cols=309 Identities=26% Similarity=0.320 Sum_probs=260.2
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEH 81 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~ 81 (409)
+.+.|++||+||++|||| +.|.+.+..+|+|+|+||||||+||||+||+||||||||||||+|||+|+++|||||..
T Consensus 238 v~~~~~~lQ~~v~~~~Dn---~~~~~~~~~rPlksl~~~LkgK~GrFR~nL~GKRVd~SgRsVI~~~P~l~~~e~GvP~~ 314 (808)
T COG0086 238 VRNEKRMLQEAVDALFDN---RRPRAVTGGRPLKSLSQRLKGKQGRFRQNLLGKRVDYSGRSVISVGPNLKLNQCGVPKK 314 (808)
T ss_pred HHHHHHHHHHHHHHHhhc---CCCCCccCCCccccHHHHhcCCCceeeccccccccCCCCceeecCCCCccccccCCHHH
Confidence 567899999999999999 33433333599999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCceeccccHHHHHH----------------------HHHc-------CCCCCC-------------C------
Q psy13848 82 VAKILTYPERVHHANKEHLKQ----------------------LVLN-------GPDKHP-------------G------ 113 (409)
Q Consensus 82 ~a~~lt~pe~v~~~N~~~l~~----------------------lv~n-------g~~~~p-------------G------ 113 (409)
||.+||+|+.|+.+|++.++. ++.. .|+.|. |
T Consensus 315 ~A~~L~~p~~v~~~~~~~~~~~a~~~~~~~~~~~~~~w~Vl~evi~gd~Vl~NR~PtLHrlsImq~~e~vl~~gkt~rLh 394 (808)
T COG0086 315 MALELFKPFVVTELNIEGLRTGAKYAKRMVERRLPEVWDVLREVIDGDPVLLNRAPTLHRLSIMQAFEPVLPEGKAIRLH 394 (808)
T ss_pred HHHHhccCEEEEehhhhhhhcCCceEEecccccccccchHHHHHhcCCccccccCChHHHHHHHhhceeeccccceeecc
Confidence 999999999999999888773 1110 111111 0
Q ss_pred --c-----------------------------------------------------------------------------
Q psy13848 114 --L----------------------------------------------------------------------------- 114 (409)
Q Consensus 114 --a----------------------------------------------------------------------------- 114 (409)
+
T Consensus 395 ~lVc~~yNADFDGDeM~~Hvp~s~ea~AEa~~lm~tq~nilsP~~Ggpiv~~~qD~v~g~ylLt~~d~~~~~~~~~ei~l 474 (808)
T COG0086 395 PLVCEAYNADFDGDEMAVHVPASGEAAAEARGLMGTQMNILTPHYGGPIVAPIQDTVGGPYLLTIVDAKLPSTPVGEIYL 474 (808)
T ss_pred hhhccccccccCchhhhccccchHHHHHHHHHhhccccccccCCCCCceEeecceEEeccEEEEEecccCCCCcceEEEe
Confidence 0
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 475 ~~~~~~~~e~~~ai~~~~~~~~~k~i~~~i~~~~~~~~i~~t~~~~~~~~~~~~~~~d~~~~i~~~~l~~~~i~k~~~~i 554 (808)
T COG0086 475 KDEYADDREKAEAIAKKIELTTGKVIVSTISPDLAELSIIVTTDGRRIFNRGLPEDKDVLVKIVNGKLIKGVIDKKIVTI 554 (808)
T ss_pred ccccccchhhhHHHhcccceeeeeEEEEEeeccCCcceEEEecchhhhhhccCCcccceeeEEeccccceeeehhhHHHH
Confidence
Q ss_pred ------------------------------------------hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhH
Q psy13848 115 ------------------------------------------LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEET 152 (409)
Q Consensus 115 ------------------------------------------~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~Et 152 (409)
.+++++++.+++.++.+++.+|+.|.++..++.+..+.
T Consensus 555 ~~~~g~~~~~~~~~~~~dkl~~~~~~~~~~~~~~i~~~d~~~~~~~~e~v~~ae~~v~~~i~~~~~g~lt~~~~~~i~e~ 634 (808)
T COG0086 555 YREYGPEVASKALVKLLDKLKNLGIKGIGGFGIGIGRKDIEAEDEKDEIVIEAEGSVLKLILQYEEGDLTRTERNNIVEI 634 (808)
T ss_pred HHHhCchhhHHHHHHHHHHHHHhheeeeccceEEeecccccchHHHHHHHHHHHHHHHHHHHHhhcCCccccCCCCeEEE
Confidence 12344577788888999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcCCCCCcchhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCC
Q psy13848 153 LEAVILKELSVIRDHAGKACLQELHPSNGPLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKD 232 (409)
Q Consensus 153 LE~~v~~~ln~~~~~~g~~~~~~l~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~ 232 (409)
+|.++++++++++.+..+.+.....++ +..|.++|++||.+|++||.+|+|||.|.|+|++.+ +||||.+.+.+
T Consensus 635 ~e~~~~e~l~~ai~~~~~~~~~~~g~~--~~~i~~m~~~Gs~~n~sq~~~~iG~~gv~g~r~~~~----~~~~Fe~~~~~ 708 (808)
T COG0086 635 IEVLGIEALRNAIIEEIKITLEEQGLD--FVDIRHMGLSGARMNISQIVQLIGQQGVMGEKISVL----ARAAFEVTVKH 708 (808)
T ss_pred eehHHHHHHHHHHHHHHhhhHHhcCCc--chhHHHHhhhhhccCHHHHHHHhhhheeeccCCCcc----ccccccccccc
Confidence 999999999999999999999888887 666677777778889999999999999999999988 99999999999
Q ss_pred CCCCCeeecCCcCCcccchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc----ccccCCCCC
Q psy13848 233 PASKGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF----REHETSVII 308 (409)
Q Consensus 233 ~~a~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F----~~~~~~~~l 308 (409)
+.+.|||.++|++||+| .|||+|+|+|| +|++|||+|| +.+|||||||++.++. +++..+.-.
T Consensus 709 ~~a~~~i~s~f~eGLt~------~e~f~~~~ggR---~GlvDTA~KT----a~sGYl~RrLv~~~qdl~v~~d~~~~~g~ 775 (808)
T COG0086 709 LEAEGPGESSFLEGLTE------NEYFGHPIGGR---TGLVDTALKT----ADSGYLTRRLVDVAQDLIVQEDDCVTDGI 775 (808)
T ss_pred ceeeeeeecccCCCCCc------ceEEeecCccc---cchHHHhhhh----cccCcceEEeechhcceEEEecCeEeecC
Confidence 99999999999999999 99999999999 9999999999 9999999999999876 122111111
Q ss_pred C-------CCccccCCCcchhhhhheeeccC
Q psy13848 309 P-------PPAIMKPKALWTGKQIFSLILKP 332 (409)
Q Consensus 309 p-------~Pai~kp~~LWTGKQifS~iLp~ 332 (409)
- -=.++.|..-|-|+++.+.++.+
T Consensus 776 ~~~~~~~~ged~~~~~~~~~~~~~~~~v~~~ 806 (808)
T COG0086 776 GVVIQFEYGEDGEDLTERILGRVLEEDVLRP 806 (808)
T ss_pred ceEEEEecCccccCHHHHhcCeeehhhhccc
Confidence 1 11124577788888877776654
No 11
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=100.00 E-value=3.8e-52 Score=481.77 Aligned_cols=258 Identities=23% Similarity=0.312 Sum_probs=218.8
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEH 81 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~ 81 (409)
+.+.|++||.+|++||||+..+.|.....++|+|||+|+|+||+||||+|||||||||||||||+|||+|.+||||||..
T Consensus 1681 i~nek~~LQ~aVd~l~DN~~~~~~~~~~~~rplKsls~~LkGK~GRFRqNLlGKRVDySgRSVI~pdP~L~l~e~GvP~~ 1760 (2890)
T PRK09603 1681 VRNEKRMLQEAVDVLFDNGRSTNAVKGANKRPLKSLSEIIKGKQGRFRQNLLGKRVDFSGRSVIVVGPNLKMDECGLPKN 1760 (2890)
T ss_pred hHHHHHHHHHHHHHHhccccccccccCCCCCcchhHHHHhcCCCCccccccccccccCcCCceEeCCCCcccccccChHH
Confidence 45789999999999999999888876666799999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCceec-------cccHHHHHHHHH----------------------cCCCCCCCc------------------
Q psy13848 82 VAKILTYPERVH-------HANKEHLKQLVL----------------------NGPDKHPGL------------------ 114 (409)
Q Consensus 82 ~a~~lt~pe~v~-------~~N~~~l~~lv~----------------------ng~~~~pGa------------------ 114 (409)
||.+||+|+.+. ..|+...++++. +.|+.|..-
T Consensus 1761 mA~eL~~P~~i~~L~~~G~~~~lk~ak~~i~~~~~~v~~vlr~vi~gd~VLlNRqPTLHR~sIqAf~~~l~~gktIrLhp 1840 (2890)
T PRK09603 1761 MALELFKPHLLSKLEERGYATTLKQAKRMIEQKSNEVWECLQEITEGYPVLLNRAPTLHKQSIQAFHPKLIDGKAIQLHP 1840 (2890)
T ss_pred HHHHhCChHHHHHHHHcCCccCHHHHHHHHHhccCccEEEEEeeecCCeEEecCCCccccccceeeeEEEecCceEEecc
Confidence 999999998653 233444444332 123333322
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 1841 lvC~~fNADFDGDqMnvHvPqS~eA~aEa~~LM~s~~nilsP~~G~Pi~~p~QD~vlG~y~LT~~~~~~~~~~~~F~~~~ 1920 (2890)
T PRK09603 1841 LVCSAFNADFDGDQMAVHVPLSQEAIAECKVLMLSSMNILLPASGKAVAIPSQDMVLGLYYLSLEKSGVKGEHKLFSSVN 1920 (2890)
T ss_pred ccCCcccCCCCCceeEEeecCCHHHHHHHHHHhcccceEEEcCCCceeEEeecceeeeeEEeeccccCCCCccceeCCHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 1921 e~~~~~~~~~~~~~~~i~~~~~p~~l~Tt~GK~ifs~ilP~~~~~~~~n~~ldKK~Lg~LI~~i~~~yG~~~t~~fLD~l 2000 (2890)
T PRK09603 1921 EIITAIDTKELDIHAKIRVLDQGNIIATSAGRMIIKSILPDFIPTDLWNRPMKKKDIGVLVDYVHKVGGIGITATFLDNL 2000 (2890)
T ss_pred HHHHHHHcCCCccCCcceeecCCcEEEcCccceeeeccCccccccccEeeeechHHHHHHHHHHHHHHCHHHHHHHHHHH
Confidence
Q ss_pred ----------------------hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhh
Q psy13848 115 ----------------------LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKAC 172 (409)
Q Consensus 115 ----------------------~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~ 172 (409)
-.+|..++++++++|.++.++|+.|.++. +..+.++.++|+++++++++.+
T Consensus 2001 k~LGf~yat~~G~SIgI~Dl~ip~~K~~iI~~A~~eV~ei~~~y~~G~it~-------~Er~~kvid~w~~~~d~v~~~~ 2073 (2890)
T PRK09603 2001 KTLGFRYATKAGISISMEDIITPKDKQKMVEKAKVEVKKIQQQYDQGLLTD-------QERYNKIIDTWTEVNDKMSKEM 2073 (2890)
T ss_pred HHHHHHHHHhCCEeeeeccCcccHHHHHHHHHHHHHHHHHHHHHHcCCCCc-------cHHHHHHHHHHHHHHHHHHHHH
Confidence 23467788999999999999999998864 3468899999999999999999
Q ss_pred hhcC----CCCCcchhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcc
Q psy13848 173 LQEL----HPSNGPLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRL 248 (409)
Q Consensus 173 ~~~l----~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~ 248 (409)
++++ ++.|++++|+.||||||..|++||+||+||+. .| .+...+ .+|.+||++||+
T Consensus 2074 ~~~l~~~~~~~N~i~mMa~SGARGS~~NI~QLaGmrGqMa-----kp---------~G~iie------~PI~snFrEGLt 2133 (2890)
T PRK09603 2074 MTAIAKDKEGFNSIYMMADSGARGSAAQIRQLSAMRGLMT-----KP---------DGSIIE------TPIISNFKEGLN 2133 (2890)
T ss_pred HHHhhhcCCCCCcHHHHHhccccccHHHHHHHHHcCCcEE-----CC---------CCCccc------ChhhcCcccCCC
Confidence 8766 35799999999999999999999999999976 22 211122 358999999999
Q ss_pred cchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 249 KIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 249 p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
| .|||||||+|| +||+|||+|| |+||||||||++.++-
T Consensus 2134 p------~EyFfst~GaR---KGLiDTALKT----AdSGYLTRRLVdvaQD 2171 (2890)
T PRK09603 2134 V------LEYFNSTHGAR---KGLADTALKT----ANAGYLTRKLIDVSQN 2171 (2890)
T ss_pred H------HHHHHhccccc---cchhhhhhhc----cccchhhhhHHHhhcc
Confidence 9 99999999999 9999999999 9999999999999876
No 12
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=100.00 E-value=1.1e-49 Score=459.96 Aligned_cols=258 Identities=22% Similarity=0.270 Sum_probs=212.8
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCC-CchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKS-KSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPE 80 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~-~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~ 80 (409)
+.+.|++||.+|++||||+.+|.|...++++ ++|||+|+|+||+||||+|||||||||||||||+|||+|.++|||||.
T Consensus 1724 i~~~~~~LQ~~V~~l~Dn~~~g~~~~~~~~r~~lksls~~LkGK~GRFR~NLlGKRVDySgRSVI~pdP~L~l~evGlP~ 1803 (2836)
T PRK14844 1724 IRNEKRMLQEAVDSLFDNSRRNALVNKAGAVGYKKSISDMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPTLKLNQCGLPK 1803 (2836)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCccccHHHHhcCCCCcccccccccccccCCCceEeCCCCcccceeeCCH
Confidence 4578999999999999999998887665544 589999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCceec-------cccHHHHHHHHHc----------------------CCCCCCCc-----------------
Q psy13848 81 HVAKILTYPERVH-------HANKEHLKQLVLN----------------------GPDKHPGL----------------- 114 (409)
Q Consensus 81 ~~a~~lt~pe~v~-------~~N~~~l~~lv~n----------------------g~~~~pGa----------------- 114 (409)
.||.+||+|+.+. ..|+...++++.. .|+.|..-
T Consensus 1804 ~mA~eL~~Pf~i~~L~~~~~~~~i~~a~~li~~~~~~v~dile~vi~gd~VLlNRqPTLHR~sIqAf~~~l~~gktirlh 1883 (2836)
T PRK14844 1804 RMALELFKPFVYSKLKMYGMAPTIKFASKLIRAEKPEVWDMLEEVIKEHPVLLNRAPTLHRLGIQAFEPILIEGKAIQLH 1883 (2836)
T ss_pred HHHHhcccHHHHHHHHHcCcccchHHHHHHHHhhCCcceEEEEEEecCCEEEecCCCccccccccceeeEeecCceEEec
Confidence 9999999996432 1223333333332 12222211
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 1884 p~vC~~fNADFDGDeMnvHvPqS~eA~aEa~~Lm~~~~nilsP~~G~Pii~~~QD~ilG~y~LT~~~~~~~~~~~f~~~~ 1963 (2836)
T PRK14844 1884 PLVCTAFNADFDGDQMAVHVPISLEAQLEARVLMMSTNNVLSPSNGRPIIVPSKDIVLGIYYLTLQEPKEDDLPSFGAFC 1963 (2836)
T ss_pred ccCCCcccCCCCCceeeeecCCcHHHHHHHHHHhCCcccEEecCCCceeEeehhhhhhhhhhhcccccccccccccCCHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy13848 115 -------------------------------------------------------------------------------- 114 (409)
Q Consensus 115 -------------------------------------------------------------------------------- 114 (409)
T Consensus 1964 ~~~~a~~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~tt~GR~if~~ilP~~~~~~~~~~n~~l~KK~l~~II~~~~~~yG 2043 (2836)
T PRK14844 1964 EVEHSLSDGTLHIHSSIKYRMEYINSSGETHYKTICTTPGRLILWQIFPKHENLGFDLINQVLTVKEITSIVDLVYRNCG 2043 (2836)
T ss_pred HHHHHHHcCCcccCceEEeeeccccCCCCcccceEecccHHHHHHHHcCCccccCcceEeeeechhHHHHHHHHHHHHhC
Confidence
Q ss_pred ---------------------------------hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHH
Q psy13848 115 ---------------------------------LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKEL 161 (409)
Q Consensus 115 ---------------------------------~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~l 161 (409)
-.+|..++++++++|.++.++|+.|.++ .+.++.+++++|
T Consensus 2044 ~~~t~~fLD~lk~LGf~yaT~~G~SIgi~Di~iP~~K~~iI~~a~~~v~~i~~~y~~G~it-------~~Er~~kvi~iW 2116 (2836)
T PRK14844 2044 QSATVAFSDKLMVLGFEYATFSGVSFSRCDMVIPETKATHVDHARGEIKKFSMQYQDGLIT-------RSERYNKVIDEW 2116 (2836)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccEEeeHhHcccCHHHHHHHHHHHHHHHHHHHHHHcCCCC-------HHHHHHHHHHHH
Confidence 1235557777788888888888888875 234889999999
Q ss_pred HHHHHHHHhhhhhcC------CCCCcchhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCC
Q psy13848 162 SVIRDHAGKACLQEL------HPSNGPLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPAS 235 (409)
Q Consensus 162 n~~~~~~g~~~~~~l------~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a 235 (409)
+++++++++.+++.+ ++.|+++||+.||||||..|+.|++||.||+. .|.|.. .
T Consensus 2117 ~~~~d~v~~~~~~~l~~~~~~~~~N~i~mMa~SGARGS~sQI~QLaGmRGLma-----kp~G~i---------------I 2176 (2836)
T PRK14844 2117 SKCTDMIANDMLKAISIYDGNSKYNSVYMMVNSGARGSTSQMKQLAGMRGLMT-----KPSGEI---------------I 2176 (2836)
T ss_pred HHHHHHHHHHHHHhhhhccccCCCCceeeeecccCccCHHHHHHHHhcceeee-----cCCCCe---------------e
Confidence 999999999999866 35799999999999999999999999999975 343321 1
Q ss_pred CCeeecCCcCCcccchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 236 KGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 236 ~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
..+|.+||++||+| .|||||||+|| +||+|||+|| +.||||||+|++.+.-
T Consensus 2177 e~PI~SNFrEGLsv------~EyFiSt~GaR---KGL~DTALKT----AdSGYLTRRLVDVaQD 2227 (2836)
T PRK14844 2177 ETPIISNFREGLNV------FEYFNSTHGAR---KGLADTALKT----ANSGYLTRRLVDVSQN 2227 (2836)
T ss_pred ecchhhhhccCCCH------HHhhhhccccc---cchhhhhhhc----ccccchhhhhhhhhce
Confidence 24599999999999 99999999999 9999999999 9999999999998865
No 13
>smart00663 RPOLA_N RNA polymerase I subunit A N-terminus.
Probab=100.00 E-value=9e-35 Score=286.72 Aligned_cols=153 Identities=39% Similarity=0.610 Sum_probs=128.9
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCC-CCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQ-PKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPE 80 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~-~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~ 80 (409)
+.+.|+.||.+|++|+||+ +.+...+ .++++++|+|||+||+|+||+|||||||||||||||+|||+|.+||||||.
T Consensus 58 ~~~~~~~LQ~~v~~~~d~~--~~~~~~~~~~~~~~~i~~~l~gK~G~~R~nllGKRvd~s~RsVI~pdP~l~~~evgiP~ 135 (295)
T smart00663 58 IRNEKRLLQEAVDTLFDNE--GLPRARQKSGRPLKSLSQRLKGKEGRFRQNLLGKRVDFSARSVITPDPNLKLNEVGVPK 135 (295)
T ss_pred HHHHHHHHHHHHHHHHccC--CCcccccCCCCCcccccccccCcCCccccccccccccccCceEEeCCCCcceeEeeCCH
Confidence 3578999999999999998 4444433 348899999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCceeccccHHHHHHHHHcCCCCCCCc----------hhh-H----H--------------------------
Q psy13848 81 HVAKILTYPERVHHANKEHLKQLVLNGPDKHPGL----------LRA-K----E-------------------------- 119 (409)
Q Consensus 81 ~~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa----------~~~-K----~-------------------------- 119 (409)
.||.+||+||.||.+|+++|+++|.||+ ||| +.. + .
T Consensus 136 ~~A~~Lt~pe~v~~~n~~~l~~lv~ng~---pga~~i~~g~~~~l~~~~~~~~~~~l~~g~~v~r~l~dgd~Vl~NRqPs 212 (295)
T smart00663 136 EIALELTFPEIVTPLNIDKLRKLVRNGP---NGAKYIIRGKKTNLKLAKRSKIAKHLKIGDIVERHVIDGDVVLFNRQPT 212 (295)
T ss_pred HHHHhCCcCEEEhHHHHHHHHHHHhcCC---CCceEEEeCcEEEchhhhhHHHHhcCccccEeheehhcCCEEEEecCCc
Confidence 9999999999999999999999999999 886 000 0 0
Q ss_pred ----------------HHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 120 ----------------RLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 120 ----------------~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
..++-.+..|..|+|||++|+|..+...+.....|+....
T Consensus 213 LHr~si~a~~v~v~~~~tir~n~~~c~~fNADFDGDeMnih~pqs~~a~aEa~~Lm 268 (295)
T smart00663 213 LHRMSIQAHRVRVLEGKTIRLNPLVCSPYNADFDGDEMNLHVPQSLEARAEARELM 268 (295)
T ss_pred cccccceeEEEEEecCceEEecCccCCcccCCcCCCEEEEecCCCHHHHHHHHHHh
Confidence 0111122378899999999999999998888777775544
No 14
>CHL00018 rpoC1 RNA polymerase beta' subunit
Probab=99.97 E-value=1.6e-32 Score=291.69 Aligned_cols=158 Identities=27% Similarity=0.418 Sum_probs=130.6
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEH 81 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~ 81 (409)
+.+.|++||.+|++|+||+..|.|....+++++||++|+|+||+||||+|||||||||||||||+|||+|.++|||||.+
T Consensus 321 i~~~~~~LQ~aVd~lidn~~~g~~~~~~~~r~~ksls~~LkGK~GrFR~NLlGKRVDySgRSVIvpdP~L~l~e~GlP~~ 400 (663)
T CHL00018 321 VMCQKKLLQEAVDALLDNGIRGQPMRDGHNKPYKSFSDVIEGKEGRFRENLLGKRVDYSGRSVIVVGPSLSLHQCGLPRE 400 (663)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCccccCCCCCCCCccccccCcCccccccccccccccCCCceecCCCcccccccCChHH
Confidence 45789999999999999999998877667899999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCceecc-------ccHHHHHHHHH----------------------cCCCCCCCchhhHHHHHHhhh------
Q psy13848 82 VAKILTYPERVHH-------ANKEHLKQLVL----------------------NGPDKHPGLLRAKERLLSEGY------ 126 (409)
Q Consensus 82 ~a~~lt~pe~v~~-------~N~~~l~~lv~----------------------ng~~~~pGa~~~K~~iI~eg~------ 126 (409)
||.+||+|+.+.. .|+..++.++. +.|+.|..-+++.+.++.++.
T Consensus 401 mA~eL~~P~~i~~Li~~~~~~~~~~Ak~~i~~~~~~~~~Vlr~v~~gd~VLlNRqPTLHR~sIqAf~~~L~~gktIrLhp 480 (663)
T CHL00018 401 IAIELFQPFVIRGLIRQHLASNIRAAKSKIREKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPILVEGRAICLHP 480 (663)
T ss_pred HHHHcCcHHHHHHHHhcCccccHHHHHHHHHhcCCcccEeeeehhcCceeeecCCCcccccccceeeEEecCCCeEEeCc
Confidence 9999999986432 24444444322 245555544666655554443
Q ss_pred hhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 127 SKCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 127 ~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
-.|..|+||||+|+|..+...+.++..|+....
T Consensus 481 lvC~~fNADFDGDqMnvHvPqS~eA~aEa~~Lm 513 (663)
T CHL00018 481 LVCKGFNADFDGDQMAVHVPLSLEAQAEARLLM 513 (663)
T ss_pred ccCCcccCCccCcEEEEecCCCHHHHHHHHHHh
Confidence 489999999999999999999988888876654
No 15
>PRK02625 rpoC1 DNA-directed RNA polymerase subunit gamma; Provisional
Probab=99.97 E-value=4.5e-32 Score=286.10 Aligned_cols=157 Identities=30% Similarity=0.430 Sum_probs=128.1
Q ss_pred hHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHHH
Q psy13848 3 QEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEHV 82 (409)
Q Consensus 3 ~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~~ 82 (409)
.+.|++||.+|++||||+..|.|....+++++|||+|+|+||+||||+|||||||||||||||+|||+|.+||||||.+|
T Consensus 301 ~~~~~~LQ~aVd~liDn~~~g~~~~~~~~rp~ksls~~LkGKeGRFR~NLlGKRVDySgRSVIspdP~L~l~e~GvP~~m 380 (627)
T PRK02625 301 RNEKRMLQEAVDALIDNGRRGRTVVGANNRPLKSLSDIIEGKQGRFRQNLLGKRVDYSGRSVIVVGPKLKMHQCGLPKEM 380 (627)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCCcccccCCchhhHHHHhccCCccccccccccccccCCCceEeCCCCcccccccChHHH
Confidence 47899999999999999999988766667999999999999999999999999999999999999999999999999999
Q ss_pred HHHcCCCceecc-------ccHHHHHHHHHc----------------------CCCCCCCchhhHHHHHHhh------hh
Q psy13848 83 AKILTYPERVHH-------ANKEHLKQLVLN----------------------GPDKHPGLLRAKERLLSEG------YS 127 (409)
Q Consensus 83 a~~lt~pe~v~~-------~N~~~l~~lv~n----------------------g~~~~pGa~~~K~~iI~eg------~~ 127 (409)
|.+||+|+.+.. .|+..+++++.+ .|+.|..-+++.+.++.++ +.
T Consensus 381 A~eL~~Pf~i~~L~~~g~~~~i~~ak~~i~~~~~~~~~Vlr~v~~gd~VLlNRqPTLHR~sIqAf~~~l~~~ktirlhpl 460 (627)
T PRK02625 381 AIELFQPFVIHRLIRQGIVNNIKAAKKLIQRADPEVWQVLEEVIEGHPVLLNRAPTLHRLGIQAFEPILVEGRAIQLHPL 460 (627)
T ss_pred HHhcCcHHhHHHHHHcCchhhHHHHHHHHHhcCCcccEEEEEeecCcEEEecCCCccccccceeEeeEEcCCCeEEeccc
Confidence 999999975431 344444555432 2333333355554444333 44
Q ss_pred hHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 128 KCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 128 kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
.|..|+||||+|+|..+...+.++..|+....
T Consensus 461 vC~~fNADFDGDeMnvHvPqS~~A~aEa~~Lm 492 (627)
T PRK02625 461 VCPAFNADFDGDQMAVHVPLSLEAQAEARLLM 492 (627)
T ss_pred cCCcccCCcCCCeEEEecCCCHHHHHHHHHHh
Confidence 89999999999999999999988888876554
No 16
>TIGR02387 rpoC1_cyan DNA-directed RNA polymerase, gamma subunit. The RNA polymerase gamma subunit, encoded by the rpoC1 gene, is found in cyanobacteria and corresponds to the N-terminal region the beta' subunit, encoded by rpoC, in other bacteria. The equivalent subunit in plastids and chloroplasts is designated beta', while the product of the rpoC2 gene is designated beta''.
Probab=99.97 E-value=5.1e-32 Score=285.36 Aligned_cols=157 Identities=29% Similarity=0.430 Sum_probs=129.0
Q ss_pred hHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHHH
Q psy13848 3 QEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEHV 82 (409)
Q Consensus 3 ~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~~ 82 (409)
.+.|++||.+|++||||+..|.|....+++++||++|+|+||+||||+|||||||||||||||+|||+|.+||||||.+|
T Consensus 294 ~~~~~~LQ~aVd~lidn~~~g~~~~~~~~rp~ksls~~LkGKeGRFR~nLlGKRVDySgRSVI~pdP~L~l~qvGvP~~m 373 (619)
T TIGR02387 294 RNEKRMLQEAVDALIDNGRRGRTVVGANNRPLKSLSDIIEGKQGRFRQNLLGKRVDYSGRSVIVVGPKLKMHQCGLPKEM 373 (619)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCCcccccCCchhhHHHHhccCCccccccccccccccCCCceecCCCCcccceecChHHH
Confidence 46899999999999999999988766667999999999999999999999999999999999999999999999999999
Q ss_pred HHHcCCCceecc-------ccHHHHHHHHHc----------------------CCCCCCCchhhHHHHHHhhh------h
Q psy13848 83 AKILTYPERVHH-------ANKEHLKQLVLN----------------------GPDKHPGLLRAKERLLSEGY------S 127 (409)
Q Consensus 83 a~~lt~pe~v~~-------~N~~~l~~lv~n----------------------g~~~~pGa~~~K~~iI~eg~------~ 127 (409)
|.+||+|+.+.. .|+..+++++.+ .|+.|.--+++.+.++.++. -
T Consensus 374 A~eLf~Pf~i~~L~~~g~~~~i~~ak~~i~~~~~~v~~Vlr~v~~gd~VLlNRqPTLHR~sIqAf~~~l~~~ktirlhpl 453 (619)
T TIGR02387 374 AIELFQPFVIHRLIRQGIVNNIKAAKKLIQRADDEIWSVLQEVITGHPVMLNRAPTLHRLGIQAFEPILVDGRAIQLHPL 453 (619)
T ss_pred HHhcCchHhHHHHHhcCcccchHHHHHHHHhcCChhHHHHHHHhcCCEEEecCCCccchhcceeeeeEEecCCeEEECcc
Confidence 999999985431 233333333332 35555544565555554443 4
Q ss_pred hHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 128 KCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 128 kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
.|..|+||||+|+|..+...+.++..|+....
T Consensus 454 vC~~fNADFDGDeMnvHvPqS~eA~aEa~~Lm 485 (619)
T TIGR02387 454 VCPAFNADFDGDQMAVHVPLSLEAQTEARLLM 485 (619)
T ss_pred cCCcccCCCCCceeeeecCCCHHHHHHHHHHh
Confidence 89999999999999999999988888876655
No 17
>PF05000 RNA_pol_Rpb1_4: RNA polymerase Rpb1, domain 4; InterPro: IPR007083 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 entry, domain 4, represents the funnel domain. The funnel domain contains the binding site for some elongation factors [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Q 3HKZ_I 1YNJ_D 1HQM_D 1YNN_D 1I6V_D 2GHO_D 2Y0S_W 3IYD_D 3LU0_D ....
Probab=99.94 E-value=2.1e-27 Score=202.69 Aligned_cols=106 Identities=44% Similarity=0.724 Sum_probs=94.2
Q ss_pred HHhhc-CCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcchhhhhcCCCcchhhHHHHHHHhcCcccCCc
Q psy13848 134 RAMES-GRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQELHPSNGPLVMALSGSKGSFINISQMIACVGQQAINGK 212 (409)
Q Consensus 134 adf~~-GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~l~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~ 212 (409)
.++++ ++++..++.+.++.+|..+..+|+++++++++++.+++..+|++++|+.||||||++|++||++|+|||.++|+
T Consensus 2 ~~~e~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~N~l~~M~~SGaKGs~~ni~Qi~g~lGqq~~~g~ 81 (108)
T PF05000_consen 2 TDYERYGKLEKKWGKTYEETFEQKINKILNKVRDEIGKIIKKNLPFNNSLLIMINSGAKGSMSNISQISGCLGQQSVEGK 81 (108)
T ss_dssp HHHHCCTHHHHHCTCHHHHHHHHHHHHHHHHCCHHHHHHHHHCSTTTSHHHHHHHSSSS--HHHHHHHHST-EEEEETTS
T ss_pred cchHhhCchHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcHHhhhhccCCCCHHHHHHHHHHHHHhhcccc
Confidence 34556 77888899999999999999999999999999999999988999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCCCee
Q psy13848 213 RVPNGFDNRSLPHFDKFSKDPASKGNV 239 (409)
Q Consensus 213 Rip~g~~gRtLPhF~~~d~~~~a~GfI 239 (409)
||+.+|.+|+||||.++|.+|+++|||
T Consensus 82 ri~~~~~~Rtlp~f~~~~~~~~~~GFI 108 (108)
T PF05000_consen 82 RIPRGFSGRTLPHFKPFDESPESRGFI 108 (108)
T ss_dssp ES--SSTTCSSTTS-SS-SSTTTTTEE
T ss_pred ccccCCCCCcCCCcCCCCCCcccCCCC
Confidence 999999999999999999999999998
No 18
>TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit. The family consists of the product of the rpoC2 gene, a subunit of DNA-directed RNA polymerase of cyanobacteria and chloroplasts. RpoC2 corresponds largely to the C-terminal region of the RpoC (the beta' subunit) of other bacteria. Members of this family are designated beta'' in chloroplasts/plastids, and beta' (confusingly) in Cyanobacteria, where RpoC1 is called beta' in chloroplasts/plastids and gamma in Cyanobacteria. We prefer to name this family beta'', after its organellar members, to emphasize that this RpoC1 and RpoC2 together replace RpoC in other bacteria.
Probab=99.91 E-value=9.5e-25 Score=244.37 Aligned_cols=157 Identities=19% Similarity=0.251 Sum_probs=127.6
Q ss_pred HHHcCCCCCCCc---hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhc---C
Q psy13848 103 LVLNGPDKHPGL---LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQE---L 176 (409)
Q Consensus 103 lv~ng~~~~pGa---~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~---l 176 (409)
+-..|.+.-..+ ..+|..++++++++|..++++|+.|.++. .|.++ +++++|+++++++.+.+..+ .
T Consensus 43 aT~~G~SigidDl~ip~~K~~li~~a~~~v~~~~~~y~~G~it~------~Er~~-~ii~~w~~t~e~~~~~~~~~~~~~ 115 (1227)
T TIGR02388 43 ATRAGVSISVDDLKVPPAKQDLLEAAEKEIRATEERYRRGEITE------VERFQ-KVIDTWNGTNEELKDEVVNNFRQT 115 (1227)
T ss_pred HHhcCeEEeeccCCCCHHHHHHHHHHHHHHHHHHHHHHcCCCcc------hhhHH-HHHHHHHHHHHHHHHHHHHhhhhc
Confidence 333454443333 35788999999999999999999999865 45555 78889999999998888876 5
Q ss_pred CCCCcchhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchhhhhh
Q psy13848 177 HPSNGPLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIASELKS 256 (409)
Q Consensus 177 ~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~lk~ 256 (409)
+|.|+++||+.||||| |++||.+|+|||.+. +.|.|.. ..|| |.+||++||+| .
T Consensus 116 d~~N~v~mMa~SGARG---NisQi~QLvGmrGlm--a~p~G~i-i~lP--------------I~snFreGLt~------~ 169 (1227)
T TIGR02388 116 DPLNSVYMMAFSGARG---NMSQVRQLVGMRGLM--ANPQGEI-IDLP--------------IKTNFREGLTV------T 169 (1227)
T ss_pred CCCCcHHHHhhccCcc---cHHHHHHHhcchhee--cCCCCcE-eecc--------------chhhhhcCCCH------H
Confidence 6899999999999999 777777788887542 2332221 1254 99999999999 9
Q ss_pred hhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 257 AYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 257 e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
|||||||+|| +||+|||+|| |+||||||+|++.++-
T Consensus 170 EyF~sa~GaR---kGLvDTAlKT----AdSGYLTRRLVdv~qD 205 (1227)
T TIGR02388 170 EYVISSYGAR---KGLVDTALRT----ADSGYLTRRLVDVSQD 205 (1227)
T ss_pred Hhheeccccc---cchhhcceec----cccchHHHHHHHhhce
Confidence 9999999999 9999999999 9999999999998865
No 19
>PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=99.90 E-value=6.8e-24 Score=239.21 Aligned_cols=144 Identities=20% Similarity=0.302 Sum_probs=120.5
Q ss_pred hhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhhhcC---CCCCcchhhhhcCCCc
Q psy13848 116 RAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACLQEL---HPSNGPLVMALSGSKG 192 (409)
Q Consensus 116 ~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~~~l---~p~N~~~~M~~sGsKG 192 (409)
.+|..+++++++++..+.++|+.|.++. .|.+ .+++++|+++++++.+.+..++ +|.|+++||+.|||||
T Consensus 60 ~~K~~li~~Ae~~v~~~~~~y~~G~it~------~Er~-~kvi~~w~~t~e~l~~~~~~~~~~~dp~N~v~mMa~SGARG 132 (1331)
T PRK02597 60 PAKRDLLEQAEEEITATEERYRRGEITE------VERF-QKVIDTWNETNERLKDEVVKNFRQNDPLNSVYMMAFSGARG 132 (1331)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCch------hHHH-HHHHHHHHHHHHHHHHHHHHHHhhcCCCCcHHHHhhccCCc
Confidence 5788999999999999999999998763 3444 7888999999999998888765 6799999999999999
Q ss_pred chhhHHHHHHHhcCcccCCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchhhhhhhhhheeeecccccccc
Q psy13848 193 SFINISQMIACVGQQAINGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIASELKSAYLVWRVAGSISARGE 272 (409)
Q Consensus 193 S~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~lk~e~~~h~~~gr~~~~gl 272 (409)
|++||..|+|||.+. +.|.|.. ..|| |.+||++||+| .|||||||+|| +||
T Consensus 133 ---N~sQI~QLvGmRGLm--a~p~G~i-i~lP--------------I~snFrEGLs~------~EyFis~~GaR---KGL 183 (1331)
T PRK02597 133 ---NMSQVRQLVGMRGLM--ANPQGEI-IDLP--------------IKTNFREGLTV------TEYVISSYGAR---KGL 183 (1331)
T ss_pred ---cHHHHHHHhcchhhc--cCCCCcE-Eecc--------------hhhhhhcCCCH------HHhheeccccc---cch
Confidence 666666666666542 2333221 1355 99999999999 99999999999 999
Q ss_pred ccccccccccccCcchHHHHHHhhhcc
Q psy13848 273 LHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 273 ~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
+|||+|| |+||||||||++.+.-
T Consensus 184 vDTAlKT----AdSGYLTRRLVdv~QD 206 (1331)
T PRK02597 184 VDTALRT----ADSGYLTRRLVDVSQD 206 (1331)
T ss_pred hhcceec----ccchhHHHHHHHhhcc
Confidence 9999999 9999999999998765
No 20
>CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed
Probab=99.88 E-value=9.6e-23 Score=231.70 Aligned_cols=153 Identities=18% Similarity=0.225 Sum_probs=121.7
Q ss_pred HHHcCCCCCCCc---hhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHHHHHHHHHHhhhh---hcC
Q psy13848 103 LVLNGPDKHPGL---LRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKELSVIRDHAGKACL---QEL 176 (409)
Q Consensus 103 lv~ng~~~~pGa---~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~ln~~~~~~g~~~~---~~l 176 (409)
+-+.|.+.-..+ -.+|.+++++++++|..+.++|+.|.++ ..|+++. +.++|+.+.+.+.+.+. +..
T Consensus 50 at~~G~Sigi~Dl~ip~~K~~li~~a~~~v~~~~~~y~~G~it------~~er~~~-~i~~w~~~~~~l~~~~~~~~~~~ 122 (1364)
T CHL00117 50 ATAAGISLGIDDLLTPPSKGWLVQDAEQQSLILEKHYHYGNVH------AVEKLRQ-SIEIWYATSEYLKQEMNPNFRMT 122 (1364)
T ss_pred HHhcceEEecCcccCCHHHHHHHHHHHHHHHHHHHHHHcCCCC------HHHHHHH-HHHHHHHHHHHHHHHHHHhhccC
Confidence 344454443333 3578899999999999999999999985 4466665 44556665555555444 456
Q ss_pred CCCCcchhhhhcCCCcchhhHHHHHHHhcCccc----CCcccCCCCCCCCCCCCCCCCCCCCCCCeeecCCcCCcccchh
Q psy13848 177 HPSNGPLVMALSGSKGSFINISQMIACVGQQAI----NGKRVPNGFDNRSLPHFDKFSKDPASKGNVKFLRYGNRLKIAS 252 (409)
Q Consensus 177 ~p~N~~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l----~G~Rip~g~~gRtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~ 252 (409)
+|.|+++||+.||||| |++||.+|+|++.+ .|++| .+| |.+||++||+|
T Consensus 123 d~~N~v~mMa~SGARG---n~sQi~qLvGmRGlma~p~G~iI-------~~P--------------I~snFreGLs~--- 175 (1364)
T CHL00117 123 DPLNPVYMMSFSGARG---NASQVHQLVGMRGLMSDPQGQII-------DLP--------------IQSNFREGLSL--- 175 (1364)
T ss_pred CCCCcHhhhhhccCcc---cHHHHHHHhcccceeeCCCCcEe-------ecc--------------hhhhhhcCCCH---
Confidence 7899999999999999 78899999998876 22222 133 99999999999
Q ss_pred hhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 253 ELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 253 ~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
.|||+|||+|| +||+|||+|| |+||||||+|++.++-
T Consensus 176 ---~EyFis~~GaR---kGLvDTAlkT----AdSGYLtRRLVdv~qd 212 (1364)
T CHL00117 176 ---TEYIISCYGAR---KGVVDTAVRT----ADAGYLTRRLVEVVQH 212 (1364)
T ss_pred ---HHhheeccccc---cchhhcceec----ccccchhhHHHhhhcc
Confidence 99999999999 9999999999 9999999999998866
No 21
>PF00623 RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; InterPro: IPR000722 RNA polymerases catalyse the DNA dependent polymerisation of RNA from DNA, using the four ribonucleoside triphosphates as substrates. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Eukaryotic RNA polymerase I is essentially used to transcribe ribosomal RNA units, polymerase II is used for mRNA precursors, and III is used to transcribe 5S and tRNA genes. Each class of RNA polymerase is assembled from nine to fourteen different polypeptides. Members of the family include the largest subunit from eukaryotes; the gamma subunit from Cyanobacteria; the beta' subunit from bacteria; the A' subunit from archaea; and the B'' subunit from chloroplast RNA polymerases.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_M 2PMZ_Q 3HKZ_I 1ZYR_D 1SMY_D 2A68_N 2O5J_D 3AOH_N 2O5I_D 2CW0_N ....
Probab=99.88 E-value=2.6e-24 Score=196.88 Aligned_cols=104 Identities=45% Similarity=0.687 Sum_probs=84.0
Q ss_pred CCccCCCCCeeecCCCCCCcccccchHHHHHHcCCCceeccccHHHHHHHHHcCCCCCCCc------------hhhH---
Q psy13848 54 GKRVDFTSRTVISPDPNLQIYQVGIPEHVAKILTYPERVHHANKEHLKQLVLNGPDKHPGL------------LRAK--- 118 (409)
Q Consensus 54 GKRvdfs~RsVI~pdP~L~~~evgiP~~~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa------------~~~K--- 118 (409)
||||||||||||+|||+|.++|||||.+||++||+||.|+.+|++++++++.||++.|||| +...
T Consensus 1 GKRVnfSaRSVItpDP~L~~~EvGiP~~iA~~Lt~Pe~Vt~~N~~~l~~~v~ng~~~~pga~~i~~~~~~~~~l~~~~~~ 80 (166)
T PF00623_consen 1 GKRVNFSARSVITPDPNLKIDEVGIPIEIAKKLTFPERVTPFNIEKLRKLVINGPDKYPGANYIKRSNGNKISLRYKKFK 80 (166)
T ss_dssp CEEESSEEEEEEEEETTSCTTEEEEEHHHHHHCECCHHHHTTTHHHHHHHHHHTTTSSSSEEEEESTTCHCCCTTSSSSC
T ss_pred CCCcccCCCcEEECCCCCccceecccHHHHhhCCCcEEEHHHHHHHHHHHHhcCcccchhhhhhhcccCcceeeeecccc
Confidence 8999999999999999999999999999999999999999999999999999999999999 1100
Q ss_pred -HHHHH------------------------------------------hhhhhHHHHHHHhhcCCCcCCCCCChhhHHHH
Q psy13848 119 -ERLLS------------------------------------------EGYSKCEGYIRAMESGRLQTQPGCSAEETLEA 155 (409)
Q Consensus 119 -~~iI~------------------------------------------eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~ 155 (409)
...+. -.+..|..|++||++|+|..+...+.....|+
T Consensus 81 ~~~~l~~~~~v~r~l~~gd~vl~nRqPtLh~~s~~a~~~~~~~~~t~~~~~~~c~~~NADFDGDem~i~~p~~~~a~~E~ 160 (166)
T PF00623_consen 81 ISKKLRIGDIVERHLCDGDIVLLNRQPTLHRMSIMAHKVRVLPGKTIRINPLVCSPFNADFDGDEMNIHLPQSYEARAEA 160 (166)
T ss_dssp CCHHHHTT-EEEEEHTTT-EEEEEESS-SSGGGEEEEEEEEESSSSEEEEGGGHHHHT--TSS-EEEEE--SSHHHHHHH
T ss_pred ccceecchhhHHHhhhcCceeEEeccchhccceeeeeeeeeecccEEEeeccchhhhhccCCcceEEEEecCCHHHHHHH
Confidence 11111 11238899999999999999988887777776
Q ss_pred HH
Q psy13848 156 VI 157 (409)
Q Consensus 156 ~v 157 (409)
..
T Consensus 161 ~~ 162 (166)
T PF00623_consen 161 KE 162 (166)
T ss_dssp HH
T ss_pred HH
Confidence 54
No 22
>KOG0262|consensus
Probab=99.80 E-value=1.1e-20 Score=207.61 Aligned_cols=332 Identities=28% Similarity=0.397 Sum_probs=252.3
Q ss_pred hhHhHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhHHHhhcCcceeeecccCCccCCCCCeeecCCCCCCcccccchHH
Q psy13848 2 IQEDWEWLQLHCALFINSETSGIPLNMQPKSKSRGLIQRLKGKQGRFRGNLSGKRVDFTSRTVISPDPNLQIYQVGIPEH 81 (409)
Q Consensus 2 i~~~~~~LQ~~v~~~~~~~~~~~~~~~~~~~~~k~~~~~l~gK~G~~R~nl~GKRvdfs~RsVI~pdP~L~~~evgiP~~ 81 (409)
+...|-.||.+|+.+||++..+. .++..+ -||+|.|++|+|+||++||||||||+|||||||||||.+||||||..
T Consensus 398 l~~aw~~LQ~~vn~lfDs~~~~k---~~r~~~-pGikQiLEKKeGLFRkhMMGKRVN~AaRSVIsPDPnI~tnEIGIP~v 473 (1640)
T KOG0262|consen 398 LINAWLQLQASVNVLFDSKMASK---WSRDSP-PGIKQILEKKEGLFRKHMMGKRVNYAARSVISPDPNIETNEIGIPPV 473 (1640)
T ss_pred HHHHHHHHHHHHHHHhccccccc---cccCCC-chHHHHHHHhhhhHHHHhhccccchhhccccCCCCCccccccCCchH
Confidence 45689999999999999987421 122334 69999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCceeccccHHHHHHHHHcCCCCCCCchhhHHHHHHhhhhhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHHHH
Q psy13848 82 VAKILTYPERVHHANKEHLKQLVLNGPDKHPGLLRAKERLLSEGYSKCEGYIRAMESGRLQTQPGCSAEETLEAVILKEL 161 (409)
Q Consensus 82 ~a~~lt~pe~v~~~N~~~l~~lv~ng~~~~pGa~~~K~~iI~eg~~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~~l 161 (409)
+|.+|||||+||+||+++||++|.|||++||||.. +.+ ..|.+...++++.++ .++..+..|
T Consensus 474 FA~KLTyPepVt~~NV~elr~aViNGP~~hPGA~~----------------iqd-~dg~~t~l~~~~~~q-R~alA~qLL 535 (1640)
T KOG0262|consen 474 FAKKLTYPEPVTPWNVNELRKAVINGPDVHPGATY----------------IQD-EDGTLTLLSPMTDEQ-REALANQLL 535 (1640)
T ss_pred HHhhccCCCcCCcccHHHHHHHHhcCCCCCCCcce----------------eec-CCCceeecCCCCHHH-HHHHHHHhh
Confidence 99999999999999999999999999999999921 000 122333333332221 223222222
Q ss_pred HH----HHH----------HHHhhhhhcCCCCCc-chhhhhcC-----CCcchhhHHHHHHHhcCcccCCcccCCCCCC-
Q psy13848 162 SV----IRD----------HAGKACLQELHPSNG-PLVMALSG-----SKGSFINISQMIACVGQQAINGKRVPNGFDN- 220 (409)
Q Consensus 162 n~----~~~----------~~g~~~~~~l~p~N~-~~~M~~sG-----sKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~g- 220 (409)
.- .++ .-||+++-+.+|+-| +++|++.. -|-=-++++. =+-...+|+|
T Consensus 536 tpst~~~~~~~~K~V~RHvknGDvvlmNRQPTLHKPSimaHkaRVL~gEktlRlHYAN-----------CkaYNADFDGD 604 (1640)
T KOG0262|consen 536 TPSTGNPTEFGTKKVHRHVKNGDVVLMNRQPTLHKPSIMAHKARVLPGEKTLRLHYAN-----------CKAYNADFDGD 604 (1640)
T ss_pred ccccCCCcccCCceeeeeccCCcEEEEcCCCccccchhhhhhheecCCcceeeeeecc-----------cccccCCCCcc
Confidence 20 000 137788889999877 99999854 2221111111 1223568988
Q ss_pred CCCCCCCCCCCCCCCCCeeecCCcCCcccchhh-hhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 221 RSLPHFDKFSKDPASKGNVKFLRYGNRLKIASE-LKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 221 RtLPhF~~~d~~~~a~GfI~nsf~~GL~p~~~~-lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
....||++.+.+..+.=+|.|.--+.|.|+.++ |+.-.++|.++|. |+ |.-.+|| +|+.|.| .+...|
T Consensus 605 EMN~HfPQse~araEa~~ian~dsqYLvPt~G~PlrGLIQDHiVsgv-----~L-T~rd~Ff--tre~y~q-Lv~~~l-- 673 (1640)
T KOG0262|consen 605 EMNVHFPQSEIARAEAYNIANTDSQYLVPTDGTPLRGLIQDHIVSGV-----LL-TMRDSFF--TREDYQQ-LVFAGL-- 673 (1640)
T ss_pred hhcccCCchhhHHHHHHHHhccCCceeccCCCCchhhhhhhheeeeE-----EE-Eeccccc--CHHHHHH-HHHHhh--
Confidence 568899999998877778888888999999999 9999999999887 45 5666766 7888887 333323
Q ss_pred ccccCCCCCCCCccccCCCcchhhhhheeeccCC-CCCCeeeeEeeeccccccccc-------CCcCCcEEEEcCccccc
Q psy13848 300 REHETSVIIPPPAIMKPKALWTGKQIFSLILKPN-RDCPVNANLKTKGRAYTFKFS-------IMVKDQFRERNTACKIS 371 (409)
Q Consensus 300 ~~~~~~~~lp~Pai~kp~~LWTGKQifS~iLp~~-~~~~~~lnl~~k~k~~~~~~~-------~~~~d~~~i~~g~~~~e 371 (409)
.+-..++.+++|+|+||.+|||||||+|++|.+. +.+++++||+.++|+-.+++. +|+ +.++|++| |
T Consensus 674 ~~~~~rI~~lpPtIlkP~~LWTGKQVIsTil~Ni~P~~~p~iNl~~kaKip~~~W~~~s~e~~l~E-s~v~ir~G----e 748 (1640)
T KOG0262|consen 674 SDTFKRIKLLPPTILKPAPLWTGKQVISTILKNIIPEGHPPINLESKAKIPGKAWRVHSEEPKLNE-SQVLIREG----E 748 (1640)
T ss_pred hhhccceeccCccccccccccccchHHHHHHHhcCCCCCCcccchhcccCchhhcCCCCCcccCCc-ceEEEecC----c
Confidence 2234689999999999999999999999999885 578999999999998665541 122 23699999 9
Q ss_pred eEEEEechhhH
Q psy13848 372 HVTFCVDSPTE 382 (409)
Q Consensus 372 L~~GviDk~~~ 382 (409)
||||||||++.
T Consensus 749 llcGVLDKa~~ 759 (1640)
T KOG0262|consen 749 LLCGVLDKAQF 759 (1640)
T ss_pred eEEEeechhhc
Confidence 99999999875
No 23
>KOG0261|consensus
Probab=99.78 E-value=1.1e-19 Score=195.98 Aligned_cols=106 Identities=37% Similarity=0.629 Sum_probs=87.9
Q ss_pred ccccccccCcchHHHHHHhhhccccccCCCCCCCCccccCCCcchhhhhheeeccCCCCCCeeeeEeeecccccc----c
Q psy13848 277 QKTDKVRSRNGWLSSVLSSSLRFREHETSVIIPPPAIMKPKALWTGKQIFSLILKPNRDCPVNANLKTKGRAYTF----K 352 (409)
Q Consensus 277 ~kt~~~tsrsGyl~r~L~~~l~F~~~~~~~~lp~Pai~kp~~LWTGKQifS~iLp~~~~~~~~lnl~~k~k~~~~----~ 352 (409)
-+||+.+++-+.|. +.| .++..++++|||||+||++||||||+||+++.|+...++.+|+..+++++.. .
T Consensus 553 KDtF~dRa~~~ql~----s~~--~d~~~~i~lppPaI~KP~~LwTGKQ~fsvlirpn~~s~v~~Nl~~k~k~~~~~~~k~ 626 (1386)
T KOG0261|consen 553 KDTFLDRAEFSQLC----SYM--SDAMTHIDLPPPAILKPVELWTGKQLFSVLIRPNDDSPVRVNLDAKNKNFSLVKGKS 626 (1386)
T ss_pred ccccccHHHHHHHH----HHH--hccccccCCCChhhcCceeeeccCEEEEEEeccCCCCceEEeeccccceeecccCCC
Confidence 34666445544333 222 3678999999999999999999999999999999999999999999999843 2
Q ss_pred ccCCcCCcE-EEEcCccccceEEEEechhhHHhhhcCCCCCCCCCc
Q psy13848 353 FSIMVKDQF-RERNTACKISHVTFCVDSPTEIQQQSGPGNKYSPSY 397 (409)
Q Consensus 353 ~~~~~~d~~-~i~~g~~~~eL~~GviDk~~~~~~~~~~~~~~~~~~ 397 (409)
.++|++|+| .|+|. ||++|++||..+ |.|+|-|--|
T Consensus 627 ~~mc~nDg~v~irns----~l~sG~ldKs~l-----G~g~k~~lfy 663 (1386)
T KOG0261|consen 627 FEMCPNDGYVIIRNS----ELISGVLDKSTL-----GSGKKDSLFY 663 (1386)
T ss_pred cccCCCCCeEEEecc----hhhhcccccccc-----cCCCccceEe
Confidence 499999999 89999 999999999998 8888865444
No 24
>TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A'. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein.
Probab=99.52 E-value=5.4e-15 Score=164.79 Aligned_cols=71 Identities=28% Similarity=0.342 Sum_probs=63.1
Q ss_pred ccCCCCCCCCccccCCCcchhhhhheeeccCCCCCCeeeeEeeeccccccc----ccCCcCCcE-EEEcCccccceEEEE
Q psy13848 302 HETSVIIPPPAIMKPKALWTGKQIFSLILKPNRDCPVNANLKTKGRAYTFK----FSIMVKDQF-RERNTACKISHVTFC 376 (409)
Q Consensus 302 ~~~~~~lp~Pai~kp~~LWTGKQifS~iLp~~~~~~~~lnl~~k~k~~~~~----~~~~~~d~~-~i~~g~~~~eL~~Gv 376 (409)
+.+.+++|+|||++|.+|||||||||++||++ +|+..+++.+.+. .++|+.|++ +|+|| ||++|+
T Consensus 525 ~~~~~~~~~p~i~kp~~lwTGKqi~s~~lp~~------~n~~~~~~~~~~~~~~~~~~~~~d~~v~i~~g----~ll~G~ 594 (868)
T TIGR02390 525 AGYFGDPPEPAIEKPKEYWTGKQIFSAFLPED------LNFEGRAKICSGSDACKKEECPHDAYVVIKNG----KLLKGV 594 (868)
T ss_pred CCccccCCCceecCCcccccHHHHHHHhcCCC------CcceecccccccccccccccCCCcceEEEecC----eEEeee
Confidence 55678889999999999999999999999986 9999988876542 367999998 99999 999999
Q ss_pred echhhH
Q psy13848 377 VDSPTE 382 (409)
Q Consensus 377 iDk~~~ 382 (409)
|||+++
T Consensus 595 ldK~~l 600 (868)
T TIGR02390 595 IDKKAI 600 (868)
T ss_pred ecHHHh
Confidence 999988
No 25
>PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional
Probab=99.51 E-value=1.1e-15 Score=175.25 Aligned_cols=180 Identities=18% Similarity=0.167 Sum_probs=115.7
Q ss_pred HhhhhhcCCCCCc-chhhhhcCC--CcchhhHHHHHHHhcCcccCCcccCCCCCCCC-CCCCCCCCCCCCCCCeeecCCc
Q psy13848 169 GKACLQELHPSNG-PLVMALSGS--KGSFINISQMIACVGQQAINGKRVPNGFDNRS-LPHFDKFSKDPASKGNVKFLRY 244 (409)
Q Consensus 169 g~~~~~~l~p~N~-~~~M~~sGs--KGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRt-LPhF~~~d~~~~a~GfI~nsf~ 244 (409)
||+++-+++|+-| +++|++.-- .|+.+ .+--|++ .--..+|+|.. .-|+++...+..+.-.+.+.-.
T Consensus 431 GD~VL~NRQPSLHk~Simah~vkvl~~kT~---Rln~~vC------~pyNADFDGDEMNlHvPQS~eArAEa~~Lm~v~~ 501 (1321)
T PRK14977 431 GDIVIFNRQPSLHKLSILAHRVKVLPGATF---RLHPAVC------PPYNADFDGDEMNLHVPQIEDARAEAIELMGVKD 501 (1321)
T ss_pred CcEEEeccCCccccccceEEEEEEecCceE---Eeccccc------CcccCCcccceeeeecCCCHHHHHHHHHHHhhhh
Confidence 4455567789877 888887431 12222 1111222 11356899855 6677776654433333333334
Q ss_pred CCcccchhh-hhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhccccccCCCCCCCCccc-cCCCcchh
Q psy13848 245 GNRLKIASE-LKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRFREHETSVIIPPPAIM-KPKALWTG 322 (409)
Q Consensus 245 ~GL~p~~~~-lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F~~~~~~~~lp~Pai~-kp~~LWTG 322 (409)
.=++|..+. +..--++|..++. ++ |.-++++ +++-|.+ | .+. ......+|+|||+ ||.+||||
T Consensus 502 niisP~~G~Pi~gliQD~l~g~~-----lL-T~~d~fl--~~~e~~~--l----~~~-~~~~~~lp~PaI~~kp~~lwTG 566 (1321)
T PRK14977 502 NLISPRTGGPIIGALQDFITAAY-----LI-TKDDALF--DKNEASN--I----AML-AGITDPLPEPAIKTKDGPAWTG 566 (1321)
T ss_pred cEecCCCCCeeEEeehhhhhhhh-----hh-ccCcccC--CHHHHHH--H----HHh-CCCccccCCCceecCCCCeeeH
Confidence 445555554 4455566766665 33 3344544 4444544 1 111 2234468999999 99999999
Q ss_pred hhhheeeccCCCCCCeeeeEeeecccccccc-----cCCcCCcE-EEEcCccccceEEEEechhhH
Q psy13848 323 KQIFSLILKPNRDCPVNANLKTKGRAYTFKF-----SIMVKDQF-RERNTACKISHVTFCVDSPTE 382 (409)
Q Consensus 323 KQifS~iLp~~~~~~~~lnl~~k~k~~~~~~-----~~~~~d~~-~i~~g~~~~eL~~GviDk~~~ 382 (409)
|||||++||++ +|++.+++++.++. ++|..|++ +|+|| ||++|+|||+++
T Consensus 567 KQi~s~iLp~~------~n~~~~~~~~~~~~~~~~~~~~~~d~~v~I~~g----eLl~G~ldK~~~ 622 (1321)
T PRK14977 567 KQLFSLFLPKD------FNFEGIAKWSAGKAGEAKDPSCLGDGYVLIKEG----ELISGVIDDNII 622 (1321)
T ss_pred HHHHHHHcCCC------CCceecccccccccccccccCCCCcceEEeecC----eEEeeecchHhh
Confidence 99999999987 89999888655432 47889999 99999 999999999987
No 26
>PRK08566 DNA-directed RNA polymerase subunit A'; Validated
Probab=99.47 E-value=2.9e-15 Score=167.21 Aligned_cols=183 Identities=20% Similarity=0.131 Sum_probs=114.7
Q ss_pred HhhhhhcCCCCCc-chhhhhcCCCcchhhHHHHHHHhcCcccCCcccCCCCCCCC-CCCCCCCCCCCCCCCeeecCCcCC
Q psy13848 169 GKACLQELHPSNG-PLVMALSGSKGSFINISQMIACVGQQAINGKRVPNGFDNRS-LPHFDKFSKDPASKGNVKFLRYGN 246 (409)
Q Consensus 169 g~~~~~~l~p~N~-~~~M~~sGsKGS~~Ni~Qi~~~vGQQ~l~G~Rip~g~~gRt-LPhF~~~d~~~~a~GfI~nsf~~G 246 (409)
|+.++-+++|+-| +++|++.--.-.. ....+--++. .--..+|+|.. .-|+++...+..+.-.+.+.-..=
T Consensus 415 gd~vl~NRqPsLHr~si~a~~~~v~~~-~t~r~n~~~c------~~~NADFDGDeMn~h~Pqs~~a~aEa~~Lm~~~~~~ 487 (882)
T PRK08566 415 GDIVLFNRQPSLHRMSIMAHRVRVLPG-KTFRLNLAVC------PPYNADFDGDEMNLHVPQTEEARAEARILMLVQEHI 487 (882)
T ss_pred CceeeecCCCcccccccceeEEEEecC-ceEeeccccC------CCccCCccCcEEEEecCCCHHHHHHHHHHhcchhcE
Confidence 4566678889877 8888874321110 1111111111 11245888855 557766654333333333344444
Q ss_pred cccchhh-hhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhccccccCCCCCCCCccccCCCcchhhhh
Q psy13848 247 RLKIASE-LKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRFREHETSVIIPPPAIMKPKALWTGKQI 325 (409)
Q Consensus 247 L~p~~~~-lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F~~~~~~~~lp~Pai~kp~~LWTGKQi 325 (409)
++|..++ +..--++|..++. ++ |..++++ +++-+.+ .+. ....+.+.+|+|||++|.+|||||||
T Consensus 488 ~sp~~g~pi~~~~QD~l~g~~-----~l-t~~d~f~--~~~~~~~-l~~-----~~~~~~~~~~~pai~~p~~lwTGKqi 553 (882)
T PRK08566 488 LSPRYGGPIIGGIQDHISGAY-----LL-TRKSTLF--TKEEALD-LLR-----AAGIDELPEPEPAIENGKPYWTGKQI 553 (882)
T ss_pred ecCCCCCeeEEeehHHHHHHH-----HH-HhccccC--CHHHHHH-HHH-----hCCccccccCCcccCCCcccccHHHH
Confidence 4554444 3344455555554 23 3334444 4444444 222 23345678999999999999999999
Q ss_pred heeeccCCCCCCeeeeEeeeccccccc----ccCCcCCcE-EEEcCccccceEEEEechhhH
Q psy13848 326 FSLILKPNRDCPVNANLKTKGRAYTFK----FSIMVKDQF-RERNTACKISHVTFCVDSPTE 382 (409)
Q Consensus 326 fS~iLp~~~~~~~~lnl~~k~k~~~~~----~~~~~~d~~-~i~~g~~~~eL~~GviDk~~~ 382 (409)
||++||++ +|++.+.+.+.+. ..+|..|++ +|+|| ||++|+|||+++
T Consensus 554 ~s~~lp~~------~~~~~~~~~~~~~~~~~~~~~~~d~~v~i~~g----ell~g~ldK~~l 605 (882)
T PRK08566 554 FSLFLPKD------LNLEFKAKICSGCDECKKEDCEHDAYVVIKNG----KLLEGVIDKKAI 605 (882)
T ss_pred HHHHcCCC------CCceeeccccccccccccccCCCCceEEEecC----EEEeccccHHHh
Confidence 99999987 8888887765443 257889998 99999 999999999988
No 27
>PF04998 RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; InterPro: IPR007081 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, domain 5, represents the discontinuous cleft domain that is required to form the central cleft or channel where the DNA is bound [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1ZYR_D 1SMY_D 2A68_N 2O5J_D 3AOH_N 2O5I_D 2CW0_N 2A6H_N 2A69_D 3EQL_D ....
Probab=99.12 E-value=3.8e-12 Score=122.29 Aligned_cols=41 Identities=22% Similarity=0.334 Sum_probs=39.1
Q ss_pred CcccchhhhhhhhhheeeeccccccccccccccccccccCcchHHHHHHhhhcc
Q psy13848 246 NRLKIASELKSAYLVWRVAGSISARGELHPKQKTDKVRSRNGWLSSVLSSSLRF 299 (409)
Q Consensus 246 GL~p~~~~lk~e~~~h~~~gr~~~~gl~~ta~kt~~~tsrsGyl~r~L~~~l~F 299 (409)
||+| .|||||||+|| |||+|||+|| |++|||||||++.|+-
T Consensus 1 Gl~~------~e~f~~~~~~R---~gl~dta~kT----a~sGyl~R~lv~~~~~ 41 (277)
T PF04998_consen 1 GLTP------TEYFFHCMGGR---EGLIDTAVKT----ADSGYLQRRLVKVLED 41 (277)
T ss_dssp C-TH------HHHHHHHHHHH---HHHHHHHHCH----HHHHHHHHHHHHHHTT
T ss_pred CcCH------HHHHHHHhccc---ccccccceee----eccccchhhhhhccce
Confidence 8999 99999999999 9999999999 9999999999999987
No 28
>KOG0260|consensus
Probab=99.10 E-value=6.2e-11 Score=131.40 Aligned_cols=99 Identities=26% Similarity=0.248 Sum_probs=74.2
Q ss_pred cccccccccccCcchHHH-HHHhhhccccccCCCCCC-CCccccCCCcchhhhhheeeccCCCCCCeeeeEeeecccccc
Q psy13848 274 HPKQKTDKVRSRNGWLSS-VLSSSLRFREHETSVIIP-PPAIMKPKALWTGKQIFSLILKPNRDCPVNANLKTKGRAYTF 351 (409)
Q Consensus 274 ~ta~kt~~~tsrsGyl~r-~L~~~l~F~~~~~~~~lp-~Pai~kp~~LWTGKQifS~iLp~~~~~~~~lnl~~k~k~~~~ 351 (409)
||..-..++|-|..||.| ....+|++ -..|+...| +|||+||.+|||||||||+++|++ +|+......-..
T Consensus 518 DTLta~R~~t~Rd~Fl~r~~vmnLlm~-~p~~d~~~Pa~pai~Kp~PlWTGkQifsliiP~~------in~~r~~s~h~d 590 (1605)
T KOG0260|consen 518 DTLTAVRKMTKRDVFLNRAQVMNLLMY-VPDWDGPPPAKPAILKPKPLWTGKQIFSLIIPGG------INYIRDHSTHPD 590 (1605)
T ss_pred hhHHHHHHHhhHhhhhcHHHHHHHHhh-ccccCCCCCCCcccCCCCcccchhhheeeecCCC------cceecccccCcC
Confidence 344445667889999998 45544444 668999999 999999999999999999999998 777665443211
Q ss_pred cc--cCCcCCcE-EEEcCccccceEEEEechhhHH
Q psy13848 352 KF--SIMVKDQF-RERNTACKISHVTFCVDSPTEI 383 (409)
Q Consensus 352 ~~--~~~~~d~~-~i~~g~~~~eL~~GviDk~~~~ 383 (409)
.+ -..+.|+- +|.+| +|+.|++||+++=
T Consensus 591 ~~~~~~~p~dt~~lie~g----~l~~g~l~Kkt~G 621 (1605)
T KOG0260|consen 591 SEDELISPGDTRVLIEGG----ELLIGVLCKKTVG 621 (1605)
T ss_pred CCcccccCCCceEEEeCC----ceEEEEeeccccc
Confidence 11 12355555 99999 9999999999863
No 29
>PF04983 RNA_pol_Rpb1_3: RNA polymerase Rpb1, domain 3; InterPro: IPR007066 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, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1ZYR_D 1SMY_D 2A68_N 2O5J_D 3AOH_N 2O5I_D 2CW0_N 2A6H_N 2A69_D 3EQL_D ....
Probab=98.53 E-value=2.7e-08 Score=89.45 Aligned_cols=61 Identities=34% Similarity=0.419 Sum_probs=48.1
Q ss_pred CCCCCCCccccCCCcchhhhhheeeccCCCCCCeeeeEeeecccccccccCCcCCc-EEEEcCccccceEEEEechhhHH
Q psy13848 305 SVIIPPPAIMKPKALWTGKQIFSLILKPNRDCPVNANLKTKGRAYTFKFSIMVKDQ-FRERNTACKISHVTFCVDSPTEI 383 (409)
Q Consensus 305 ~~~lp~Pai~kp~~LWTGKQifS~iLp~~~~~~~~lnl~~k~k~~~~~~~~~~~d~-~~i~~g~~~~eL~~GviDk~~~~ 383 (409)
....|.|+|++|.++|||||+||.+||+. ++++... . |+.|. ++|++| ++++|++||+++-
T Consensus 50 ~~~~~~~~I~~~~~~~tgk~~~s~il~~~------i~~~~~~-~-------~~~~~~~~i~~g----~~l~g~l~k~~lg 111 (158)
T PF04983_consen 50 KIVLLHPAILKPKELWTGKQTFSRILPNE------INPEGFS-N-------DPDDGYVVINNG----ELLSGVLDKKTLG 111 (158)
T ss_dssp -CHCSSSSBSSSSSCEECHHHHHTTSHTT------HHEEEST-S-------CHSSHSEEECTS----SEEEC--SHHHHS
T ss_pred ceeccchhhhccccceeeccHHHHhcccc------ccccccc-c-------cccccceeecCC----ccchhheehheec
Confidence 36778999999999999999999999986 7777765 1 12234 499999 9999999999874
No 30
>COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]
Probab=97.02 E-value=0.00046 Score=77.44 Aligned_cols=76 Identities=21% Similarity=0.131 Sum_probs=52.1
Q ss_pred CCCCCCccccCCCcchhhhhheeeccCCCCCCeeeeEeeecccccccccCCcC--CcE-EEEcCccccceEEEEechhh-
Q psy13848 306 VIIPPPAIMKPKALWTGKQIFSLILKPNRDCPVNANLKTKGRAYTFKFSIMVK--DQF-RERNTACKISHVTFCVDSPT- 381 (409)
Q Consensus 306 ~~lp~Pai~kp~~LWTGKQifS~iLp~~~~~~~~lnl~~k~k~~~~~~~~~~~--d~~-~i~~g~~~~eL~~GviDk~~- 381 (409)
...++||+.+|..+|||||++|++++.+... ++......+.......+. |.+ .|.|+ +|++|+|||.+
T Consensus 481 ~~e~~~ai~~~~~~~~~k~i~~~i~~~~~~~----~i~~t~~~~~~~~~~~~~~~d~~~~i~~~----~l~~~~i~k~~~ 552 (808)
T COG0086 481 DREKAEAIAKKIELTTGKVIVSTISPDLAEL----SIIVTTDGRRIFNRGLPEDKDVLVKIVNG----KLIKGVIDKKIV 552 (808)
T ss_pred chhhhHHHhcccceeeeeEEEEEeeccCCcc----eEEEecchhhhhhccCCcccceeeEEecc----ccceeeehhhHH
Confidence 3457899999999999999999988876433 333333222211112222 566 89999 99999999999
Q ss_pred HHhhhcCC
Q psy13848 382 EIQQQSGP 389 (409)
Q Consensus 382 ~~~~~~~~ 389 (409)
.+....||
T Consensus 553 ~i~~~~g~ 560 (808)
T COG0086 553 TIYREYGP 560 (808)
T ss_pred HHHHHhCc
Confidence 55555665
No 31
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=96.75 E-value=0.00061 Score=83.24 Aligned_cols=33 Identities=15% Similarity=0.273 Sum_probs=28.8
Q ss_pred hhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 127 SKCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 127 ~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
-.|..|+|||++|+|..+...+.+...|+....
T Consensus 1841 lvC~~fNADFDGDqMnvHvPqS~eA~aEa~~LM 1873 (2890)
T PRK09603 1841 LVCSAFNADFDGDQMAVHVPLSQEAIAECKVLM 1873 (2890)
T ss_pred ccCCcccCCCCCceeEEeecCCHHHHHHHHHHh
Confidence 388999999999999999999988888876654
No 32
>PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=95.75 E-value=0.0033 Score=72.74 Aligned_cols=33 Identities=18% Similarity=0.282 Sum_probs=28.5
Q ss_pred hhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 127 SKCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 127 ~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
-.|..|+|||++|+|..+...+.+...|+....
T Consensus 442 lvC~~fNADFDGDqMnvHvPqS~eA~aEa~~Lm 474 (1156)
T PRK00566 442 LVCTAFNADFDGDQMAVHVPLSLEAQAEARVLM 474 (1156)
T ss_pred cccCccccccccceeEEecCCCHHHHHHHHHHh
Confidence 388999999999999999999988888876544
No 33
>TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form. Bacteria have a single DNA-directed RNA polymerase, with required subunits that include alpha, beta, and beta-prime. This model describes the predominant architecture of the beta-prime subunit in most bacteria. This model excludes from among the bacterial mostly sequences from the cyanobacteria, where RpoC is replaced by two tandem genes homologous to it but also encoding an additional domain.
Probab=90.66 E-value=0.076 Score=61.75 Aligned_cols=32 Identities=19% Similarity=0.288 Sum_probs=28.1
Q ss_pred hHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 128 KCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 128 kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
.|..|+|||++|+|..+...+.+...|+....
T Consensus 435 vC~~fNADFDGDeMnvHvPqS~eA~aEa~~Lm 466 (1140)
T TIGR02386 435 VCTAFNADFDGDQMAVHVPLSPEAQAEARALM 466 (1140)
T ss_pred ccCcccCCCCcceeEeecCCCHHHHHHHHHHh
Confidence 78999999999999999999988888876544
No 34
>PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional
Probab=88.32 E-value=0.2 Score=59.27 Aligned_cols=33 Identities=15% Similarity=0.281 Sum_probs=29.1
Q ss_pred hhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 127 SKCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 127 ~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
..|..|+|||++|+|..+...+.+...|+....
T Consensus 530 lvC~~fNADFDGDqMnvHvPqS~eA~aEa~~Lm 562 (1460)
T PRK14906 530 LVCTAFNADFDGDQMAVHVPLSTQAQAEARVLM 562 (1460)
T ss_pred cccCccccCCcCceeeeecCCCHHHHHHHHHHh
Confidence 489999999999999999999988888876654
No 35
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=87.59 E-value=0.55 Score=58.63 Aligned_cols=33 Identities=21% Similarity=0.339 Sum_probs=28.2
Q ss_pred hhHHHHHHHhhcCCCcCCCCCChhhHHHHHHHH
Q psy13848 127 SKCEGYIRAMESGRLQTQPGCSAEETLEAVILK 159 (409)
Q Consensus 127 ~kc~~~iadf~~GqLe~qpG~t~~EtLE~~v~~ 159 (409)
-.|..|+|||++|+|..+...+.+...|+....
T Consensus 1885 ~vC~~fNADFDGDeMnvHvPqS~eA~aEa~~Lm 1917 (2836)
T PRK14844 1885 LVCTAFNADFDGDQMAVHVPISLEAQLEARVLM 1917 (2836)
T ss_pred cCCCcccCCCCCceeeeecCCcHHHHHHHHHHh
Confidence 388999999999999999999988888875543
No 36
>KOG1594|consensus
Probab=51.91 E-value=6.7 Score=39.19 Aligned_cols=28 Identities=29% Similarity=0.688 Sum_probs=23.0
Q ss_pred CCCCCCCccccCCCcchhhhhheeeccC
Q psy13848 305 SVIIPPPAIMKPKALWTGKQIFSLILKP 332 (409)
Q Consensus 305 ~~~lp~Pai~kp~~LWTGKQifS~iLp~ 332 (409)
...+-.|.+++|-+=|+|+|++|.+...
T Consensus 273 ~a~v~~pI~L~PG~eW~g~q~Lsiv~s~ 300 (305)
T KOG1594|consen 273 SAAVESPITLKPGEEWKGRQLLSIVPSS 300 (305)
T ss_pred ccccCCceeecCCccceeEEEEEEeecc
Confidence 3346678899999999999999987654
No 37
>PF15278 Sec3_C_2: Sec3 exocyst complex subunit
Probab=38.05 E-value=17 Score=29.70 Aligned_cols=38 Identities=18% Similarity=0.224 Sum_probs=29.4
Q ss_pred HHHHHHHHhhhh--hcCCCCCcchhhhhcCCCcchhhHHH
Q psy13848 162 SVIRDHAGKACL--QELHPSNGPLVMALSGSKGSFINISQ 199 (409)
Q Consensus 162 n~~~~~~g~~~~--~~l~p~N~~~~M~~sGsKGS~~Ni~Q 199 (409)
..+.+...+.+. +.++..-+++.|..||+-|..+|+-|
T Consensus 45 ~~i~~~L~D~~~GC~si~STiNL~S~~LS~~L~~VIN~EQ 84 (86)
T PF15278_consen 45 QNIQSQLQDCIAGCDSIFSTINLFSMSLSTVLNDVINMEQ 84 (86)
T ss_pred HHHHHHHHHHHhhHHHHHhHHHHHHHHHHHHhhccccccc
Confidence 445555555554 46777888999999999999999876
No 38
>KOG0680|consensus
Probab=21.75 E-value=47 Score=34.42 Aligned_cols=39 Identities=41% Similarity=0.673 Sum_probs=29.1
Q ss_pred CCCCcccccchHHHHHHcCC-CceeccccHHHHHHHHHc-----CCCCCCCc
Q psy13848 69 PNLQIYQVGIPEHVAKILTY-PERVHHANKEHLKQLVLN-----GPDKHPGL 114 (409)
Q Consensus 69 P~L~~~evgiP~~~a~~lt~-pe~v~~~N~~~l~~lv~n-----g~~~~pGa 114 (409)
..+.|.|+|||..++..++- ||.+-+. |+.| |...+||-
T Consensus 289 sdi~I~q~GIpEAV~esl~~~Pe~~~p~-------l~~NIv~iGGn~~fPgF 333 (400)
T KOG0680|consen 289 SDIGIQQPGIPEAVLESLSMLPEEVRPL-------LLENIVCIGGNSNFPGF 333 (400)
T ss_pred hhcCcccCCchHHHHHHHHhCHHHHHHH-------HHhcEEEecCccCCcch
Confidence 45789999999999988875 7755442 5555 67788874
Done!