Query psy3023
Match_columns 392
No_of_seqs 137 out of 1630
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 23:34:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3023.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3023hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0260|consensus 100.0 3.4E-93 7.4E-98 732.5 21.0 364 5-392 7-378 (1605)
2 PRK14977 bifunctional DNA-dire 100.0 1.1E-90 2.5E-95 757.8 25.9 351 8-392 4-371 (1321)
3 TIGR02390 RNA_pol_rpoA1 DNA-di 100.0 1.7E-90 3.7E-95 740.2 25.8 342 11-392 2-357 (868)
4 PRK08566 DNA-directed RNA poly 100.0 4.1E-90 8.9E-95 739.2 25.8 344 9-392 5-361 (882)
5 KOG0261|consensus 100.0 1.6E-83 3.5E-88 649.9 17.4 364 11-392 11-400 (1386)
6 KOG0262|consensus 100.0 2.8E-81 6E-86 647.2 16.2 372 11-392 11-490 (1640)
7 COG0086 RpoC DNA-directed RNA 100.0 4.7E-72 1E-76 589.6 16.2 321 12-392 4-331 (808)
8 PF04997 RNA_pol_Rpb1_1: RNA p 100.0 1.9E-69 4.1E-74 526.8 14.1 321 11-346 2-337 (337)
9 TIGR02386 rpoC_TIGR DNA-direct 100.0 7.7E-63 1.7E-67 526.9 14.8 321 15-387 1-365 (1140)
10 PRK00566 DNA-directed RNA poly 100.0 4.6E-58 9.9E-63 490.8 15.1 323 12-387 6-373 (1156)
11 PRK02625 rpoC1 DNA-directed RN 100.0 6.9E-55 1.5E-59 438.0 14.2 330 11-387 7-391 (627)
12 TIGR02387 rpoC1_cyan DNA-direc 100.0 1.7E-53 3.7E-58 427.4 17.7 330 13-387 2-384 (619)
13 PRK14906 DNA-directed RNA poly 100.0 5.7E-52 1.2E-56 444.4 17.9 145 242-387 312-461 (1460)
14 CHL00018 rpoC1 RNA polymerase 100.0 7.5E-53 1.6E-57 427.2 9.9 338 11-387 5-412 (663)
15 PRK14844 bifunctional DNA-dire 100.0 3.3E-51 7.2E-56 454.7 13.6 327 11-388 1446-1817(2836)
16 PRK09603 bifunctional DNA-dire 100.0 2.3E-50 5.1E-55 449.4 13.0 327 10-388 1393-1773(2890)
17 smart00663 RPOLA_N RNA polymer 100.0 4.9E-44 1.1E-48 337.7 9.1 148 243-392 1-153 (295)
18 TIGR01623 put_zinc_LRP1 putati 50.7 5.3 0.00012 26.4 0.1 20 63-82 15-35 (43)
19 TIGR00357 methionine-R-sulfoxi 46.8 6.2 0.00013 33.3 -0.1 25 54-85 80-104 (134)
20 KOG0856|consensus 45.3 9.3 0.0002 32.2 0.7 14 65-85 105-118 (146)
21 PF05864 Chordopox_RPO7: Chord 44.9 19 0.00041 25.5 2.1 19 98-116 28-46 (63)
22 PHA03082 DNA-dependent RNA pol 38.4 22 0.00048 25.1 1.6 19 98-116 28-46 (63)
23 PF14754 IFR3_antag: Papain-li 35.6 6.4 0.00014 33.8 -1.7 29 61-89 36-68 (249)
24 PF02044 Bombesin: Bombesin-li 34.4 12 0.00027 18.5 -0.1 7 344-350 7-13 (14)
25 PF06463 Mob_synth_C: Molybden 33.7 21 0.00045 29.8 1.1 33 73-117 51-83 (128)
26 PRK00222 methionine sulfoxide 30.2 17 0.00036 31.0 -0.1 9 76-84 98-106 (142)
27 COG5417 Uncharacterized small 29.5 41 0.00088 25.3 1.8 20 80-101 16-35 (81)
28 KOG0466|consensus 27.0 40 0.00086 32.7 1.8 16 64-79 110-135 (466)
29 COG1579 Zn-ribbon protein, pos 25.5 30 0.00065 32.2 0.7 42 57-116 192-234 (239)
30 COG2023 RPR2 RNase P subunit R 25.3 14 0.0003 29.7 -1.3 19 99-117 52-70 (105)
31 PF15288 zf-CCHC_6: Zinc knuck 24.0 35 0.00075 22.5 0.6 20 65-92 3-24 (40)
32 TIGR02986 restrict_Alw26I type 22.9 42 0.00091 33.4 1.2 50 54-115 234-288 (424)
33 COG5082 AIR1 Arginine methyltr 22.8 49 0.0011 29.6 1.5 17 61-77 58-77 (190)
34 PF12234 Rav1p_C: RAVE protein 20.6 61 0.0013 34.7 1.9 23 11-33 116-138 (631)
35 TIGR02579 cas_csx3 CRISPR-asso 20.1 34 0.00073 26.3 -0.0 38 21-58 12-64 (83)
No 1
>KOG0260|consensus
Probab=100.00 E-value=3.4e-93 Score=732.49 Aligned_cols=364 Identities=63% Similarity=1.009 Sum_probs=341.8
Q ss_pred CCCCCccccceEEEecCCHHHHHHhhhcccceeCcccccCCccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEee
Q psy3023 5 DSKAPLRCVKKVQFGILSPDEIRRMSVTEGGIKFPETMEGGRPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHID 84 (392)
Q Consensus 5 ~~~~~~~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~~~~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~ 84 (392)
.+++|-++|++|+||++|++|||+|||.+ |..|++++.|.|..|||.|||||+.|+...|.|||.++.+||||||||+
T Consensus 7 ~~~~pl~~v~~vqFgi~spdeir~mSV~~--i~~~e~~e~~~pk~ggl~D~RlG~idr~~~CqTC~g~~~~CpGHFGhie 84 (1605)
T KOG0260|consen 7 FSQAPLRTVKSVQFGILSPDEIRRMSVAE--IEFPETMEGGRPKLGGLMDPRLGTIDRDSLCQTCGGNMFECPGHFGHIE 84 (1605)
T ss_pred cccCcceeeeEEEeeccChhhhhcceeEE--eecccccccCCCCcCCccccccCCCCccchhhhhccccccCCcccceee
Confidence 46899999999999999999999999999 9999999999999999999999999999999999999999999999999
Q ss_pred cCcchhhhhcHHHHHHHHHHhhhcccccccCCCchHHHHHHHhhhcchHHHHHHHHHHhhccccCCCCCCCCcCCCCCCC
Q psy3023 85 LAKPVFHVGFVTKTIKILRCVCFYCSKLLVSPSHPKVRDVVLKTKGQSRRRQAFIYDLCKGKNICEGGDEMDINKDGAED 164 (392)
Q Consensus 85 L~~PV~hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~ 164 (392)
||.|||||+|++++.+||+|+|++|+++++++..+..++.++.... .++++..++.+|+.+..|+...+.+.
T Consensus 85 LAkPvfH~gFl~kv~kiL~cVC~~C~ki~~~~~~~~~~~~~~~~~~-~k~rl~~v~~vck~k~~ce~g~~~e~------- 156 (1605)
T KOG0260|consen 85 LAKPVFHPGFLKKVKKILRCVCFYCSKILKDKFNPKEDQILRKRYC-SKGRLLMVLDVCKGKVVCEGGIDVES------- 156 (1605)
T ss_pred eccccccHHHHHHHHHHHHHhhhcchheeecccCcchhhhhhhhcC-CcchHHHHHHhhccceeeeccccccc-------
Confidence 9999999999999999999999999999999988877777775544 77899999999999999976433221
Q ss_pred ccccccCCCCCCCCCCCCCccccccceeeeEeeccccccccccccCChHHHHHhhcC-CCCCccc--ccccccccCCCCC
Q psy3023 165 PNSLQNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQEKKIPLTGKGVLLNKKQ-GHGGCGR--YQPNIRRSGLDLT 241 (392)
Q Consensus 165 ~~~~~~~~~~~~~C~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~p~~v~~i~k~-~~~d~~l--l~p~~~~~~l~~~ 241 (392)
..+.+|+..+|.|++.+.+++++|+..+++.++.+..+++++|.++|++ +++|+.. +++.|++
T Consensus 157 --------~g~sgcg~kqP~i~r~gl~l~a~~k~~~e~~~e~k~~ls~e~V~~i~k~Isded~~~lg~~~~~ar------ 222 (1605)
T KOG0260|consen 157 --------DGRSGCGLKQPSIRRLGLDLWAFWKQGDEDSQESKRKLSAERVLEIFKRISDEDIDQLGFKPKIAR------ 222 (1605)
T ss_pred --------cccccccccCCceeccCchhhhhhhccCccCCcccccCcHHHHHHHHHhhchhhhhhhcCCCCcCC------
Confidence 1467999999999999999999999978888888999999999999999 9999887 8899999
Q ss_pred CcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCC
Q psy3023 242 AEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPG 316 (392)
Q Consensus 242 p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~ 316 (392)
|+||||++||| ||+++++|..+.+||+|++|.+||+.|..|++.+++|++++++.+...+||.+|++|+||+.+|
T Consensus 223 pewmIlTvLPVPP~~vrP~iv~~~s~rg~DdlthkLadIiK~n~~l~r~e~~ga~~H~i~e~~~LlqfhVat~~Dn~~pg 302 (1605)
T KOG0260|consen 223 PEWMILTVLPVPPPAVRPEIVMQGSARGEDDLTHKLADIIKKNIGLKRNEENGAPAHIIEEYEQLLQFHVATYVDNDIPG 302 (1605)
T ss_pred CceeEEEEecCCCCcccceeeecccccCcchhHHHHHHHHHHHHHHhhhhhcCCchhhHHHHHhHhhhhhhheecccccC
Confidence 99999999965 8888888888899999999999999999999999999999999999999999999999999999
Q ss_pred CccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCccccCCCCC
Q psy3023 317 LPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVTPFNMD 392 (392)
Q Consensus 317 ~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt~~Ni~ 392 (392)
.|++.+++++|+++|++||+|||||+|+|||||||||||||||||||||++||||||..||++|||||.||+||++
T Consensus 303 qp~a~qksGrplkSi~arlKgkegriRgnLmGKRvDFSaRTVItgDPnl~ldevGVP~sIAk~lTfpE~Vtp~Nid 378 (1605)
T KOG0260|consen 303 QPQADQKSGRPLKSISARLKGKEGRIRGNLMGKRVDFSARTVITGDPNLSLDEVGVPRSIAKRLTFPEHVTPFNID 378 (1605)
T ss_pred CcccccccCCcccchhhhhccccchhhhcccccccCcceeeeecCCCCcchhcccCcHHHHhhccCcceeccccHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999985
No 2
>PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional
Probab=100.00 E-value=1.1e-90 Score=757.85 Aligned_cols=351 Identities=36% Similarity=0.625 Sum_probs=293.1
Q ss_pred CCccccceEEEecCCHHHHHHhhhcccceeCcccccC-CccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEeecC
Q psy3023 8 APLRCVKKVQFGILSPDEIRRMSVTEGGIKFPETMEG-GRPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHIDLA 86 (392)
Q Consensus 8 ~~~~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~~-~~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L~ 86 (392)
.+.++|++|+|++||+|||+++||++ |+++.+||. |+|++|||||||||+.+++..|+|||++..+||||||||||+
T Consensus 4 ~~~~~I~~I~Fg~~S~eeIrk~Sv~~--It~~~~~d~~g~P~~gGl~DprlG~~d~~~~C~TCg~~~~~CpGHFGHIELa 81 (1321)
T PRK14977 4 LAVKAIDGIIFGLISPADARKIGFAE--ITAPEAYDEDGLPVQGGLLDGRLGTIEPGQKCLTCGNLAANCPGHFGHIELA 81 (1321)
T ss_pred CccceeceEEEecCCHHHHHHhCeEE--EecccccCCCCCcCCCCCCccccCCCCCCCCCCCCCCCCCcCCCeeEEEEcc
Confidence 45689999999999999999999999 999999985 999999999999999999999999999999999999999999
Q ss_pred cchhhhhcHHHHHHHHHHhhhcccccccCCCchHHHHHHHhh----hcchHHHHH-HHHHHhhc--cccCCCCCCCCcCC
Q psy3023 87 KPVFHVGFVTKTIKILRCVCFYCSKLLVSPSHPKVRDVVLKT----KGQSRRRQA-FIYDLCKG--KNICEGGDEMDINK 159 (392)
Q Consensus 87 ~PV~hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~~~~~~~~~----~~~~~~~~~-~i~~~~~~--~~~c~~~~~~~~~~ 159 (392)
+|||||+||+.+++||+|+|++|+++++++++.+....+... .....+++. .+.+.... ...|
T Consensus 82 ~PVfHpgf~k~i~~iLr~iC~~C~rlll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------- 151 (1321)
T PRK14977 82 EPVIHIAFIDNIKDLLNSTCHKCAKLKLPQEDLNVFKLIEEAHAAARDIPEKRIDDEIIEEVRDQVKVYA---------- 151 (1321)
T ss_pred CCceecccHHHHHHHHHHHHHHhchhhcCcccHHHHHHHHHHhhhcccchhhhhhHHHHHHHHhhhhhhh----------
Confidence 999999999999999999999999999998765543222211 011112211 11111000 0001
Q ss_pred CCCCCccccccCCCCCCCCCCCCCccccccceeeeEeeccccccccccccCChHHHHHhhcC-CCCCccc--cccccccc
Q psy3023 160 DGAEDPNSLQNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQEKKIPLTGKGVLLNKKQ-GHGGCGR--YQPNIRRS 236 (392)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~p~~v~~i~k~-~~~d~~l--l~p~~~~~ 236 (392)
.+.+.|++|++.++.++..+.... +.. .+.....|+|++|+++|++ |++|+++ ++|...+
T Consensus 152 ----------k~~~~C~~C~~~~~~i~~~~~~~~--~~~----~~~~~~~l~p~~v~~if~~i~~~d~~llg~~~~~~~- 214 (1321)
T PRK14977 152 ----------KKAKECPHCGAPQHELEFEEPTIF--IEK----TEIEEHRLLPIEIRDIFEKIIDDDLELIGFDPKKAR- 214 (1321)
T ss_pred ----------ccCCcCCCCCCCCCeEEEeeceee--eec----ccccCcccCHHHHHHHHHhcCHHHHHHhCCCCCCCC-
Confidence 123578899999988865321111 111 1122358999999999999 9999988 5565566
Q ss_pred CCCCCCcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhcc
Q psy3023 237 GLDLTAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTD 311 (392)
Q Consensus 237 ~l~~~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d 311 (392)
|+||||++||| ||++.++++..+|||||++|.+||+.|+.|++....|++...+.+.|..||.+|+.|+|
T Consensus 215 -----p~~~il~~lpVpP~~~RP~v~~~~~~~~eddlt~~l~~Ii~~N~~l~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d 289 (1321)
T PRK14977 215 -----PEWAVLQAFLVPPLTARPSIILETGERSEDDLTHILVDIIKANQKLKESKDAGAPPLIVEDEVDHLQYHTSTFFD 289 (1321)
T ss_pred -----cceEEEeccccCCCCCcCcEEeCCCcccCCcHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhc
Confidence 99999999965 88888877667899999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccccc-CCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCccccCCC
Q psy3023 312 NDMPGLPRAMQK-SGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVTPFN 390 (392)
Q Consensus 312 ~~~~~~~~~~~~-~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt~~N 390 (392)
|+.++.|.+.++ +++|++||+|||+||+||||+|||||||||||||||||||||++||||||..||++|||||+||+||
T Consensus 290 n~~~~~~~~~~~~~~rp~k~i~qrLkgKeGrfR~nlmGKRVdfSaRtVIspDP~L~i~EVGvP~~iA~~LT~Pe~Vt~~N 369 (1321)
T PRK14977 290 NATAGIPQAHHKGSGRPLKSLFQRLKGKEGRFRGNLIGKRVDFSARTVISPDPMIDIDEVGVPEAIAMKLTIPEIVNENN 369 (1321)
T ss_pred ccccCCCccccccCCCchhHHHHHhccccccccccccccccccccceeEeCCCCcccccccCHHHHHHhCCCCEEEchhh
Confidence 999988776554 6789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CC
Q psy3023 391 MD 392 (392)
Q Consensus 391 i~ 392 (392)
++
T Consensus 370 i~ 371 (1321)
T PRK14977 370 IE 371 (1321)
T ss_pred HH
Confidence 74
No 3
>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=1.7e-90 Score=740.19 Aligned_cols=342 Identities=42% Similarity=0.716 Sum_probs=290.4
Q ss_pred cccceEEEecCCHHHHHHhhhcccceeCccccc-CCccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEeecCcch
Q psy3023 11 RCVKKVQFGILSPDEIRRMSVTEGGIKFPETME-GGRPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHIDLAKPV 89 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~-~~~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L~~PV 89 (392)
++|++|+|++||+|||+++||++ |+++.+|| .|+|++|||||||||+++++..|+|||++..+||||||||||++||
T Consensus 2 ~~I~~I~F~~~S~eEI~k~Sv~~--It~~~~~d~~g~P~~gGL~D~RLG~~~~~~~C~TCg~~~~~CpGHFGhIeL~~PV 79 (868)
T TIGR02390 2 KKIGSIKFGLLSPEEIRKMSVVE--VVTADTYDDDGYPIEGGLMDPRLGVIEPGLRCKTCGGKVGECPGHFGHIELARPV 79 (868)
T ss_pred ceeeEEEEeCCCHHHHHHhCeeE--EecccccCCCCCcCCCCccCcccCCCCCCCCCCCCCCCCCcCCCcceEEeccccc
Confidence 67999999999999999999999 99999998 4999999999999999999999999999999999999999999999
Q ss_pred hhhhcHHHHHHHHHHhhhcccccccCCCchH-HHHHHHhhhcc---h-HHHHHHHHHHhhccccCCCCCCCCcCCCCCCC
Q psy3023 90 FHVGFVTKTIKILRCVCFYCSKLLVSPSHPK-VRDVVLKTKGQ---S-RRRQAFIYDLCKGKNICEGGDEMDINKDGAED 164 (392)
Q Consensus 90 ~hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~-~~~~~~~~~~~---~-~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~ 164 (392)
|||+||+.+++||+|+|++|++|++++++.+ +...+...+.. . ++.++++.+.|++
T Consensus 80 fhpgf~~~i~kiL~~vC~~C~rll~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~i~~~~~~------------------- 140 (868)
T TIGR02390 80 VHVGFAKEIYKILRATCRKCGRITLTEEEIEQYLEKINKLKEEGGDLASTLIEKIVKEAAK------------------- 140 (868)
T ss_pred cchhHHHHHHHHHHHHhhhcCceeeCccccHHHHHHHHhcccchhhhHHHHHHHHHHHhhc-------------------
Confidence 9999999999999999999999999876543 22222211110 0 1223333333321
Q ss_pred ccccccCCCCCCCCCCCCCccccccceeeeEeeccccccccccccCChHHHHHhhcC-CCCCccc--ccccccccCCCCC
Q psy3023 165 PNSLQNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQEKKIPLTGKGVLLNKKQ-GHGGCGR--YQPNIRRSGLDLT 241 (392)
Q Consensus 165 ~~~~~~~~~~~~~C~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~p~~v~~i~k~-~~~d~~l--l~p~~~~~~l~~~ 241 (392)
.+.|++|++.+|.|++.+. ...+.. .++....|+|++|+++|++ |++|+++ ++|...+
T Consensus 141 -------~~~C~~Cg~~~p~ir~~~~--~~~~~~----~~~~~~~L~p~~v~~ilk~I~~eD~~lLG~~p~~~~------ 201 (868)
T TIGR02390 141 -------RMKCPHCGEEQKKIKFEKP--TYFYEE----GKEGDVKLTPSEIRERLEKIPDEDAELLGINPKVAR------ 201 (868)
T ss_pred -------CCCCCCCCCcCceEEEeee--eeeeec----cCCCCeecCHHHHHHHHHhCCHHHHHHhCCCCCCCC------
Confidence 2457889999998876532 112211 1223457999999999999 9999988 5666666
Q ss_pred CcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCC
Q psy3023 242 AEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPG 316 (392)
Q Consensus 242 p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~ 316 (392)
|+||||++||| ||++.++++..+|||||++|.+||+.|+.|++....|++...+.+.|..||.+|+.|+||+.++
T Consensus 202 Pe~~ilt~LPVPP~~iRPsv~~~~g~~~EDDLT~~L~~II~~N~~Lk~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~ 281 (868)
T TIGR02390 202 PEWMVLTVLPVPPVTVRPSITLETGERSEDDLTHKLVDIIRINQRLKENIEAGAPQLIIEDLWELLQYHVATYFDNELPG 281 (868)
T ss_pred cceeeEeccccCCCCCcCeEEeCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCchhhhHHHHHHHHHHHHHHHcCCCCC
Confidence 99999999965 8888887666789999999999999999999988889888888889999999999999999988
Q ss_pred CccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCccccCCCCC
Q psy3023 317 LPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVTPFNMD 392 (392)
Q Consensus 317 ~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt~~Ni~ 392 (392)
.+.+..++++|++||+|||+||+||||+|||||||||||||||||||||++||||||..||++|||||+||+||++
T Consensus 282 ~~~~~~~~~~~~~~i~~~l~gK~G~~R~nl~GKRvd~s~RsVI~pdp~l~~~evGvP~~~A~~Lt~pe~Vt~~N~~ 357 (868)
T TIGR02390 282 IPPARHRSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPNISINEVGVPEQIAKELTVPERVTPWNID 357 (868)
T ss_pred CCccccCCCCCchhhHhhhcccccccccccccccccccCCceeeCCCCCcCCeeeCcHHHHHhCCCCeEEehhhHH
Confidence 7665555678999999999999999999999999999999999999999999999999999999999999999974
No 4
>PRK08566 DNA-directed RNA polymerase subunit A'; Validated
Probab=100.00 E-value=4.1e-90 Score=739.25 Aligned_cols=344 Identities=42% Similarity=0.682 Sum_probs=293.1
Q ss_pred CccccceEEEecCCHHHHHHhhhcccceeCccccc-CCccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEeecCc
Q psy3023 9 PLRCVKKVQFGILSPDEIRRMSVTEGGIKFPETME-GGRPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHIDLAK 87 (392)
Q Consensus 9 ~~~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~-~~~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L~~ 87 (392)
+.++|++|+|++||+|||+++||++ |+++.+|| .|+|+.|||||||||+++++..|+|||++..+||||||||||++
T Consensus 5 ~~~~I~~I~F~~~S~eEI~klSv~~--It~~~~~d~~g~P~~gGL~D~RLG~~~~~~~C~TCg~~~~~CPGHFGhIeL~~ 82 (882)
T PRK08566 5 IPKRIGSIKFGLLSPEEIRKMSVTK--IITADTYDDDGYPIDGGLMDPRLGVIDPGLRCKTCGGRAGECPGHFGHIELAR 82 (882)
T ss_pred CceeeeeEEEecCCHHHHHHhCeEE--EecccccCCCCCcCCCCCCCcccCCCCCCCCCCCCCCCCCcCCCcceEEeccc
Confidence 4578999999999999999999999 99999998 49999999999999999999999999999999999999999999
Q ss_pred chhhhhcHHHHHHHHHHhhhcccccccCCCchH-HHHHHHhhhc---chHHHHHHHHHHhhccccCCCCCCCCcCCCCCC
Q psy3023 88 PVFHVGFVTKTIKILRCVCFYCSKLLVSPSHPK-VRDVVLKTKG---QSRRRQAFIYDLCKGKNICEGGDEMDINKDGAE 163 (392)
Q Consensus 88 PV~hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~-~~~~~~~~~~---~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~ 163 (392)
|||||+||+.+++||+|+|++|+++++++.+.+ +...++.... ..++.++++.+.|++.
T Consensus 83 PVfhpgf~~~v~~iL~~iC~~C~rll~~~~~~~~~~~~l~~~~~~~~~~~~l~k~i~k~~k~~----------------- 145 (882)
T PRK08566 83 PVIHVGFAKLIYKLLRATCRECGRLKLTEEEIEEYLEKLERLKEWGSLADDLIKEVKKEAAKR----------------- 145 (882)
T ss_pred cccchhHHHHHHHHHHHhhhhhCceeccccchHHHHHHHhchhhhhhhHHHHHHHHHHHhcCC-----------------
Confidence 999999999999999999999999999987543 2221221110 1123344555554422
Q ss_pred CccccccCCCCCCCCCCCCCccccccceeeeEeeccccccccccccCChHHHHHhhcC-CCCCccc--ccccccccCCCC
Q psy3023 164 DPNSLQNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQEKKIPLTGKGVLLNKKQ-GHGGCGR--YQPNIRRSGLDL 240 (392)
Q Consensus 164 ~~~~~~~~~~~~~~C~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~p~~v~~i~k~-~~~d~~l--l~p~~~~~~l~~ 240 (392)
.+|++|+..+++|+..+. ...|... .+.+..++|++|+++|++ |++|+.+ ++|...+
T Consensus 146 ---------~~C~~Cg~~~~ki~~~~~--~~~~~~~----~~~~~~L~p~~V~~ilk~I~~eD~~lLg~~~~~~~----- 205 (882)
T PRK08566 146 ---------MVCPHCGEKQYKIKFEKP--TTFYEER----KEGLVKLTPSDIRERLEKIPDEDLELLGINPEVAR----- 205 (882)
T ss_pred ---------CCCCCcCCCCceEEEecc--eeEEEec----CCCceeCCHHHHHHHHHhCCHHHHHHhCCCCCCCC-----
Confidence 357788888888876432 2223221 123468999999999999 9999988 4666667
Q ss_pred CCcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCC
Q psy3023 241 TAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMP 315 (392)
Q Consensus 241 ~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~ 315 (392)
|+||||++||| ||++.++++...|||||.+|.+||+.|+.|++....|++...+.+.|..||.+|+.|+||+.+
T Consensus 206 -Pe~~il~~lPVpP~~iRPsv~~~~g~~~eDDLT~~L~~II~~N~~Lk~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~ 284 (882)
T PRK08566 206 -PEWMVLTVLPVPPVTVRPSITLETGQRSEDDLTHKLVDIIRINQRLKENIEAGAPQLIIEDLWELLQYHVTTYFDNEIP 284 (882)
T ss_pred -cceeEEeeeecCCCCCcCcEEeCCCcccCchHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhcCCcc
Confidence 99999999965 888888776678999999999999999999998888888888889999999999999999998
Q ss_pred CCccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCccccCCCCC
Q psy3023 316 GLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVTPFNMD 392 (392)
Q Consensus 316 ~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt~~Ni~ 392 (392)
+.+.+..++++|++||+|||+||+||||+|||||||||||||||||||||++||||||..||++|||||+||+||++
T Consensus 285 ~~~~~~~~~~~~~~~i~~~l~gK~G~fR~nl~GKRvd~s~RsVI~pdp~l~~~evGvP~~~A~~Lt~pe~v~~~N~~ 361 (882)
T PRK08566 285 GIPPARHRSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPNLSINEVGVPEAIAKELTVPERVTEWNIE 361 (882)
T ss_pred CCcccccCCCCCccchHHhcccCCCccccccccccccCcCCceeeCCCCCcCCeeeCcHHHHHhCCCCeEEchhhHH
Confidence 87655555678999999999999999999999999999999999999999999999999999999999999999974
No 5
>KOG0261|consensus
Probab=100.00 E-value=1.6e-83 Score=649.95 Aligned_cols=364 Identities=36% Similarity=0.560 Sum_probs=302.9
Q ss_pred cccceEEEecCCHHHHHHhhhcccceeCcccccC--C-ccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEeecCc
Q psy3023 11 RCVKKVQFGILSPDEIRRMSVTEGGIKFPETMEG--G-RPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHIDLAK 87 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~~--~-~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L~~ 87 (392)
.+|++|+||+.|++||++.+++| |.+...|+. + .|.++|++|||||++++...|+|||.+..+|+|||||++|++
T Consensus 11 kki~~i~F~~~s~~ei~~~a~v~--v~~~~LY~~~~~~~P~~~G~LD~rMGvs~K~~~C~TCg~~la~C~GHfGy~~L~L 88 (1386)
T KOG0261|consen 11 KKIKHIQFSILSPEEIRQQAEVE--VSSKDLYDISTQRAPLPNGPLDPRMGVSNKKDKCATCGEGLADCIGHFGYLKLAL 88 (1386)
T ss_pred ceeeeEeeccCCHHHHHhcceEE--eeccchhhhhcccCCCcCCCcCcccCCCCCCCccchhccchhhcccccceEeecc
Confidence 89999999999999999999999 999889973 3 499999999999999999999999999999999999999999
Q ss_pred chhhhhcHHHHHHHHHHhhhcccccccCCCchHHHH-HHH-hhhcchHH--HHHHHHHHhhccccCCCCCCCCcCCCCCC
Q psy3023 88 PVFHVGFVTKTIKILRCVCFYCSKLLVSPSHPKVRD-VVL-KTKGQSRR--RQAFIYDLCKGKNICEGGDEMDINKDGAE 163 (392)
Q Consensus 88 PV~hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~~~~-~~~-~~~~~~~~--~~~~i~~~~~~~~~c~~~~~~~~~~~~~~ 163 (392)
||||+|||+.++.||+|||+.|+++++++++.+++. -++ +...+.++ .++.+.+.|++.+.|.+|+..|+.+++..
T Consensus 89 PVFhiGyfk~ti~iLq~ICK~Cs~ilL~~~~k~~fl~~lr~p~~~~l~k~~l~kri~~~CkK~~~C~hCg~~NG~VKK~~ 168 (1386)
T KOG0261|consen 89 PVFHIGYFKATIQILQCICKNCSSILLSEEDKRQFLKKLRNPGLDNLRKKALLKRIVAKCKKVNTCSHCGALNGTVKKAA 168 (1386)
T ss_pred eeeeehhHHHHHHHHHHHHHhhhhhhcCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHhhccccccccCCcCceeeccc
Confidence 999999999999999999999999999987655322 122 22222222 25789999999999999999999887743
Q ss_pred CccccccCCCCCCCCC---CCCCccccccceeeeEeeccccccccc-------cccCChHHHHHhhcC-CCCCccc--cc
Q psy3023 164 DPNSLQNKKQGHGGCG---RYQPNIRRSGLDLTAEWKHVNEDSQEK-------KIPLTGKGVLLNKKQ-GHGGCGR--YQ 230 (392)
Q Consensus 164 ~~~~~~~~~~~~~~C~---~~~~~i~~~~~~~~~~~~~~~~~~~~~-------~~~l~p~~v~~i~k~-~~~d~~l--l~ 230 (392)
. ..++.|+... +..|.+ ..+..+|+...+.+++. ...|.|..|+++|++ .+.||++ ++
T Consensus 169 ~-----~lkIiHd~~~~~~k~~~~~----~~~~~~~~~~~~~n~e~~~~~~~~~~~LnPl~vLnLFk~i~~~D~eLLg~~ 239 (1386)
T KOG0261|consen 169 A-----LLKIIHDRFKLVKKSDPLV----TNERGEFKTAISHNKELEGHLSSCCEELNPLVVLNLFKQIKEDDCELLGMD 239 (1386)
T ss_pred c-----ceeEeeehhhccccccchh----hhhHHHHHHHhhcCcchHhHHHHHHhhcChHHHHHHHhhCCccccceeeec
Confidence 2 0112221000 000100 12233444332222221 236899999999999 9999999 66
Q ss_pred ccccccCCCCCCcccccccc-----cCCceeeecC-CcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHH
Q psy3023 231 PNIRRSGLDLTAEWKHVNED-----SQEKKIPLTG-KGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQF 304 (392)
Q Consensus 231 p~~~~~~l~~~p~~~il~~l-----~VRP~~~~~~-~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~ 304 (392)
+...+ |+.+|++.+ |+|||+++++ .+.+|||+|+++.+||..|..|++....|++...++|+|+.||.
T Consensus 240 ~~~~~------P~~Li~t~~~vPP~cIRPSV~~~~k~gtnEDDlT~KltEIi~tn~vik~~~~~g~~~~~imE~Wd~lQl 313 (1386)
T KOG0261|consen 240 SEEGR------PENLIITRVPVPPVCIRPSVMSEDKAGTNEDDLTMKLTEIILTNDVIKKHLSKGTPINLIMEDWDFLQL 313 (1386)
T ss_pred cCcCC------chheEEEeccCCccccccceeecCCCCCCccchhhhhhhhhhHHHHHHHHhhcCCCchhhhhhhHHHHH
Confidence 65566 999999988 5699999977 56789999999999999999999999999999999999999999
Q ss_pred HHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCc
Q psy3023 305 HVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPE 384 (392)
Q Consensus 305 ~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe 384 (392)
.|+.||+|+++|.+..+.. ++|++|+.|||+||+||||+||.|||||||+||||||||||.|||||||..+|+.|||||
T Consensus 314 ~~AlyINSEl~g~~~~~~p-~kp~RGf~QRLKGKqGRFRgNLSGKRVDFSGRTVISPDPNL~IdeVgVP~rvAkiLTfpE 392 (1386)
T KOG0261|consen 314 QVALYINSELPGIPINMAP-KKPTRGFVQRLKGKQGRFRGNLSGKRVDFSGRTVISPDPNLRIDEVGVPIRVAKILTFPE 392 (1386)
T ss_pred HHHHhhcccCCCCCCCCCC-CCchHHHHHHhcccCCceeccccCceeeccCceeeCCCCCcceeeccchHHHHHHhcchh
Confidence 9999999999998765443 578999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCC
Q psy3023 385 IVTPFNMD 392 (392)
Q Consensus 385 ~Vt~~Ni~ 392 (392)
+||.+|++
T Consensus 393 ~Vt~~Ni~ 400 (1386)
T KOG0261|consen 393 RVTRANIR 400 (1386)
T ss_pred hccHHHHH
Confidence 99999974
No 6
>KOG0262|consensus
Probab=100.00 E-value=2.8e-81 Score=647.23 Aligned_cols=372 Identities=26% Similarity=0.390 Sum_probs=271.3
Q ss_pred cccceEEEecCCHHHHHHhhhcccceeCcccccC-CccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEeecCcch
Q psy3023 11 RCVKKVQFGILSPDEIRRMSVTEGGIKFPETMEG-GRPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHIDLAKPV 89 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~~-~~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L~~PV 89 (392)
+.+.+|+|++||++||+++||++ |++|.+||+ |||++|||||++||+.+..+.|.||++...+||||||||+|+.||
T Consensus 11 ~~~~~v~Fg~yt~~ei~klSv~k--It~p~~~D~lGhPi~GGLYDl~LGp~~~~~~C~TC~~~~~~CPGH~GHIeL~~pv 88 (1640)
T KOG0262|consen 11 SFQPSVSFGSYTDQEIRKLSVKK--ITNPITFDNLGHPIPGGLYDLALGPLDNSDVCSTCNQDELNCPGHMGHIELPVPV 88 (1640)
T ss_pred ccccceeeeccCHHHHhhcceeE--ecCceeecccCCCCCCcccccccCCccchhhhhhhcchhhcCCCccCeeeecccc
Confidence 55566999999999999999999 999999997 999999999999998888889999999999999999999999999
Q ss_pred hhhhcHHHHHHHHHHhhhcccccccCCCchHHHHHHHhhhcchHHHHHHHHHHhhc--cccCCCCCCC----Cc------
Q psy3023 90 FHVGFVTKTIKILRCVCFYCSKLLVSPSHPKVRDVVLKTKGQSRRRQAFIYDLCKG--KNICEGGDEM----DI------ 157 (392)
Q Consensus 90 ~hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--~~~c~~~~~~----~~------ 157 (392)
|||+||+.++.+|++.|++||+|+++..+. +.++.+.+....+.+.+++++... ...|+..+.. ..
T Consensus 89 ynPlfF~~ly~lLr~sCl~Chhf~~k~~~v--~~~~cqLrll~~G~i~ea~~Le~i~~~~~~d~~d~~~~~~k~~~~~~v 166 (1640)
T KOG0262|consen 89 YNPLFFDFLYNLLRGSCLFCHHFRCKNVDV--HILFCQLRLLEYGLIEEAEDLESITSETVEDNEDESLNEIKSCRAQYV 166 (1640)
T ss_pred cCHHHHHHHHHHHHHHHHhhhhcccCcHHH--HHHHHHHHHHHhchHHHHHHHHHhhhhhhccCcchhHHHHHhhhhhhc
Confidence 999999999999999999999999998643 333333222222222222222111 0112111110 00
Q ss_pred -----------CCCCCCCc---------cccc--cCCCCCCCCCCCCCccccccceeeeEe----------------ec-
Q psy3023 158 -----------NKDGAEDP---------NSLQ--NKKQGHGGCGRYQPNIRRSGLDLTAEW----------------KH- 198 (392)
Q Consensus 158 -----------~~~~~~~~---------~~~~--~~~~~~~~C~~~~~~i~~~~~~~~~~~----------------~~- 198 (392)
......+- .+.+ ...++|++|+..+|++++.++.+...- +.
T Consensus 167 ~~~i~~~~~~~~~~~t~~~~~~~~~lv~~f~k~~l~~kkC~~C~~~~p~~rk~~~~kv~~~~~~~~~~~~~~~~~~i~~~ 246 (1640)
T KOG0262|consen 167 TEAISEALLDKSEPNTKNSTELKKKLVTAFLKNALSRKKCPRCKHSNPKLRKDGFRKVFIDALSSKVGANVIRGAKIKKD 246 (1640)
T ss_pred cHHHHHHhhcCCCccchhhHHHHHHHHHHHHHHhhccccCCcccCCCchhhccccceeeeehhcccccccchhheeeehh
Confidence 00000000 0000 125789999999999998775443210 00
Q ss_pred c-------------cccc---cc--------------ccccCChHHHHHhhcC-CCCCcccccccccc----cCCCCCCc
Q psy3023 199 V-------------NEDS---QE--------------KKIPLTGKGVLLNKKQ-GHGGCGRYQPNIRR----SGLDLTAE 243 (392)
Q Consensus 199 ~-------------~~~~---~~--------------~~~~l~p~~v~~i~k~-~~~d~~ll~p~~~~----~~l~~~p~ 243 (392)
+ ++.. ++ .+.+|+|.+|+++|+. |.++..++...|.. ++-..+.+
T Consensus 247 ~~~~~~~d~~~~G~~E~~~~g~d~~e~~~~~~~~~~t~~~~l~~tevR~~l~~lf~ne~~~l~~lf~l~~~~~~k~~p~d 326 (1640)
T KOG0262|consen 247 VGSKGFEDSGIDGSNEVEEDGKDLFEKSTEPAEFEKTGKKYLLPTEVREHLRDLFKNEGELLSYLFPLWDSGSGKIDPSD 326 (1640)
T ss_pred cccccccccccCCccccccccccccccccccccccccccccccHHHHHHHHHHHHhhhHHHHHHhhccccccccccCccc
Confidence 0 1100 00 1357999999999999 88887774433331 11223345
Q ss_pred ccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhc--C-C-------------chhhHHHHHHHH
Q psy3023 244 WKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESS--G-A-------------ATHVIAENIKML 302 (392)
Q Consensus 244 ~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~--g-~-------------~~~~~~~~~~~L 302 (392)
+|||+.|+| ||..+.++. ..|+++|..|.+||+.+..|...... + . .-..+...|..|
T Consensus 327 ~FFld~l~VpPtrfRP~s~~gd~-~~en~Qt~~L~kVle~s~~i~~~~~~m~~kl~~~~k~~l~~~~g~~~kl~~aw~~L 405 (1640)
T KOG0262|consen 327 MFFLDNLLVPPTRFRPPSMLGDE-VHENPQTLNLNKVLESSVLIRKLLKDMKGKLDEELKLILERLRGIFSKLINAWLQL 405 (1640)
T ss_pred eeeeeccccCCcccCCchhcchh-hhcChHHHHHHHHHHHHHHHHHHHHHhhhccCHHHHHHHHhhhhHHHHHHHHHHHH
Confidence 999999977 555555444 56999999999999999887753211 0 0 012345679999
Q ss_pred HHHHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhccc
Q psy3023 303 QFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTF 382 (392)
Q Consensus 303 Q~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~ 382 (392)
|.+||.+||+++.+.. . + ..+ .||||+||||+|+||+|||||||||||||||||||||++||||||+.||++|||
T Consensus 406 Q~~vn~lfDs~~~~k~--~-r-~~~-pGikQiLEKKeGLFRkhMMGKRVN~AaRSVIsPDPnI~tnEIGIP~vFA~KLTy 480 (1640)
T KOG0262|consen 406 QASVNVLFDSKMASKW--S-R-DSP-PGIKQILEKKEGLFRKHMMGKRVNYAARSVISPDPNIETNEIGIPPVFAKKLTY 480 (1640)
T ss_pred HHHHHHHhcccccccc--c-c-CCC-chHHHHHHHhhhhHHHHhhccccchhhccccCCCCCccccccCCchHHHhhccC
Confidence 9999999999985321 1 1 222 699999999999999999999999999999999999999999999999999999
Q ss_pred CccccCCCCC
Q psy3023 383 PEIVTPFNMD 392 (392)
Q Consensus 383 Pe~Vt~~Ni~ 392 (392)
||+||+||++
T Consensus 481 PepVt~~NV~ 490 (1640)
T KOG0262|consen 481 PEPVTPWNVN 490 (1640)
T ss_pred CCcCCcccHH
Confidence 9999999974
No 7
>COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]
Probab=100.00 E-value=4.7e-72 Score=589.58 Aligned_cols=321 Identities=36% Similarity=0.511 Sum_probs=270.2
Q ss_pred ccceEEEecCCHHHHHHhhhcccceeCcccccC-CccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEeecCcchh
Q psy3023 12 CVKKVQFGILSPDEIRRMSVTEGGIKFPETMEG-GRPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHIDLAKPVF 90 (392)
Q Consensus 12 ~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~~-~~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L~~PV~ 90 (392)
.++ |+|+++||+|||+|| .| |+.|++++- ++|..+||+|+|||.++++..| |||+....||||||||||+.||+
T Consensus 4 ~~~-i~~gl~sp~~ir~~s-~e--v~~pet~~~~~~P~~~Gl~d~ri~~~~~~~~C-~Cg~~~~~~~~~~GhIeLa~Pv~ 78 (808)
T COG0086 4 IFD-IKFGLASPEEIRSWS-GE--VKKPETINYRTKPERGGLFDERIFGPDKDYEC-TCGKYKRICPGGFGHIELAAPVA 78 (808)
T ss_pred cce-eEEecCCHHHHHhcc-eE--EcCccccCCCCcccCCCccchhhcCCCCCcee-cCCCCcCcCCCCceeEEeecceE
Confidence 345 999999999999955 67 999999874 6999999999999999999999 99999999999999999999999
Q ss_pred hhhcHHHHHHHHHHhhhcccccccCCCchHHHHHHHhhhcchHHHHHHHHHHhhccccCCCCCCCCcCCCCCCCcccccc
Q psy3023 91 HVGFVTKTIKILRCVCFYCSKLLVSPSHPKVRDVVLKTKGQSRRRQAFIYDLCKGKNICEGGDEMDINKDGAEDPNSLQN 170 (392)
Q Consensus 91 hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~ 170 (392)
|+||++.+..+|++.|..|+++++... ++ .+ . ..+....-..+... .
T Consensus 79 hi~f~k~~~~~L~~~~~~~~~v~~~~~--~~--~~-~------~~l~~~~~~~~~~~----------------------~ 125 (808)
T COG0086 79 HIWFFKSIPSLLDMTCRDCERVLYFEA--YV--VL-G------TDLEKIQLLNETEY----------------------V 125 (808)
T ss_pred EechhhccHHHHhhhHHhhhhhhhHhH--HH--Hh-c------cchhhhcccchhee----------------------e
Confidence 999999999999999999999998721 11 11 0 01111000000000 1
Q ss_pred CCCCCCCCCCCCCccccccceeeeEeeccccccccccccCChHHHHHhhcC-CCCCcccccccccccCCCCCCccccccc
Q psy3023 171 KKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQEKKIPLTGKGVLLNKKQ-GHGGCGRYQPNIRRSGLDLTAEWKHVNE 249 (392)
Q Consensus 171 ~~~~~~~C~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~p~~v~~i~k~-~~~d~~ll~p~~~~~~l~~~p~~~il~~ 249 (392)
....|.+|+..+++++..+.++..++ + + ..++|.+++++|++ ...|+.++. .++ |+||||++
T Consensus 126 ~~~~~~~~Ga~~~~~~~~~~~~~~~~----~---~--~~~~~~~~~~~~~~l~~~d~~~~~--~~~------pewmil~v 188 (808)
T COG0086 126 YDSFCAHCGAEAIKILLEKPDLETER----E---E--ETLSPTKVKKLLKRLKVVDAFLLS--GNR------PEWMILTV 188 (808)
T ss_pred ccccCCCCCchhHHHHHhCcchhhhh----h---h--cccCHHHHHHHHhhccHHHHHHhc--CCC------cceeEEEe
Confidence 22568899999988877666665544 1 1 57899999999999 878777665 355 99999999
Q ss_pred ccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCCCccccccC
Q psy3023 250 DSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKS 324 (392)
Q Consensus 250 l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~ 324 (392)
||| ||++.++|+..++||||++|++||..|++|++.... ++..++.+.|.+||++|++|||| +.+++...
T Consensus 189 lpV~Pp~~RP~i~ld~g~~a~~dl~~~~~~ii~~n~rlk~~~~~-~~~~iv~~~~~~lQ~~v~~~~Dn---~~~~~~~~- 263 (808)
T COG0086 189 LPVPPPDLRPSIQLDGGRFAESDLNDLYRRVINRNNRLKRLLEL-AAPIIVRNEKRMLQEAVDALFDN---RRPRAVTG- 263 (808)
T ss_pred eccCCCCCCcceecCCCccchhHHHHHHHHHHHHHHHhHHhhhh-cchHHHHHHHHHHHHHHHHHhhc---CCCCCccC-
Confidence 976 999999998889999999999999999999998777 44488889999999999999999 33444455
Q ss_pred CCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCccccCCCCC
Q psy3023 325 GKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVTPFNMD 392 (392)
Q Consensus 325 ~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt~~Ni~ 392 (392)
++|++||+|||+||+||||+|||||||||||||||||||||+++|||||..||++||+|+.||+||++
T Consensus 264 ~rPlksl~~~LkgK~GrFR~nL~GKRVd~SgRsVI~~~P~l~~~e~GvP~~~A~~L~~p~~v~~~~~~ 331 (808)
T COG0086 264 GRPLKSLSQRLKGKQGRFRQNLLGKRVDYSGRSVISVGPNLKLNQCGVPKKMALELFKPFVVTELNIE 331 (808)
T ss_pred CCccccHHHHhcCCCceeeccccccccCCCCceeecCCCCccccccCCHHHHHHHhccCEEEEehhhh
Confidence 49999999999999999999999999999999999999999999999999999999999999999974
No 8
>PF04997 RNA_pol_Rpb1_1: RNA polymerase Rpb1, domain 1; InterPro: IPR007080 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 1, represents the clamp domain, which is a mobile domain involved in positioning the DNA, maintenance of the transcription bubble and positioning of the nascent RNA strand [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2Y0S_W 3QQC_A 1YNJ_D 1HQM_D 1YNN_D 1I6V_D 2GHO_D 2AUJ_D 1ZYR_D 1SMY_D ....
Probab=100.00 E-value=1.9e-69 Score=526.85 Aligned_cols=321 Identities=42% Similarity=0.681 Sum_probs=250.7
Q ss_pred cccceEEEecCCHHHHHHhhhcccceeCcccccC--CccccCCCCCCCCCCCCCCCccccccCCCCCCCCcceEeecCcc
Q psy3023 11 RCVKKVQFGILSPDEIRRMSVTEGGIKFPETMEG--GRPKLGGLMDPRQGVIDRSSRCQTCAGNMTECPGHFGHIDLAKP 88 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~~--~~p~~~Gl~D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L~~P 88 (392)
++|++|+||+||+|||++|||+| |+++.+|+. |+|+.|||||||||+.++...|+|||++..+||||||||+|++|
T Consensus 2 ~~i~~i~f~~~s~~eI~~~Sv~~--i~~~~~~~~~~~~p~~~Gl~d~rlG~~~~~~~C~tC~~~~~~CpGHfGhI~L~~P 79 (337)
T PF04997_consen 2 KKIKSIQFGIYSPEEIRKLSVKE--ITNPETFDNLTGKPIKGGLYDPRLGPIDKKQICSTCGLNYTECPGHFGHIELALP 79 (337)
T ss_dssp EEEEEEEEEE--HHHHHHHEEEB----SSTSBCTSSSSCBSSSSSSSSSS-SSSSSTSSSSSSSSSSCCCSEEEEEEEEE
T ss_pred CeeeEEEEEeCCHHHHHHhCcEE--EechhhccCCCCCCccccccChhhcCCCcccccccccccccccCCceeEEEeCHH
Confidence 68999999999999999999999 999999984 79999999999999999999999999999999999999999999
Q ss_pred hhhhhcHHHHHHHHHHhhhcccccccCCCchHH-HHHHHhh-hcchHHHHHHHHHHhhccccCCCCCCCCcCCCCCCCcc
Q psy3023 89 VFHVGFVTKTIKILRCVCFYCSKLLVSPSHPKV-RDVVLKT-KGQSRRRQAFIYDLCKGKNICEGGDEMDINKDGAEDPN 166 (392)
Q Consensus 89 V~hp~f~~~~~~iL~~iC~~C~~l~l~~~~~~~-~~~~~~~-~~~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~~~ 166 (392)
|||||||+.++++|+++|++|+++++++.+.+. ..++... ......+++.+.+.++....|..+...++...+.
T Consensus 80 V~h~~f~~~i~~iL~~~C~~C~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~---- 155 (337)
T PF04997_consen 80 VYHPGFFKEIPKILRCICKKCSRLLLSEKEKYFYLKILLKLKKKKKKERLKIISKECKKKSICSHCKAINGKIKKV---- 155 (337)
T ss_dssp EETCCCHHHHHHHHTTSCTTTSCTSTCCCCHTSCHHHCHCSHSSSHHHHHHHHHHHHHHTCSSTSTCC-SSS---S----
T ss_pred HHhhcccccceeeecccccccccccccccccccccccccccccccchhHHHHHHHhhhhhhhhccccccccccccc----
Confidence 999999999999999999999999999887532 2222211 2234556777888888888888776555433210
Q ss_pred ccccCCCCCCCCCCCCCcccccc-ceeeeEeecc--ccccccccccCChHHHHHhhcC-CCCCccc--ccccccccCCCC
Q psy3023 167 SLQNKKQGHGGCGRYQPNIRRSG-LDLTAEWKHV--NEDSQEKKIPLTGKGVLLNKKQ-GHGGCGR--YQPNIRRSGLDL 240 (392)
Q Consensus 167 ~~~~~~~~~~~C~~~~~~i~~~~-~~~~~~~~~~--~~~~~~~~~~l~p~~v~~i~k~-~~~d~~l--l~p~~~~~~l~~ 240 (392)
.....+..|+..++.+...+ ..+...++.. ..+..+....++|.+++++|++ +++++.+ +.+...+
T Consensus 156 ---~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~l~~~~v~~ilk~l~~~~~~~l~~~~~~~~----- 227 (337)
T PF04997_consen 156 ---EKSKKCEGCGKKNPKIRKEGAEKIQEEIKKKESNKEIKEELRILTPEEVRQILKKLSKEDKELLGFDPSGSR----- 227 (337)
T ss_dssp ---SSEETSSSSSSBSCEEEEESHCCCCCHHHSCCHHHHHHCHCECESHHHHHHHHHHSHHHHHHHHHHHTTTBS-----
T ss_pred ---ccchhcccccccCcccccchhhhcccccccccccccchhhhhhhhhhhhhhcchhhhhhheeeeeccccccc-----
Confidence 11245667888877766554 3333333322 1111122236899999999999 8888877 4444455
Q ss_pred CCcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCC
Q psy3023 241 TAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMP 315 (392)
Q Consensus 241 ~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~ 315 (392)
|+||||++||| ||++.++|+..++||+|..|++||+.|+.|+.....+++...+.+.|..||.+|+.||||+++
T Consensus 228 -P~~~~l~~lpVpP~~~RP~v~~~~~~~~eddlt~~~~~Ii~~N~~L~~~~~~~~~~~~~~~~~~~LQ~~v~~~~dn~~~ 306 (337)
T PF04997_consen 228 -PEWFFLTVLPVPPPRFRPSVQLGGGRFSEDDLTSLYRKIIKRNNRLRKLLEEGAPSSIIMEEWRLLQEAVNSLIDNEKP 306 (337)
T ss_dssp -GGGSEEEEEEE-TGGGS-EEEESSSEEEE-HHHHHHHHHHHHHHHHHHCCTSTSSSCHHHHHHHHHHHHHHHHHCTTSS
T ss_pred -cceeEEeeeecCCceeeeeeeeecccccCchHHHHHHHHHHHHHHHHHHHHhhCcchhhhhhhhhhhHhHhHHhhhccc
Confidence 99999999965 888888887678999999999999999999998777888888999999999999999999998
Q ss_pred CCccccccCCCchhhHhhhhccccccccccc
Q psy3023 316 GLPRAMQKSGKPLKAIKARLKGKEGRIRGNL 346 (392)
Q Consensus 316 ~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nl 346 (392)
+.+.+..++++|++||+||||||+||||+||
T Consensus 307 ~~~~~~~~~~~~~k~i~q~L~gK~GrfR~NL 337 (337)
T PF04997_consen 307 GKPPAGQKSGRPLKGISQRLKGKEGRFRQNL 337 (337)
T ss_dssp SSSBCBSTTSSB--THHHHHSSTTSSHCHHT
T ss_pred CCcccccccCCCCCCHHHHccCCCCcCCCCC
Confidence 8877665678999999999999999999997
No 9
>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=7.7e-63 Score=526.91 Aligned_cols=321 Identities=31% Similarity=0.470 Sum_probs=253.1
Q ss_pred eEEEecCCHHHHHHhhhcccceeCccccc--CCccccCCCCCCCC-CCC--------------CCCCccccccCCCCCCC
Q psy3023 15 KVQFGILSPDEIRRMSVTEGGIKFPETME--GGRPKLGGLMDPRQ-GVI--------------DRSSRCQTCAGNMTECP 77 (392)
Q Consensus 15 ~i~F~~~s~eeI~~~Sv~~~~i~~~~~~~--~~~p~~~Gl~D~rl-G~~--------------~~~~~C~TCg~~~~~Cp 77 (392)
+|+++++|||+|++||+-| |++|++++ ..+|..+||+|+|+ ||. +++..|++||....+|+
T Consensus 1 ~i~i~laSPe~I~~ws~ge--V~~petiny~t~kPe~~GLfcerIFGp~k~~ec~Cgkyk~~~~~~~~C~~Cgve~t~~~ 78 (1140)
T TIGR02386 1 AIKISIASPDTIRNWSYGE--VKKPETINYRTLKPEKDGLFCEKIFGPTKDWECYCGKYKKIRYKGVVCERCGVEVTESK 78 (1140)
T ss_pred CeEEEecCHHHHHhhhceE--EeccceecCCCCccCCCCcccchhcCCccCceeccccccccCcCCcCCCCCCCCcccch
Confidence 4899999999999999966 99999865 57999999999999 997 45568999999999998
Q ss_pred ---CcceEeecCcchhhhhcHHH-----------HHHHHHHhhhcccccccCCCchHHHH--HHHhhhcchHHHHHHHHH
Q psy3023 78 ---GHFGHIDLAKPVFHVGFVTK-----------TIKILRCVCFYCSKLLVSPSHPKVRD--VVLKTKGQSRRRQAFIYD 141 (392)
Q Consensus 78 ---GHfGhI~L~~PV~hp~f~~~-----------~~~iL~~iC~~C~~l~l~~~~~~~~~--~~~~~~~~~~~~~~~i~~ 141 (392)
+|||||+|+.||+|+||++. ..+.|+++|++|+.+.+++.+..+.. ++.. . +..+
T Consensus 79 vrr~rmGhI~La~Pv~Hiwy~k~~ps~~~~ll~~~~k~le~v~y~~~~~v~~~~~~~~~~~~~~~~------~---~~~~ 149 (1140)
T TIGR02386 79 VRRERMGHIELAAPVAHIWYFKGLPSRIGLLLDITAKELESVLYFENYVVLDPGDTKLDKKEVLDE------T---EYRE 149 (1140)
T ss_pred hhhhcccceeecCCceeehhcCCCchHHHHHhCCCHHHhhheeeccceEEeCCCCCchhhhhhhch------h---HHHH
Confidence 99999999999999999996 57899999999999988875433321 1110 0 0111
Q ss_pred HhhccccCCCCCCCCcCCCCCCCccccccCCCCCCCCCCCCCccccccceeeeEeeccccc------cccccccCChHHH
Q psy3023 142 LCKGKNICEGGDEMDINKDGAEDPNSLQNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNED------SQEKKIPLTGKGV 215 (392)
Q Consensus 142 ~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~~~~~~~~~~~~~~------~~~~~~~l~p~~v 215 (392)
..+.. ... ....|++...+....++++..+++...++ ....+..+...++
T Consensus 150 ~~~~~-----~~~-------------------~~~~~G~~ai~~~l~~~dl~~~~~~~~~~~~~~~~~~~~~~~~krl~~ 205 (1140)
T TIGR02386 150 VLKRY-----GDG-------------------FRAGMGAEAIKELLEKIDLDKEIEELKIQLRESKSDQKRKKLLKRLEI 205 (1140)
T ss_pred HHHHh-----ccC-------------------cccccchHHHHHHHhcCCHHHHHHHHHHHHHhccchhhHHhhhhHHHH
Confidence 11100 000 01123443333222333443333222211 1111345677888
Q ss_pred HHhhcCCCCCcccccccccccCCCCCCcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCC
Q psy3023 216 LLNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGA 290 (392)
Q Consensus 216 ~~i~k~~~~d~~ll~p~~~~~~l~~~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~ 290 (392)
.+.|.++. .+ |+||||++||| ||++.++|+...+||||.+|++||+.|++|++....++
T Consensus 206 ~~~f~~s~----------~~------Pewmil~~lPV~Pp~lRP~v~l~gg~~~~sDLn~lyr~II~~Nn~Lk~~~~~~a 269 (1140)
T TIGR02386 206 VEAFKDSG----------NR------PEWMVLDVIPVIPPELRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLELGA 269 (1140)
T ss_pred HHHHHhcC----------CC------hHHhhhhcccCCCCccCCcEEeCCCccccCchHHHHHHHHHHHHHHHHHHHcCC
Confidence 88888732 24 99999999976 88899988778899999999999999999999988899
Q ss_pred chhhHHHHHHHHHHHHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccc
Q psy3023 291 ATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQV 370 (392)
Q Consensus 291 ~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~idei 370 (392)
+...+.++|.+||.+|+.||||+.++.|.. .++++|++||+|+|+||+||||+|||||||||||||||+|||+|++|||
T Consensus 270 p~~ii~~~~~~LQ~aV~~liDn~~~g~~~~-~~~~rplksls~~LkGK~GrFR~NLlGKRVDySgRSVI~pdP~L~l~e~ 348 (1140)
T TIGR02386 270 PEIIVRNEKRMLQEAVDALFDNGRRGKPVV-GKNNRPLKSLSDMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPELKMYQC 348 (1140)
T ss_pred cHHHHHHHHHHHHHHHHHHhcccccCCCcc-CcCCCchhhHHHhhcCCCCcccccccccccCCCCCCeEcCCCCcccccc
Confidence 988888999999999999999999886643 3467899999999999999999999999999999999999999999999
Q ss_pred cchHHhHhhcccCcccc
Q psy3023 371 GVPRSIAQNMTFPEIVT 387 (392)
Q Consensus 371 GvP~~~A~~LT~Pe~Vt 387 (392)
|||..||++||+|+.|+
T Consensus 349 GlP~~mA~~L~~Pf~i~ 365 (1140)
T TIGR02386 349 GLPKKMALELFKPFIIK 365 (1140)
T ss_pred cChHHHHHHcCchHHHH
Confidence 99999999999998875
No 10
>PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=100.00 E-value=4.6e-58 Score=490.81 Aligned_cols=323 Identities=30% Similarity=0.454 Sum_probs=239.5
Q ss_pred ccceEEEecCCHHHHHHhhhcccceeCccc--ccCCccccCCCCCCCC-CCCCCCCccccccCCC------CCCC-----
Q psy3023 12 CVKKVQFGILSPDEIRRMSVTEGGIKFPET--MEGGRPKLGGLMDPRQ-GVIDRSSRCQTCAGNM------TECP----- 77 (392)
Q Consensus 12 ~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~--~~~~~p~~~Gl~D~rl-G~~~~~~~C~TCg~~~------~~Cp----- 77 (392)
.+..|+++++|||+|++||+=| |++|++ |...+|..+||+|.|+ ||. ++..| .||+.. ..|+
T Consensus 6 ~~~~i~i~laspe~I~~ws~Ge--V~~petinyrt~kPe~~GLfcerIFgp~-kd~eC-~Cgkyk~~~~~~~~C~~cgve 81 (1156)
T PRK00566 6 DFDAIKIGLASPEKIRSWSYGE--VKKPETINYRTLKPERDGLFCERIFGPT-KDYEC-LCGKYKRVRYKGIICERCGVE 81 (1156)
T ss_pred CcceEEEEccCHHHHHHhhcce--EccccccccCCCccCCCCcccchhcCcc-cCcEE-eCccccccCcCCcCCCCCCce
Confidence 7889999999999999999966 999997 4579999999999999 654 56677 777532 3677
Q ss_pred --------CcceEeecCcchhhhhcHH-----------HHHHHHHHhhhcccccccCCCchHHHHHHHhhhcchHHHHHH
Q psy3023 78 --------GHFGHIDLAKPVFHVGFVT-----------KTIKILRCVCFYCSKLLVSPSHPKVRDVVLKTKGQSRRRQAF 138 (392)
Q Consensus 78 --------GHfGhI~L~~PV~hp~f~~-----------~~~~iL~~iC~~C~~l~l~~~~~~~~~~~~~~~~~~~~~~~~ 138 (392)
+|||||+|+.||.|+||++ ...+.|+++|++|+.+.+++....+.. ...........
T Consensus 82 ~~~~~vrr~rmGhI~La~Pv~Hiwy~k~~ps~i~~ll~~~~k~le~v~y~~~~~v~~~~~~~~~~----~~~~~~~~~~~ 157 (1156)
T PRK00566 82 VTRSKVRRERMGHIELAAPVAHIWFFKSLPSRIGLLLDMSLKDLERVLYFESYVVIDPGDTPLEK----KQLLTEEEYRE 157 (1156)
T ss_pred eeechhhhhhcceeeecCceeeeeecCCCchHHHHHhCCCHHHhhheeecceEEEeCCCCCchhh----hcccCHHHHHH
Confidence 9999999999999999999 447899999999999988775421110 00000000111
Q ss_pred HHHHhhccccCCCCCCCCcCCCCCCCccccccCCCCCCCCCCCCCccccccceeee-------EeeccccccccccccCC
Q psy3023 139 IYDLCKGKNICEGGDEMDINKDGAEDPNSLQNKKQGHGGCGRYQPNIRRSGLDLTA-------EWKHVNEDSQEKKIPLT 211 (392)
Q Consensus 139 i~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~~~~~~-------~~~~~~~~~~~~~~~l~ 211 (392)
+.+... .... ..+++-..+.....+++.. +|+... ..+..+..+.
T Consensus 158 ~~~~~~--------~~~~-------------------~~~Ga~ai~~ll~~~dl~~~~~~l~~~~~~~~-~~~~~~~~~k 209 (1156)
T PRK00566 158 ALEEYG--------DEFV-------------------AKMGAEAIKELLKNIDLEAEAEELREELKETG-SEQKRKKALK 209 (1156)
T ss_pred HHHHhc--------cccc-------------------ccccHHHHHHHHHhCCHHHHHHHHHHHHHhcc-cchhHHHHHH
Confidence 101000 0000 0011100000001111111 111100 0111223456
Q ss_pred hHHHHHhhcCCCCCcccccccccccCCCCCCcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHH
Q psy3023 212 GKGVLLNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNE 286 (392)
Q Consensus 212 p~~v~~i~k~~~~d~~ll~p~~~~~~l~~~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~ 286 (392)
..++.+.|.++. .+ |+||||++||| ||++.++|+...++|||.+|++||..|++|++..
T Consensus 210 rl~~~~~f~~s~----------~~------Pewmil~~lPV~Pp~lRP~v~l~~g~~~~sDLn~lyr~II~rNnrLk~~~ 273 (1156)
T PRK00566 210 RLKVVEAFRKSG----------NK------PEWMILDVLPVIPPDLRPLVQLDGGRFATSDLNDLYRRVINRNNRLKRLL 273 (1156)
T ss_pred HHHHHHHHHcCC----------CC------ccEeeEeecccCCCcccCceEeCCCcccCCchHHHHHHHHHHHHHHHHHH
Confidence 677777777643 23 99999999976 8889998877789999999999999999999988
Q ss_pred hcCCchhhHHHHHHHHHHHHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCc
Q psy3023 287 SSGAATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLR 366 (392)
Q Consensus 287 ~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ 366 (392)
..+++...+.++|.+||.+|+.||||+..+.+... ++++|++||+|+|+||+||||+|||||||||||||||||||+|+
T Consensus 274 ~~~ap~~ii~~~~~~LQ~aV~~lidn~~~g~~~~~-~~~rplksls~~LkGK~GrFR~NLlGKRVDySgRSVI~pdP~L~ 352 (1156)
T PRK00566 274 ELGAPEIIVRNEKRMLQEAVDALFDNGRRGRPVTG-PNNRPLKSLSDMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPELK 352 (1156)
T ss_pred HcCCcHHHHHHHHHHHHHHHHHHhccCccCCCccc-ccCCchhHHHHhhcCCCccccccccccccCCCCCceEeCCCCcc
Confidence 88999888889999999999999999998766432 45789999999999999999999999999999999999999999
Q ss_pred cccccchHHhHhhcccCcccc
Q psy3023 367 IDQVGVPRSIAQNMTFPEIVT 387 (392)
Q Consensus 367 ideiGvP~~~A~~LT~Pe~Vt 387 (392)
+||||||..||++||+|+.+.
T Consensus 353 l~e~GvP~~mA~eL~~Pf~i~ 373 (1156)
T PRK00566 353 LHQCGLPKKMALELFKPFIMK 373 (1156)
T ss_pred cccccChHHHHHHhCcHHHHH
Confidence 999999999999999997543
No 11
>PRK02625 rpoC1 DNA-directed RNA polymerase subunit gamma; Provisional
Probab=100.00 E-value=6.9e-55 Score=438.02 Aligned_cols=330 Identities=26% Similarity=0.422 Sum_probs=225.7
Q ss_pred cccceEEEecCCHHHHHHhh---------hcccceeCcccc--cCCccccCCCCCCCC-CCCC--------------CCC
Q psy3023 11 RCVKKVQFGILSPDEIRRMS---------VTEGGIKFPETM--EGGRPKLGGLMDPRQ-GVID--------------RSS 64 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~S---------v~~~~i~~~~~~--~~~~p~~~Gl~D~rl-G~~~--------------~~~ 64 (392)
..+..|+.+++|||+|++|| + ++|+.|+|. ...+|..+||++.|. ||.. ++.
T Consensus 7 ~~~~~i~I~laSPe~I~~Ws~r~lpng~i~--GeV~kpeTinyrT~KPE~dGLFCerIFGP~k~~eC~CGkyk~~~~~~~ 84 (627)
T PRK02625 7 NRFDYVKIGLASPERIRQWGQRTLPNGQVV--GEVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRVRHRGI 84 (627)
T ss_pred cccceEEEEecCHHHHHHHHHhhcCCCcee--eEECCCcccccCCCCCCCCCEeechhcCCccCcEEeCCCccccCcCCc
Confidence 56889999999999999999 6 559999985 479999999999998 8752 233
Q ss_pred ccccccCCCCCC---CCcceEeecCcchhhhhcHHHH-----------HHHHHHhhhcccccccCCCchH---HHHHHHh
Q psy3023 65 RCQTCAGNMTEC---PGHFGHIDLAKPVFHVGFVTKT-----------IKILRCVCFYCSKLLVSPSHPK---VRDVVLK 127 (392)
Q Consensus 65 ~C~TCg~~~~~C---pGHfGhI~L~~PV~hp~f~~~~-----------~~iL~~iC~~C~~l~l~~~~~~---~~~~~~~ 127 (392)
.|+.||....+. .-.||||+|+.||.|+||++.+ .+-|+.+.++=+.+.+.+.... +..++..
T Consensus 85 ~C~~CgvE~t~s~vRR~RMG~I~La~PV~HiWylk~~ps~i~~lL~~~~k~le~ivy~~~~~v~~~~~~~~~~~~~~~~~ 164 (627)
T PRK02625 85 VCERCGVEVTESRVRRHRMGFIKLAAPVTHVWYLKGIPSYVAILLDMPLRDVEQIVYFNCYVVLDPGNHKNLKYKQLLTE 164 (627)
T ss_pred CCCCCCcEecchhhhHhhcCceeecCCceEeeccCCCchHHHHHhCCCHHHhhheeeeeeEEEecCCCccchhhhhhhhh
Confidence 588888876665 4689999999999999999832 2344555443334444443221 1111110
Q ss_pred hhcchHHHHHHHHHHhhccccCCCCCCCCcCCCCCCCccccccCCCCCCCCCCCCCcccccccee-------eeEeeccc
Q psy3023 128 TKGQSRRRQAFIYDLCKGKNICEGGDEMDINKDGAEDPNSLQNKKQGHGGCGRYQPNIRRSGLDL-------TAEWKHVN 200 (392)
Q Consensus 128 ~~~~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~~~~-------~~~~~~~~ 200 (392)
....++.+.... ...+...... . ..|..+....+.+ +++ ..+|+...
T Consensus 165 ------~~~~~~~~~~~~----~~~~~~~~~~--~------------~~Ga~ai~~lL~~--~dl~~~~~~l~~~~~~~~ 218 (627)
T PRK02625 165 ------DQWLEIEDQIYA----EDSELEGEEV--V------------GIGAEALKRLLED--LNLEEEAEQLREEIANSK 218 (627)
T ss_pred ------HHHHHHHHHhcc----cccccccchh--h------------hhhHHHHHHHHhh--CCHHHHHHHHHHHHHhcc
Confidence 001111111000 0000000000 0 0000011100000 111 11121110
Q ss_pred cccccccccCChHHHHHhhcCCCCCcccccccccccCCCCCCcccccccccC-----CceeeecCCcccchhhHHHHHHH
Q psy3023 201 EDSQEKKIPLTGKGVLLNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADI 275 (392)
Q Consensus 201 ~~~~~~~~~l~p~~v~~i~k~~~~d~~ll~p~~~~~~l~~~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~I 275 (392)
+ ..+...+...++.+.|..+. .+ |+||||++||| ||++.++|+...++|+|.+|++|
T Consensus 219 ~--~~~~~~ikrl~~~~~f~~~~----------~~------PewmiL~~lPV~Pp~lRP~v~l~~g~~~~sDLn~ly~~I 280 (627)
T PRK02625 219 G--QKRAKLIKRLRVIDNFIATG----------SR------PEWMVLDVIPVIPPDLRPMVQLDGGRFATSDLNDLYRRV 280 (627)
T ss_pred h--HHHHHHHHHHHHHHHHHhcC----------CC------ccEEEEEeeecCCCcccCceEeCCCcccCCCHHHHHHHH
Confidence 0 11111223333444443311 23 99999999976 88899988777899999999999
Q ss_pred HHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCcc
Q psy3023 276 IKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSA 355 (392)
Q Consensus 276 I~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsa 355 (392)
|..|++|++....+++...+.++|.+||.+|+.|+||+..+.+.. ..+++|++||+|+|+||+||||+|||||||||||
T Consensus 281 I~rNn~L~~~~~~~~p~~ii~~~~~~LQ~aVd~liDn~~~g~~~~-~~~~rp~ksls~~LkGKeGRFR~NLlGKRVDySg 359 (627)
T PRK02625 281 INRNNRLARLQEILAPEIIVRNEKRMLQEAVDALIDNGRRGRTVV-GANNRPLKSLSDIIEGKQGRFRQNLLGKRVDYSG 359 (627)
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhcCCCCCCCcc-cccCCchhhHHHHhccCCccccccccccccccCC
Confidence 999999999888888887777899999999999999999886543 2356899999999999999999999999999999
Q ss_pred ceeecCCCCCccccccchHHhHhhcccCcccc
Q psy3023 356 RTVITPDPNLRIDQVGVPRSIAQNMTFPEIVT 387 (392)
Q Consensus 356 RSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt 387 (392)
||||||||+|++||||||..||.+||+|+.+.
T Consensus 360 RSVIspdP~L~l~e~GvP~~mA~eL~~Pf~i~ 391 (627)
T PRK02625 360 RSVIVVGPKLKMHQCGLPKEMAIELFQPFVIH 391 (627)
T ss_pred CceEeCCCCcccccccChHHHHHhcCcHHhHH
Confidence 99999999999999999999999999998654
No 12
>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=100.00 E-value=1.7e-53 Score=427.42 Aligned_cols=330 Identities=25% Similarity=0.409 Sum_probs=223.6
Q ss_pred cceEEEecCCHHHHHHhh---------hcccceeCcccc--cCCccccCCCCCCCC-CCCC--------------CCCcc
Q psy3023 13 VKKVQFGILSPDEIRRMS---------VTEGGIKFPETM--EGGRPKLGGLMDPRQ-GVID--------------RSSRC 66 (392)
Q Consensus 13 i~~i~F~~~s~eeI~~~S---------v~~~~i~~~~~~--~~~~p~~~Gl~D~rl-G~~~--------------~~~~C 66 (392)
+..|+.+++|||.|++|| + ++|+.|+|. ...+|..+||++.|. ||.. ++..|
T Consensus 2 ~~~i~I~laSPe~I~~Ws~r~lpng~i~--GeV~kp~TinyrT~KPE~dGLFCerIFGP~k~~eC~CGkyk~~~~~~~~C 79 (619)
T TIGR02387 2 FDYVKITIASPERVMEWGQRTLPNGQVV--GEVTKPETINYRTLKPEMDGLFCEKIFGPSKDWECHCGKYKRVRHRGIVC 79 (619)
T ss_pred CceEEEEecCHHHHHHHHHhhCCCCcee--eEECCCcccccCCCCCCCCCEeechhcCCCcCcEEeCCCccccCcCCcCC
Confidence 567999999999999999 7 559999985 469999999999998 8763 22357
Q ss_pred ccccCCCCCC---CCcceEeecCcchhhhhcHHHH-----------HHHHHHhhhcccccccCCCchH---HHHHHHhhh
Q psy3023 67 QTCAGNMTEC---PGHFGHIDLAKPVFHVGFVTKT-----------IKILRCVCFYCSKLLVSPSHPK---VRDVVLKTK 129 (392)
Q Consensus 67 ~TCg~~~~~C---pGHfGhI~L~~PV~hp~f~~~~-----------~~iL~~iC~~C~~l~l~~~~~~---~~~~~~~~~ 129 (392)
+.||....+. .-.||||+|+.||.|+||++.+ .+-|+.+.++=+.+.+.+.... +..++..
T Consensus 80 ~~CgvE~t~s~vRR~RMG~I~La~PV~HiWylk~~ps~i~~lL~~~~k~le~i~y~~~~~v~~~~~~~~~~~~~~~~~-- 157 (619)
T TIGR02387 80 ERCGVEVTESRVRRHRMGYIKLAAPVTHVWYLKGIPSYVSILLDMPLRDVEQIVYFNAYVVLNPGNAKNLKYKQLLTE-- 157 (619)
T ss_pred CCCCCEEchhhhHHHhcCceeccCcceeeeecCCCchHHHHHhCCCHHHhhheeeeeeEEEecCCCccchhhhhhhhH--
Confidence 7777776555 4689999999999999999832 2345555544334445443221 1111110
Q ss_pred cchHHHHHHHHHHhhccccCCCCCCCCcCCCCCCCccccccCCCCCCCCCCCCCcccccc-----ceeeeEeeccccccc
Q psy3023 130 GQSRRRQAFIYDLCKGKNICEGGDEMDINKDGAEDPNSLQNKKQGHGGCGRYQPNIRRSG-----LDLTAEWKHVNEDSQ 204 (392)
Q Consensus 130 ~~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~-----~~~~~~~~~~~~~~~ 204 (392)
....++.+.... .......... ...|..+....+.... ..+..+|+...+ .
T Consensus 158 ----~~~~~~~~~~~~-------~~~~~~~~~~-----------~~~Ga~ai~~lL~~~dl~~~~~~l~~~~~~~~~--~ 213 (619)
T TIGR02387 158 ----DQWLEIEDQIYA-------EDSELENEEV-----------VGIGAEALKQLLADLNLEEVAEQLREEINGSKG--Q 213 (619)
T ss_pred ----HHHHHHHHHhcc-------ccccccccee-----------ccchHHHHHHHHHhCCHHHHHHHHHHHHHhhhh--H
Confidence 011111111000 0000000000 0000011110000000 000111211100 1
Q ss_pred cccccCChHHHHHhhcCCCCCcccccccccccCCCCCCcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHH
Q psy3023 205 EKKIPLTGKGVLLNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCN 279 (392)
Q Consensus 205 ~~~~~l~p~~v~~i~k~~~~d~~ll~p~~~~~~l~~~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n 279 (392)
.....+...++.+.|..+ ..+ |+||||++||| ||++.++|+...+||+|.+|++||..|
T Consensus 214 ~~~~~~krl~~~~~f~~~----------~~~------PewmiL~~lPV~Pp~lRP~v~l~~g~~~~sDln~lyr~II~rN 277 (619)
T TIGR02387 214 KRAKLIKRLRVIDNFIAT----------SSR------PEWMVLDVIPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINRN 277 (619)
T ss_pred HHHHHHHHHHHHHHHHhc----------CCC------cceEEEEecccCCcccCCceEeCCCcccCCCHHHHHHHHHHHH
Confidence 111122233344344331 124 99999999976 888999887778999999999999999
Q ss_pred HHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCccceee
Q psy3023 280 NELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVI 359 (392)
Q Consensus 280 ~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVI 359 (392)
++|++....+++...+.+.|.+||.+|+.|+||+..+.+.. ..+++|++|++|+|+||+||||+|||||||||||||||
T Consensus 278 n~L~~~~~~~~p~~i~~~~~~~LQ~aVd~lidn~~~g~~~~-~~~~rp~ksls~~LkGKeGRFR~nLlGKRVDySgRSVI 356 (619)
T TIGR02387 278 NRLARLQEILAPEIIVRNEKRMLQEAVDALIDNGRRGRTVV-GANNRPLKSLSDIIEGKQGRFRQNLLGKRVDYSGRSVI 356 (619)
T ss_pred HHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhcCCCCCCCcc-cccCCchhhHHHHhccCCccccccccccccccCCCcee
Confidence 99999888888877777899999999999999999876532 23568999999999999999999999999999999999
Q ss_pred cCCCCCccccccchHHhHhhcccCcccc
Q psy3023 360 TPDPNLRIDQVGVPRSIAQNMTFPEIVT 387 (392)
Q Consensus 360 sPDP~l~ideiGvP~~~A~~LT~Pe~Vt 387 (392)
||||+|++||||||..||.+||+|+.|+
T Consensus 357 ~pdP~L~l~qvGvP~~mA~eLf~Pf~i~ 384 (619)
T TIGR02387 357 VVGPKLKMHQCGLPKEMAIELFQPFVIH 384 (619)
T ss_pred cCCCCcccceecChHHHHHhcCchHhHH
Confidence 9999999999999999999999998664
No 13
>PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional
Probab=100.00 E-value=5.7e-52 Score=444.35 Aligned_cols=145 Identities=33% Similarity=0.495 Sum_probs=135.1
Q ss_pred CcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCC
Q psy3023 242 AEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPG 316 (392)
Q Consensus 242 p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~ 316 (392)
|+||||++||| ||++.++|+...+||||.+|++||..|++|++....+++...+.++|.+||.+|+.||||...+
T Consensus 312 PewmiL~vlPV~Pp~lRP~V~l~gg~~atsDLn~lyr~II~rNnrLk~l~~~~ap~~ii~nekr~LQeaVd~liDN~~~g 391 (1460)
T PRK14906 312 PADMILDVIPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPEIIVNNEKRMLQEAVDSLFDNGRRG 391 (1460)
T ss_pred HHHHhhhcccCCCCCcCCcEEECCCcccCCchHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHcCCCcC
Confidence 99999999976 8889998877789999999999999999999998889988888899999999999999999988
Q ss_pred CccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCcccc
Q psy3023 317 LPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVT 387 (392)
Q Consensus 317 ~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt 387 (392)
.|.. .++++|++||+|+|+||+||||+|||||||||||||||||||+|.++|||||..||.+||+|+.+.
T Consensus 392 ~p~~-~~~~rplKsls~~LkGK~GRFRqNLlGKRVDySgRSVIspdP~L~l~e~GlP~~mA~eLf~Pf~i~ 461 (1460)
T PRK14906 392 RPVT-GPGNRPLKSLADMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKLHQCGLPSAMALELFKPFVMK 461 (1460)
T ss_pred CCCc-cccCCchhHHHHHhcccCcccccccccccccCcCCceEeCCCCCccccccCcHHHHHhcCchhHHH
Confidence 7653 345789999999999999999999999999999999999999999999999999999999998873
No 14
>CHL00018 rpoC1 RNA polymerase beta' subunit
Probab=100.00 E-value=7.5e-53 Score=427.23 Aligned_cols=338 Identities=26% Similarity=0.403 Sum_probs=218.9
Q ss_pred cccceEEEecCCHHHHHHhhh--------cccceeCcccc--cCCccccCCCCCCCC-CCCC-----------------C
Q psy3023 11 RCVKKVQFGILSPDEIRRMSV--------TEGGIKFPETM--EGGRPKLGGLMDPRQ-GVID-----------------R 62 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~Sv--------~~~~i~~~~~~--~~~~p~~~Gl~D~rl-G~~~-----------------~ 62 (392)
..+..|+.+++|||+|++||. + ++|+.|+|. ...+|..+||++.|. ||.. +
T Consensus 5 ~~~~~i~I~laSPe~I~~Ws~r~lpng~iv-GeV~kp~TinyrT~KPE~dGLFCErIFGP~k~~~C~CGkyk~~~~~~~~ 83 (663)
T CHL00018 5 YKHQQLRIGLASPQQIRAWAERILPNGEIV-GEVTKPYTIHYKTNKPEKDGLFCERIFGPIKSGICACGNYRVIGDEKED 83 (663)
T ss_pred cCcCeEEEEecCHHHHHHHHHhhCCCCcee-eEECCCccccccCCCCCCCCEeechhcCCCcCCEEeCCCccccCccccC
Confidence 468899999999999999995 1 559999985 479999999999998 8863 1
Q ss_pred CCccccccCCCCCC---CCcceEeecCcchhhhhcHHH----HH-------HHHHHhhhcccccccCCC-ch---HHHHH
Q psy3023 63 SSRCQTCAGNMTEC---PGHFGHIDLAKPVFHVGFVTK----TI-------KILRCVCFYCSKLLVSPS-HP---KVRDV 124 (392)
Q Consensus 63 ~~~C~TCg~~~~~C---pGHfGhI~L~~PV~hp~f~~~----~~-------~iL~~iC~~C~~l~l~~~-~~---~~~~~ 124 (392)
+..|+.||....+. .-.||||+|+.||.|+||++. +- +-|..+.++=..+..+.. .. .++.+
T Consensus 84 ~~~C~~CgVE~t~s~vRR~RMG~I~La~PV~HiWylk~~ps~i~~lL~~~~k~le~~vy~~~~~~~~~~~~~~~~~~~~~ 163 (663)
T CHL00018 84 PKFCEQCGVEFTDSRVRRYRMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPIAKKPTFLRLRGL 163 (663)
T ss_pred CCccCCcCCEechhhhhHhhcCceeecCcceeehhhcCCchHHHHHhCCCHHHhhheeeeeeEEEEecCCCCChhhhhhh
Confidence 22577777766555 468999999999999999983 22 233443332223322211 11 11111
Q ss_pred HHhhhcchHHHHHHHHHHhhccccCCCCCCCCcCCCCCCCccccccCCCCCCCCCCCCCcccccc-----ceeeeEeecc
Q psy3023 125 VLKTKGQSRRRQAFIYDLCKGKNICEGGDEMDINKDGAEDPNSLQNKKQGHGGCGRYQPNIRRSG-----LDLTAEWKHV 199 (392)
Q Consensus 125 ~~~~~~~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~-----~~~~~~~~~~ 199 (392)
+.. .. ....++....-.. ...++... .... .|..+....+.... ..+..+|+..
T Consensus 164 ~~~---~~-~~~~~~~~~~~~~---~~~~~~~~--~~~~------------~Ga~ai~~lL~~ldL~~~~~~~~~~~~~~ 222 (663)
T CHL00018 164 FEY---EI-QSWKYSIPLFFST---QGFDTFRN--REIS------------TGAGAIREQLADLDLRIIIDNSLVEWKEL 222 (663)
T ss_pred hhh---hH-HHHHHHHHHHhcc---cccccccc--hhhh------------HHHHHHHHHHhhCCHHHHHHHHHHHHHHh
Confidence 110 00 0001111100000 00000000 0000 00000000000000 0000111111
Q ss_pred cccc-----------cccc-ccCChHHHHHhhcCCCCCcccccccccccCCCCCCcccccccccC-----CceeeecCCc
Q psy3023 200 NEDS-----------QEKK-IPLTGKGVLLNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQ-----EKKIPLTGKG 262 (392)
Q Consensus 200 ~~~~-----------~~~~-~~l~p~~v~~i~k~~~~d~~ll~p~~~~~~l~~~p~~~il~~l~V-----RP~~~~~~~~ 262 (392)
.++. +..+ ..+...++.+.|..+. .+ |+||||++||| ||++.++|+.
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~l~kRl~~~~~f~~~~----------~~------PewmiL~~lPV~Pp~lRP~v~l~~g~ 286 (663)
T CHL00018 223 GEEGSTGNEWEDRKIGRRKDFLVRRIKLAKHFIRTN----------IE------PEWMVLCLLPVLPPELRPIIQLDGGK 286 (663)
T ss_pred hhccccccchhhhhhHHHHHHHHHHHHHHHHHHhcC----------CC------ccEEEEEeeeeCCCcccCceEcCCCc
Confidence 0000 0000 0122233333333311 23 99999999976 8888888877
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHhc--CCchhhHHHHHHHHHHHHhhhccCCCCCCccccccCCCchhhHhhhhccccc
Q psy3023 263 VLLDDLTHKLADIIKCNNELIRNESS--GAATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEG 340 (392)
Q Consensus 263 ~~eddlT~~l~~II~~n~~L~~~~~~--g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G 340 (392)
..+||+|..|++||..|+.|++.... +++...+.++|.+||.+|+.|+||+..+.+... .+++|++||+|+|+||+|
T Consensus 287 ~~~sDln~lyr~II~rNn~L~~~~~~~~~~p~~~i~~~~~~LQ~aVd~lidn~~~g~~~~~-~~~r~~ksls~~LkGK~G 365 (663)
T CHL00018 287 LMSSDLNELYRRVIYRNNTLTDLLTTSRSTPGELVMCQKKLLQEAVDALLDNGIRGQPMRD-GHNKPYKSFSDVIEGKEG 365 (663)
T ss_pred ccCCChHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHHHHHhcCCCCCCcccc-CCCCCCCCccccccCcCc
Confidence 88999999999999999999987766 677777888999999999999999998765432 246889999999999999
Q ss_pred ccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCcccc
Q psy3023 341 RIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVT 387 (392)
Q Consensus 341 ~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt 387 (392)
|||+|||||||||||||||||||+|++||||||..||.+||+|+.+.
T Consensus 366 rFR~NLlGKRVDySgRSVIvpdP~L~l~e~GlP~~mA~eL~~P~~i~ 412 (663)
T CHL00018 366 RFRENLLGKRVDYSGRSVIVVGPSLSLHQCGLPREIAIELFQPFVIR 412 (663)
T ss_pred cccccccccccccCCCceecCCCcccccccCChHHHHHHcCcHHHHH
Confidence 99999999999999999999999999999999999999999998753
No 15
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=100.00 E-value=3.3e-51 Score=454.68 Aligned_cols=327 Identities=27% Similarity=0.405 Sum_probs=230.5
Q ss_pred cccceEEEecCCHHHHHHhhhcccceeCcccc--cCCccccCCCCCCCC-CCCC--------------CCCccccccCCC
Q psy3023 11 RCVKKVQFGILSPDEIRRMSVTEGGIKFPETM--EGGRPKLGGLMDPRQ-GVID--------------RSSRCQTCAGNM 73 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~--~~~~p~~~Gl~D~rl-G~~~--------------~~~~C~TCg~~~ 73 (392)
..+..|+.+++|||+|++||+=| |+.|+|. ...+|..+||+|.|. ||.. ++..|..||...
T Consensus 1446 ~~~~~i~i~laSPe~I~~Ws~Ge--V~kpeTinyrt~kPE~dGLFcerIFGp~kd~eC~Cgkyk~~~~~g~~C~~Cgvev 1523 (2836)
T PRK14844 1446 QSFNEVSISIASPESIKRMSYGE--IEDVSTANYRTFKVEKGGLFCPKIFGPVNDDECLCGKYKKRRHRGRICEKCGVEV 1523 (2836)
T ss_pred cccceEEEEecCHHHHHhhhcee--ECCcccccccCCCCCCCCeehhhhcCCCcCcEEecccccccccCCcCcCCCCcEe
Confidence 67899999999999999999955 9999984 579999999999996 9863 334788999887
Q ss_pred CCC---CCcceEeecCcchhhhhcHHHH-----------HHHHHHhhhcccccccCCCchHHHH--HHHhhhcchHHHHH
Q psy3023 74 TEC---PGHFGHIDLAKPVFHVGFVTKT-----------IKILRCVCFYCSKLLVSPSHPKVRD--VVLKTKGQSRRRQA 137 (392)
Q Consensus 74 ~~C---pGHfGhI~L~~PV~hp~f~~~~-----------~~iL~~iC~~C~~l~l~~~~~~~~~--~~~~~~~~~~~~~~ 137 (392)
... .-.||||+|+.||.|+||++.+ .+-|..+.++=+.+.+.+....+.. ++. . ...
T Consensus 1524 t~s~vRR~RmGhI~La~PV~HiWy~k~~ps~i~~lL~~~~k~le~v~y~~~~~v~~~~~~~~~~~~~~~-----~-~~~- 1596 (2836)
T PRK14844 1524 TSSKVRRERMGHIELASPVAHIWFLKSLPSRIGALLDMSLRDIENILYSDNYIVIDPLVSPFEKGEIIS-----E-KAY- 1596 (2836)
T ss_pred eechhhHhhcCceeecCcceeeecccCCcHHHHHHhCCCHHHhhheeeeeeEEEecCCCCchhhhhhcc-----H-HHH-
Confidence 766 4799999999999999999832 3445666655555555554322211 110 0 000
Q ss_pred HHHHHhhccccCCCCCCCCcCCCCCCCccccccCCCCCCCCCCCCCcccccccee-------eeEeeccccccccccccC
Q psy3023 138 FIYDLCKGKNICEGGDEMDINKDGAEDPNSLQNKKQGHGGCGRYQPNIRRSGLDL-------TAEWKHVNEDSQEKKIPL 210 (392)
Q Consensus 138 ~i~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~~~~-------~~~~~~~~~~~~~~~~~l 210 (392)
.+.... ...+.... ..|..+....+.. +++ ..+|+..+ ..+.+...+
T Consensus 1597 --~~~~~~----~~~~~~~~-----------------~~Gaeai~~lL~~--~dl~~~~~~l~~~~~~~~-~~~~~~~~~ 1650 (2836)
T PRK14844 1597 --NEAKDS----YGIDSFVA-----------------MQGVEAIRELLTR--LDLHEIRKDLRLELESVA-SEIRRKKII 1650 (2836)
T ss_pred --HHHHHh----cCccceee-----------------cchHHHHHHHHHh--CCHHHHHHHHHHHHHhcc-HHHHHHHHH
Confidence 010000 00000000 0000011000000 111 01111100 011111223
Q ss_pred ChHHHHHhhcCCCCCcccccccccccCCCCCCcccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHH
Q psy3023 211 TGKGVLLNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRN 285 (392)
Q Consensus 211 ~p~~v~~i~k~~~~d~~ll~p~~~~~~l~~~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~ 285 (392)
...++.+.|..+. .+ |+||||++||| ||++.++|+...+||||.+|++||..|++|++.
T Consensus 1651 krl~~~~~f~~s~----------~r------Pewmil~~lPV~Pp~lRP~v~l~~g~~~~sDLn~ly~~II~~NnrLk~~ 1714 (2836)
T PRK14844 1651 KRLRIVENFIKSG----------NR------PEWMILTTIPILPPDLRPLVSLESGRPAVSDLNHHYRTIINRNNRLRKL 1714 (2836)
T ss_pred HHHHHHHHHHhcC----------CC------hhheeeeccccCCCcccCcEEeCCCcccCCchHHHHHHHHHHHHHHHHH
Confidence 3344444444421 24 99999999976 888989887788999999999999999999999
Q ss_pred HhcCCchhhHHHHHHHHHHHHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCC
Q psy3023 286 ESSGAATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNL 365 (392)
Q Consensus 286 ~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l 365 (392)
...+++...+.+.|.+||.+|+.||||+..+.+.....+.++++||+|+|+||+||||+|||||||||||||||+|||+|
T Consensus 1715 ~~~~ap~~ii~~~~~~LQ~~V~~l~Dn~~~g~~~~~~~~r~~lksls~~LkGK~GRFR~NLlGKRVDySgRSVI~pdP~L 1794 (2836)
T PRK14844 1715 LSLNPPEIMIRNEKRMLQEAVDSLFDNSRRNALVNKAGAVGYKKSISDMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPTL 1794 (2836)
T ss_pred HHcCCchhhHHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCccccHHHHhcCCCCcccccccccccccCCCceEeCCCCc
Confidence 88999988888999999999999999999876543222223479999999999999999999999999999999999999
Q ss_pred ccccccchHHhHhhcccCccccC
Q psy3023 366 RIDQVGVPRSIAQNMTFPEIVTP 388 (392)
Q Consensus 366 ~ideiGvP~~~A~~LT~Pe~Vt~ 388 (392)
.++|||||..||++||+|+.++.
T Consensus 1795 ~l~evGlP~~mA~eL~~Pf~i~~ 1817 (2836)
T PRK14844 1795 KLNQCGLPKRMALELFKPFVYSK 1817 (2836)
T ss_pred ccceeeCCHHHHHhcccHHHHHH
Confidence 99999999999999999987643
No 16
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=100.00 E-value=2.3e-50 Score=449.39 Aligned_cols=327 Identities=28% Similarity=0.427 Sum_probs=228.7
Q ss_pred ccccceEEEecCCHHHHHHhhhcccceeCcccc--cCCccccCCCCCCCC-CCCC--------------CCC-ccccccC
Q psy3023 10 LRCVKKVQFGILSPDEIRRMSVTEGGIKFPETM--EGGRPKLGGLMDPRQ-GVID--------------RSS-RCQTCAG 71 (392)
Q Consensus 10 ~~~i~~i~F~~~s~eeI~~~Sv~~~~i~~~~~~--~~~~p~~~Gl~D~rl-G~~~--------------~~~-~C~TCg~ 71 (392)
...+..|+.+++|||+|++||+=| |+.|+|. ...+|..+||+|.|. ||.. ++. .|..||.
T Consensus 1393 ~~~~~~i~i~lASpe~I~~ws~Ge--V~kpeTinyrt~kPe~dGLFcerIFGp~kd~eC~Cgkyk~~~~~g~~~C~~Cgv 1470 (2890)
T PRK09603 1393 PKDFSSFQLTLASPEKIHSWSYGE--VKKPETINYRTLKPERDGLFCMKIFGPTKDYECLCGKYKKPRFKDIGTCEKCGV 1470 (2890)
T ss_pred ccCcceEEEEecCHHHHHHhhcee--EccccccccccCccCCCCEeeceeccCccCcEEeCCCcccccCCCCEEcCCCCc
Confidence 367899999999999999999955 9999984 579999999999998 8863 122 4777777
Q ss_pred CCCCC---CCcceEeecCcchhhhhcHHHH-----------HHHHHHhhhcccccccCCCch--------HH--HHHHHh
Q psy3023 72 NMTEC---PGHFGHIDLAKPVFHVGFVTKT-----------IKILRCVCFYCSKLLVSPSHP--------KV--RDVVLK 127 (392)
Q Consensus 72 ~~~~C---pGHfGhI~L~~PV~hp~f~~~~-----------~~iL~~iC~~C~~l~l~~~~~--------~~--~~~~~~ 127 (392)
..... .-.||||+|+.||.|+||++.+ .+-|..+.++=+.+.+.+... .+ ..++..
T Consensus 1471 evt~s~vRR~RmGhI~La~Pv~HiWy~k~~ps~i~~ll~~~~k~le~viy~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~ 1550 (2890)
T PRK09603 1471 AITHSKVRRFRMGHIELATPVAHIWYVNSLPSRIGTLLGVKMKDLERVLYYEAYIVKEPGEAAYDNEGTKLVMKYDILNE 1550 (2890)
T ss_pred EechhHhHHHhcCceeecCcceeeeccCCCchHHHHHhCCCHHHhhhhhcceeeEEecCCccccccccccchhhhhhhhH
Confidence 65544 4689999999999999999832 344566665555555554321 00 011100
Q ss_pred hhcchHHHHHHHHHHhhccccCCCCCCCCcCCCCCCCccccccCCCCCCCCCCCCCccccccceee-------eEeeccc
Q psy3023 128 TKGQSRRRQAFIYDLCKGKNICEGGDEMDINKDGAEDPNSLQNKKQGHGGCGRYQPNIRRSGLDLT-------AEWKHVN 200 (392)
Q Consensus 128 ~~~~~~~~~~~i~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~i~~~~~~~~-------~~~~~~~ 200 (392)
. +..+.... . ....+... .|..+.+..+.. +++. .+|+..+
T Consensus 1551 ------~---~~~~~~~~--~--~~~~f~~~-----------------~Gaeai~~lL~~--~dl~~~~~~l~~~~~~~~ 1598 (2890)
T PRK09603 1551 ------E---QYQNISRR--Y--EDRGFVAQ-----------------MGGEAIKDLLEE--IDLITLLQSLKEEVKDTN 1598 (2890)
T ss_pred ------H---HHHHHHHH--c--Ccccceec-----------------hhHHHHHHHHHh--CCHHHHHHHHHHHHHhcc
Confidence 0 00111100 0 00000000 000001000000 1110 0111100
Q ss_pred cccccccccCChHHHHHhhcCCCCCcccccccccccCCCCCCcccccccccC-----CceeeecCCcccchhhHHHHHHH
Q psy3023 201 EDSQEKKIPLTGKGVLLNKKQGHGGCGRYQPNIRRSGLDLTAEWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADI 275 (392)
Q Consensus 201 ~~~~~~~~~l~p~~v~~i~k~~~~d~~ll~p~~~~~~l~~~p~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~I 275 (392)
. ....+..+...++.+.|..+. .+ |+||||++||| ||++.++|+...++|+|.+|++|
T Consensus 1599 ~-~~~~~~~~krl~~v~~f~~s~----------~~------PewmiL~~lPV~Pp~lRP~v~l~gg~~a~sDln~lyr~I 1661 (2890)
T PRK09603 1599 S-DAKKKKLIKRLKVVESFLNSG----------NR------PEWMMLTVLPVLPPDLRPLVALDGGKFAVSDVNELYRRV 1661 (2890)
T ss_pred H-HHHHHHHHHHHHHHHHHHhcC----------CC------hHheeeeeeccCCCcccCcEEeCCCcccCCCccHHHHHH
Confidence 0 000111223444444455422 23 99999999976 88899988778899999999999
Q ss_pred HHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCCCccccccCCCchhhHhhhhcccccccccccCCccccCcc
Q psy3023 276 IKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPGLPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSA 355 (392)
Q Consensus 276 I~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsa 355 (392)
|..|++|++....+++...+.+.|.+||.+|+.||||...+.+. ..++++|++||+|+|+||+||||+|||||||||||
T Consensus 1662 I~rNnrLk~l~~~~ap~~ii~nek~~LQ~aVd~l~DN~~~~~~~-~~~~~rplKsls~~LkGK~GRFRqNLlGKRVDySg 1740 (2890)
T PRK09603 1662 INRNQRLKRLMELGAPEIIVRNEKRMLQEAVDVLFDNGRSTNAV-KGANKRPLKSLSEIIKGKQGRFRQNLLGKRVDFSG 1740 (2890)
T ss_pred HHHHHHHHHHHHcCCCceehHHHHHHHHHHHHHHhccccccccc-cCCCCCcchhHHHHhcCCCCccccccccccccCcC
Confidence 99999999988889988888889999999999999999877653 23457899999999999999999999999999999
Q ss_pred ceeecCCCCCccccccchHHhHhhcccCccccC
Q psy3023 356 RTVITPDPNLRIDQVGVPRSIAQNMTFPEIVTP 388 (392)
Q Consensus 356 RSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt~ 388 (392)
||||||||+|++||||||..||.+||+|+.+..
T Consensus 1741 RSVI~pdP~L~l~e~GvP~~mA~eL~~P~~i~~ 1773 (2890)
T PRK09603 1741 RSVIVVGPNLKMDECGLPKNMALELFKPHLLSK 1773 (2890)
T ss_pred CceEeCCCCcccccccChHHHHHHhCChHHHHH
Confidence 999999999999999999999999999988743
No 17
>smart00663 RPOLA_N RNA polymerase I subunit A N-terminus.
Probab=100.00 E-value=4.9e-44 Score=337.75 Aligned_cols=148 Identities=57% Similarity=0.881 Sum_probs=133.6
Q ss_pred cccccccccC-----CceeeecCCcccchhhHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHhhhccCCCCCC
Q psy3023 243 EWKHVNEDSQ-----EKKIPLTGKGVLLDDLTHKLADIIKCNNELIRNESSGAATHVIAENIKMLQFHVATLTDNDMPGL 317 (392)
Q Consensus 243 ~~~il~~l~V-----RP~~~~~~~~~~eddlT~~l~~II~~n~~L~~~~~~g~~~~~~~~~~~~LQ~~v~~~~d~~~~~~ 317 (392)
+|||+++||| ||++.++++...+||+|.+|.+||+.|+.|+.....+++...+.+.|..||.+|+.|+||+ +.
T Consensus 1 e~fil~~lpVpP~~~RP~v~~~~~~~~eddlt~~l~~Ii~~N~~L~~~~~~~~~~~~~~~~~~~LQ~~v~~~~d~~--~~ 78 (295)
T smart00663 1 EWMILTVLPVPPPCLRPSVSLDGGRFAEDDLTHLLRDIIKRNNRLKRLLELGAPEHIIRNEKRLLQEAVDTLFDNE--GL 78 (295)
T ss_pred CeEEEeccccCCCCCCCcEEeCCCcccCCcHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHccC--CC
Confidence 5999999955 8888887766789999999999999999999988888888888889999999999999998 22
Q ss_pred ccccccCCCchhhHhhhhcccccccccccCCccccCccceeecCCCCCccccccchHHhHhhcccCccccCCCCC
Q psy3023 318 PRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRSIAQNMTFPEIVTPFNMD 392 (392)
Q Consensus 318 ~~~~~~~~~~~~gi~q~L~~K~G~fR~nlmGKRVnfsaRSVIsPDP~l~ideiGvP~~~A~~LT~Pe~Vt~~Ni~ 392 (392)
+....+++++++||+|+|+||+|+||+|||||||||||||||||||+|++||||||..||++|||||.||.||++
T Consensus 79 ~~~~~~~~~~~~~i~~~l~gK~G~~R~nllGKRvd~s~RsVI~pdP~l~~~evgiP~~~A~~Lt~pe~v~~~n~~ 153 (295)
T smart00663 79 PRARQKSGRPLKSLSQRLKGKEGRFRQNLLGKRVDFSARSVITPDPNLKLNEVGVPKEIALELTFPEIVTPLNID 153 (295)
T ss_pred cccccCCCCCcccccccccCcCCccccccccccccccCceEEeCCCCcceeEeeCCHHHHHhCCcCEEEhHHHHH
Confidence 333334567889999999999999999999999999999999999999999999999999999999999999964
No 18
>TIGR01623 put_zinc_LRP1 putative zinc finger domain, LRP1 type. This model represents a putative zinc finger domain found in plants. Arabidopsis thaliana has at least 10 distinct members. Proteins containing this domain, including LRP1, generally share the same size, about 300 amino acids, and architecture. This 43-residue domain, and a more C-terminal companion domain of similar size, appear as tightly conserved islands of sequence similarity. The remainder consists largely of low-complexity sequence. Several animal proteins have regions with matching patterns of Cys, Gly, and His residues. These are not included in the model but score between trusted and noise cutoffs.
Probab=50.67 E-value=5.3 Score=26.43 Aligned_cols=20 Identities=30% Similarity=0.625 Sum_probs=15.8
Q ss_pred CCccccccCC-CCCCCCcceE
Q psy3023 63 SSRCQTCAGN-MTECPGHFGH 82 (392)
Q Consensus 63 ~~~C~TCg~~-~~~CpGHfGh 82 (392)
...|.||... -.+|+||.--
T Consensus 15 ~~~CRtCCK~r~~DC~tHv~s 35 (43)
T TIGR01623 15 FERCRTCCKSRGFHCVTHVKS 35 (43)
T ss_pred hhhhhHHhcccCcCCcchhcc
Confidence 4589999988 4699999643
No 19
>TIGR00357 methionine-R-sulfoxide reductase. This model describes a domain found in PilB, a protein important for pilin expression, N-terminal to a domain coextensive to with the known peptide methionine sulfoxide reductase (MsrA), a protein repair enzyme, of E. coli. Among the early completed genomes, this module is found if and only if MsrA is also found, whether N-terminal to MsrA (as for Helicobacter pylori), C-terminal (as for Treponema pallidum), or in a separate polypeptide. Although the function of this region is not clear, an auxiliary function to MsrA is suggested.
Probab=46.81 E-value=6.2 Score=33.25 Aligned_cols=25 Identities=36% Similarity=0.816 Sum_probs=13.6
Q ss_pred CCCCCCCCCCCccccccCCCCCCCCcceEeec
Q psy3023 54 DPRQGVIDRSSRCQTCAGNMTECPGHFGHIDL 85 (392)
Q Consensus 54 D~rlG~~~~~~~C~TCg~~~~~CpGHfGhI~L 85 (392)
|..+|..--...|..|| ||.||+=-
T Consensus 80 D~s~gm~RtEv~C~~Cg-------~HLGHVF~ 104 (134)
T TIGR00357 80 DESHGMIRTEVRCRNCD-------AHLGHVFD 104 (134)
T ss_pred cCCCCcEEEEEEecCCC-------CccCcccC
Confidence 44444322223566665 89999643
No 20
>KOG0856|consensus
Probab=45.29 E-value=9.3 Score=32.20 Aligned_cols=14 Identities=50% Similarity=1.172 Sum_probs=10.4
Q ss_pred ccccccCCCCCCCCcceEeec
Q psy3023 65 RCQTCAGNMTECPGHFGHIDL 85 (392)
Q Consensus 65 ~C~TCg~~~~~CpGHfGhI~L 85 (392)
.|.+|| ||.|||=.
T Consensus 105 ~Ca~C~-------~HLGHVF~ 118 (146)
T KOG0856|consen 105 SCATCG-------GHLGHVFK 118 (146)
T ss_pred EEeecC-------Cceeeeec
Confidence 466665 89999865
No 21
>PF05864 Chordopox_RPO7: Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide (RPO7); InterPro: IPR008448 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide sequences. DNA-dependent RNA polymerase catalyses the transcription of DNA into RNA [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=44.93 E-value=19 Score=25.48 Aligned_cols=19 Identities=37% Similarity=0.475 Sum_probs=12.6
Q ss_pred HHHHHHHhhhcccccccCC
Q psy3023 98 TIKILRCVCFYCSKLLVSP 116 (392)
Q Consensus 98 ~~~iL~~iC~~C~~l~l~~ 116 (392)
+.++|+.+=..|.|++++.
T Consensus 28 Lk~Vl~~v~n~CCRlKLsT 46 (63)
T PF05864_consen 28 LKKVLRTVKNSCCRLKLST 46 (63)
T ss_pred HHHHHHHhhccceeeeecc
Confidence 4456777777777777654
No 22
>PHA03082 DNA-dependent RNA polymerase subunit; Provisional
Probab=38.35 E-value=22 Score=25.13 Aligned_cols=19 Identities=37% Similarity=0.475 Sum_probs=13.6
Q ss_pred HHHHHHHhhhcccccccCC
Q psy3023 98 TIKILRCVCFYCSKLLVSP 116 (392)
Q Consensus 98 ~~~iL~~iC~~C~~l~l~~ 116 (392)
+.++|+.+=..|.|+++..
T Consensus 28 L~~Vl~~v~~~CCRlKLsT 46 (63)
T PHA03082 28 LKKVLRTVKNSCCRLKLST 46 (63)
T ss_pred HHHHHHHhhccceeeeeec
Confidence 4567777777777777764
No 23
>PF14754 IFR3_antag: Papain-like auto-proteinase
Probab=35.61 E-value=6.4 Score=33.84 Aligned_cols=29 Identities=45% Similarity=0.960 Sum_probs=21.3
Q ss_pred CCCCccccccCC---CCCCCC-cceEeecCcch
Q psy3023 61 DRSSRCQTCAGN---MTECPG-HFGHIDLAKPV 89 (392)
Q Consensus 61 ~~~~~C~TCg~~---~~~CpG-HfGhI~L~~PV 89 (392)
|....|..|-.+ +.+||| .+|-++|+.||
T Consensus 36 dgstlcaecfrgcegmeqcpglfmgllklaspv 68 (249)
T PF14754_consen 36 DGSTLCAECFRGCEGMEQCPGLFMGLLKLASPV 68 (249)
T ss_pred cCccHHHHHhccCcchhhCcHHHHHHHHhcCCC
Confidence 334568777543 679999 56999998766
No 24
>PF02044 Bombesin: Bombesin-like peptide; InterPro: IPR000874 Bombesin-like peptides comprise a large family of peptides which were initially isolated from amphibian skin, where they stimulate smooth muscle contraction. They were later found to be widely distributed in mammalian neural and endocrine cells. The amphibian peptides which belong to this family are currently classified into three subfamilies [, ]; the Bombesin group, which includes bombesin and alytesin; the Ranatensin group, which includes ranatensins, litorin, and Rohdei litorin; and the Phyllolitorin group, which includes Leu(8)- and Phe(8)-phyllolitorins. In mammals and birds two categories of bombesin-like peptides are known [, ], gastrin-releasing peptide (GRP), which stimulates the release of gastrin as well as other gastrointestinal hormones, and neuromedin B (NMB), a neuropeptide whose function is not yet clear. Bombesin-like peptides, like many other active peptides, are synthesized as larger protein precursors that are enzymatically converted to their mature forms. The final peptides are eight to fourteen residues long.; GO: 0007218 neuropeptide signaling pathway; PDB: 1C9A_A 1C98_A.
Probab=34.42 E-value=12 Score=18.49 Aligned_cols=7 Identities=57% Similarity=1.265 Sum_probs=2.1
Q ss_pred cccCCcc
Q psy3023 344 GNLMGKR 350 (392)
Q Consensus 344 ~nlmGKR 350 (392)
+++|||+
T Consensus 7 Gh~Mgkk 13 (14)
T PF02044_consen 7 GHFMGKK 13 (14)
T ss_dssp HCT----
T ss_pred eeeeccC
Confidence 5788886
No 25
>PF06463 Mob_synth_C: Molybdenum Cofactor Synthesis C; InterPro: IPR010505 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) []. This entry represents MoaA, which belongs to a family of enzymes involved in the synthesis of metallo-cofactors (IPR000385 from INTERPRO). Each subunit of the MoaA dimer is comprised of an N-terminal SAM domain (IPR007197 from INTERPRO) that contains the [4Fe-4S] cluster typical for this family of enzymes, as well as an additional [4Fe-4S] cluster in the C-terminal domain that is unique to MoaA proteins []. The unique Fe site of the C-terminal [4Fe-4S] cluster is thought to be involved in the binding and activation of 5'-GTP. Mutations in the human MoCF biosynthesis proteins MOCS1, MOCS2 or GEPH cause MoCF Deficiency type A (MOCOD), causing the loss of activity of MoCF-containing enzymes, resulting in neurological abnormalities and death [].; GO: 0051539 4 iron, 4 sulfur cluster binding, 0006777 Mo-molybdopterin cofactor biosynthetic process, 0019008 molybdopterin synthase complex; PDB: 2FB2_A 2FB3_A 1TV8_B 1TV7_A.
Probab=33.73 E-value=21 Score=29.82 Aligned_cols=33 Identities=21% Similarity=0.534 Sum_probs=20.7
Q ss_pred CCCCCCcceEeecCcchhhhhcHHHHHHHHHHhhhcccccccCCC
Q psy3023 73 MTECPGHFGHIDLAKPVFHVGFVTKTIKILRCVCFYCSKLLVSPS 117 (392)
Q Consensus 73 ~~~CpGHfGhI~L~~PV~hp~f~~~~~~iL~~iC~~C~~l~l~~~ 117 (392)
+..-||.-|.|.+-.|+-|| | |-.|+|++++.+
T Consensus 51 ~y~~~g~~g~vG~I~~~s~~--F----------C~~CNRiRlTsd 83 (128)
T PF06463_consen 51 YYRIPGGKGRVGFISPVSNP--F----------CSSCNRIRLTSD 83 (128)
T ss_dssp EEEETTT--EEEEE-TTTS--------------GGG--EEEE-TT
T ss_pred EEEECCCCcEEEEEeCCCCC--C----------CCcCCEEEEccC
Confidence 34557888888888999999 3 999999999875
No 26
>PRK00222 methionine sulfoxide reductase B; Provisional
Probab=30.17 E-value=17 Score=31.04 Aligned_cols=9 Identities=44% Similarity=1.124 Sum_probs=6.3
Q ss_pred CCCcceEee
Q psy3023 76 CPGHFGHID 84 (392)
Q Consensus 76 CpGHfGhI~ 84 (392)
|-+|.||+=
T Consensus 98 Cg~HLGHVF 106 (142)
T PRK00222 98 CDSHLGHVF 106 (142)
T ss_pred CCCccCccc
Confidence 348999953
No 27
>COG5417 Uncharacterized small protein [Function unknown]
Probab=29.45 E-value=41 Score=25.31 Aligned_cols=20 Identities=35% Similarity=0.436 Sum_probs=14.7
Q ss_pred ceEeecCcchhhhhcHHHHHHH
Q psy3023 80 FGHIDLAKPVFHVGFVTKTIKI 101 (392)
Q Consensus 80 fGhI~L~~PV~hp~f~~~~~~i 101 (392)
-|-++|.+|+||| ++.++.+
T Consensus 16 g~~yDLrl~d~~p--ikklIdi 35 (81)
T COG5417 16 GGTYDLRLPDYLP--IKKLIDI 35 (81)
T ss_pred CceEEEeccccch--HHHHHHH
Confidence 3678999999999 5555443
No 28
>KOG0466|consensus
Probab=26.96 E-value=40 Score=32.67 Aligned_cols=16 Identities=31% Similarity=0.916 Sum_probs=11.3
Q ss_pred CccccccCC----------CCCCCCc
Q psy3023 64 SRCQTCAGN----------MTECPGH 79 (392)
Q Consensus 64 ~~C~TCg~~----------~~~CpGH 79 (392)
..|..||.. +.+||||
T Consensus 110 ~~c~~~g~~~~~klvRHVSfVDCPGH 135 (466)
T KOG0466|consen 110 PPCDRPGCEGKMKLVRHVSFVDCPGH 135 (466)
T ss_pred CCcccCCCCCceEEEEEEEeccCCch
Confidence 468888766 3477877
No 29
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=25.51 E-value=30 Score=32.21 Aligned_cols=42 Identities=21% Similarity=0.430 Sum_probs=26.5
Q ss_pred CCCCCCCCccccccCCCCCCCCcceEeecCcchhhhhcHHHHHHHHH-HhhhcccccccCC
Q psy3023 57 QGVIDRSSRCQTCAGNMTECPGHFGHIDLAKPVFHVGFVTKTIKILR-CVCFYCSKLLVSP 116 (392)
Q Consensus 57 lG~~~~~~~C~TCg~~~~~CpGHfGhI~L~~PV~hp~f~~~~~~iL~-~iC~~C~~l~l~~ 116 (392)
.+|. .+..|.-|+ |.|+. .++..|.+=-. -.|.+|+|++.-.
T Consensus 192 vvpl-~g~~C~GC~------------m~l~~-----~~~~~V~~~d~iv~CP~CgRILy~~ 234 (239)
T COG1579 192 VVPL-EGRVCGGCH------------MKLPS-----QTLSKVRKKDEIVFCPYCGRILYYD 234 (239)
T ss_pred EEee-cCCcccCCe------------eeecH-----HHHHHHhcCCCCccCCccchHHHhh
Confidence 3444 466899994 55543 55555555111 5699999998653
No 30
>COG2023 RPR2 RNase P subunit RPR2 [Translation, ribosomal structure and biogenesis]
Probab=25.34 E-value=14 Score=29.70 Aligned_cols=19 Identities=32% Similarity=0.488 Sum_probs=15.8
Q ss_pred HHHHHHhhhcccccccCCC
Q psy3023 99 IKILRCVCFYCSKLLVSPS 117 (392)
Q Consensus 99 ~~iL~~iC~~C~~l~l~~~ 117 (392)
..|=+.+|..|+.+|++..
T Consensus 52 ~~iKR~~CkkC~t~Lvpg~ 70 (105)
T COG2023 52 REIKRTICKKCYTPLVPGK 70 (105)
T ss_pred HHHHHHhccccCcccccCc
Confidence 4466799999999999964
No 31
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=24.01 E-value=35 Score=22.45 Aligned_cols=20 Identities=30% Similarity=0.941 Sum_probs=12.9
Q ss_pred ccccccCCCCCCCCcceEeecC--cchhhh
Q psy3023 65 RCQTCAGNMTECPGHFGHIDLA--KPVFHV 92 (392)
Q Consensus 65 ~C~TCg~~~~~CpGHfGhI~L~--~PV~hp 92 (392)
.|..||. |||+.-. -|+|+.
T Consensus 3 kC~~CG~--------~GH~~t~k~CP~~~~ 24 (40)
T PF15288_consen 3 KCKNCGA--------FGHMRTNKRCPMYCW 24 (40)
T ss_pred ccccccc--------ccccccCccCCCCCC
Confidence 5777864 7887744 366663
No 32
>TIGR02986 restrict_Alw26I type II restriction endonuclease, Alw26I/Eco31I/Esp3I family. Members of this family are type II restriction endonucleases of the Alw26I/Eco31I/Esp3I family. Characterized specificities of three members are GGTCTC, CGTCTC, and the shared subsequence GTCTC.
Probab=22.93 E-value=42 Score=33.37 Aligned_cols=50 Identities=22% Similarity=0.430 Sum_probs=36.7
Q ss_pred CCCCCCCC-CCCccccccCCCCCC-CCcceEeecC---cchhhhhcHHHHHHHHHHhhhcccccccC
Q psy3023 54 DPRQGVID-RSSRCQTCAGNMTEC-PGHFGHIDLA---KPVFHVGFVTKTIKILRCVCFYCSKLLVS 115 (392)
Q Consensus 54 D~rlG~~~-~~~~C~TCg~~~~~C-pGHfGhI~L~---~PV~hp~f~~~~~~iL~~iC~~C~~l~l~ 115 (392)
|--||... ....|.-|++....| +-|.|=|.|- .|.|.| .|..|..-+-+
T Consensus 234 d~Lmg~~~~~~~~~~~~~~~p~~~saDHIGPISlGF~h~P~Fqp------------lc~~cNSaKnn 288 (424)
T TIGR02986 234 DQLMGKAGFNRCSIPECCKHPEKISADHIGPISLGFVHDPRFQP------------LCSSCNSAKND 288 (424)
T ss_pred HHHhCcccCCcccCcccccCCCCCCccccCCcccccccCccccc------------ccccccccccc
Confidence 55566543 234689999988888 7899999996 377766 49999875543
No 33
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=22.83 E-value=49 Score=29.63 Aligned_cols=17 Identities=29% Similarity=0.911 Sum_probs=12.8
Q ss_pred CCCCccccccCC---CCCCC
Q psy3023 61 DRSSRCQTCAGN---MTECP 77 (392)
Q Consensus 61 ~~~~~C~TCg~~---~~~Cp 77 (392)
+....|--||+. ..+||
T Consensus 58 ~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 58 EENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccccchhcccCcccccCC
Confidence 345689999987 46788
No 34
>PF12234 Rav1p_C: RAVE protein 1 C terminal; InterPro: IPR022033 This domain family is found in eukaryotes, and is typically between 621 and 644 amino acids in length. This family is the C-terminal region of the protein RAVE (regulator of the ATPase of vacuolar and endosomal membranes). Rav1p is involved in regulating the glucose dependent assembly and disassembly of vacuolar ATPase V1 and V0 subunits.
Probab=20.61 E-value=61 Score=34.67 Aligned_cols=23 Identities=13% Similarity=0.187 Sum_probs=16.5
Q ss_pred cccceEEEecCCHHHHHHhhhcc
Q psy3023 11 RCVKKVQFGILSPDEIRRMSVTE 33 (392)
Q Consensus 11 ~~i~~i~F~~~s~eeI~~~Sv~~ 33 (392)
..|+.|..+-+|+.+|-..+-..
T Consensus 116 ~~i~~i~i~~~T~h~Igds~Wl~ 138 (631)
T PF12234_consen 116 APIRKIDISSHTPHPIGDSIWLK 138 (631)
T ss_pred ceeEEEEeecCCCCCccceeEec
Confidence 56778888888888887655443
No 35
>TIGR02579 cas_csx3 CRISPR-associated protein, Csx3 family. Members of this family are found encoded in CRISPR-associated (cas) gene clusters, near CRISPR repeats, in the genomes of several different thermophiles: Archaeoglobus fulgidus (archaeal), Aquifex aeolicus (Aquificae), Dictyoglomus thermophilum (Dictyoglomi), and a thermophilic Synechococcus (Cyanobacteria). It is not yet assigned to a specific CRISPR/cas subtype (hence the x designation csx3).
Probab=20.13 E-value=34 Score=26.29 Aligned_cols=38 Identities=21% Similarity=0.336 Sum_probs=22.5
Q ss_pred CCHHHHHHhhhcc------cceeCccc----cc----CCccccC-CCCCCCCC
Q psy3023 21 LSPDEIRRMSVTE------GGIKFPET----ME----GGRPKLG-GLMDPRQG 58 (392)
Q Consensus 21 ~s~eeI~~~Sv~~------~~i~~~~~----~~----~~~p~~~-Gl~D~rlG 58 (392)
+++||+++++.=+ +-+.+-.. |- .-+|.+- ++||||||
T Consensus 12 l~p~dl~~~~lP~~id~~~gvvIsGrgP~WLy~~Lah~~h~~p~iav~dPrlG 64 (83)
T TIGR02579 12 LVPEDLKQLQPPAGVNTRKGVVLSGRGPIWLYGFLVHFYHPTPFVAVYDPRLG 64 (83)
T ss_pred CCHHHHhcccCCcccCCCccEEEeccCcHHHHHHHHHHhCCCceEEEEcCccc
Confidence 6889999887532 00111111 11 1356666 89999999
Done!