Query 001092
Match_columns 1159
No_of_seqs 228 out of 1630
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 15:36:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001092.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001092hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK08565 DNA-directed RNA poly 100.0 2E-278 4E-283 2625.2 94.9 1093 31-1158 1-1101(1103)
2 KOG0215 RNA polymerase III, se 100.0 7E-278 2E-282 2352.4 55.2 1130 2-1158 16-1150(1153)
3 KOG0214 RNA polymerase II, sec 100.0 8E-267 2E-271 2290.5 54.8 1106 28-1157 2-1140(1141)
4 KOG0216 RNA polymerase I, seco 100.0 1E-257 3E-262 2194.7 67.7 1055 30-1157 4-1111(1111)
5 COG0085 RpoB DNA-directed RNA 100.0 7E-251 2E-255 2264.2 69.3 1015 27-1158 10-1058(1060)
6 TIGR02013 rpoB DNA-directed RN 100.0 1E-226 2E-231 2118.3 75.0 919 29-1154 5-1065(1065)
7 cd00653 RNA_pol_B_RPB2 RNA pol 100.0 1E-226 2E-231 2111.3 73.8 856 44-1155 1-866 (866)
8 PRK00405 rpoB DNA-directed RNA 100.0 6E-223 1E-227 2094.8 78.1 921 29-1156 12-1107(1112)
9 CHL00001 rpoB RNA polymerase b 100.0 3E-219 7E-224 2038.0 73.9 940 38-1156 9-1057(1070)
10 CHL00207 rpoB RNA polymerase b 100.0 3E-205 7E-210 1899.9 75.7 931 38-1156 4-1052(1077)
11 PRK09603 bifunctional DNA-dire 100.0 6E-194 1E-198 1848.9 75.2 950 28-1157 11-1374(2890)
12 PRK14844 bifunctional DNA-dire 100.0 4E-190 8E-195 1807.4 73.3 956 26-1158 13-1433(2836)
13 PRK07225 DNA-directed RNA poly 100.0 7E-185 2E-189 1648.5 51.2 600 544-1158 4-603 (605)
14 TIGR03670 rpoB_arch DNA-direct 100.0 9E-184 2E-188 1637.4 49.4 597 547-1158 1-597 (599)
15 PF00562 RNA_pol_Rpb2_6: RNA p 100.0 1E-111 2E-116 982.8 19.5 367 674-1063 1-386 (386)
16 PRK09606 DNA-directed RNA poly 100.0 2E-106 4E-111 968.1 43.6 486 28-531 2-492 (494)
17 PF04563 RNA_pol_Rpb2_1: RNA p 100.0 2.2E-44 4.8E-49 386.0 16.4 147 43-192 1-149 (203)
18 PF04560 RNA_pol_Rpb2_7: RNA p 100.0 6.9E-31 1.5E-35 237.7 5.5 81 1065-1156 1-81 (81)
19 PF04565 RNA_pol_Rpb2_3: RNA p 99.9 2.8E-26 6.1E-31 201.5 2.2 66 446-511 1-68 (68)
20 PF04561 RNA_pol_Rpb2_2: RNA p 99.8 2.1E-21 4.6E-26 205.8 10.6 175 193-370 1-190 (190)
21 PF04566 RNA_pol_Rpb2_4: RNA p 99.7 3.5E-17 7.6E-22 141.3 8.9 63 547-609 1-63 (63)
22 KOG0215 RNA polymerase III, se 99.1 2.4E-13 5.2E-18 160.8 -12.8 537 24-604 93-638 (1153)
23 KOG0214 RNA polymerase II, sec 99.0 1.3E-11 2.9E-16 148.2 -5.7 322 738-1108 732-1059(1141)
24 PF04567 RNA_pol_Rpb2_5: RNA p 98.8 1.5E-09 3.3E-14 89.0 2.8 41 629-669 1-48 (48)
25 COG0085 RpoB DNA-directed RNA 97.7 2.4E-05 5.3E-10 99.6 4.7 75 661-755 525-599 (1060)
26 PF06883 RNA_pol_Rpa2_4: RNA p 97.5 0.00012 2.5E-09 62.6 4.4 49 554-602 1-58 (58)
27 PHA03394 lef-8 DNA-directed RN 95.3 0.049 1.1E-06 67.5 8.4 123 895-1028 695-828 (865)
28 COG1645 Uncharacterized Zn-fin 52.1 9.2 0.0002 38.4 2.0 28 1099-1128 28-55 (131)
29 PF04941 LEF-8: Late expressio 42.2 37 0.0008 42.8 5.3 35 357-391 209-243 (748)
30 PF14251 DUF4346: Domain of un 38.9 15 0.00033 36.1 1.2 14 167-180 10-23 (119)
31 PF09082 DUF1922: Domain of un 38.2 17 0.00036 32.4 1.2 47 1099-1147 3-55 (68)
32 PRK00398 rpoP DNA-directed RNA 36.9 29 0.00063 28.3 2.4 27 1099-1125 3-29 (46)
33 COG1545 Predicted nucleic-acid 36.0 18 0.00038 37.0 1.2 37 1095-1135 25-61 (140)
34 PRK06266 transcription initiat 32.7 24 0.00053 37.5 1.7 45 1080-1125 99-144 (178)
35 smart00661 RPOL9 RNA polymeras 32.7 25 0.00054 29.1 1.4 25 1101-1125 2-28 (52)
36 PRK14890 putative Zn-ribbon RN 32.3 20 0.00044 31.0 0.8 32 1094-1125 2-33 (59)
37 PF09538 FYDLN_acid: Protein o 32.3 22 0.00048 34.7 1.1 31 1098-1129 8-38 (108)
38 COG1096 Predicted RNA-binding 32.3 27 0.00058 37.2 1.8 35 1100-1137 150-184 (188)
39 PF02150 RNA_POL_M_15KD: RNA p 32.2 29 0.00062 26.9 1.5 26 1100-1125 2-28 (35)
40 PF06677 Auto_anti-p27: Sjogre 30.2 37 0.00081 27.3 1.9 24 1100-1124 18-41 (41)
41 PRK00420 hypothetical protein; 30.0 31 0.00068 33.9 1.8 25 1100-1125 24-48 (112)
42 PF07754 DUF1610: Domain of un 27.4 37 0.00079 24.2 1.2 23 1102-1124 1-23 (24)
43 TIGR02300 FYDLN_acid conserved 26.1 35 0.00075 34.1 1.3 29 1097-1126 7-35 (129)
44 COG2956 Predicted N-acetylgluc 26.0 54 0.0012 38.0 2.9 15 288-302 68-82 (389)
45 PF10385 RNA_pol_Rpb2_45: RNA 25.8 73 0.0016 28.3 3.2 22 637-658 12-33 (66)
46 PF13533 Biotin_lipoyl_2: Biot 24.8 52 0.0011 27.3 1.9 16 829-844 17-32 (50)
47 cd00729 rubredoxin_SM Rubredox 24.4 49 0.0011 25.4 1.6 26 1099-1126 2-27 (34)
48 PRK13130 H/ACA RNA-protein com 23.3 60 0.0013 28.0 2.0 25 1098-1128 4-28 (56)
49 PF07295 DUF1451: Protein of u 22.4 57 0.0012 33.7 2.1 26 1100-1125 113-138 (146)
50 PF08271 TF_Zn_Ribbon: TFIIB z 21.8 70 0.0015 25.7 2.1 24 1101-1124 2-26 (43)
51 PF13248 zf-ribbon_3: zinc-rib 21.0 40 0.00087 24.1 0.5 22 1100-1125 3-24 (26)
52 COG0266 Nei Formamidopyrimidin 20.9 58 0.0013 37.0 2.0 15 314-328 158-172 (273)
53 TIGR00373 conserved hypothetic 20.8 51 0.0011 34.4 1.4 45 1080-1125 91-136 (158)
54 COG1592 Rubrerythrin [Energy p 20.3 64 0.0014 34.0 2.0 24 1099-1125 134-157 (166)
No 1
>PRK08565 DNA-directed RNA polymerase subunit B; Provisional
Probab=100.00 E-value=1.6e-278 Score=2625.24 Aligned_cols=1093 Identities=41% Similarity=0.691 Sum_probs=1001.0
Q ss_pred ccccccccccccchHHHHHHHHHHHHHhChHHHHhccCceeecCCCcEEEEEeEEEEcCCccccCC-cCCCCChhhHhhc
Q 001092 31 KFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDG-VSEKLNPHMCRLS 109 (1159)
Q Consensus 31 ~~~~i~~~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~~~~~~l~f~~i~i~~P~~~~~~-~~~~l~P~EcR~r 109 (1159)
.|.++++||+.++|++||+||||+|+++||++++++++||+.. ++++.|+|++++|++|++.+++ ...+|+|+|||+|
T Consensus 1 ~~~li~~~~~~~~Lv~~qidSFn~Fi~~gL~~iv~~~~pI~~~-~~~~~L~f~~i~l~~P~~~~~~~~~~~l~P~ecR~r 79 (1103)
T PRK08565 1 RWTVVEAYFKEKGLVRQHLDSYNDFIERGLQEIVDEFGEIKTE-IPGLKIVLGKIRVGEPEIKEADGSERPITPMEARLR 79 (1103)
T ss_pred CchHHHHHhcccChHHHHHHHHHHHHHHhHHHHHHhcCCEEec-CCCEEEEEEEEEECCCcccccccccCCCCHHHHHhc
Confidence 4999999999999999999999999999999999999999865 6789999999999999997665 6678999999999
Q ss_pred CCccCccEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhhhHhh
Q 001092 110 DMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKVLLIQ 189 (1159)
Q Consensus 110 ~lTYsa~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ERVI~~q 189 (1159)
++||+|||+|+|++..++ ..++++++++|+|||||+|++|||++++|+||++.||||+|+||||||||+|||||+|
T Consensus 80 ~lTYsa~l~v~i~~~~~~----~~~~~~~v~iG~iPIMv~S~~C~L~~~s~~el~~~~E~p~D~GGYFIING~ERVI~~q 155 (1103)
T PRK08565 80 NLTYAAPLYLTMIPVENG----IEYEPEEVKIGDLPIMVKSKICPLSGLSPDELIEIGEDPKDPGGYFIINGSERVIVSQ 155 (1103)
T ss_pred CCCcceEEEEEEEEEECC----eeeEEEEEEeccCCeEeCCCcccCCCCCHHHHHhcCCCccCCCCeEEECCcEEEEEEE
Confidence 999999999999997654 4555668999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCeEEEEeCCCC---cEEEEEEecCCCcc-eEEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCHHHHHHHhCC
Q 001092 190 EQLSKNRVIIDTDKKG---NINASVTSSTETVK-SKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVGR 265 (1159)
Q Consensus 190 ~~~s~N~i~~~~~~~g---~~~a~v~s~~~~~~-s~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD~eI~~~i~~ 265 (1159)
|++++|+++++.+.++ .+.|.++|.....+ +..+++..||.++++++++.++||+++||||||++||+||++.|+.
T Consensus 156 ~~~s~n~~~~~~~~~~~~~~~~a~i~s~~~~~~~~~~l~~~~~g~i~~~~~~~~~~IPi~illkALG~~sD~eI~~~i~~ 235 (1103)
T PRK08565 156 EDLAPNRVLVDKGEAGSSITHTAKVISSRAGYRAQVTVERRKDGTIYVSFPAVPGKIPFVILMRALGLETDRDIVYAVSL 235 (1103)
T ss_pred EecCCCEEEEEEecCCCcceEEEEEEeccCCCcceEEEEEecCCeEEEEEcCcccEeeHHHHHHHcCCCCHHHHHHHhcc
Confidence 9999999998765432 36788888876543 3444445678999999987678999999999999999999999977
Q ss_pred chhhHhhhhHhHHHHHhcCC-cCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhccCCCCCCCCCCCcchhHHHH
Q 001092 266 DPRYSALLLPSIEECANLDI-YTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLANVPVHNNNFRPKCFYVAVM 344 (1159)
Q Consensus 266 ~~~~~~~l~~~l~~~~~~~i-~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~ll~Hl~~~~~~~~~K~~~L~~M 344 (1159)
++.+.+.+..+++++. .+ .|+++||.|||++|++. .++.+ ..+.|+++|++++|||++.+..++.+|+.+|++|
T Consensus 236 ~~~~~~~l~~~l~~~~--~~~~t~~~al~~ig~~~~~~--~~~~~-~~e~~~~~L~~~ll~Hig~~~~~~~~K~~~L~~M 310 (1103)
T PRK08565 236 DPEIQQELLPSLEQAS--SIAATVEDALDYIGKRVAIG--QPREY-RIERAEQILDKYLLPHLGTSPEDRIKKAYFLGQM 310 (1103)
T ss_pred cHHHHHHHHHHHHHhh--ccccCHHHHHHHHHHhccCC--CCCcc-HHHHHHHHHHhhCcccCCCcccchhHHHHHHHHH
Confidence 6666677777777653 25 79999999999999875 33445 7789999999999999997665567899999999
Q ss_pred HHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHH
Q 001092 345 LRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLE 424 (1159)
Q Consensus 345 i~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~ 424 (1159)
++||+++..|.+.+||+|||+||||+++|+||+.+||++|+++++.+|+++.+.+.+. ..+++..+++++.||++|+
T Consensus 311 i~kLl~l~~g~~~~DD~D~l~NKRv~l~G~Ll~~~fr~~l~~~~~~ik~~l~~~~~~~---~~~~~~~~i~~~~It~~i~ 387 (1103)
T PRK08565 311 ASKLLELYLGRREPDDKDHYANKRLRLAGDLLAELFRVAFKQLVKDLKYQLEKSYARG---RKLDLRAIVRPDIITERIR 387 (1103)
T ss_pred HHHHHhhhcCCCCCCCccccCCcEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---ccCCHHHhcccchhhHHHH
Confidence 9999999999999999999999999999999999999999999999999998765432 2456777788889999999
Q ss_pred HHhccCCCcccccccccccceEEccccccccccccccccccccccccccCCCCccCCCCCccccccCCCCCCcchhhhhc
Q 001092 425 RTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSPQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNL 504 (1159)
Q Consensus 425 ~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s~f~~~~K~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~L 504 (1159)
+|||||||.. |++|+||+|+|+||+|+||||||+++++.+++|.++||+||||||||+||||||||++||||+||
T Consensus 388 ~~~sTGnw~~-----~~sGvSq~ldr~N~l~~lSh~Rrv~s~~~r~~~~~~vR~Lhps~wG~iCPveTPEG~~cGLv~~L 462 (1103)
T PRK08565 388 HALATGNWVG-----GRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNL 462 (1103)
T ss_pred HHHhcCcccc-----CCcceEEecccCCHHHHHHHHhhccCCcccCCCCccccccChhhccccCCCCCCCccccchhhhh
Confidence 9999999984 67999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHHHHHhhcCCCCceeEEEe
Q 001092 505 ALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFV 584 (1159)
Q Consensus 505 A~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~ 584 (1159)
|++|+|+.+.+.+++.++|.++|+.++..+++... ...++|||||+|||+++++..|++.||.+||+|.++.+++|++
T Consensus 463 A~~a~It~~~~~~~i~~~l~~~G~~~~~~~~~~~~--~~~~~V~lnG~~iG~~~~~~~l~~~lR~~Rr~g~i~~~v~I~~ 540 (1103)
T PRK08565 463 ALMAQISVGVDEEEVEEILYELGVVPVEEAREEEY--ISWSRVYLNGRLIGYHPDGEELAEKIRELRRSGKISDEVNVAY 540 (1103)
T ss_pred hcccccccCCChHHHHHHHHHcCCCchhhcCcccC--CCceEEEECCEEEEEECCHHHHHHHHHHHhhcCCCCCeEEEEE
Confidence 99999999888899999999999998765544332 3568999999999999999999999999999999999999999
Q ss_pred cc--cCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccCceeeeccccccceEEEeecCCCCCcc
Q 001092 585 NE--KQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNALIALYEGDATPDT 662 (1159)
Q Consensus 585 ~~--~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~~~~~ 662 (1159)
+. .+++|+|+||+||++|||++|++|++.++++|++.++.+..+|+||+++|.|||||++||++++||+.++++...+
T Consensus 541 ~~~~~~~~i~I~sd~GRl~RP~~~v~~g~~~~~~~~~~~l~~~~~~~~~l~~~g~iEyid~~Ee~~~~Ia~~~~~l~~~~ 620 (1103)
T PRK08565 541 IETGEINEVYVNCDSGRVRRPLIVVENGKPKLTREHVEKLKKGELTFDDLVKMGVIEYLDAEEEENAYVALDPEDLTPEH 620 (1103)
T ss_pred ccccccceEEEecCCceeeeeEEEEecCceeccHHHHHHhhccccchhhHhhcCcEEeeCHHHhcCcEEeccccccCcce
Confidence 98 8899999999999999999999999999999999888778899999999999999999999999999999997778
Q ss_pred eeeeecCccccccccccccCCCCCCCCccccccccccCCccceeeeeccccccceeeecCCCcceeeeceeeeecCCCCC
Q 001092 663 THIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLVYPQRPLLTTRTIELVGYDKLG 742 (1159)
Q Consensus 663 th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~R~D~~~y~l~ypQ~Plv~t~~~~~~~~~~~p 742 (1159)
||+||+|.+|||++||+|||+||||||||||||||||||||++++|+..|+|++.|+|+|||+|||+|+.++.++++++|
T Consensus 621 th~Ei~p~~ilsv~asliPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~r~d~~~~~l~~pQ~Plv~t~~~~~~~~~~~p 700 (1103)
T PRK08565 621 THLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGLYAANFRIRTDTRGHLLHYPQRPLVQTRALEIIGYNDRP 700 (1103)
T ss_pred eccccCCccccceeeeccCCcccCcccchhhhhhhhhcccccccccceEeecCCcceeecCceeEEEeccccccccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceecCCCCCCCCcccccccccchhhhc
Q 001092 743 AGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILRPDRTGPGAERMQVVHHSNLLLL 822 (1159)
Q Consensus 743 ~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~ 822 (1159)
+|+||+||||||+||||||||||||+|+|||||||+||++|+++++++..+..+.++.|.....+ .+ +...|+
T Consensus 701 ~G~N~iVAv~sy~GYn~EDaiIink~s~~rG~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~---~~~~~~ 773 (1103)
T PRK08565 701 AGQNAVVAVLSYTGYNIEDAIIMNKASIERGLARSTFFRTYETEERKYPGGQEDKIEIPEPNVRG----YR---GEEYYR 773 (1103)
T ss_pred CCeeEEEEEEcccCcchHHhhhhhhhhhhcCCceEEEEEEEEEEeeecCCCCceEEecCCCcccc----cC---chhhhh
Confidence 99999999999999999999999999999999999999999999887766666777766431111 11 124689
Q ss_pred cCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeecCCCCCceEEEEEEEeeCCCCcEEEEEEE
Q 001092 823 ILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDKNGDLCIKFLI 902 (1159)
Q Consensus 823 ~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~~~~~~~~vkv~~ 902 (1159)
+||+||||++|++|++|||||||++|..+..... ..+......+|+|++++.+| .|+||+|.++.+.++.+.|||++
T Consensus 774 ~Ld~dGi~~~G~~v~~gdili~k~~p~~~~~~~~-~~~~~~~~~~~~s~~~~~~e--~g~V~~V~~~~~~~~~~~vkv~i 850 (1103)
T PRK08565 774 KLDEDGIVSPEVEVKGGDVLIGKTSPPRFLEELE-ELSLGLQERRDTSVTVRHGE--KGIVDTVLITESPEGNKLVKVRV 850 (1103)
T ss_pred cCCCCCCcCCCcEEcCCCEEEEEecCCCCCcchh-hccccCCccccceEEecCCC--ceEEEEEEEEecCCCcEEEEEEE
Confidence 9999999999999999999999999965322110 01112234789999999999 99999999998888899999999
Q ss_pred eeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccCCceeeeeecc
Q 001092 903 RHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGSAFG 982 (1159)
Q Consensus 903 r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~t~F~ 982 (1159)
|+.|+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+|+++||||++.|.+.|+|||.
T Consensus 851 r~~R~p~iGDKfssRhGqKGv~s~i~~~edmPf~~~G~~pDiI~NPh~~PSRMtiG~l~E~~~gk~~~~~g~~~d~t~F~ 930 (1103)
T PRK08565 851 RDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLESIAGKVAALEGRFVDATPFY 930 (1103)
T ss_pred EEEecCchhhhhhhhccCcceeeeecccccCCcCCCCCCccEEECCCCCcccccHHHHHHHHHHHHHHhcCceeeecCcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCcccccccCccccc
Q 001092 983 EPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRA 1062 (1159)
Q Consensus 983 ~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~ 1062 (1159)
+..++++++.|+++||+++|+|+||||+||++|+++||+|++|||||+|||+||+|||++||++.|||||++|||
T Consensus 931 -----~~~~~~~~~~L~~~g~~~~G~e~l~~G~tG~~~~~~if~G~~yy~rL~HmV~DK~~~R~~Gp~~~lt~QP~~Gr~ 1005 (1103)
T PRK08565 931 -----GEPEEELRKELLKLGYKPDGTEVMYDGRTGEKIKAPIFIGVVYYQKLHHMVADKIHARARGPVQILTRQPTEGRA 1005 (1103)
T ss_pred -----CchHHHHHHHHHHcCCCCCCcEEEEcCCCCCCcccceEEeehhheechhhhchhhhhccCCCcchhhhCCccccc
Confidence 677999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeecccccceecccccCCCccccccccHhHHHHH
Q 001092 1063 RNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLI 1142 (1159)
Q Consensus 1063 ~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~ 1142 (1159)
|+|||||||||||||+|||||++|+|||+++||++.++||.+||++++.+.+.+..+|+.|+++.++.++.+|||||||+
T Consensus 1006 ~~GG~R~GEME~d~l~a~Gas~~L~erL~~~SD~~~~~vC~~Cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~l~ 1085 (1103)
T PRK08565 1006 REGGLRFGEMERDCLIGHGAAMLLKERLLDSSDKTTIYVCELCGHIAWYDRRKNKYVCPIHGDKGNISPVEVSYAFKLLL 1085 (1103)
T ss_pred cCCCeeeecchHHHHHhcccHHHHHHHhhccccceeeeeecccccccccccccCceeccccCCCCcceeccCChhHHHHH
Confidence 99999999999999999999999999999999999999999999999865556667899999988999999999999999
Q ss_pred HHHHhCCcccEEEecc
Q 001092 1143 QELQSMNIVPRLKLAE 1158 (1159)
Q Consensus 1143 ~EL~sm~i~~~l~~~~ 1158 (1159)
|||+||||+++|.+++
T Consensus 1086 ~EL~sm~i~~~l~~~~ 1101 (1103)
T PRK08565 1086 QELMSMGISPRLKLGD 1101 (1103)
T ss_pred HHHHhCCCceEEEeee
Confidence 9999999999999975
No 2
>KOG0215 consensus RNA polymerase III, second largest subunit [Transcription]
Probab=100.00 E-value=7e-278 Score=2352.44 Aligned_cols=1130 Identities=66% Similarity=1.110 Sum_probs=1069.7
Q ss_pred CcccccCCCC-CCCCcccccccCCCcccccccccccccccccchHHHHHHHHHHHHHhChHHHHhccCceeecCCCcEEE
Q 001092 2 GLMQVEGSPK-DEQLPDKQKLAAPVKSVVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGIDPSIFL 80 (1159)
Q Consensus 2 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~~~~~~l 80 (1159)
|+-+-++.+. |.+.-+++..++++.+.+|+|.++|+||+.+|||+||++|||+|++++|+.|++++..|.++.++.+.|
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~dk~~lvp~flkvkglvkqhldsfnyfv~~~ik~iv~an~~itsd~dp~fyl 95 (1153)
T KOG0215|consen 16 GLDKTELDLTLDKPVYDGKKLSDPIKPLEDKWQLVPAFLKVKGLVKQHLDSFNYFVDVDIKKIVKANQLITSDVDPSFYL 95 (1153)
T ss_pred CcccccccccccccccccccccCCCCChHHhHHhHHHHHhhhhHHHHHHhhhhhhhhhhHHHHHHhhcccCcCcCchhhh
Confidence 3444444433 344446677889999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeEEEEcCCccccCC--cCCCCChhhHhhcCCccCccEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCC
Q 001092 81 RFKDVRIGQPSMTVDG--VSEKLNPHMCRLSDMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGK 158 (1159)
Q Consensus 81 ~f~~i~i~~P~~~~~~--~~~~l~P~EcR~r~lTYsa~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~l 158 (1159)
+|.++++++|.+.++. ....++|+|||+|++||+||++|+++++.+. ..+.+++|.||++|||+||++|+|++.
T Consensus 96 ky~dirvg~Ps~~~~~~~~~~~i~p~ecrlrd~tysa~i~vdieytrg~----~~~~~~~v~igrmpimlrs~rcvl~~~ 171 (1153)
T KOG0215|consen 96 KYLDIRVGKPSIEEGNNVTNDNITPHECRLRDMTYSAPIYVDIEYTRGR----QIIAKRDVIIGRMPIMLRSSKCVLRGK 171 (1153)
T ss_pred eeeeeeccCcchhhccccccccCCchheeehhhhcccceeEEEEEecCc----ceEEecccccccchhhhhccccccCCc
Confidence 9999999999998765 5568999999999999999999999999887 567788999999999999999999999
Q ss_pred CHHHHHhcCCCCCCCCcEEEEcCchhhhHhhhhccCCeEEEEeCCCCcEEEEEEecCCCcceEEEEEeeCCEEEEEEcce
Q 001092 159 DEAELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKNRVIIDTDKKGNINASVTSSTETVKSKTVIQMEKGKMYLLLNQF 238 (1159)
Q Consensus 159 s~~eli~~~E~~~d~GGYFIING~ERVI~~q~~~s~N~i~~~~~~~g~~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~ 238 (1159)
++.++++.+|||+|+||||||+|.||||+.||+.+.|++++..+++|++-|++.|++.+.+++++++.+++++|++++.+
T Consensus 172 ~e~~~a~~~ecpldpggyfiv~G~ekViLiqeqlsknrii~~~~k~~~~~~svtsst~e~kskt~v~~k~~k~ylk~~~~ 251 (1153)
T KOG0215|consen 172 DEEELARLNECPLDPGGYFIVKGTEKVILIQEQLSKNRIIVEEDKKGNLQASVTSSTHERKSKTYVTTKKGKYYLKHNSF 251 (1153)
T ss_pred cHHHHHHhccCCCCCCceeEeccceeEEEehhhhhccCeeeccccCCccccccccceeeecceEEEEeccceeeeehhhh
Confidence 99999999999999999999999999999999999999999877788899999999999999999999999999999999
Q ss_pred eccccHHHHHHHhcCCCHHHHHHHhCCchhhHhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHH
Q 001092 239 VKKIPIMVVMKAMGMESDQEVVQMVGRDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSI 318 (1159)
Q Consensus 239 ~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~ 318 (1159)
.++||++++|||+|..+|+||.+.++.+++|.+.+.++++++...+++|+.+||+|++.++.... ....+ ..+.|.++
T Consensus 252 ~d~ipiviv~ka~g~~sd~ei~~~vg~~~~y~~~~~~s~ee~~~~~v~tqqqal~y~~~kvk~~~-~t~~~-~~~e~~~~ 329 (1153)
T KOG0215|consen 252 TDDIPIVIVLKAMGLESDQEIVQLVGGDSKYQDIFAPSLEECVSLGVYTQQQALEYIGSKVKVKR-GTTPT-KDEEALEV 329 (1153)
T ss_pred hccCCEEEEEeeccccchHHHHHHhhcchHHHHhhccchhhhhhhhhHHHHHHHHHhhheEEecc-CCCCC-chHHHHHH
Confidence 99999999999999999999999998899999999999999999999999999999999987653 22344 77899999
Q ss_pred HHhhhccCCCCCCCCCCCcchhHHHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001092 319 LRDVFLANVPVHNNNFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDII 398 (1159)
Q Consensus 319 L~~~ll~Hl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~ 398 (1159)
|...+++|++....+++.|+.+++.|+|+++.+..+.-..||+|+++|||+.++|+|++.+|++.|++++..++..+++.
T Consensus 330 l~~~~lahv~v~~~~~r~K~~yi~~m~rr~~~a~l~~~~~ddrd~~gnkrlelagqllsllfeD~fk~~n~e~k~~~dk~ 409 (1153)
T KOG0215|consen 330 LSTTVLAHVPVPDLNFRMKAIYIGLMVRRVIQAMLNKLAMDDRDYVGNKRLELAGQLLSLLFEDLFKRFNSELKKNIDKI 409 (1153)
T ss_pred HHhhheeceeccCCCCcceeehHHHHHHHHHHHHhCcccccchhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999988999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCCCCCcccccc--cccchHHHHHHHhccCCCcccccccccccceEEccccccccccccccccccccccccccCCC
Q 001092 399 LSKPSRSSRFDLSQFI--VRDSITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSPQFEKSRKVSGP 476 (1159)
Q Consensus 399 ~~~~~~~~~~~~~~~i--~~~~It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s~f~~~~K~t~~ 476 (1159)
+.+..+...+|+.+.+ .++.||++|..++|||||..++|.|.|+|+||||+|++|+++|+++.|++++|++++|.++|
T Consensus 410 l~k~~ra~~fD~~~~~n~~~~~it~~l~ra~stgnw~iKrfrmer~gvt~VlsrlSyisaLgmmtri~s~fektrkvsgp 489 (1153)
T KOG0215|consen 410 LKKPIRAQEFDALKHLNVRANMITSGLERAISTGNWSIKRFRMERAGVTQVLSRLSYISALGMMTRINSQFEKTRKVSGP 489 (1153)
T ss_pred hcchhhhhhhHHHHHHHHHHHHHHHHHHHHhhcCchHHHHhhhhhccceeeehhhhhhhhhhhheehhhhheeehhccCc
Confidence 8886666677877777 57899999999999999999999999999999999999999999999999999999999999
Q ss_pred CccCCCCCccccccCCCCCCcchhhhhcccceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEe
Q 001092 477 RALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGK 556 (1159)
Q Consensus 477 R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~ 556 (1159)
|.|||||||.+||++||||+.|||++|||++++|+++.++.|+...+..+|++++..++..+++.+..+.|||||.++|.
T Consensus 490 rSlq~sqwgmlcp~dtpegeacglvknlalmthittd~ee~pi~~~~~k~gv~di~~v~~~e~~~~~~~~v~Lng~iig~ 569 (1153)
T KOG0215|consen 490 RSLQPSQWGMLCPSDTPEGEACGLVKNLALMTHITTDSEEKPILKLCYKLGVEDIHVVSGRELHTPDSFLVFLNGLIIGI 569 (1153)
T ss_pred cccChhhcccccCCCCCCccccccccchHHHhcccCCCCcchhHHHHHHhcceeeeeecccccCCCceEEEEecceeecc
Confidence 99999999999999999999999999999999999999999999999999999999888888888889999999999999
Q ss_pred ecChhhHHHHHHHHhhcCCCCceeEEEecccCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccC
Q 001092 557 HRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREG 636 (1159)
Q Consensus 557 ~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g 636 (1159)
+..++.|+..+|.+||+|.+.++|+++.+..+..++|.||+||+|||+++|++|.+.+++.|+++++.+..+|+||++.|
T Consensus 570 ~~~~~~~v~~~r~lrr~G~i~~fvsv~~~~~q~~v~i~sdggr~crp~Iiv~~~~~~v~~~h~~el~~g~r~F~DFl~~g 649 (1153)
T KOG0215|consen 570 TRRPQYFVNSFRRLRRKGKIGEFVSVFTNTTQRCVYIASDGGRVCRPLIIVDNGRPRVKQHHMDELLDGKRTFDDFLKDG 649 (1153)
T ss_pred ccchHHHHHHHHHHHHcCcccceeeeeeeeeeEEEEEecCCCeEeeeEEEEeCCcchhhhhhHHHHHHhhhhHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeeccccccceEEEeecCCCCCcceeeeecCccccccccccccCCCCCCCCccccccccccCCccceeeeeccccccc
Q 001092 637 LIEYLDVNEENNALIALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSL 716 (1159)
Q Consensus 637 ~iE~id~~E~~~~~Ia~~~~~~~~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~R~D~~ 716 (1159)
.|||+|++||+.++||+.++++.+++||+||.|..+||++|+|||||||||||||+|||+|+|||||.+++|+..|+|+.
T Consensus 650 lvEYLDVNEEND~~Ialye~~I~~~TTHLEIEPFTiLGv~AGLIPYPHHNQSPRNTYQCAMGKQAmG~IaYNQ~~RiDtl 729 (1153)
T KOG0215|consen 650 LIEYLDVNEENDSLIALYEEDIGPETTHLEIEPFTILGVVAGLIPYPHHNQSPRNTYQCAMGKQAMGAIAYNQKKRIDSL 729 (1153)
T ss_pred hhheeecccccCceEEechhhcCCCcceeeecchhhhhhhccccCCCCCCCCCcchhhhhhhhhhhhhhhhhhhhhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeecCCCcceeeeceeeeecCCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcc
Q 001092 717 LYLLVYPQRPLLTTRTIELVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSD 796 (1159)
Q Consensus 717 ~y~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~ 796 (1159)
+|.|.|||+|+|+|+++++++++++|+||||.||||||+|||+|||+|+||+|+||||+|+.+||+.++.++++.++..|
T Consensus 730 mYll~YPq~PmVkTKTIELi~ydKLPAGQNAtVAVMSYSGYDIEDALVLNKsSlDRGfGRC~Vyk~~~~~~kkY~N~T~D 809 (1153)
T KOG0215|consen 730 LYLLVYPQRPMVKTKTIELINYDKLPAGQNATVAVMSYSGYDIEDALVLNKSSIDRGFGRCEVYKKTTTTLKKYANGTFD 809 (1153)
T ss_pred HHHHhcCCCccccceeEEeeccccCCCCCccEEEEEeccCCchhhhhhcccchhccCcceEEEEeeeeeeeeecCCCchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCCCCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeecCC
Q 001092 797 RILRPDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYKGP 876 (1159)
Q Consensus 797 ~~~~p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~ 876 (1159)
++..|..+....+ +. .....||+|||..||..|++|+|+|+|-.|.....+..+. ...+..|++.++.||.+
T Consensus 810 rimgp~~d~~t~k-pi------~kh~vLd~DGl~~pG~~V~~~qi~iNK~mP~vt~~~~~~~-~~~~~~Yk~~pitykgp 881 (1153)
T KOG0215|consen 810 RIMGPQLDPNTRK-PI------WKHQVLDDDGLATPGERVQPGQIYINKQMPTVTGTSLPGL-SASQVQYKAVPITYKGP 881 (1153)
T ss_pred hhcccccCCCcCC-cc------hhhcccCcccCCCCccEeccCcEEEeccCCCcccccCCCC-CccccccccccceecCC
Confidence 9988766533211 22 3557899999999999999999999998777655432221 11223599999999999
Q ss_pred CCCceEEEEEEEeeCCCCcEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCcc
Q 001092 877 DGETCVVDRVALCSDKNGDLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMT 956 (1159)
Q Consensus 877 ~~~~~~vd~v~~~~~~~~~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMt 956 (1159)
| +++||+|.++.++++..++|+.+|++|+|++|||||||||||||||.|++||||||...||+|||||||||||||||
T Consensus 882 e--psyidkVmls~n~~dq~LIK~llRQTRrPElGDKFSSRHGQKGVcGlIv~QEDMPFnD~GIcPDiIMNPHGFPSRMT 959 (1153)
T KOG0215|consen 882 E--PSYIDRVMLTSNDEDQFLIKVLLRQTRRPELGDKFSSRHGQKGVCGLIVQQEDMPFNDQGICPDIIMNPHGFPSRMT 959 (1153)
T ss_pred C--cchhheeEeecCccccHHHHHHHhhccCcccccccccccCCCceeeEEeeccCCCCcccCCCcccccCCCCCcccch
Confidence 9 99999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcccccccCCceeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeeccc
Q 001092 957 VGKMIELLGGKAGVSCGRFHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKH 1036 (1159)
Q Consensus 957 iGql~E~~~gk~~~~~g~~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~H 1036 (1159)
||.++|.+.||||.+.|.|++||+|. +++++++++.|.++||||.||+.+|||+||+|++|+||+||+|||||+|
T Consensus 960 VGK~iELlsGKAGVl~G~~hYGTaFG-----gskVed~~~~Lv~hGfnY~GKD~ltSGITGepLeAYIffGPiYYQKLKH 1034 (1153)
T KOG0215|consen 960 VGKMIELLSGKAGVLEGTFHYGTAFG-----GSKVEDISEELVEHGFNYSGKDMLTSGITGEPLEAYIFFGPIYYQKLKH 1034 (1153)
T ss_pred HHHHHHHhccccceeeeeEeeccccC-----CchHHHHHHHHHHhccCccCccccccCCCCCcceeeEEechHHHHHHHH
Confidence 99999999999999999999999999 8999999999999999999999999999999999999999999999999
Q ss_pred ccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeeccccc
Q 001092 1037 MVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLK 1116 (1159)
Q Consensus 1037 mv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~ 1116 (1159)
||.||+|||++||+..|||||++||||+||+|+||||||||||||||.+|-|||+++||.+++.||..||.++|.
T Consensus 1035 MVlDKMHARARGPRAvLTRQPTEGRSrdGGLRLGEMERDCLIaYGASmLl~ERLMiSSDaFeVdVC~~CGllgyk----- 1109 (1153)
T KOG0215|consen 1035 MVLDKMHARARGPRAVLTRQPTEGRSRDGGLRLGEMERDCLIAYGASMLLLERLMISSDAFEVDVCRQCGLLGYK----- 1109 (1153)
T ss_pred HHHHHHhhhccCCceeeecCCCCCcCCCCCcccchhhhhhhhhccHHHHHHHHHhhcCcceeeeeccccccceec-----
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred ceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEecc
Q 001092 1117 AGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLAE 1158 (1159)
Q Consensus 1117 ~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~~~ 1158 (1159)
.||..|+++.++.++.||||||||||||+||||-|||.+++
T Consensus 1110 -gwC~~Ckss~~v~~~~iPYAcKLLFQEL~SMNi~PrL~L~~ 1150 (1153)
T KOG0215|consen 1110 -GWCTTCKSSKNVAKMKIPYACKLLFQELQSMNIVPRLKLED 1150 (1153)
T ss_pred -hhhhhccCCCceeeeeccHHHHHHHHHHHhcCccceeeecc
Confidence 99999999999999999999999999999999999999875
No 3
>KOG0214 consensus RNA polymerase II, second largest subunit [Transcription]
Probab=100.00 E-value=8.3e-267 Score=2290.45 Aligned_cols=1106 Identities=38% Similarity=0.639 Sum_probs=1015.0
Q ss_pred cccccccccccccccchHHHHHHHHHHHHHhChHHHHhccCceeecC--------CCcEEEEEeEEEEcCCccccCC-cC
Q 001092 28 VVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGI--------DPSIFLRFKDVRIGQPSMTVDG-VS 98 (1159)
Q Consensus 28 ~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~--------~~~~~l~f~~i~i~~P~~~~~~-~~ 98 (1159)
.++.|.+|++||+.+||+++|++|||.|++.++++|+.+.++|+... -.++.|.|+.|++.+|+..|.| ..
T Consensus 2 qe~~w~vis~~f~ekglvrqQldsFdeFiq~~~qeiv~~~p~i~l~~~~qh~~~~~~r~~l~f~qiylskP~~~e~dg~~ 81 (1141)
T KOG0214|consen 2 QEDCWDVISAYFEEKGLVRQQLDSFDEFIQQTLQEIVADSPKIELQDEAQHTQENPARYQLFFEQIYLSKPTHTESDGST 81 (1141)
T ss_pred hhHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHHHhcCCCceehhhhhhhccCccceEEEeeeEEEecccccccCCCc
Confidence 57899999999999999999999999999999999999999997432 2358999999999999999988 78
Q ss_pred CCCChhhHhhcCCccCccEEEEEEEEECCcc-cceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEE
Q 001092 99 EKLNPHMCRLSDMTYAAPILVNIEYVQGSHT-EKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYF 177 (1159)
Q Consensus 99 ~~l~P~EcR~r~lTYsa~L~v~i~~~~~~~~-~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYF 177 (1159)
..++|+|||+|++||||||||++........ ++...+++.|++|+||||+||..|.|+++++.+|.+.||||+|+||||
T Consensus 82 ~~m~p~eARlrnLTYSspLyVd~~k~~~~~~~~~~~~~~qkvfIGkIPiMlrS~~C~l~~~~d~dl~~l~eCp~DqgGyf 161 (1141)
T KOG0214|consen 82 STMFPNEARLRNLTYSSPLYVDATKIVKTSRDEVEDMQEQKVFIGKIPIMLRSSYCLLSGLTDKDLTELGECPYDQGGYF 161 (1141)
T ss_pred cccCchhhHhhhcccccceEEEeEEEEeeccccccccccceeeEeccceeeehhhhhhcccchhhhhhccCCCcCCCceE
Confidence 8999999999999999999999988743311 123455778999999999999999999999999999999999999999
Q ss_pred EEcCchhhhHhhhhccCCeEEEEeCCC-Cc--EEEEEEecCC----CcceEEEEEe-eCC---EEEEEEcceeccccHHH
Q 001092 178 IIKGTEKVLLIQEQLSKNRVIIDTDKK-GN--INASVTSSTE----TVKSKTVIQM-EKG---KMYLLLNQFVKKIPIMV 246 (1159)
Q Consensus 178 IING~ERVI~~q~~~s~N~i~~~~~~~-g~--~~a~v~s~~~----~~~s~~~~~~-~~g---~i~~r~~~~~~~IPl~i 246 (1159)
||||+|||+++||++++|.+++++.+. |. |.+.++|... ..+++...++ +++ .+.+.+++.+.+||+++
T Consensus 162 IINGseKVlIAQe~matn~vyvf~k~~p~~~ay~~EirS~le~~sR~~stl~v~~~ar~~~gq~i~~tlpyikqeIPI~i 241 (1141)
T KOG0214|consen 162 IINGSEKVLIAQEKMATNIVYVFKKAHPGTYAYTGEIRSCLERSSRFISTLSVNMDARAGKGQEIIATLPYIKQEIPILI 241 (1141)
T ss_pred EEcCceeeeeehhhccCceEEEEecCCCCceeEeeeeehhhhccCCCcceeeeeeccccCCCceEEEEeeeecccCcEEE
Confidence 999999999999999999999998655 44 5678887422 1122333333 333 67788888888999999
Q ss_pred HHHHhcCCCHHHHHHHhC---CchhhHhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhh
Q 001092 247 VMKAMGMESDQEVVQMVG---RDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVF 323 (1159)
Q Consensus 247 lLrALG~~sD~eI~~~i~---~~~~~~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~l 323 (1159)
||||||+.+|+||++.|. +|.++.+.+.++++++.. +..+.-||+|||+|-... ..+++. +++.|+++|.+++
T Consensus 242 lfrALG~v~dreILehIcYd~~D~em~e~lkpsieeafv--iq~qn~ALdfig~rga~~-Gvtkek-ri~yakdiLqKe~ 317 (1141)
T KOG0214|consen 242 LFRALGFVSDREILEHICYDFDDAEMFESLKPSIEEAFV--IQEQNVALDFIGQRGACI-GVTKEK-RIKYAKEILQKEL 317 (1141)
T ss_pred EehhhcCCccHHHHHhhcCCCCcHHHHHHhhhhhhhhhh--hhhhHHHHHHHHhcCCCC-CCCcch-hhHHHHHHHHHHh
Confidence 999999999999999993 688999999999998864 457888999999997433 123555 8899999999999
Q ss_pred ccCCCCCCCCCCCcchhHHHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 001092 324 LANVPVHNNNFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPS 403 (1159)
Q Consensus 324 l~Hl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~ 403 (1159)
|||++..+.-.+.|++||+|||++|+.++.|++.+||+||++|||++++|+||+.+||..|.++.+++...++|.+++..
T Consensus 318 lPhi~~~e~~etkKA~fLGYmi~rlll~aLgRr~~ddRDHfG~KRLDlaGpLLa~lfR~lf~~l~rd~~~~mQk~le~~~ 397 (1141)
T KOG0214|consen 318 LPHVGLGEICETKKAYFLGYMVHRLLLAALGRRELDDRDHFGNKRLDLAGPLLAKLFRSLFAKLLRDVTRYMQKCLENGV 397 (1141)
T ss_pred ccccccchhhhhhHHHHHHhhHHHHHHHHcCCCCccchhhccccchhhchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 99999887777899999999999999999999999999999999999999999999999999999999999999988743
Q ss_pred CCCCCcccccccccchHHHHHHHhccCCCc-ccccccccccceEEccccccccccccccccccccccccccCCCCccCCC
Q 001092 404 RSSRFDLSQFIVRDSITVGLERTLSTGNFD-VKRFKMHRKGMTQVLARLSFIGTLGHMTRVSPQFEKSRKVSGPRALQPS 482 (1159)
Q Consensus 404 ~~~~~~~~~~i~~~~It~~i~~~~sTGnw~-~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s~f~~~~K~t~~R~Lhps 482 (1159)
++++.-.|+++.||++++|+||||||+ .++.+..++||||+|+|+||+++||||||+++|...++|...||+||||
T Consensus 398 ---dfni~~aika~iIt~gl~yslaTgnwgdq~ka~~~ragVsQVLnR~t~~sTLsHlRR~n~Pigr~GKlAkpRqlHnt 474 (1141)
T KOG0214|consen 398 ---DFNIELAIKAKIITNGLNYALATGNWGDQKKAMQGRAGVSQVLNRLNPLSTLSHLRRTNSPIGRTGKLAKPRQLHNS 474 (1141)
T ss_pred ---cceEEEEEEeeeecccceeeeccCCccchhHHhhccccHHHHhccccHHHHHHHHhhcCCccccccccCCccccCcc
Confidence 578888889999999999999999999 5566667899999999999999999999999999999999999999999
Q ss_pred CCccccccCCCCCCcchhhhhcccceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhh
Q 001092 483 QWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKC 562 (1159)
Q Consensus 483 ~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~ 562 (1159)
|||++||+|||||++||||||||++|.|+.+..+.|+.++|.++|++.++.+++... ++.++||+||.|+|.|.+|+.
T Consensus 475 hwGmvCPaeTPEGqacGLVKNLSLmayIsvGS~~sPi~EfLeewgmE~le~~~ps~~--~datkvfvNG~wvGlhrdp~~ 552 (1141)
T KOG0214|consen 475 HWGMVCPAETPEGQACGLVKNLSLMAYISVGSLESPIVEFLEEWGMENLEEISPSPS--PDATKVFVNGVWVGLHRDPEE 552 (1141)
T ss_pred cceeeccccCCCcceeeccccceEEEEEecCCCccHHHHHHHHhchhhHhhcCCCcC--CCceEEEEcccEEEecCCHHH
Confidence 999999999999999999999999999999999999999999999999998887654 368999999999999999999
Q ss_pred HHHHHHHHhhcCCCCceeEEEecccCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcC---CCchhhhhccCcee
Q 001092 563 FADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDG---VRSFDDFLREGLIE 639 (1159)
Q Consensus 563 ~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~---~~~~~~l~~~g~iE 639 (1159)
++++||++||...++.++++..|...++++||||+||+|||+++|+|+++.+.++|++.|+.. ..+|..|+..|.+|
T Consensus 553 l~~tlr~lRR~~di~~Evs~vRDIr~kE~ri~tDaGR~~rPLliven~~l~~~k~hi~~L~~~~~~~~~w~~lv~~G~ie 632 (1141)
T KOG0214|consen 553 LVATLKRLRRQFDIIAEVSMVRDIRDKEIRIFTDAGRSLRPLLIVENAKLLIKKRHIRALKQSKPNEYRWAHLLSSGEVE 632 (1141)
T ss_pred HHHHHHHHHHhhccchhhhhhccccccceeeeeccCccccceEEEechhhhhhhHHHHHHhhCchhhcchhhhcccccee
Confidence 999999999999999999999999999999999999999999999999999999999999876 57999999999999
Q ss_pred eeccccccceEEEeecCCCCC-----cceeeeecCccccccccccccCCCCCCCCccccccccccCCccceeeeeccccc
Q 001092 640 YLDVNEENNALIALYEGDATP-----DTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMD 714 (1159)
Q Consensus 640 ~id~~E~~~~~Ia~~~~~~~~-----~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~R~D 714 (1159)
|||++||+.++||+.++++.. .||||||||+.||||+||.|||||||||||||||++|+|||||++.+|+..|+|
T Consensus 633 ~idteeEEtvmiam~~~dL~~~~~~~~~THCEiHpsmILgv~asiIpFpdh~qspr~tYQsa~~kqamg~y~tn~~vR~d 712 (1141)
T KOG0214|consen 633 YIDTEEEETVMIAMGPKDLAESAYPKTYTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVYHTNPQVRMD 712 (1141)
T ss_pred eeccchhhhHHHhcCHHHHhhccCCcccccccccHHHhhhhceeeeecCCCCCchHHHHHHHHhhhcceeeeecchhhhh
Confidence 999999999999999998753 599999999999999999999999999999999999999999999999999999
Q ss_pred cceeeecCCCcceeeeceeeeecCCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCC
Q 001092 715 SLLYLLVYPQRPLLTTRTIELVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANST 794 (1159)
Q Consensus 715 ~~~y~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~ 794 (1159)
+..|.|+|||+|+|+|+.++++.+.++|+|+|||||++||+|||||||||+|+++++||+|+|++|++|+.+..+...+.
T Consensus 713 tl~~~l~ypqkpl~tt~~~e~l~~~eL~aG~NaiVAi~~~~GYNqEDsvimn~s~v~rg~FrS~~~RsYk~q~~~~~~~~ 792 (1141)
T KOG0214|consen 713 TLAKVLYYPQKPLVTTRAMEYLRFRELPAGQNAIVAIACYSGYNQEDSVIMNQSSVDRGLFRSFFIRSYKDQEHKKDQGP 792 (1141)
T ss_pred hhhhcccccccchhhHHHHhhhhhhhcccccceEEEEecccCccHHHHHHHHhhhhhcchhhhhhhhHHHhhhhhccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999988777778
Q ss_pred cceecCCCCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeec
Q 001092 795 SDRILRPDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYK 874 (1159)
Q Consensus 795 ~~~~~~p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~~~~~~~~~~~~~s~~~~ 874 (1159)
++.|..|..... ..++ ...|++||+||++.+|++|..|||+|||.+|....++.... ..+....+|+|+.++
T Consensus 793 ee~~~~~~~~~~---~~mr----~~~~dkLdddG~i~~G~~vs~~Dv~iGk~t~~~~~~~~~~~-~~~~~t~~d~s~~Lr 864 (1141)
T KOG0214|consen 793 EEIFEEPPRGEG---RGMR----NGKYDKLDDDGIIMPGSRVSGGDVLIGKTTPQPAKEDESGP-EDRLYTKRDHSTKLR 864 (1141)
T ss_pred cccccccccccc---cccc----ccccccccccCCccccceeecCCEEeccccCCcccchhccc-cccccccccceeecc
Confidence 888888765321 1333 36899999999999999999999999999987665432211 112235689999999
Q ss_pred CCCCCceEEEEEEEeeCCCCcEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCC
Q 001092 875 GPDGETCVVDRVALCSDKNGDLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSR 954 (1159)
Q Consensus 875 ~~~~~~~~vd~v~~~~~~~~~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSR 954 (1159)
.+| .|+||+|+++++.+|.+.+||++|+.|.|++|||||||||||||||.+++|||||||.+|++|||||||||||||
T Consensus 865 ~~e--~Givd~V~vt~n~~G~kF~kv~vr~~ripqiGDKfasrHgqKG~ig~~~~qedmpft~eGi~pDiiiNPhaiPSR 942 (1141)
T KOG0214|consen 865 HTE--RGIVDQVWVTKNSEGPKFVKVRVRQVRIPQIGDKFASRHGQKGTIGITYRQEDMPFTIEGIVPDIIINPHAIPSR 942 (1141)
T ss_pred cCC--cceEEEEEEecCCCCCceeEEEEeecccccccchhccccccCccccceeecCCCCccccCCCcceEECcccCccc
Confidence 999 999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHHhcccccccCCceeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeec
Q 001092 955 MTVGKMIELLGGKAGVSCGRFHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKL 1034 (1159)
Q Consensus 955 MtiGql~E~~~gk~~~~~g~~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL 1034 (1159)
||||||+||++||.++..|...|+|||+ ...+..+...|.++||+++|+|+||||+||++|.+.||+||.|||||
T Consensus 943 mtig~liEc~lgk~~a~~~e~~~atpFs-----~v~v~~is~~l~~~g~~~~G~e~~ynGrtG~~~~~~if~GptyyqrL 1017 (1141)
T KOG0214|consen 943 MTIGQLIECLLGKVAAYEGEEGDATPFS-----DVTVSKISANLHVYGYQYRGNERMYNGRTGRKLRAQIFIGPTYYQRL 1017 (1141)
T ss_pred cchhhhHHHhhhhhhhcccccccCCCCC-----ccchhcccchHHHhccccCCCEEEecCCCCceeeeeeecCchHHHHH
Confidence 9999999999999999999999999999 57889999999999999999999999999999999999999999999
Q ss_pred ccccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeeccc
Q 001092 1035 KHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHK 1114 (1159)
Q Consensus 1035 ~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~ 1114 (1159)
+|||+||+|+|++||++.|||||++||||+||||||||||||+||||||++|+|||+..||.+.+++|..||.++..+.+
T Consensus 1018 ~Hmvd~kih~R~~Gp~q~ltRQP~~gRsr~GGlRfGEMErdc~iahGaa~~L~ERL~~~SD~~~~~~c~~c~l~~i~~~~ 1097 (1141)
T KOG0214|consen 1018 KHMVDDKIHSRARGPVQILTRQPVEGRSRDGGLRFGEMERDCLIAHGAAAFLKERLFEKSDAYRVHICVLCGLTAIAGLI 1097 (1141)
T ss_pred HHhhhheeeecccCCceeeeccccccccccCCeeeehhHHHHHHHhhHHHHHHHHhhccCccceEEEeccchhhhhhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999966655556
Q ss_pred ccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEec
Q 001092 1115 LKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLA 1157 (1159)
Q Consensus 1115 ~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~~ 1157 (1159)
.+...|+.|.+...++.+.+|||||||+|||+||||.+|+.+.
T Consensus 1098 ~n~~~ck~c~n~~~v~~v~ipya~kLl~qelmsmni~pr~~~~ 1140 (1141)
T KOG0214|consen 1098 PNSFECRGCENKTLVVRVYIPYAAKLLFQELMSMNIAPRRKTK 1140 (1141)
T ss_pred CCccccccccCccceEEEechhHHHHHHHHHHhccCccccccC
Confidence 6667899999999999999999999999999999999999764
No 4
>KOG0216 consensus RNA polymerase I, second largest subunit [Transcription]
Probab=100.00 E-value=1.4e-257 Score=2194.71 Aligned_cols=1055 Identities=31% Similarity=0.514 Sum_probs=931.8
Q ss_pred cccccccccccccchHHHHHHHHHHHHHhChHHHHhccCc--eeecCCCcEEEEEeEEEEcCCccccCC---cCCCCChh
Q 001092 30 DKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDR--IVSGIDPSIFLRFKDVRIGQPSMTVDG---VSEKLNPH 104 (1159)
Q Consensus 30 ~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~--I~~~~~~~~~l~f~~i~i~~P~~~~~~---~~~~l~P~ 104 (1159)
..|...|+|-+++.++++|++|||...+.||.+..-+... ......+.+.++++++.+.+|.++... ..++++|.
T Consensus 4 ~~~k~~p~fp~l~~a~~pHi~sfnal~~~gll~~~v~~~~ek~~~~~g~kis~~ve~i~iakP~l~~~~~ss~~r~lyPa 83 (1111)
T KOG0216|consen 4 NPPKDYPSFPELQDAASPHIDSFNALTNGGLLNAGVAGIAEKVPLKAGDKISMKVESIQIAKPMLSDKVHSSDTRKLYPA 83 (1111)
T ss_pred CCcccCccchhhhhhhhhhhccccchhhhhHHHHHhhchhhhcccccCCceeEEEEEEEecCCCCCccccccccccccch
Confidence 4688889999999999999999999999888776443211 112234678999999999999998643 68899999
Q ss_pred hHhhcCCccCccEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchh
Q 001092 105 MCRLSDMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEK 184 (1159)
Q Consensus 105 EcR~r~lTYsa~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ER 184 (1159)
|||+|++||+|.+.|+|.|..|+ ......+..+|.+||||||++|||.|++|+||++++|++.|+||||||||+||
T Consensus 84 EcRqR~~TY~Gkl~v~v~wsVNg----~~~~~e~~dlG~vPIMlrSklChL~g~sp~eLV~hkEe~~EmGGYFIvNGIEK 159 (1111)
T KOG0216|consen 84 ECRQRGLTYKGKLVVRVSWSVNG----GHVVIEKRDLGHVPIMLRSKLCHLNGASPKELVKHKEESSEMGGYFIVNGIEK 159 (1111)
T ss_pred hHhhccceecceEEEEEEEEECC----eeeeeeeeecCccceEEeccccccCCCChHHHhhccCchhhcCcEEEEcChHH
Confidence 99999999999999999999988 45555678999999999999999999999999999999999999999999999
Q ss_pred hhHhhhhccCCeEEEEeCCC----Cc----EEEEEEecCCCcceEEEEE--eeCCEEEEE--EcceeccccHHHHHHHhc
Q 001092 185 VLLIQEQLSKNRVIIDTDKK----GN----INASVTSSTETVKSKTVIQ--MEKGKMYLL--LNQFVKKIPIMVVMKAMG 252 (1159)
Q Consensus 185 VI~~q~~~s~N~i~~~~~~~----g~----~~a~v~s~~~~~~s~~~~~--~~~g~i~~r--~~~~~~~IPl~ilLrALG 252 (1159)
|||++|.+++|+|++..++. |. +...+++.+.+.++.+..+ +.||...++ +.+....+|++++||||-
T Consensus 160 vIRmLIm~RRNHPiAiIR~Sfk~RG~~yS~yGVsmRcVReDqSsvtn~LHYLnnGtv~~~F~~rK~eylvPv~lILKAL~ 239 (1111)
T KOG0216|consen 160 VIRMLIMPRRNHPIAIIRPSFKDRGSSYSDYGVSMRCVREDQSSVTNVLHYLNNGTVMFRFSHRKREYLVPVVLILKALT 239 (1111)
T ss_pred hhhhheeccCCCceEEechhhhhcCCCccccceEEEEeccccccceeEEEEecCCcEEEEEEEeeeeehhhHHHHHHHHh
Confidence 99999999999999876432 32 3456777778887766554 688854443 333334699999999999
Q ss_pred CCCHHHHHHHh--C--CchhhHhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCC-CCCCCChHHHHHHHHHhhhccCC
Q 001092 253 MESDQEVVQMV--G--RDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTF-GSPPNDREGRAFSILRDVFLANV 327 (1159)
Q Consensus 253 ~~sD~eI~~~i--~--~~~~~~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~-~~~~~~~~e~~~~~L~~~ll~Hl 327 (1159)
.+||+||++.+ + .+.++.+++..+|++..+.+++||++|+.|||++||+.+. .++.+ +.|+|+++|++++|.|+
T Consensus 240 ~tsDeEIf~~lv~g~~gdqfl~~rv~~mLr~v~ee~l~trtqcl~yLGs~FRaVl~~v~~~~-D~evg~fILr~~VlvHL 318 (1111)
T KOG0216|consen 240 NTTDEEIFEGLVGGDEGDQFLTSRVELMLREVQEENLFTRTQCLQYLGSRFRAVLDFVPEQP-DLEVGRFILREYVLVHL 318 (1111)
T ss_pred ccCHHHHHHHHhCCccCceeHHHHHHHHHHHHhhcccccHHHHHHHHhhhhhhhhcCCCCCc-hHHHHHHHHHhheEEEe
Confidence 99999999998 2 4678999999999999999999999999999999997644 34455 89999999999999999
Q ss_pred CCCCCCCCCcchhHHHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 001092 328 PVHNNNFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSR 407 (1159)
Q Consensus 328 ~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~ 407 (1159)
+. ..+|+.+|++|++||++++.|+|.+||+|+..||+++++|+|++..+|+.++.|++.++.++.+.+.+.....+
T Consensus 319 d~----~~DKF~lLifmiqKL~slv~ge~~~dnpDs~q~qEil~~ghl~~~~LkEriEe~l~~~~~~vr~~l~~~~~~~~ 394 (1111)
T KOG0216|consen 319 DS----DEDKFNLLIFMIQKLYSLVDGECTPDNPDSPQNQEILLPGHLYGSILKERIEEWLRFISAQVRRDLYKLGFKED 394 (1111)
T ss_pred cc----cHHHHHHHHHHHHHHHHHhcCCcCCCCCCChhhhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCch
Confidence 94 56899999999999999999999999999999999999999999999999999999887777777665432222
Q ss_pred Cc----ccccc--cccchHHHHHHHhccCCCcc-cccc-cccccceEEccccccccccccccccc-cccccccccCCCCc
Q 001092 408 FD----LSQFI--VRDSITVGLERTLSTGNFDV-KRFK-MHRKGMTQVLARLSFIGTLGHMTRVS-PQFEKSRKVSGPRA 478 (1159)
Q Consensus 408 ~~----~~~~i--~~~~It~~i~~~~sTGnw~~-~~~~-~q~sGvsq~l~RlN~ls~LshlRrv~-s~f~~~~K~t~~R~ 478 (1159)
+. +...+ .+..|+++|++||||||+.+ ++++ +|++|+|++++|+||+++|||||-|| +.|+.+++||++||
T Consensus 395 ~~~~~~i~~~~~r~~~~Ig~~me~fLsTGnl~s~sgldLqQ~sG~tv~AEriNf~RflShFRavhRGa~f~~mrTTtvRK 474 (1111)
T KOG0216|consen 395 FLDISAIRKVFMRTNGNIGRKMEYFLSTGNLVSRSGLDLQQTSGYTVVAERINFYRFLSHFRAVHRGAFFAEMRTTTVRK 474 (1111)
T ss_pred hHhHHHHHHHHhhccccHHHHHHHHHhcCCeeeccchhhHhhcCcEEehhhhhHHHHHHHHHHHhcccchhheeehhhHh
Confidence 21 22223 35899999999999999985 3444 57899999999999999999999999 68999999999999
Q ss_pred cCCCCCccccccCCCCCCcchhhhhcccceeeccCC-CchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEee
Q 001092 479 LQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDE-EEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKH 557 (1159)
Q Consensus 479 Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~-~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~ 557 (1159)
|.|++|||+||||||||+||||+||||..|+|++.. +...+.++|.++||.|.......- +..++|++||+++|++
T Consensus 475 LlPEsWGFlCPVHTPDG~PCGlLnH~t~~c~I~t~~dd~s~ip~~L~~~Gm~p~~~~~~~G---~~l~~VlldGk~vG~~ 551 (1111)
T KOG0216|consen 475 LLPESWGFLCPVHTPDGAPCGLLNHMTRTCRIVTRPDDVSFIPSILFELGMVPSSHLVEAG---EPLYPVLLDGKVVGWV 551 (1111)
T ss_pred hCchhhcccccccCCCCCchhHHHhhhhheeEeecCcchhhhhHHHHhcCCCchhccccCC---CceeEEEECCEEEEee
Confidence 999999999999999999999999999999999875 467899999999998865322211 2368999999999999
Q ss_pred cCh--hhHHHHHHHHhhc--CCCCceeEEEe-----cccCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCc
Q 001092 558 RRP--KCFADVMRKLRRA--GKIGEFVSVFV-----NEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRS 628 (1159)
Q Consensus 558 ~~~--~~~~~~lr~~Rr~--~~i~~~vsi~~-----~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~ 628 (1159)
..+ +.+++.||.+|.. +.+|...+|-+ +..+|++||+|++||++|||.+
T Consensus 552 s~~~a~~i~~~lR~~Kv~~p~~iP~~leIg~Vp~s~~gqyPglyi~s~~aR~~RpV~n---------------------- 609 (1111)
T KOG0216|consen 552 SSPLAKKIVDYLRYYKVEAPAVIPNDLEIGYVPTSTNGQYPGLYIFSGPARMIRPVKN---------------------- 609 (1111)
T ss_pred ccHHHHHHHHHHHHHhhcCcccCCCcceEeeeecCCCCCCceeEEecCchhhhhehhc----------------------
Confidence 854 9999999999965 56787777643 3467999999999999999975
Q ss_pred hhhhhccCceeeeccccccceEEEeecCCCCCc-ceeeeecCccccccccccccCCCCCCCCccccccccccCCccceee
Q 001092 629 FDDFLREGLIEYLDVNEENNALIALYEGDATPD-TTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAF 707 (1159)
Q Consensus 629 ~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~~~~-~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~ 707 (1159)
++.+.+|||++.||.++.||+.++++.+. +||.|++|+.+||++|+||||+||||||||||||||+||+||++.+
T Consensus 610 ----l~~~~~e~iG~fEQvym~i~~~~~e~~~~v~th~E~~pt~~ls~~anliP~sD~NQSPRNmYQCQMgKQtmg~p~~ 685 (1111)
T KOG0216|consen 610 ----LSLDSVEWIGPFEQVYMNIAIDPKEIFPDVTTHVELHPTGILSIVANLIPFSDHNQSPRNMYQCQMGKQTMGTPGH 685 (1111)
T ss_pred ----cccCchhhcccHHHhhhhhccchhhcCCCcceeEEecccchHhHhhcCccccccCCCchhHHHhhhhhhhcCCccc
Confidence 23356899999999999999999999877 8999999999999999999999999999999999999999999999
Q ss_pred eeccccccceeeecCCCcceeeeceeeeecCCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEe
Q 001092 708 NQLCRMDSLLYLLVYPQRPLLTTRTIELVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAIN 787 (1159)
Q Consensus 708 n~~~R~D~~~y~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~ 787 (1159)
++..|.|+|+|+|++||.|+|++..++.+++|++|.|+||+|||+|||||||||||||||+|+||||+++.+||+..+++
T Consensus 686 a~~~radnklYrlqt~qsP~vr~~~y~~y~~d~yp~GtNaiVAVisyTgyDMeDAmiiNK~s~eRGf~~G~vykte~i~L 765 (1111)
T KOG0216|consen 686 ALRTRADNKLYRLQTPQSPIVRPELYDTYGMDDYPNGTNAIVAVISYTGYDMEDAMIINKSSYERGFAYGTVYKTEKIDL 765 (1111)
T ss_pred cchhcccCceEEecCCCCceeecccccccccccCCCCcceEEEEEeecccChhhhhhhchhhhhccccceeEEeeeeech
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred ccccCCCcceecC-CCCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCccc
Q 001092 788 QKYANSTSDRILR-PDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRY 866 (1159)
Q Consensus 788 ~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~~~~~~~~~~ 866 (1159)
.+... +...|.. |+. ..+.+||+||||.+|++++.||+++....-.. .
T Consensus 766 ~~~~~-r~~~F~~~p~~---------------~~~~~ld~dgLP~~G~kl~~~dp~~~y~d~~t---------------~ 814 (1111)
T KOG0216|consen 766 SKKRS-RSKHFGRSPGE---------------PELKKLDADGLPSIGQKLEYGDPYYAYFDEET---------------G 814 (1111)
T ss_pred hhccc-ceeeeeeCCCC---------------ccccccCCCCCCCCcccccCCCcEEEEEcccC---------------C
Confidence 65322 2334543 543 24678999999999999999999998765432 1
Q ss_pred ccceeeecCCCCCceEEEEEEEeeCCCCc--EEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcE
Q 001092 867 RSARQTYKGPDGETCVVDRVALCSDKNGD--LCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDL 944 (1159)
Q Consensus 867 ~~~s~~~~~~~~~~~~vd~v~~~~~~~~~--~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDi 944 (1159)
+....+|+..| +++||.|.+..++.+. +++.|++|..|+|.||||||||||||||||+.||.+||||||+|++|||
T Consensus 815 ~~~~~~~~~~e--p~~vd~vr~~~~~~~~~~k~~~i~~Ri~R~p~IGDKFsSRhGQKGicS~~wP~~dmPFtesGm~PDi 892 (1111)
T KOG0216|consen 815 KTRIKKYHGTE--PGIVDEVRVLGNDMGDQEKCATITLRIPRNPIIGDKFSSRHGQKGICSQKWPTIDMPFTESGMVPDI 892 (1111)
T ss_pred ceEEEEecCCC--CeeeEEEEEccccCCCccceEEEEEEecCCCcccchhhhhccccccccccCCCCCCCccccCcCcce
Confidence 34456788888 9999999998877665 7899999999999999999999999999999999999999999999999
Q ss_pred EeCCCCCCCCccHHHHHHHhcccccccCCceeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeE
Q 001092 945 IMNPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYI 1024 (1159)
Q Consensus 945 I~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~i 1024 (1159)
||||||||||||||||||++|||+||++|..+|+|||.+++ ++..+++|+++|+++||||+|+|+||||.+|++|+|+|
T Consensus 893 i~NPH~FPSRMTIgM~iEs~AgK~~alhG~~~Datpf~~~E-~~t~~dyfg~~L~~~GyNyyGnE~~YSGv~G~e~~adI 971 (1111)
T KOG0216|consen 893 IINPHAFPSRMTIGMLIESMAGKAGALHGNAQDATPFIFSE-ENTAIDYFGEMLKKAGYNYYGNEPMYSGVDGREMRADI 971 (1111)
T ss_pred eeCCCCCcccccHHHHHHHHhchhhccccccccCCceeecC-cccHHHHHHHHHHHcCcCccCCcccccccccceeeeeE
Confidence 99999999999999999999999999999999999998654 45689999999999999999999999999999999999
Q ss_pred eEeeeeeeecccccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccc
Q 001092 1025 FMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRV 1104 (1159)
Q Consensus 1025 f~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~ 1104 (1159)
|+|+||||||+|||.||+|+|+|||++.+|+||++||+|+||+||||||||||||||||++|||||+.|||.+.++||..
T Consensus 972 f~GvVyYQRLrHMv~DKfQVRstG~v~~~T~QPvkGRkr~GGiRfGEMERDali~HGtsfllqDRL~~~SD~~~a~vC~~ 1051 (1111)
T KOG0216|consen 972 FFGVVYYQRLRHMVSDKFQVRSTGPVDSLTHQPVKGRKRGGGIRFGEMERDALIAHGTSFLLQDRLLNSSDYTVAEVCRT 1051 (1111)
T ss_pred EEeehhHHHHHHHhcceeeeeeccCccccccCCccCcccCCCccccchhhhhHhhcchHhhhhhhhccCcchhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccceeecc--------cccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEec
Q 001092 1105 CGLLGYYNH--------KLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLA 1157 (1159)
Q Consensus 1105 cg~~~~~~~--------~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~~ 1157 (1159)
||++++.-. ......|+.|+ +..+..|.|||+||||..||+||||+++|.++
T Consensus 1052 cgsil~~~~~l~~~~~~~~~~~~C~~c~-~~~~~~v~~P~vfkYL~aEL~amnIk~~l~l~ 1111 (1111)
T KOG0216|consen 1052 CGSILSTQQKLIKEPGGSTSTVTCRSCD-GKGVTTVAMPYVFKYLTAELAAMNIKMRLDLE 1111 (1111)
T ss_pred hhhhhhhhhhhhcccCCCCCceeEEecC-CCceEEEEccHHHHHHHHHHhhCceeEEeccC
Confidence 999987511 22345699995 57788999999999999999999999999874
No 5
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=100.00 E-value=7.1e-251 Score=2264.17 Aligned_cols=1015 Identities=33% Similarity=0.518 Sum_probs=921.9
Q ss_pred ccccccccccccccccchHHHHHHHHHHHHHhChHHHHhccCceeecCCCcEEEEEeEEEEcCCccccCCcCCCCChhhH
Q 001092 27 SVVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDGVSEKLNPHMC 106 (1159)
Q Consensus 27 ~~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~~~~~~l~f~~i~i~~P~~~~~~~~~~l~P~Ec 106 (1159)
+.++.|++++++|+.++|+++|++|||+|+.+||++++++++||+.. ++++.|+|.++++++| ++++|.||
T Consensus 10 r~r~~~~~i~~~~~~p~Lv~~QldSyn~ff~~gLq~i~~~i~PI~~~-~~~~~Lef~~~~l~~p--------~k~~p~Ec 80 (1060)
T COG0085 10 RIRDSFGKIPEFLDLPNLVEIQLDSYNAFFLEGLQEVFREIFPIESY-NGNTELEYGSYRLGEP--------PKFYPEEC 80 (1060)
T ss_pred ccccchhhcccccCCccHHHHHHHHHHHHHHHHHHHHHHhcCceecC-CCCEEEEEEEEEecCC--------CCCCHHHH
Confidence 77899999999999999999999999999999999999999999854 7889999999999998 35699999
Q ss_pred hhcCCccCccEEEEEEEEECCccccee-eEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhh
Q 001092 107 RLSDMTYAAPILVNIEYVQGSHTEKTT-MEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKV 185 (1159)
Q Consensus 107 R~r~lTYsa~L~v~i~~~~~~~~~~~~-i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ERV 185 (1159)
|+|++||+|||+|+++++.++. ++ +++++|++|+||||| .||||||||+|||
T Consensus 81 R~R~lTYsapLyv~lrlv~~~~---~e~~k~~eV~iG~iPlMt------------------------~gGyFIINGsERV 133 (1060)
T COG0085 81 RLRGLTYSAPLYVKLRLVVNET---GEEIKEQEVYMGDIPLMT------------------------RGGYFIINGTERV 133 (1060)
T ss_pred HhcCCccccceEEEEEEEECCc---ccccccceEEeccCcEec------------------------CCcEEEECCeEEE
Confidence 9999999999999999998764 34 678899999999999 4999999999999
Q ss_pred hHhhhhccCCeEEEEeC-CCC---cEEEEEEecCCCcceEEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCHHHHHH
Q 001092 186 LLIQEQLSKNRVIIDTD-KKG---NINASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQ 261 (1159)
Q Consensus 186 I~~q~~~s~N~i~~~~~-~~g---~~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD~eI~~ 261 (1159)
|++||++|||.++..+. +++ .+.|.+++.++ .|..+....++.+++++++. ++||+++||||||++||+||++
T Consensus 134 IVsQ~~rSPgvif~~~~~k~~~~~~~~a~vIp~rG--~wl~~e~d~~d~~~~rId~~-rkiPvtilLRALG~~tDeeI~~ 210 (1060)
T COG0085 134 IVSQEHRSPGVIFVEKKDKTGSKVLYVARVIPYRG--SWLEFEFDPKDNLYVRIDRK-RKIPVTILLRALGLETDEEIIE 210 (1060)
T ss_pred EEEEeecCCCeEEecccccCCcceEEEEEEecCCc--ceEEEEEccCccEEEEeeeE-EEeeHHHHHHHhCCCcHHHHHH
Confidence 99999999997776653 334 35688887732 34445555678999999985 4899999999999999999999
Q ss_pred HhCCc-------hhhHhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCC-CCCCChHHHHHHHHHhhhccCCCCC--C
Q 001092 262 MVGRD-------PRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFG-SPPNDREGRAFSILRDVFLANVPVH--N 331 (1159)
Q Consensus 262 ~i~~~-------~~~~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~-~~~~~~~e~~~~~L~~~ll~Hl~~~--~ 331 (1159)
.|+.+ ....+.+...+++.....+.++ .|++||++++...... .... +.+.++.++.+.+|||+... .
T Consensus 211 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~i~~~-~a~~~i~~r~~~~~~~~~~~g-R~k~~~~vl~~~~L~hL~~~~~~ 288 (1060)
T COG0085 211 AFGGDELTDLVPPEGEEALLEIYEEAKGEKITAR-NALELIGSRVFVVKRYDAKEG-RYKRAKYVLDKELLPHLGEAGER 288 (1060)
T ss_pred HhcccccccccchHHHHHhHHHHhhccCCCcchH-HHHHHHhcccccccccccchh-hhhhhhhhhhhhHHhhhcccccc
Confidence 99642 1222333333333322334444 4999999999876332 2344 78999999999999999963 2
Q ss_pred --CCCCCcchhHHHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCc
Q 001092 332 --NNFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFD 409 (1159)
Q Consensus 332 --~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~ 409 (1159)
.+...|+.+|+.|+++|+++..|.+.+||+|||+||||+++|+||++|||.+|.+|++.+|++|.+...+
T Consensus 289 ~~l~~~~k~~di~~mi~~l~~L~~G~~~~DDiDHlGNKRlrlvGeLl~n~fR~gl~rmer~ikerm~~~~~r-------- 360 (1060)
T COG0085 289 YDLSRVGKAKDIIAMIKYLIELRLGKGEEDDIDHLGNRRLRLVGELLENLFRVGLSRMERDVKERLEKADKR-------- 360 (1060)
T ss_pred cchhhhHHHHHHHHHHHHHHHHhcCCCCCCCCccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh--------
Confidence 2345688899999999999999999999999999999999999999999999999999999999886442
Q ss_pred ccccccccchHHHHHHHhccCCCcccccccccccceEEcccccccccccccccccc-ccccccccCCCCccCCCCCcccc
Q 001092 410 LSQFIVRDSITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSP-QFEKSRKVSGPRALQPSQWGMLC 488 (1159)
Q Consensus 410 ~~~~i~~~~It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s-~f~~~~K~t~~R~Lhps~wG~iC 488 (1159)
..+..++.|++++.+|++||||+ ++|+||+|||+||+|+|||+||++| +++++++.++|||||||||||||
T Consensus 361 -~~i~p~dlIn~k~~~Alitgffg-------~sqlSQfmDqtNpLSeLSHkRRIsAlgLsRera~fEvRDvHpTHyGRiC 432 (1060)
T COG0085 361 -DTLVPQDLINAKPIHALITGFFG-------RSQLSQFMDQTNPLSELSHKRRLSALGLSRERAGFEVRDVHPTHYGRIC 432 (1060)
T ss_pred -hccCchhhcchhHHHHHHhcccc-------ccceeeeeecCChHHhhhhhhceeccCcCccCCCCcccccCcccccccC
Confidence 22335688999999999999997 5899999999999999999999999 99999999999999999999999
Q ss_pred ccCCCCCCcchhhhhcccceeec-cCCCchhHHHHHhh-cCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHH
Q 001092 489 PCDTPEGEACGLVKNLALMTHVT-TDEEEGPLISLCYC-LGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADV 566 (1159)
Q Consensus 489 PveTPEG~~cGLi~~LA~~a~Vt-~~~~~~~i~~~l~~-lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~ 566 (1159)
|+|||||+|||||||||++|+|+ .++++.|+++++.. +|+++++++++.+ ..|++||.++|.++++..|++.
T Consensus 433 PiETPEGpNiGLI~sLA~~A~Vn~~Gf~etPy~kv~~g~~~v~~i~~l~~~~------~~~~~~~~~~~~~~~~~~~~~~ 506 (1060)
T COG0085 433 PIETPEGPNIGLIKSLALYARINEYGFLETPYRKVLDGSLVVDEIEYLSADE------EDVYVIGQANGTLDEPGELVEE 506 (1060)
T ss_pred CCCCCCCcchhHHHHHHHHeEecccCCCCCceEEEEeccccccceeeecccc------cceEEEeEeeeeecCCCceeee
Confidence 99999999999999999999999 78999999999994 9999999888653 4599999999999999999999
Q ss_pred HHHHhhcCCCCceeEEEecccCc----eEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcC-CCchhhhhccCceeee
Q 001092 567 MRKLRRAGKIGEFVSVFVNEKQR----CVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDG-VRSFDDFLREGLIEYL 641 (1159)
Q Consensus 567 lr~~Rr~~~i~~~vsi~~~~~~~----~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~-~~~~~~l~~~g~iE~i 641 (1159)
+|.+|+ + +..+++++...... ++++.+|.||.+||++.++|++.+++.+|++++..+ ..+|.+|+.+| +||+
T Consensus 507 ~~~~R~-~-~~~~~~~~~~~~~~~~dv~~~~~~~~~~~~~P~l~~dd~~~~l~~~~mqr~~~~l~~~~~~lv~tG-~E~~ 583 (1060)
T COG0085 507 LVECRR-G-GSGEVSVADPEGVDYMDVSPKQVVSVGRSLIPFLEHDDANRALMGSNMQRQAVPLLRTEAPLVGTG-MEYL 583 (1060)
T ss_pred EEEEee-c-ccccceeecCccccceeccceEEeccccccCceeEEcCchHhhhhhhhhhhcccccccccccccCC-ceee
Confidence 999999 6 77778887666554 799999999999999999999999999999999887 67999999999 9999
Q ss_pred ccccccceEEEeecCCCCCcceeeeecCccccccccccccCCCCCCCCccccccccccCCccceeeeeccccccceeeec
Q 001092 642 DVNEENNALIALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLV 721 (1159)
Q Consensus 642 d~~E~~~~~Ia~~~~~~~~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~R~D~~~y~l~ 721 (1159)
++.|+.+++||..+++ +||+|++|..|+|++|++|||+||||||||||||+|+||++|++..|+..|.|+..|.++
T Consensus 584 ~a~e~~~~~ia~~~~~----~~~ve~~~~~I~~~~~~~~~~~~~n~~~~n~~~~~~~~Q~~~~~~~~~~~~~d~~~~~~~ 659 (1060)
T COG0085 584 DAEDSGAAVIAKRPGV----VTHVEISPIVILGIEASLIPYPEHNQSPYNLYKFARSNQATGINQRPLVKRGDTVEKGLV 659 (1060)
T ss_pred ccccccceeEeccCCc----EEEEeeeeeEEEeeccccCCccccCcChHHHHHHhhhhcccCCCcccceeccccccccce
Confidence 9999999999999977 899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcceeeeceeeeecCCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceecCC
Q 001092 722 YPQRPLLTTRTIELVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILRP 801 (1159)
Q Consensus 722 ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~p 801 (1159)
|||.|+|+| +|+|+|||++||||||+||||||||||||++++||+|||+||++|++++++++.|.+|++..|
T Consensus 660 ~~~~P~~~~--------~e~~~GqN~~VA~m~~~GYn~EDAiiin~~~v~~~~~ts~~~~~~~~~~r~~~~g~e~~~~iP 731 (1060)
T COG0085 660 YADGPSVDT--------GELALGQNALVAFMPWNGYNYEDAIIISERSVERDLFTSIHIEEYETEARDTKLGPEEIRDIP 731 (1060)
T ss_pred ecCCCcccc--------CcccCCceeEEEEecccCcChhHheecccchhhcCCceEEEEEEEeeeeeccCCCccccccCC
Confidence 999999999 899999999999999999999999999999999999999999999999999999999997778
Q ss_pred CCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCC-----CCCCCCcccccceeeecCC
Q 001092 802 DRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMS-----PTGQTDSRYRSARQTYKGP 876 (1159)
Q Consensus 802 ~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~-----~~~~~~~~~~~~s~~~~~~ 876 (1159)
+.+ ...|++||+|||++||++|++|||||||++|+++.+.... .++++ +||+|++++++
T Consensus 732 ~~~-------------e~~~~~Lde~Gii~ig~~V~~gdilvgk~tP~~~~~~~~ee~ll~i~~ek---~rdtsl~~~~g 795 (1060)
T COG0085 732 NVS-------------EEALRNLDEDGIIRIGAEVKGGDILVGKVTPKGETELTPEERLLRIFGEK---VRDTSLRVPHG 795 (1060)
T ss_pred CcC-------------HHHHhcCCccCccccccEEcCCCEEEEeeCCCCCCCCCchhhhhccccce---eeccceeecCC
Confidence 863 2589999999999999999999999999999998764321 12222 79999999999
Q ss_pred CCCceEEEEEEEeeCCC----CcEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCC
Q 001092 877 DGETCVVDRVALCSDKN----GDLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFP 952 (1159)
Q Consensus 877 ~~~~~~vd~v~~~~~~~----~~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~P 952 (1159)
+ +|+||.|.++++++ +.++|||++|+.|.|++|||||||||||||||+|||+||||||+||++||||+||||||
T Consensus 796 ~--~G~V~~V~~~~~~~~~~g~~~~vkV~v~~~R~~~~GDK~a~RHG~KGVis~i~p~eDMPf~~~G~~~DiilNP~gvP 873 (1060)
T COG0085 796 E--EGIVDDVQVFTREDGDPGVNKLVKVYVAQKRKPQIGDKMAGRHGNKGVVSKIVPQEDMPFLEDGTPPDIILNPLGVP 873 (1060)
T ss_pred C--CeEEEEEEEEeccCCCcCceEEEEEEEEEeccCCccccccccCCCCceeeeecCcccCCcCCCCCcccEEECCCCCC
Confidence 9 99999999998876 78999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccHHHHHHHhcccccccCCceeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeee
Q 001092 953 SRMTVGKMIELLGGKAGVSCGRFHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQ 1032 (1159)
Q Consensus 953 SRMtiGql~E~~~gk~~~~~g~~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~ 1032 (1159)
|||||||++|+++||||++.|...|+|||+ +++.+++.+.|.++||+++||+.||||+||++|+++||+|++|||
T Consensus 874 SRM~iGqilE~~lG~a~~~~G~~~~~~~F~-----g~~~~~~~~~l~~~g~~~~Gk~~lydG~TGe~~~~~i~vG~~Y~~ 948 (1060)
T COG0085 874 SRMNIGQILETHLGKAAALLGIPVDTPVFD-----GAPEEDIRELLKEAGFPYSGKEVLYDGRTGEPFDAPIFVGVMYYQ 948 (1060)
T ss_pred ccccHHHHHHHHHHHHHHhcCceeccCCcC-----CCCHHHHHHHHHHcCCCCCCCEEeecCCCCCcccccEEEEehHHH
Confidence 999999999999999999999999999999 899999999999999999999999999999999999999999999
Q ss_pred ecccccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeec
Q 001092 1033 KLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYN 1112 (1159)
Q Consensus 1033 rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~ 1112 (1159)
||+|||+|||||||||||+.|||||++||||+|||||||||||||+|||||++|||||+++||++ ||++++.
T Consensus 949 kL~HmV~dK~HaRs~GP~s~lT~QP~~Gka~~GG~RfGEME~~aL~ayGAa~~LqE~L~~~SD~~-------~G~~~~y- 1020 (1060)
T COG0085 949 KLHHMVDDKIHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQERLTVKSDDV-------CGRIKIY- 1020 (1060)
T ss_pred hHHhhhcccceeeccCCceeeecCCCCcccccCCccccchHHHHHHHHhHHHHHHHHhhccchhc-------ccchhhh-
Confidence 99999999999999999999999999999999999999999999999999999999999999998 8887665
Q ss_pred ccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEecc
Q 001092 1113 HKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLAE 1158 (1159)
Q Consensus 1113 ~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~~~ 1158 (1159)
-|..|+ .++.++.||||||||++||+||||+++|.++|
T Consensus 1021 ------~~~v~g--~~~~~~~ip~sFk~L~~El~sl~i~~~l~~~~ 1058 (1060)
T COG0085 1021 ------ECIVKG--ENIPEVGIPESFKVLLKELRSLGIDVRLELED 1058 (1060)
T ss_pred ------cCcccC--CCCCCCCCCHHHHHHHHHHHHCCCceEEeecC
Confidence 299997 78999999999999999999999999999876
No 6
>TIGR02013 rpoB DNA-directed RNA polymerase, beta subunit. This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit.
Probab=100.00 E-value=9.7e-227 Score=2118.30 Aligned_cols=919 Identities=27% Similarity=0.430 Sum_probs=805.4
Q ss_pred ccccccccccccccchHHHHHHHHHHHHH----------hChHHHHhccCceeecCCCcEEEEEeEEEEcCCccccCCcC
Q 001092 29 VDKFQLLPEFLKVRGLVKQHLDSFNYFVN----------TGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDGVS 98 (1159)
Q Consensus 29 ~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~----------~gL~~i~~~~~~I~~~~~~~~~l~f~~i~i~~P~~~~~~~~ 98 (1159)
+..|..++.+|+.++|++||++||||||+ +||++++++++||+.. ++++.|+|.++++++|++
T Consensus 5 r~~~~~~~~~~~~p~Lv~~Qi~SFn~FL~~~~~~~~~~~~gL~eii~~~~pI~~~-~~~~~l~f~~~~l~~P~~------ 77 (1065)
T TIGR02013 5 RIDFGKIPEVLEVPNLLEIQLDSYDWFLQQDTPPEKRKEEGLEEVFKSIFPIEDY-TGNIELEYLSYRLGEPKY------ 77 (1065)
T ss_pred eeecccCcccccCCCHHHHHHHHHHHHHcCCCcccccccccHHHHHhccCcEEec-CCcEEEEEEEEEeCCCCC------
Confidence 45699999999999999999999999999 8999999999999865 678999999999999987
Q ss_pred CCCChhhHhhcCCccCccEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEE
Q 001092 99 EKLNPHMCRLSDMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFI 178 (1159)
Q Consensus 99 ~~l~P~EcR~r~lTYsa~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFI 178 (1159)
+|+|||+|++||+|||+|+++++..+.+.++++++++|++|+||||+ .|||||
T Consensus 78 ---~p~Ear~r~lTYsa~l~v~v~l~~~~~~~~~~i~~~~V~iG~iPiMt------------------------~gGyFI 130 (1065)
T TIGR02013 78 ---SVEECKERGLTYSAPLKVKLRLINKEEDGTKEIKEQDVYMGDIPLMT------------------------DRGTFI 130 (1065)
T ss_pred ---CHHHHHHhCCCcceeEEEEEEEEEeccCCccceeeeeEEEeCCCccC------------------------CCceEE
Confidence 69999999999999999999997432101145666799999999998 599999
Q ss_pred EcCchhhhHhhhhccCCeEEEEeC---CCC--cEEEEEEecCCCcceEEEEEeeCCEEEEEEcceeccccHHHHHHHhcC
Q 001092 179 IKGTEKVLLIQEQLSKNRVIIDTD---KKG--NINASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGM 253 (1159)
Q Consensus 179 ING~ERVI~~q~~~s~N~i~~~~~---~~g--~~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~ 253 (1159)
|||+||||++||++|||.++.+.. +++ .++|.++|.++ +|..+.+.+++.+|++++++. +||+++||||||+
T Consensus 131 INGsERVIV~Qe~rspg~~~~~~~~~~~~~~~~~~a~iis~rg--swl~~e~~~~~~i~v~i~~~~-kIPi~illrALG~ 207 (1065)
T TIGR02013 131 INGAERVVVSQLHRSPGVFFSSEKDTHKSGKVLFSARIIPYRG--SWLEFETDKKDVLYVRIDRKR-KLPATVLLRALGY 207 (1065)
T ss_pred ECCcEEEEEEEeecCCCEEEEEccccCCCCceEEEEEEEeCCC--CceEEEEecCCeEEEEecCCC-ceeHHHHHHHcCC
Confidence 999999999999999998887653 345 57899999753 455556667889999999974 9999999999999
Q ss_pred CCHHHHHHHhCCchhhHhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhcc-------C
Q 001092 254 ESDQEVVQMVGRDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLA-------N 326 (1159)
Q Consensus 254 ~sD~eI~~~i~~~~~~~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~ll~-------H 326 (1159)
++|+||++.++.++.+.+.+ ++ ....++++|+.||+++++++ ... ..+.|+++|++.||| |
T Consensus 208 ~sd~eI~~~i~~~~~i~~~l----~~---~~~~~~e~Al~~i~~~~~~g----~~~-~~~~a~~~l~~~f~~~~rY~Lgh 275 (1065)
T TIGR02013 208 TIDTLILNRLGSGEYIRNTL----RK---DPTNSEEEALVEIYRKLRPG----EPP-TVEAARSLLENLFFDPKRYDLGR 275 (1065)
T ss_pred CcchhhhhhcCchHHHHHHH----Hh---ccccCHHHHHHHHHhhcCCC----Ccc-hHHHHHHHHHHHhcCcccccccc
Confidence 99999999997655444333 22 23679999999999999875 234 678899999999987 9
Q ss_pred CCCCC------------CCCCCcchhHHHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHH
Q 001092 327 VPVHN------------NNFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKT 394 (1159)
Q Consensus 327 l~~~~------------~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~ 394 (1159)
+|..+ .....|++||+ |+++|+++..|.+.+||+|||+||||+++|+||+.|||.+|+++++.++++
T Consensus 276 iGr~kln~Kl~~~~~~~~~~l~k~d~l~-mi~~Ll~~~~g~~~~DD~Dhl~NKRvr~aGeLL~~~fr~~l~rl~k~ik~~ 354 (1065)
T TIGR02013 276 VGRYKLNKKLGLDVPEDIGVLTKEDIIA-TIKYLIKLRNGKGEIDDIDHLGNRRIRSVGELLQNQFRVGLARMERIVRER 354 (1065)
T ss_pred cchhhhhhhcCcCcCcccceehHHHHHH-HHHHHHHhhcCCCCCcchhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99421 11123889996 999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCcccccccccccceEEcccccccccccccccccc----ccccc
Q 001092 395 VDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSP----QFEKS 470 (1159)
Q Consensus 395 i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s----~f~~~ 470 (1159)
+.+. + ...+++..+++++.||+++++||+|| ||||+|||+||+|+|||+||+++ +++++
T Consensus 355 l~~~--~---~~~~~~~~~i~~~~it~~i~~ff~tg------------glSQ~Ldr~NpLs~lsh~RRlsslgpggl~r~ 417 (1065)
T TIGR02013 355 MSTQ--D---TDTLTPQDLINAKPISAAIKEFFGSS------------QLSQFMDQTNPLAELTHKRRLSALGPGGLTRE 417 (1065)
T ss_pred hhhc--c---cccCCHHHhcCccchHHHHHHHhccC------------CcccccccCCHHHhhhhhceecccCCCCcCcc
Confidence 8753 1 12466778889999999999999986 89999999999999999999998 69999
Q ss_pred cccCCCCccCCCCCccccccCCCCCCcchhhhhcccceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEc
Q 001092 471 RKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFN 550 (1159)
Q Consensus 471 ~K~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~ln 550 (1159)
++.++||+|||||||||||+|||||+|||||+|||++|+|+.
T Consensus 418 ~~~~~~RdlHpShyGrICPiETPEG~n~GLVknLA~~a~i~~-------------------------------------- 459 (1065)
T TIGR02013 418 RAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNE-------------------------------------- 459 (1065)
T ss_pred ccCCccCccCccccccccCCCCCCCCccccccchhhhcccCc--------------------------------------
Confidence 999999999999999999999999999999999999999851
Q ss_pred CeEEEeecChhhHHHHHHHHhhcCCCCceeEEEecccCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCchh
Q 001092 551 GLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFD 630 (1159)
Q Consensus 551 G~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~ 630 (1159)
.|.+.||++.|+||++.
T Consensus 460 ----------------------------------------------~G~i~~P~~~V~ng~~~----------------- 476 (1065)
T TIGR02013 460 ----------------------------------------------YGFIETPYRKVKDGKVV----------------- 476 (1065)
T ss_pred ----------------------------------------------ceEEeCCeEEEECCeEe-----------------
Confidence 14466899999888653
Q ss_pred hhhccCceeeeccccccceEEEeecCCCC-----------------------CcceeeeecCccccccccccccCCCCCC
Q 001092 631 DFLREGLIEYLDVNEENNALIALYEGDAT-----------------------PDTTHIEIEPFTILGVIAGLIPYPHHNQ 687 (1159)
Q Consensus 631 ~l~~~g~iE~id~~E~~~~~Ia~~~~~~~-----------------------~~~th~Ei~p~~ilsv~aslIPF~~hNq 687 (1159)
.++.+||+|++||+++.||..+.++. ..+||+||+|.+||||+||||||+||||
T Consensus 477 ---~~~~i~yl~a~eE~~~~Ia~~~~~l~~~~~~~~~~i~~r~~~~f~~~~~~~vt~~ei~p~~ilsv~aslIPFleHNd 553 (1065)
T TIGR02013 477 ---VTDEVDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYRGEITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDD 553 (1065)
T ss_pred ---ccceeEECChHHhCCcEEEecCcCcCccCccccceeeEEEcCceeecChhHeeEEeeChhhhhhhHhhcCCCccccC
Confidence 23569999999999999999876553 2469999999999999999999999999
Q ss_pred CCccccccccccCCccce-----------------------------------eeeecccccc---------ceee----
Q 001092 688 SPRNTYQCAMGKQAMGNI-----------------------------------AFNQLCRMDS---------LLYL---- 719 (1159)
Q Consensus 688 spRn~yq~~M~KQa~g~~-----------------------------------~~n~~~R~D~---------~~y~---- 719 (1159)
||||||||||||||||++ ++++..|.|+ +.|.
T Consensus 554 s~R~lmgsnM~kQavpl~~~e~p~VgTg~E~~v~~ds~~~i~a~~~G~v~~v~~~~~~~r~d~~~~~~~~~~~~y~L~~~ 633 (1065)
T TIGR02013 554 ANRALMGSNMQRQAVPLLRSEAPLVGTGMEAKVARDSGAVIVAKRGGVVEYVDAKRIVIRYDEDEDEPDGGIDIYRLLKY 633 (1065)
T ss_pred CcchhhhhhhhhhhhcccccCCCEEEcCcchhhhccccceeEeccCCEEEEEccceEEEEecCCcccccccceEEEeecc
Confidence 999999999999999988 8999999995 3454
Q ss_pred ------ecCCCcceeeec----eeeeec------CCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEE
Q 001092 720 ------LVYPQRPLLTTR----TIELVG------YDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKY 783 (1159)
Q Consensus 720 ------l~ypQ~Plv~t~----~~~~~~------~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~ 783 (1159)
++|||+|||+|+ ..+.+. ++|+|+|+||+||||||+||||||||||||+|+|||+|||+||++|
T Consensus 634 ~~snq~~~~~q~Plv~~~~~v~~~~~l~d~~~~~~~e~~~G~N~~VAvm~y~GYn~EDAiiink~~i~rg~~~s~~~~~~ 713 (1065)
T TIGR02013 634 QRSNQDTCINQRPIVSVGDRVEAGDVLADGPSTDLGELALGRNVLVAFMPWNGYNYEDAILISERLVKDDVFTSIHIEEY 713 (1065)
T ss_pred cccccCceEEeeeeeccCCeEeeeeEecccccccCCcCcCccceEEEEEeeecccccceEEeehhhhcCCceEEEEEEEE
Confidence 569999999995 455544 8999999999999999999999999999999999999999999999
Q ss_pred EEEeccccCCCcceecC-CCCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCC-----
Q 001092 784 TAINQKYANSTSDRILR-PDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMS----- 857 (1159)
Q Consensus 784 ~~~~~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~----- 857 (1159)
++++++++.|.++++.. |+.. ...|++||+||||++|++|++|||||||++|....+....
T Consensus 714 ~~~~~~~~~g~e~~~~~~p~~~-------------~~~~~~Ld~dGi~~~G~~v~~gdilvgk~~p~~~~~~~~~~~l~~ 780 (1065)
T TIGR02013 714 EVEARDTKLGPEEITRDIPNVS-------------EEALRNLDENGIVRIGAEVKAGDILVGKVTPKGETELTPEEKLLR 780 (1065)
T ss_pred EEEeeccCCCceEeeccCCCCc-------------hhhhhccCCCCCccCccEeCCCCEEEEEecCCcccccChhhhhhh
Confidence 99998877666433333 5531 2479999999999999999999999999998654321110
Q ss_pred -CCCCCCcccccceeeecCCCCCceEEEEEEEeeCCCC-------cEEEEEEEeeecCCCcccccccccCCccEEEeeec
Q 001092 858 -PTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDKNG-------DLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQ 929 (1159)
Q Consensus 858 -~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~~~~~-------~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~ 929 (1159)
.++++...++|+|++++.++ .|+||+|.++.+.++ .+.|||++|+.|+|+||||||||||||||||+|||
T Consensus 781 ~~~~~~~~~~~d~s~~~~~~~--~g~V~~V~~~~~~~~~~~~~~~~~~vkv~ir~~R~p~iGDKfasRHGqKGvis~i~~ 858 (1065)
T TIGR02013 781 AIFGEKARDVRDTSLRVPPGV--EGTVIDVKVFSRKQGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSKILP 858 (1065)
T ss_pred hhcccCCccccccceEccCCC--CEEEEEEEEEeccCCCccCcCccEEEEEEEeecccccccchhhhcccCceeEEeEec
Confidence 12333345789999999999 999999999876665 57899999999999999999999999999999999
Q ss_pred cCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccC--Cceeeeee-ccCCCCCCCcHHHHHHHHHHcCCCCC
Q 001092 930 QEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSC--GRFHYGSA-FGEPSGHADTVESISETLVKHGFSYN 1006 (1159)
Q Consensus 930 ~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~--g~~~~~t~-F~~~~~~~~~~~~~~~~l~~~g~~~~ 1006 (1159)
+||||||+||++|||||||||||||||||||+||++||||++. |.+.++|| |+ +.+.+++.+.|.++||+++
T Consensus 859 ~eDMPf~~~G~~pDiIiNPhg~PSRMtiGqllE~~~gka~~~~~~~~~~~~tp~f~-----~~~~~~~~~~l~~~g~~~~ 933 (1065)
T TIGR02013 859 IEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAGKRLGRKGVPIATPVFD-----GASEEEIKEYLEKAGLPRD 933 (1065)
T ss_pred CCCCCccCCCCCccEEECCCCCcccccHHHHHHHHHHHHHHhccCCCeEEeccCcC-----CccHHHHHHHHHHcCCCCC
Confidence 9999999999999999999999999999999999999999987 66788999 76 6789999999999999999
Q ss_pred CceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHH
Q 001092 1007 GKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLI 1086 (1159)
Q Consensus 1007 G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L 1086 (1159)
|+|.||||+||++|+++||+|++|||||+|||+||+|||++|||+.|||||++||||+|||||||||||||+|||||++|
T Consensus 934 G~e~l~~G~TG~~~~~~ifvG~~yy~rL~HmV~DK~haRs~Gp~~~lT~QP~~Grsr~GG~R~GEME~d~l~a~Gas~~L 1013 (1065)
T TIGR02013 934 GKVRLYDGRTGEQFDRPVTVGYMYMLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTL 1013 (1065)
T ss_pred CCEEEEcCCCCCCccccEEEeehheeechhhhcchhhhcccCCccceeeCCCcccccCCCeeeeeeeHHHHHhhhhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccCCCcccceeccccccceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEE
Q 001092 1087 FERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRL 1154 (1159)
Q Consensus 1087 ~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l 1154 (1159)
+|||+.+||++..+ . ..++..| ++.+++++.+|||||||+|||+||||++++
T Consensus 1014 ~E~l~~~SD~~~g~-------~--------~~~~~~~-~~~~i~~~~~p~sfklL~~EL~sm~i~~~~ 1065 (1065)
T TIGR02013 1014 QEMLTVKSDDVVGR-------T--------KAYEAIV-KGENVPEPGIPESFNVLIKELQSLGLDIEL 1065 (1065)
T ss_pred HHHHhccChhhhhh-------h--------hhhhhhc-CCCccccccCCccHHHHHHHHHhCCccccC
Confidence 99999999999543 1 1223445 678899999999999999999999999875
No 7
>cd00653 RNA_pol_B_RPB2 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.
Probab=100.00 E-value=1.1e-226 Score=2111.33 Aligned_cols=856 Identities=47% Similarity=0.778 Sum_probs=774.1
Q ss_pred hHHHHHHHHHHHHHhChHHHHhccCceeecC-CCcEEEEEeEEEEcCCccccCCcCCCCChhhHhhcCCccCccEEEEEE
Q 001092 44 LVKQHLDSFNYFVNTGIRKIVRANDRIVSGI-DPSIFLRFKDVRIGQPSMTVDGVSEKLNPHMCRLSDMTYAAPILVNIE 122 (1159)
Q Consensus 44 Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~-~~~~~l~f~~i~i~~P~~~~~~~~~~l~P~EcR~r~lTYsa~L~v~i~ 122 (1159)
|++||++|||+|+++||+++++++++|+... +..+.++|.++++++|.+.++....+++|+|||+|++||+|+|+|+++
T Consensus 1 Lv~~qi~SFn~Fl~~gl~~ii~~~~~i~~~~~~~~~~l~f~~i~i~~P~~~~~~~~~~l~P~ecRlr~lTYs~~l~v~i~ 80 (866)
T cd00653 1 LVKQQIDSFNYFLNVGLQEIVKSIPPITDTDDDGRLKLKFGDIYLGKPKVEEGGVTRKLTPNECRLRDLTYSAPLYVDIR 80 (866)
T ss_pred CchhHHHHHHHHHHHHHHHHHHhcCCeeeccCCCeEEEEEEEEEECCccccccCccccCCHHHHHhhCCccceeEEEEEE
Confidence 6889999999999999999999999998654 467899999999999998765556789999999999999999999999
Q ss_pred EEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhhhHhhhhccCCeEEEEeC
Q 001092 123 YVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKNRVIIDTD 202 (1159)
Q Consensus 123 ~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ERVI~~q~~~s~N~i~~~~~ 202 (1159)
++..+. ..+..++|++|+|||||+|++|||++++++|+++.||||.|+||||||||+|||||+||++++|+++++ +
T Consensus 81 ~~~~~~---~~~~~~~v~iG~iPIMv~S~~C~L~~~~~~el~~~~E~p~d~GGYFIInG~EkVIi~qi~~~~N~~~~~-~ 156 (866)
T cd00653 81 LTVNDK---GKIKEQEVFIGEIPIMLRSKLCNLNGLTPEELIKLGECPLDPGGYFIINGTEKVIINQEQRSPNVIIVE-D 156 (866)
T ss_pred EEEecc---eeEEEEEEEEeeCCcccCcccccccCCCHHHHHhcCCCcccCCCEEEECCceeEEEEEEeccCCeEEEe-c
Confidence 986552 233567899999999999999999999999999999999999999999999999999999999999988 4
Q ss_pred CCCcEEEEEEecCCC---cce-EEEEEee-CCEEEEEEcceeccccHHHHHHHhcCCCHHHHHHHhCCchhhHhhhhHhH
Q 001092 203 KKGNINASVTSSTET---VKS-KTVIQME-KGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVGRDPRYSALLLPSI 277 (1159)
Q Consensus 203 ~~g~~~a~v~s~~~~---~~s-~~~~~~~-~g~i~~r~~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~l~~~l 277 (1159)
+.+.+.+.+++.... ..+ ..+.... ++.++++++...
T Consensus 157 ~~~~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~i~~~i~~~~-------------------------------------- 198 (866)
T cd00653 157 SKGKRIYTKTSIPSYSPYRGSWLEVKSDKKKDRIYVRIDLKR-------------------------------------- 198 (866)
T ss_pred CCCcEEEEEEEccCCCcCccEEEEEEEccCCCeEEEEecccC--------------------------------------
Confidence 445566666665432 122 2222222 345666666531
Q ss_pred HHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhccCCCCCCCCCCCcchhHHHHHHHHHHhccCCCC
Q 001092 278 EECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLANVPVHNNNFRPKCFYVAVMLRRMVEAMLNKDA 357 (1159)
Q Consensus 278 ~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~ll~Hl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~ 357 (1159)
+++|+.|||++| .+|++|++||+++..|.+.
T Consensus 199 ----------~~~al~~ig~~~---------------------------------------~~L~~Mi~kLl~~~~g~~~ 229 (866)
T cd00653 199 ----------QEEALKYIGKRF---------------------------------------EDLIYMIRKLILLVLGKGK 229 (866)
T ss_pred ----------HHHHHHHHHHHH---------------------------------------HHHHHHHHHHHHHhcCCCC
Confidence 678999999864 6799999999999999999
Q ss_pred CCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCccccc
Q 001092 358 MDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFDVKRF 437 (1159)
Q Consensus 358 ~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~~ 437 (1159)
+||+|||+||||+++|+||+.+|++.|+++++.++..+.+...+.+ .+++...++++.||++|++||+||||..+++
T Consensus 230 ~Dd~D~~~NkRv~~~G~Ll~~lfr~~l~~~~~~~k~~l~~~~~~~~---~~~~~~~~~~~~It~~i~~~~~TGnw~~~~~ 306 (866)
T cd00653 230 LDDIDHLGNKRVRLAGELLQNLFRSGLKRLEREVKEKLQKQLSKKK---DLTPQLLINSKPITSGIKEFLATGNWGSKRF 306 (866)
T ss_pred CCCchhhhCeEEeeHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc---ccCHHHhccchHHHHHHHHHhhcCCcccccc
Confidence 9999999999999999999999999999999999999988765422 3455666688899999999999999997766
Q ss_pred ccccccceEEcccccccccccccccccc-ccccccccCCCCccCCCCCccccccCCCCCCcchhhhhcccceeeccCCCc
Q 001092 438 KMHRKGMTQVLARLSFIGTLGHMTRVSP-QFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEE 516 (1159)
Q Consensus 438 ~~q~sGvsq~l~RlN~ls~LshlRrv~s-~f~~~~K~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~~ 516 (1159)
.+|++|+||+|+|+||+|+|||+||||+ ++++++|+++||+||||||||+||||||||++||||||||++|+|+
T Consensus 307 ~~~~~Gvsq~ldr~N~ls~lsh~Rrv~~~~~~~~~k~~~~R~lhps~~G~iCPveTPEG~~cGLv~~LA~~a~Is----- 381 (866)
T cd00653 307 LMQRSGLSQVLDRLNPLSELSHKRRISSLGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS----- 381 (866)
T ss_pred ccccceEEEEcccCCHHHHHHhhhhcccccccccccCCcccccCcccCCccCCCCCCCCccccchhhhhceEeee-----
Confidence 7899999999999999999999999998 9999999999999999999999999999999999999999999874
Q ss_pred hhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHHHHHhhcCCCCceeEEEecccCceEEEecC
Q 001092 517 GPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASD 596 (1159)
Q Consensus 517 ~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~td 596 (1159)
T Consensus 382 -------------------------------------------------------------------------------- 381 (866)
T cd00653 382 -------------------------------------------------------------------------------- 381 (866)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccCceeeeccccccceEEEeecCCCCCcceeeeecCccccccc
Q 001092 597 GGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNALIALYEGDATPDTTHIEIEPFTILGVI 676 (1159)
Q Consensus 597 ~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~~~~~th~Ei~p~~ilsv~ 676 (1159)
||++||+++|+ ..+||+||+|.++||++
T Consensus 382 -Gr~~rP~~~v~---------------------------------------------------~~~th~ei~~~~~ls~~ 409 (866)
T cd00653 382 -GRIERPYRIVE---------------------------------------------------KEVTHIEISPSQILSVA 409 (866)
T ss_pred -eEeeeeEEEec---------------------------------------------------cceEEEEeCccceeeee
Confidence 99999999752 13799999999999999
Q ss_pred cccccCCCCCCCCccccccccccCCccceeeeeccccccceeeecCCCcceeeeceeeeecCCCCCCCcceEEEEEecCC
Q 001092 677 AGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLVYPQRPLLTTRTIELVGYDKLGAGQNATVAVMSYSG 756 (1159)
Q Consensus 677 aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~R~D~~~y~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAv~~~~G 756 (1159)
||+|||+||||||||||||||+|||||++++|+..|+|++.|+|.|||+|||+|+..+.++++|+|+|+||+||||||+|
T Consensus 410 asliPf~~hNqspRn~~~~~M~kQa~g~~~~n~~~r~d~~~~~l~~pq~plv~T~~~~~~~~~~~~~G~N~~VAv~~y~G 489 (866)
T cd00653 410 ASLIPFPEHNQSPRNLYQSNMQKQAVGTPALNQQYRMDTKLYLLLYPQKPLVGTGIEEYIAFGELPLGQNAIVAVMSYSG 489 (866)
T ss_pred eeccCCCCcccccchhhhhcccCCccCchhccccccccchheeeccCCCCccccchHHHhCCCccCCCceEEEEEecccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceecCCCCCCCCcccccccccchhhhccCCCCcccCCCcee
Q 001092 757 YDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILRPDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEII 836 (1159)
Q Consensus 757 yn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v 836 (1159)
|||||||||||+|+|||+|||+||++|+++++++..+..+.+.. ... ..+ ...|++||+||||++|++|
T Consensus 490 yn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~-~~~------~~~----~~~~~~ld~dGi~~~g~~v 558 (866)
T cd00653 490 YNFEDAIIINKSSVDRGFFRSIHYKKYEIELRKTKNGPEEITRG-DIP------NVS----EEKLKNLDEDGIIRPGARV 558 (866)
T ss_pred ccccceeeeehhhhhcCceeEEEEEEEEEEEEecCCCcceEecC-CCC------CCC----hHHhhccCCCCCcCCCCEe
Confidence 99999999999999999999999999999998877666665541 110 011 2579999999999999999
Q ss_pred CCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeecCCCCCceEEEEEEEee---CCCCcEEEEEEEeeecCCCcccc
Q 001092 837 KPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYKGPDGETCVVDRVALCS---DKNGDLCIKFLIRHTRRPELGDK 913 (1159)
Q Consensus 837 ~~gd~li~k~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~---~~~~~~~vkv~~r~~R~p~iGDK 913 (1159)
++||+||||++|....+... .++......+|++++++..+ .|+||+|.++. +.++...|+|++|+.|+|+||||
T Consensus 559 ~~gd~li~k~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~--~g~v~~v~~~~~~~~~~~~~~v~v~~r~~R~p~iGDK 635 (866)
T cd00653 559 EPGDILVGKITPKGETESTP-IFGEKARDVRDTSLKYPGGE--KGIVDDVKIFSRELNDGGNKLVKVYIRQKRKPQIGDK 635 (866)
T ss_pred cCCCEEEEEecCcccccccc-cccccCCcceEEEEEecCCC--ceEEEEEEEeccccCCCCcEEEEEEEeEEecCCcccc
Confidence 99999999999875433211 01222334789999999999 99999999987 56778999999999999999999
Q ss_pred cccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccCCceeeeeeccCCCCCCCcHHH
Q 001092 914 FSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGSAFGEPSGHADTVES 993 (1159)
Q Consensus 914 f~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~t~F~~~~~~~~~~~~ 993 (1159)
||||||||||||+|||+||||||+||++|||||||||||||||||||+|+++||||++.|.+.|+|||+ ....++
T Consensus 636 fssRhGqKGv~s~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~t~f~-----~~~~~~ 710 (866)
T cd00653 636 FASRHGQKGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLESLLGKAGALLGKFGDATPFD-----GAEEED 710 (866)
T ss_pred cccccCCCcEEEEEeccccCCcccCCCCCcEEecCCcCcccccHHHHHHHHHHHHHHhcCCcccccccC-----cchHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999998 577889
Q ss_pred HHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCcccccccCccccccCCceeeeehh
Q 001092 994 ISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEME 1073 (1159)
Q Consensus 994 ~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEME 1073 (1159)
+.+.|.++||+++|+|.||||+||++|+++||+|++|||||+|||+||+|||++||++.|||||++||+|+|||||||||
T Consensus 711 ~~~~l~~~g~~~~G~e~~y~g~tG~~~~~~if~G~~yyqrL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEME 790 (866)
T cd00653 711 ISELLGEAGLNYYGKEVLYDGRTGEPLEAPIFVGPVYYQRLKHMVDDKIHARSTGPYSLLTRQPLKGRSRGGGQRFGEME 790 (866)
T ss_pred HHHHHHHcCCCCCCcEEEEcCCCCCCcccceEEeehhhhhhhhhhchhhhhcccCCcchhccCcCccccccCCeEEEEEe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHcccHHHHHHhhccCCCcccceeccccccceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccE
Q 001092 1074 RDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPR 1153 (1159)
Q Consensus 1074 rd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~ 1153 (1159)
||||+|||||++|+|||+++||++.++||..||.+++. .+|+.|+++.++.++.+|||||||+|||+||||+++
T Consensus 791 rd~lia~Gas~~l~erl~~~SD~~~~~vc~~cg~i~~~------~~c~~c~~~~~~~~~~ipy~~kll~~EL~sm~i~~~ 864 (866)
T cd00653 791 RDALIAHGAAYLLQERLTIKSDDVVARVCVKCGIILSA------NLCRLCKKGTNISKVGIPYAFKLLFQELQSMNIDPR 864 (866)
T ss_pred hhhhhhhhhHHHHHHHHhcCCccceEEEeccCcccccc------cccccccCCCceeecCCCHHHHHHHHHHHHCCcceE
Confidence 99999999999999999999999999999999999876 459999999999999999999999999999999999
Q ss_pred EE
Q 001092 1154 LK 1155 (1159)
Q Consensus 1154 l~ 1155 (1159)
|.
T Consensus 865 ~~ 866 (866)
T cd00653 865 LK 866 (866)
T ss_pred eC
Confidence 73
No 8
>PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed
Probab=100.00 E-value=5.6e-223 Score=2094.84 Aligned_cols=921 Identities=26% Similarity=0.428 Sum_probs=799.1
Q ss_pred ccccccccccccccchHHHHHHHHHHHH-------HhChHHHHhccCceeecCCCcEEEEEeEEEEcCCccccCCcCCCC
Q 001092 29 VDKFQLLPEFLKVRGLVKQHLDSFNYFV-------NTGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDGVSEKL 101 (1159)
Q Consensus 29 ~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl-------~~gL~~i~~~~~~I~~~~~~~~~l~f~~i~i~~P~~~~~~~~~~l 101 (1159)
+..++.++.++..++|++||++|||||| ++||++++++++||+.. ++++.|+|.++++++|.+
T Consensus 12 r~~~~~~~~~~~~p~Lv~~Qi~SFn~Fl~~~~~~~~~gL~~ii~~~~pI~~~-~~~~~l~f~~~~l~~P~~--------- 81 (1112)
T PRK00405 12 RKSFGKIKEVLELPNLLEIQLDSFDWFLQLDVPPEDEGLEEVFRSIFPIEDF-NGNLSLEFVSYELGEPKY--------- 81 (1112)
T ss_pred EeecccccccCCCCCHHHHHHHHHHHHHhcCCcccchhHHHHHHhcCCEEec-CCcEEEEEeeeEcCCCCC---------
Confidence 4567788899999999999999999999 99999999999999864 678999999999999974
Q ss_pred ChhhHhhcCCccCccEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcC
Q 001092 102 NPHMCRLSDMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKG 181 (1159)
Q Consensus 102 ~P~EcR~r~lTYsa~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING 181 (1159)
+|+|||+|++||+|||+|+++++..+. +++++++|++|+||||+ +||||||||
T Consensus 82 tp~Ear~r~lTYSaplyv~v~l~~~~~---~~i~~~~V~iG~iPiMt------------------------~gGyFIING 134 (1112)
T PRK00405 82 DVEECKERGLTYSAPLRVKLRLINKET---GEIKEQEVYMGDIPLMT------------------------ENGTFIING 134 (1112)
T ss_pred CHHHHHHhCCCCCeeEEEEEEEEEecc---CceeeeeEEEecccccc------------------------CCceEEECC
Confidence 899999999999999999999975432 45667799999999997 899999999
Q ss_pred chhhhHhhhhccCCeEEEEeCC-----CCcEEEEEEecCCCcceEEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCH
Q 001092 182 TEKVLLIQEQLSKNRVIIDTDK-----KGNINASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESD 256 (1159)
Q Consensus 182 ~ERVI~~q~~~s~N~i~~~~~~-----~g~~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD 256 (1159)
+||||++||++|||.++.+... +..++|.++|.++ +|..+.+.+++.+|+++++. ++||+++||||||+ ||
T Consensus 135 ~ERVIVsQe~rSPg~~~~~~~~k~~~~k~~y~a~Iis~rG--swl~~e~d~k~~I~vri~~~-~kIPi~iLLrALGl-sd 210 (1112)
T PRK00405 135 TERVIVSQLHRSPGVYFDHDKDKTSSGKLLYSARIIPYRG--SWLEFEFDPKDILYVRIDRR-RKLPVTVLLRALGY-SD 210 (1112)
T ss_pred eEEEEEEEeecCCCEEEEEeccccCCCceeEEEEEEECCC--CcEEEEEecCCeEEEEecCC-CcccHHHHHHHcCC-CH
Confidence 9999999999999987765532 2337899999863 46666667789999999986 69999999999999 89
Q ss_pred HHHHHHhCCchhhH-------------------------h------------hhhHhHHHHH-hcCCcCHHHHHHHHhhh
Q 001092 257 QEVVQMVGRDPRYS-------------------------A------------LLLPSIEECA-NLDIYTQEKALEYLEGK 298 (1159)
Q Consensus 257 ~eI~~~i~~~~~~~-------------------------~------------~l~~~l~~~~-~~~i~t~~~Al~yIg~r 298 (1159)
+||++.|+.+..+. + .+...+.+.. ..+..++++|+.||+++
T Consensus 211 ~eIl~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~~~~~~~~~~~i~~~l~~~~~~t~e~Al~~I~k~ 290 (1112)
T PRK00405 211 EEILDLFYEKEEFGKEIEVPVEYLLGKVLAEDIVDEETGEVLAEANDEITEELDGPYIRNTLEKDPTSSREEALVEIYRR 290 (1112)
T ss_pred HHHHHHhcccccccceeccchHHhcccchhhhhcccccceeeeccCCccchhhhhHHHHHHHhhccccCHHHHHHHHHhh
Confidence 99999996332221 0 0112333322 23467999999999999
Q ss_pred cccCCCCCCCCChHHHHHHHHHhhhc-------cCCCCCCCC--------CC----CcchhHHHHHHHHHHhccCCCCCC
Q 001092 299 VKRSTFGSPPNDREGRAFSILRDVFL-------ANVPVHNNN--------FR----PKCFYVAVMLRRMVEAMLNKDAMD 359 (1159)
Q Consensus 299 ~r~~~~~~~~~~~~e~~~~~L~~~ll-------~Hl~~~~~~--------~~----~K~~~L~~Mi~kLl~~~~g~~~~D 359 (1159)
++++ ... ..+.|+++|++.|| ||+|..+.+ .. .|++ +++|+++|+++..|.+.+|
T Consensus 291 l~~g----~~~-~~e~a~~~l~~~ff~~~rYdL~hiGr~k~nkKl~l~~~~~~~~L~~~d-~~~mi~~Ll~l~~g~~~~D 364 (1112)
T PRK00405 291 LRPG----EPP-TVEAARSLLENLFFDPKRYDLSKVGRYKLNKKLGLDEDEDVRVLTKED-IIATIKYLINLRNGKGEVD 364 (1112)
T ss_pred cCCC----Ccc-hHHHHHHHHHHHhcCccccccccCCceecchhcccCcccccccccHHH-HHHHHHHHHhhhcccCCCc
Confidence 9876 334 66889999999886 999965332 11 2444 4899999999999999999
Q ss_pred CcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhccCCCccccccc
Q 001092 360 DKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLSTGNFDVKRFKM 439 (1159)
Q Consensus 360 D~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~~~~ 439 (1159)
|+|||+||||+++|+||+.|||.+|+++++.+++++.+.. ...+++..+++++.||++|++||+||
T Consensus 365 DiDhl~NKRvr~aGeLL~~~fr~~~~rl~k~ik~~l~~~~-----~~~~~~~~lin~~~it~~i~~ff~tg--------- 430 (1112)
T PRK00405 365 DIDHLGNRRVRSVGELLQNQFRIGLSRMERAVRERMSLQD-----LDTLTPQDLINAKPVVAAIKEFFGSS--------- 430 (1112)
T ss_pred chhHHhcchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhcc-----cccCCHHHhhCchhHHHHHHHhhccC---------
Confidence 9999999999999999999999999999999999987641 13467888899999999999999986
Q ss_pred ccccceEEcccccccccccccccccc----ccccccccCCCCccCCCCCccccccCCCCCCcchhhhhcccceeeccCCC
Q 001092 440 HRKGMTQVLARLSFIGTLGHMTRVSP----QFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEE 515 (1159)
Q Consensus 440 q~sGvsq~l~RlN~ls~LshlRrv~s----~f~~~~K~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt~~~~ 515 (1159)
||||+|||+||+|+|||+||+++ ++.++++.++||+|||||||||||+|||||+|||||+|||++|+|+.
T Consensus 431 ---glSQ~Ldq~NpLselshkRRlss~gpggl~r~~a~~~~R~lH~ShyGriCPiETPEG~n~GLV~nLA~~a~i~~--- 504 (1112)
T PRK00405 431 ---QLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNE--- 504 (1112)
T ss_pred ---CcceeeccCCHHHhhhhhceecccCCCCcCccccCCcccccCccccccccCcCCCCCCccccccchhhcccccc---
Confidence 88999999999999999999998 69999999999999999999999999999999999999999999983
Q ss_pred chhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHHHHHhhcCCCCceeEEEecccCceEEEec
Q 001092 516 EGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIAS 595 (1159)
Q Consensus 516 ~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~t 595 (1159)
+|+.. .+|.+++||.|- +
T Consensus 505 ----------~G~~~------------tp~~~~~nG~~~---~------------------------------------- 522 (1112)
T PRK00405 505 ----------YGFIE------------TPYRKVVDGKVT---D------------------------------------- 522 (1112)
T ss_pred ----------CCccc------------cceEEEECCeEc---c-------------------------------------
Confidence 45431 247788898761 0
Q ss_pred CCCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccCceeeeccccccceEEEeecCCCC----------------
Q 001092 596 DGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNALIALYEGDAT---------------- 659 (1159)
Q Consensus 596 d~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~~---------------- 659 (1159)
.+||+|++||+++.||..+.++.
T Consensus 523 -----------------------------------------~i~yl~a~eE~~~~Ia~~~~~l~~~~~~~~~~i~~r~~~ 561 (1112)
T PRK00405 523 -----------------------------------------EIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTARYKG 561 (1112)
T ss_pred -----------------------------------------ceEECCHHHhcCcEEEecCcccCCCCcccCceEEEEecC
Confidence 15788888888888887665442
Q ss_pred -------CcceeeeecCccccccccccccCCCCCCCCccccccccccCCccceee-------------------------
Q 001092 660 -------PDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAF------------------------- 707 (1159)
Q Consensus 660 -------~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~------------------------- 707 (1159)
..+||+||+|.+|+||+||||||+||||||||+|||||||||||++..
T Consensus 562 e~~~~~~~~~~~~~i~p~qi~sv~aslIPFleHnda~R~lmgSnMqrQAvpl~~~~~p~vgTg~e~~~~~ds~~~i~a~~ 641 (1112)
T PRK00405 562 EFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLLRPEAPLVGTGMERRVARDSGAVVVAKR 641 (1112)
T ss_pred cceeechhhceEEeechhhhceehhhccCcccccCCcchhhhhhhhhhhhhhccccCCeeecCcchhhhhhcchheEecc
Confidence 236999999999999999999999999999999999999999999877
Q ss_pred ----------eecccc-----------------ccceee-ecCCCcceeeece----eeee------cCCCCCCCcceEE
Q 001092 708 ----------NQLCRM-----------------DSLLYL-LVYPQRPLLTTRT----IELV------GYDKLGAGQNATV 749 (1159)
Q Consensus 708 ----------n~~~R~-----------------D~~~y~-l~ypQ~Plv~t~~----~~~~------~~~~~p~G~N~iV 749 (1159)
++..|. |+.++. ++|||||||+|+. .+.+ +++|+|+|+||+|
T Consensus 642 ~G~v~~v~~~~i~ir~~~~~~~~~~~~~y~L~~~~~sn~~~~~~q~Plv~~~~~v~~g~~lad~~~~~~~e~~~G~N~~V 721 (1112)
T PRK00405 642 DGVVEYVDASRIVVRVEELDPGEDGVDIYNLIKFQRSNQNTCINQRPIVKVGDRVEKGDVLADGPSTDNGELALGQNVLV 721 (1112)
T ss_pred CCEEEEEeCCEEEEeecccccCCCCeeEEEecccccccccceeecceeeecCCeEeeccEeecccccCcccccCCcceEE
Confidence 887888 556666 7999999999995 4554 7999999999999
Q ss_pred EEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceecC-CCCCCCCcccccccccchhhhccCCCCc
Q 001092 750 AVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILR-PDRTGPGAERMQVVHHSNLLLLILDDDG 828 (1159)
Q Consensus 750 Av~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~Ld~dG 828 (1159)
|||||+||||||||||||+|++||+|+|+||++|++++++++.|.++.+.. |+.+ ...|++||+||
T Consensus 722 A~~~y~GYn~EDaiiink~si~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~~p~~~-------------~~~~~~Ld~dG 788 (1112)
T PRK00405 722 AFMPWNGYNFEDAILISERLVKEDVFTSIHIEEYEIEARDTKLGPEEITRDIPNVS-------------EEALRNLDESG 788 (1112)
T ss_pred EEEeecccCccceEEEEhhhhccCceEEEEEeeeeeEeeccCCCceeecccCCCCC-------------hHHhhccCCCC
Confidence 999999999999999999999999999999999999999887775544333 4321 24799999999
Q ss_pred ccCCCceeCCCCEEEEEecCCCCCCCCCC------CCCCCCcccccceeeecCCCCCceEEEEEEEeeC-CCC-------
Q 001092 829 LAAPGEIIKPNDVYINKESPLETRGSIMS------PTGQTDSRYRSARQTYKGPDGETCVVDRVALCSD-KNG------- 894 (1159)
Q Consensus 829 i~~~g~~v~~gd~li~k~~~~~~~~~~~~------~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~~-~~~------- 894 (1159)
||++|++|++|||||||++|....+.... .++.+...++|+|++++.++ .|+||+|.++.+ .++
T Consensus 789 i~~~G~~v~~gDiligk~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~s~~~~~~~--~g~V~~v~~~~~~~~~~~~~~~~ 866 (1112)
T PRK00405 789 IVRIGAEVKPGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVKDTSLRVPHGE--EGTVIDVKVFTRIEQGDELPPGV 866 (1112)
T ss_pred CccCccEecCCCEEEEEecCCCccccChhhhhhhhhhcccccccccceEEcCCCC--CEEEEEEEEeeccccCCccCcCc
Confidence 99999999999999999998753321110 01233345789999999998 999999999876 554
Q ss_pred cEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccCCc
Q 001092 895 DLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGR 974 (1159)
Q Consensus 895 ~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~ 974 (1159)
.+.|||++|+.|+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+||++||||++.|.
T Consensus 867 ~~~vkv~ir~~R~p~iGDKfasRHGqKGvis~i~~~eDMPf~~~G~~pDiIiNPhg~PSRMtiGql~E~~~gk~~~~~g~ 946 (1112)
T PRK00405 867 NKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAAKGLGI 946 (1112)
T ss_pred ceEEEEEEeeecccCcccchhhccCCceeEEeEeccCCCCcCCCCCCCcEEECCCCCcccccHHHHHHHHhhHHHHhcCC
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eeeeee-ccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCcccc
Q 001092 975 FHYGSA-FGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVML 1053 (1159)
Q Consensus 975 ~~~~t~-F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~l 1053 (1159)
+ |+|| |. +.+.+++++.|.++||+++|+|+||||+||++|+++||+|++|||||+|||+||+|||++|||+.|
T Consensus 947 ~-~~tp~f~-----~~~~~~~~~~l~~~g~~~~G~e~l~~G~tG~~~~~~if~G~~yy~rL~HmV~DK~haRs~Gp~~~l 1020 (1112)
T PRK00405 947 K-FATPVFD-----GAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLKLHHLVDDKIHARSTGPYSLV 1020 (1112)
T ss_pred e-EecCccC-----CccHHHHHHHHHHcCcCCCCCEEEECCCCCCCCcccEEEEehhheechhhhcchhhhcccCCccce
Confidence 5 8998 77 678999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeecccccceecccccCCCcccccc
Q 001092 1054 TRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMK 1133 (1159)
Q Consensus 1054 T~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~ 1133 (1159)
||||++||+|+|||||||||||||+|||||++|+|||+.+||++.++.+ ...| .| ++.+++++.
T Consensus 1021 T~QP~~Grsr~GG~R~GEME~d~l~a~Gas~~L~Erl~~~SD~~~g~~~--------------~~~~-~~-~~~~i~~~~ 1084 (1112)
T PRK00405 1021 TQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVVGRTK--------------VYEA-IV-KGENIPEPG 1084 (1112)
T ss_pred eeCCCcccccCCCeeeeeeehhhHhhhhhHHHHHHHhhccCccccccee--------------EEEE-ee-cCCcccccC
Confidence 9999999999999999999999999999999999999999999975432 1235 45 678899999
Q ss_pred ccHhHHHHHHHHHhCCcccEEEe
Q 001092 1134 LPYACKLLIQELQSMNIVPRLKL 1156 (1159)
Q Consensus 1134 iPy~~k~L~~EL~sm~i~~~l~~ 1156 (1159)
+|||||||+|||+||||++++.-
T Consensus 1085 ~p~~fklL~~EL~sm~i~~~~~~ 1107 (1112)
T PRK00405 1085 IPESFNVLVKELQSLGLDVELLD 1107 (1112)
T ss_pred CChHHHHHHHHHHHCccceEEec
Confidence 99999999999999999999974
No 9
>CHL00001 rpoB RNA polymerase beta subunit
Probab=100.00 E-value=3.3e-219 Score=2038.02 Aligned_cols=940 Identities=24% Similarity=0.350 Sum_probs=795.9
Q ss_pred cccccchHHHHHHHHHHHHHhChHHHHhccCceeecCCCcEEEE--EeEEEEcCCccccCCcCCCCChhhHhhcCCccCc
Q 001092 38 FLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGIDPSIFLR--FKDVRIGQPSMTVDGVSEKLNPHMCRLSDMTYAA 115 (1159)
Q Consensus 38 ~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~~~~~~l~--f~~i~i~~P~~~~~~~~~~l~P~EcR~r~lTYsa 115 (1159)
-++.++|+++|++||||||++||++++++++||+ +.++.+.++ ++++++++|++ +|.|||+|++||+|
T Consensus 9 ~~~~P~Lv~~Q~~SF~~Fl~~gL~~i~~~~~pI~-~~~~~~~~~~~~~~~~l~~P~~---------~p~ear~r~lTYsa 78 (1070)
T CHL00001 9 MSTIPGFNQIQFEGFCRFIDQGLTEELSKFPKIE-DTDQEIEFQLFVETYQLVEPLI---------KERDAVYESLTYSS 78 (1070)
T ss_pred ccCCCCHHHHHHHHHHHHHHHhHHHHHHhcCCeE-CCCCCEEEEEEeCeEEECCCCC---------CHHHHHHhCCCCCc
Confidence 3678999999999999999999999999999998 556665554 56999999987 79999999999999
Q ss_pred cEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhhhHhhhhccCC
Q 001092 116 PILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKN 195 (1159)
Q Consensus 116 ~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ERVI~~q~~~s~N 195 (1159)
||+|+++++..+. +.+++++|++|+||+|+ +||||||||+||||++|+++|||
T Consensus 79 ~l~v~v~l~~~~~---~~i~~~~V~iG~iPlMt------------------------~gG~FIING~ERVIVsQ~~rSpg 131 (1070)
T CHL00001 79 ELYVPAGLIWKKS---RDMQEQTVFIGNIPLMN------------------------SLGTFIINGIYRVVINQILRSPG 131 (1070)
T ss_pred eeEEEEEEEEcCc---eeEEEeEEEEecCCccC------------------------CCcEEEEcCcEEEEEEEEeccCC
Confidence 9999999975442 55667899999999995 99999999999999999999999
Q ss_pred eEEEEeC-CC--CcEEEEEEecCCCcceEEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCHHHHHHHhCCchhhHhh
Q 001092 196 RVIIDTD-KK--GNINASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVGRDPRYSAL 272 (1159)
Q Consensus 196 ~i~~~~~-~~--g~~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~ 272 (1159)
.++.+.. +. ..|.|.++|.++ +|..+.+.+++.+|+++++. ++||+++||||||++ |+||++.++.+ +.
T Consensus 132 ~~~~~~~~~~~~~~y~a~iis~rg--swl~~e~d~~~~i~vri~~~-~kiPi~ilLrALG~s-d~eIl~~~~~~----~~ 203 (1070)
T CHL00001 132 IYYRSELDHNGISVYTGTIISDWG--GRLELEIDRKARIWARVSRK-QKISILVLLSAMGLN-LREILDNVCYP----EI 203 (1070)
T ss_pred EEEEEecCCCCceeEEEEEEecCC--CceEEEEecCCeEEEEecCC-CcccHHHHHHHcCCC-HHHHHHHhCcH----HH
Confidence 7776543 22 347899999876 45555566778999999996 799999999999995 99999999643 23
Q ss_pred hhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhccC------CCCCCCCCC------Ccchh
Q 001092 273 LLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLAN------VPVHNNNFR------PKCFY 340 (1159)
Q Consensus 273 l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~ll~H------l~~~~~~~~------~K~~~ 340 (1159)
+..++.+..+.++.++++||.||++++.+. ..+.. ..+.|+.+|.+.||+| +|..+.+.. .|+.+
T Consensus 204 l~~~l~~~~~~~~~t~e~Al~~i~~~l~~r--~~~~~-~~~~a~~~l~~~ff~~rY~Lg~vGr~~~n~kl~~~~~~~~~~ 280 (1070)
T CHL00001 204 FLSFLNDKEKKKIGSKENAILEFYQQFACV--GGDPV-FSESLCKELQKKFFQQRCELGRIGRRNMNRKLNLDIPENNTF 280 (1070)
T ss_pred HHHHHHHHhhccccCHHHHHHHHHHhhccC--CCCcc-hHHHHHHHHHHHhccccccccccCchhhhhhhcccccccceE
Confidence 444444443456789999999999998432 11344 6788999999999999 776544332 56777
Q ss_pred H-----HHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccccc
Q 001092 341 V-----AVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIV 415 (1159)
Q Consensus 341 L-----~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~ 415 (1159)
| ++|+++|+++..|.+..||+|||+||||+++|+||++|||.+|+++++.++++|.+.+.+. ..+++.++++
T Consensus 281 L~~~Di~~~i~~Ll~l~~G~~~~DDiDhLgNKRvr~vGeLL~~qfr~~l~r~~r~ik~~m~~~~~~~---~~~~~~~lin 357 (1070)
T CHL00001 281 LLPQDVLAAADYLIGMKFGMGTLDDIDHLKNKRIRSVADLLQDQFGLALNRLENAVRGTICGAIRRK---LIPTPQNLVT 357 (1070)
T ss_pred ecHHHHHHHHHHHHHhhcCCCCccchhHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---ccCCHHHhhC
Confidence 7 8999999999999999999999999999999999999999999999999999998765432 2467888999
Q ss_pred ccchHHHHHHHhccCCCcccccccccccceEEcccccccccccccccccc--ccccccccC--CCCccCCCCCccccccC
Q 001092 416 RDSITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSP--QFEKSRKVS--GPRALQPSQWGMLCPCD 491 (1159)
Q Consensus 416 ~~~It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s--~f~~~~K~t--~~R~Lhps~wG~iCPve 491 (1159)
++.||++|++||+| +|+||+|||+|++|.|+|+||+++ |...+++.+ .||+|||||||||||+|
T Consensus 358 ~~~It~~ik~ff~t------------s~LSQflDqtNpLseltHkRRlsslGpgglsr~~a~fevRdvHpShyGRICPIE 425 (1070)
T CHL00001 358 STPLTTTYESFFGS------------HPLSQFLDQTNPLTEIVHGRKLSSLGPGGLTGRTASFRVRDIHPSHYGRICPID 425 (1070)
T ss_pred cchHHHHHHhhhcC------------CcceeeeccCCHHHhhhhhhcccccCCCCccccccCCcccccCccccccccCCC
Confidence 99999999999987 589999999999999999999997 877777766 89999999999999999
Q ss_pred CCCCCcchhhhhcccceeec-cCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHHHHH
Q 001092 492 TPEGEACGLVKNLALMTHVT-TDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKL 570 (1159)
Q Consensus 492 TPEG~~cGLi~~LA~~a~Vt-~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~ 570 (1159)
||||+|||||+|||++|+|+ .+..++|+++++...++..+.++++.+. ..+.|+ ||.|+|...+.
T Consensus 426 TPEG~NiGLI~sLA~~A~In~~GfietP~~~v~~~~~~~~i~ylsa~ee---~~~~Ia-~g~~~~~~~~~---------- 491 (1070)
T CHL00001 426 TSEGINAGLIGSLAIHARIGHWGSLESPFYEISERSKEERMVYLSPSED---EYYMIA-AGNSLALNQGI---------- 491 (1070)
T ss_pred CCCcccccchhhhhhhcccccCCCcccceeeeccccccceeEEcccccc---CceEEE-eCceeeccCCc----------
Confidence 99999999999999999999 5688999999998888888888887652 468888 99999732110
Q ss_pred hhcCCCCceeEEEecccCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccCceeeeccccccceE
Q 001092 571 RRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNAL 650 (1159)
Q Consensus 571 Rr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~E~~~~~ 650 (1159)
+...++.++ + -+++++
T Consensus 492 -----------------------------~~~~~~~~r-------------------------------~----~~e~~~ 507 (1070)
T CHL00001 492 -----------------------------QEEQVVPAR-------------------------------Y----RQEFLT 507 (1070)
T ss_pred -----------------------------cccceeEEE-------------------------------e----cCeEEE
Confidence 000011100 0 011234
Q ss_pred EEeecCCCCCcceeeeecCccccccccccccCCCCCCCCccccccccccCCccceeee---------ecccc--------
Q 001092 651 IALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFN---------QLCRM-------- 713 (1159)
Q Consensus 651 Ia~~~~~~~~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n---------~~~R~-------- 713 (1159)
||.. +.||+||+|.+|+||+||||||+||||||||+|||||||||||++..+ +..|.
T Consensus 508 i~~~------~i~~~dIsP~qi~svaasLIPFleHndanRalmgsnMqrQAvpll~~~~p~VgTG~E~~~~~ds~~~i~a 581 (1070)
T CHL00001 508 IAWE------QIHLRSIFPFQYFSIGASLIPFLEHNDANRALMGSNMQRQAVPLSRSEKCIVGTGLERQVALDSGVVAIA 581 (1070)
T ss_pred EchH------HCcEEeeChhhhhhhhhhcCCCccccCcchhhhhhccchhccccccCCCCEeecCcchhhhhcccceeEE
Confidence 4433 248999999999999999999999999999999999999999998888 66676
Q ss_pred ---------c-----------c-ceeeecC---------CCcceeeeceeee----------ecCCCCCCCcceEEEEEe
Q 001092 714 ---------D-----------S-LLYLLVY---------PQRPLLTTRTIEL----------VGYDKLGAGQNATVAVMS 753 (1159)
Q Consensus 714 ---------D-----------~-~~y~l~y---------pQ~Plv~t~~~~~----------~~~~~~p~G~N~iVAv~~ 753 (1159)
| + ..|++.| ||||||+++.+.. +..+|+|+|+|++|||||
T Consensus 582 ~~~G~V~~vd~~~I~i~~~~~~~~y~l~~y~rsnq~t~~~QkPlV~~g~~v~~g~~ladg~~~~~gel~~G~N~~VA~m~ 661 (1070)
T CHL00001 582 EHEGKIIYTDTDKIILSGNGDTLSIPLVMYQRSNKNTCMHQKPQVRRGKCVKKGQILADGAATVGGELALGKNVLVAYMP 661 (1070)
T ss_pred ccCCEEEEEeCCEEEEEcCCCeEEEEeeceeccCCCcccccCCEEecCCEEccCCEeccChhhccccccCCccceeeeee
Confidence 5 4 3455668 9999999995432 238999999999999999
Q ss_pred cCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceecC--CCCCCCCcccccccccchhhhccCCCCcccC
Q 001092 754 YSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILR--PDRTGPGAERMQVVHHSNLLLLILDDDGLAA 831 (1159)
Q Consensus 754 ~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~ 831 (1159)
|+||||||||||||+|++||+|||+||++|++++++++.|. |.++. |+.+ ...|++||+|||++
T Consensus 662 ~~GYn~EDAiiin~~~v~~g~~~s~~~~~~~~~~~~~~~g~-e~i~~~~p~~~-------------~~~~~~Ld~dGi~~ 727 (1070)
T CHL00001 662 WEGYNFEDAVLISERLVYEDIYTSFHIRKYEIQTHVTSQGP-ERITKEIPHLE-------------AHLLRNLDKNGIVM 727 (1070)
T ss_pred ccccccchhhhhhhhhhcCCceEEEEEeeeeEEEeccCCCc-ceEeccCCCCc-------------hhhhhccCCCCCcc
Confidence 99999999999999999999999999999999999888775 55543 6542 14789999999999
Q ss_pred CCceeCCCCEEEEEecCCCCCCCCC--------CCCCCCCcccccceeeecCCCCCceEEEEEEEeeC----CCCcEEEE
Q 001092 832 PGEIIKPNDVYINKESPLETRGSIM--------SPTGQTDSRYRSARQTYKGPDGETCVVDRVALCSD----KNGDLCIK 899 (1159)
Q Consensus 832 ~g~~v~~gd~li~k~~~~~~~~~~~--------~~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~~----~~~~~~vk 899 (1159)
+|++|++|||||||++|....+... ..++++...++|+|++++.++ .|+|++|.++.. .++...||
T Consensus 728 ~G~~v~~gDilvgK~~p~~~~~~~~~~~~~~~~~if~~~~~~~~d~sl~~~~~~--~g~V~~v~~~~~~~~~~~~~~~vk 805 (1070)
T CHL00001 728 LGSWVETGDILVGKLTPQEAEESSYAPEGRLLRAIFGIQVSTSKETCLKLPIGG--RGRVIDVRWIQKKGGSSYNPETIH 805 (1070)
T ss_pred CCcEecCCCEEEEEecCCcccccccCcchhhhhhhhccccCcceeCeEECCCCC--ceEEEEEEEEecccCCCCCcEEEE
Confidence 9999999999999999974222110 012444556899999999988 999999998773 45678999
Q ss_pred EEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccCCceeeee
Q 001092 900 FLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGS 979 (1159)
Q Consensus 900 v~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~t 979 (1159)
|++|+.|+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+||++||||++.|.+.|+|
T Consensus 806 v~i~~~R~~~vGDK~asRHGqKGvvs~i~~~eDMPf~~dG~~pDiIlNP~gvPSRMtiGqllE~~~G~a~~~~g~~~~~~ 885 (1070)
T CHL00001 806 VYILQKREIQVGDKVAGRHGNKGIISKILPRQDMPYLQDGTPVDMVLNPLGVPSRMNVGQIFECLLGLAGDLLNRHYRIA 885 (1070)
T ss_pred EEEEEEecCCCCcccccccCCcceEeeeecccCCCcccCCCCCceeeccccccccccHHHHHHHHhHHHHhhcCceeeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCCCCCcHHHHHHHHHHcCC----------CCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccC
Q 001092 980 AFGEPSGHADTVESISETLVKHGF----------SYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGP 1049 (1159)
Q Consensus 980 ~F~~~~~~~~~~~~~~~~l~~~g~----------~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp 1049 (1159)
||+..+.+......+...|.++|+ +++|+|.||||+||++|+++||+|++|||||+|||+||+||||+||
T Consensus 886 pf~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Gk~~l~dG~TG~~~~~~i~vG~~Yy~kL~HmV~DKihaRs~Gp 965 (1070)
T CHL00001 886 PFDERYEQEASRKLVFSELYEASKQTANPWVFEPEYPGKSRLFDGRTGDPFEQPVTIGKAYILKLIHQVDDKIHARSSGP 965 (1070)
T ss_pred cCCCcchhhhhhhhhhHHHHHHHHhcCCceeccCCCCCeEEEEcCCCCCCccceEEEEecceeEchhhccccceeeccCC
Confidence 999432222222233467777776 4559999999999999999999999999999999999999999999
Q ss_pred cccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeecccccceecccccCCCcc
Q 001092 1050 RVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNI 1129 (1159)
Q Consensus 1050 ~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~ 1129 (1159)
|++|||||++||||+|||||||||||||+|||||++|||||+.+||++.++ |+. +..|.++..+
T Consensus 966 ~~~lT~QP~~Grsr~GG~RfGEME~~al~a~GAs~~L~E~L~~~SD~~~~r----~~~------------~~~i~~g~~~ 1029 (1070)
T CHL00001 966 YALVTQQPLRGRSKQGGQRVGEMEVWALEGFGVAYILQEMLTYKSDHIRAR----QEV------------LGAIITGGTI 1029 (1070)
T ss_pred CcccccCCCCcccCCCCeeeecchHHHHHhhhHHHHHHHHHhccCccHHHH----HHH------------HHhhhcCCcc
Confidence 999999999999999999999999999999999999999999999999886 221 1234556778
Q ss_pred cc-ccccHhHHHHHHHHHhCCcccEEEe
Q 001092 1130 SS-MKLPYACKLLIQELQSMNIVPRLKL 1156 (1159)
Q Consensus 1130 ~~-v~iPy~~k~L~~EL~sm~i~~~l~~ 1156 (1159)
.+ +.+|||||+|++||+|||+++++..
T Consensus 1030 ~~~~~~pesfk~l~~El~~l~l~i~~~~ 1057 (1070)
T CHL00001 1030 PKPEDAPESFRLLVRELRSLALELNHFL 1057 (1070)
T ss_pred cCCCCCCchhhHHHHHHHhCccceEEEE
Confidence 87 8999999999999999999998865
No 10
>CHL00207 rpoB RNA polymerase beta subunit; Provisional
Probab=100.00 E-value=3.3e-205 Score=1899.87 Aligned_cols=931 Identities=24% Similarity=0.376 Sum_probs=758.0
Q ss_pred cccccchHHHHHHHHHHHHHhChHHHHhccCceeecCCCcEEEEEe--EEEEcCCccccCCcCCCCChhhHhhcCCccCc
Q 001092 38 FLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGIDPSIFLRFK--DVRIGQPSMTVDGVSEKLNPHMCRLSDMTYAA 115 (1159)
Q Consensus 38 ~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~~~~~~l~f~--~i~i~~P~~~~~~~~~~l~P~EcR~r~lTYsa 115 (1159)
-|+.++|++.|++||+|||++||++++++.+||+. .++.+.++|. ++++++|.+ +|.|||+|++||++
T Consensus 4 ~~~~Pdll~iQ~~SF~~FL~~GL~~~~~~~~pI~~-~~~~~~l~~~~~~y~l~~P~~---------~~~Ea~~r~~TYsa 73 (1077)
T CHL00207 4 NFALPDFLEIQRTSFCWFLNEGLNEELNIFSKIFD-YTGNLELLLFGKNYKLKYPKY---------NLLSAKSYDSNYSI 73 (1077)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHHHhcCCeEC-CCCCEEEEEecceEEEcCCCC---------CHHHHHHhCCccce
Confidence 46789999999999999999999999999999974 5667788776 799999986 68999999999999
Q ss_pred cEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhhhHhhhhccCC
Q 001092 116 PILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKN 195 (1159)
Q Consensus 116 ~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ERVI~~q~~~s~N 195 (1159)
||+|+++++..+. +++++++|++|+||+|+ ++|||||||+||||++|++++|+
T Consensus 74 ~l~v~~~l~~~~~---~~i~~~~V~lG~iPlMT------------------------~~GtFIING~ERViVsQl~RSPG 126 (1077)
T CHL00207 74 QIYLPLKFINLKT---NKIKFINYLIGNLPKMT------------------------QRGTFIINGLERVIVSQIIRSPG 126 (1077)
T ss_pred eEEEEEEEEEcCC---ceEEEEEEEEeccCccC------------------------CCCEEEEcCceeEEEEEeccCCe
Confidence 9999999986552 56678899999999997 89999999999999999988885
Q ss_pred eEEEEeC--CCCc--EEEEEEecCCCcceEEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCHHHHHHHhCC--chhh
Q 001092 196 RVIIDTD--KKGN--INASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVGR--DPRY 269 (1159)
Q Consensus 196 ~i~~~~~--~~g~--~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD~eI~~~i~~--~~~~ 269 (1159)
+|+... +.+. +.|.++|.++ +|..+.+.+++.+|+++++. ++||+++||||||+ ||+||++.++. +..+
T Consensus 127 -iyf~~~~~k~~~~~y~a~IIp~rG--swl~~e~d~k~~i~vridr~-rKipit~lLrALGl-s~~eIl~~~~~~~~~~~ 201 (1077)
T CHL00207 127 -IYFKKEIKKNSNKIYSATLIPNRG--SWIKFELDKNKEIWIRIDKN-RKKPLIIFLKALGL-TDQDIYSRLTKSEFLKK 201 (1077)
T ss_pred -EEEEEecCcCCceEEEEEEEcCCC--ceEEEEEcCCCeEEEEecCC-ceeeHHHHHHHhCC-CHHHHHHHHhccchHHH
Confidence 888643 3343 7799998765 57777777889999999995 69999999999999 79999999953 2222
Q ss_pred HhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHH-------hhhccCCCCCCC----------
Q 001092 270 SALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILR-------DVFLANVPVHNN---------- 332 (1159)
Q Consensus 270 ~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~-------~~ll~Hl~~~~~---------- 332 (1159)
+...+. ..+..++++|+.+|+++++++ ... ..+.++.+|. ++.|+|+|.-+.
T Consensus 202 ---~~~~l~---~~~~~~~e~Al~~Iy~~lrp~----~~~-~~~~a~~~l~~~ff~~~rYdLg~vGR~klN~kl~~~~~~ 270 (1077)
T CHL00207 202 ---LKPILL---NSNSYTNEEILLEIYKNLSPI----EPA-TVNDANQNLFSRFFDPKNYDLGKVGRYKINNKLNLNIPE 270 (1077)
T ss_pred ---HHHHHh---ccCcccHHHHHHHHHHhcCCC----CCc-cHHHHHHHHHHHhcChhcccccccchhhhhhhccCCcCc
Confidence 222222 234568999999999999987 333 5566777764 455678875221
Q ss_pred -CCCCcchhHHHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccc
Q 001092 333 -NFRPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLS 411 (1159)
Q Consensus 333 -~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~ 411 (1159)
...-++..+..|+++|+++..|....||+|||+||||+++|+||++|||.+|.++.+.++++|.+.. ...+++.
T Consensus 271 ~~~~l~~~Dil~~i~~Li~l~~g~~~~DDiDHL~NRRvrsvGELlq~qfr~gl~rler~ike~m~~~~-----~~~~tp~ 345 (1077)
T CHL00207 271 RVRNLTYEDILSIIDKLINLKINKGNFDDIDHLKNRRVRSVGELLQNQFRIGLKRLERILRNRMTICD-----IDSLSKF 345 (1077)
T ss_pred cCceecHHHHHHHHHHHHHhhcCCCcccchhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHhhhcc-----cccCChh
Confidence 1122334566899999999999999999999999999999999999999999999999999997542 1245678
Q ss_pred ccccccchHHHHHHHhccCCCcccccccccccceEEcccccccccccccccccc----ccccccccCCCCccCCCCCccc
Q 001092 412 QFIVRDSITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSP----QFEKSRKVSGPRALQPSQWGML 487 (1159)
Q Consensus 412 ~~i~~~~It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s----~f~~~~K~t~~R~Lhps~wG~i 487 (1159)
+++++++|++.|++||++ +++||++|++|+||.|+|.||+++ ++.+++..+.+|++||||||||
T Consensus 346 ~lin~k~lt~~ikeFFgs------------s~LSQfmDQtNpLselTHKRRlsaLGpGGLsR~ra~fevRdvH~thyGRi 413 (1077)
T CHL00207 346 NLINPKPLIALIREFFGS------------SQLSQYMDQTNPLSELTHKRRISILGPGGLDKDRISFAVRDIHPSHYGRI 413 (1077)
T ss_pred hcccchhHHHHHHHhhcc------------CCccceecccChHHhhhccceeeccCCCcccccccCCcccccCccccccc
Confidence 889999999999999965 578999999999999999999996 7899999999999999999999
Q ss_pred cccCCCCCCcchhhhhcccceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHH
Q 001092 488 CPCDTPEGEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVM 567 (1159)
Q Consensus 488 CPveTPEG~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~l 567 (1159)
||+|||||+|||||++||.+|+|+. +|+.. .+|....||.+. ..+++
T Consensus 414 CPIETPEG~n~Gli~~la~~~~in~-------------~Gfie------------tPy~~v~~g~v~-~~~~i------- 460 (1077)
T CHL00207 414 CPIETPEGPNCGLIGSLATNARINK-------------FGFIE------------TPFYKVINGKVK-KFGNP------- 460 (1077)
T ss_pred cCCCCCCCcccccccchhhhccccC-------------CCcee------------CceEEEEcCccc-ccCce-------
Confidence 9999999999999999999999985 34422 234444666542 00000
Q ss_pred HHHhhcCCCCceeEEEeccc-CceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccCceeeeccccc
Q 001092 568 RKLRRAGKIGEFVSVFVNEK-QRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEE 646 (1159)
Q Consensus 568 r~~Rr~~~i~~~vsi~~~~~-~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~E~ 646 (1159)
+|+... +....|.... . ..-++|.. . ...|.--- -+
T Consensus 461 --------------~ylsa~~e~~~~Ia~~~--~----~~~~~~~~--------------------~-~~~v~~r~--~~ 497 (1077)
T CHL00207 461 --------------IYLTADSEDLYRIAPND--I----NLNKNNYF--------------------K-KNIIPVRY--KQ 497 (1077)
T ss_pred --------------eecChHHhcCcEEEecC--c----cCCCCCcc--------------------c-CCEEEEEE--CC
Confidence 112111 1222333211 0 00011100 0 00000000 01
Q ss_pred cceEEEeecCCCCCcceeeeecCccccccccccccCCCCCCCCccccccccccCCcccee-------ee-----------
Q 001092 647 NNALIALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIA-------FN----------- 708 (1159)
Q Consensus 647 ~~~~Ia~~~~~~~~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~-------~n----------- 708 (1159)
++..+ .+ .+.++++++|.|++|++||||||++||||+|++||||||||||++.- +.
T Consensus 498 ef~~~--~~----~~v~~~~vsp~Q~~SvaasLIPFLehdDanRaLMGsnMqrQaVPll~~e~p~VgTg~e~~~a~ds~~ 571 (1077)
T CHL00207 498 EFKTV--NP----SKVDFIAISPIQVFSIAESLIPFLEHNDANRALMGSNMQRQAVPLLYPEKPIVGTGYEKQIALDSGM 571 (1077)
T ss_pred cEEEE--Ch----HHceEEEeCcchhcchhhhcCCcccccccchhhhhhccccccccccccCCCeEECCcchHhhhhcch
Confidence 11111 11 23689999999999999999999999999999999999999997521 11
Q ss_pred -------------ec----cccc---cceeee----------cCCCcceeeeceee----------eecCCCCCCCcceE
Q 001092 709 -------------QL----CRMD---SLLYLL----------VYPQRPLLTTRTIE----------LVGYDKLGAGQNAT 748 (1159)
Q Consensus 709 -------------~~----~R~D---~~~y~l----------~ypQ~Plv~t~~~~----------~~~~~~~p~G~N~i 748 (1159)
.. .|.+ ...|.| |+.|||+|+.+.+. .+.++|+|+|+|++
T Consensus 572 ~i~a~~~G~v~~v~~~~I~i~~~~~~~~~y~l~~~~rsNq~t~i~qrp~V~~G~~v~~G~iladg~~~~~~el~lG~N~l 651 (1077)
T CHL00207 572 TIISLTEGIVVSVSAYKIIIQDDNNRYIHYYLQKYQRSNQNTCINYRPIVWVGEKINIGQILADGSDIDNSELALGQNVL 651 (1077)
T ss_pred heEeccCcEEEEecCcEEEEEeCCCceeEEEeccccccccCceeecccccCCCCEEecCCEEecchhccCCcccCCcccE
Confidence 11 1111 123544 67999999998763 24599999999999
Q ss_pred EEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceec-CCCCCCCCcccccccccchhhhccCCCC
Q 001092 749 VAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRIL-RPDRTGPGAERMQVVHHSNLLLLILDDD 827 (1159)
Q Consensus 749 VAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~-~p~~~~~~~~~~~~~~~~~~~~~~Ld~d 827 (1159)
||||||+||||||||||||++++||+|||+|+++|++++++++.|.+++.. .|+.+ ...|++||+|
T Consensus 652 VA~m~y~GYN~EDAiiink~~v~rg~f~Si~~~~~~~e~~~~~~g~e~i~~~~p~~~-------------~~~~~~LD~d 718 (1077)
T CHL00207 652 VAYMPWEGYNFEDAILINKRLVYEDLFTSIHIEKYEIELRQTKLGSEEITRNIPNVS-------------EYSLKNLDEN 718 (1077)
T ss_pred EEEEeeeccccchhhhhhhhhhcCCceEEEEEEEeeeEEeecCCCceEEeccCCCCC-------------hHHhhccCcc
Confidence 999999999999999999999999999999999999999988877644443 35531 2479999999
Q ss_pred cccCCCceeCCCCEEEEEecCCCCCCCCCC------CCCCCCcccccceeeecCCCCCceEEEEEEEeeCCC--Cc----
Q 001092 828 GLAAPGEIIKPNDVYINKESPLETRGSIMS------PTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDKN--GD---- 895 (1159)
Q Consensus 828 Gi~~~g~~v~~gd~li~k~~~~~~~~~~~~------~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~~~~--~~---- 895 (1159)
|||++|++|++|||||||++|+...+.... -++++....+|+|++++.++ .|+|++|.++.+.+ +.
T Consensus 719 Giv~iG~~V~~gDilvgK~tp~~~~~~~~~~~ll~~i~~~~~~~~kd~sl~~~~~~--~g~V~~V~~~~~~~~~~~~~~~ 796 (1077)
T CHL00207 719 GIISIGSKVLAGDILVGKITPKGESDQLPEGKLLRAIFGEKAKDVKDTSLRMPNGG--YGRVIKVEIFSRSKGDELKFGY 796 (1077)
T ss_pred CCCcCCcEeCCCCEEEEEecCccccccChhhhhhhhhhccCCCcceEeEEEcCCCC--cEEEEEEEEEecCCCCcccccc
Confidence 999999999999999999999643332110 12344456899999999998 99999999887532 22
Q ss_pred -EEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccCCc
Q 001092 896 -LCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGR 974 (1159)
Q Consensus 896 -~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~ 974 (1159)
..|||++|+.|+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+||++||||++.|.
T Consensus 797 ~~~vkv~i~~~R~p~vGDKfasRHGqKGVvs~i~p~eDMPf~~dG~~pDiIlNPhg~PSRMtiGqllE~~lGka~~~l~~ 876 (1077)
T CHL00207 797 YLKIRVFIAQIRKIQVGDKLAGRHGNKGIISRILPRQDMPYLPDGTPPDIILNPLGVPSRMNVGQLFECLLGLAGDNLNK 876 (1077)
T ss_pred cEEEEEEEEEEecCCcccccccccCCceeEEeeeccCCCCccCCCCCccEEECCccccccccHHHHHHHHHHHHHHhcCC
Confidence 4599999999999999999999999999999999999999999999999999999999999999999999999998877
Q ss_pred eeeeeeccCCCCCCCcHHHHHHHHHHc---------------CCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccC
Q 001092 975 FHYGSAFGEPSGHADTVESISETLVKH---------------GFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVL 1039 (1159)
Q Consensus 975 ~~~~t~F~~~~~~~~~~~~~~~~l~~~---------------g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~ 1039 (1159)
..++|||+ +...+++.+.|... +|+++|+++||||+||++|+++||+|++|||||+|||+
T Consensus 877 ~~~~tpF~-----~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~Gk~~lydG~TGe~~~~~i~vG~~Yy~kL~HmV~ 951 (1077)
T CHL00207 877 RFKILPFD-----EMYGSEYSRILINNKLNQASIKNNEYWLFNSYHPGKMVLRDGRTGYKFKNPVTVGIAYMLKLIHLVD 951 (1077)
T ss_pred cEeeccCC-----CCcHHHHHHHHHhhhhhhccchhccccccCCCCCCCEEEECCCCCCCccCceEEEecceeEchhhcc
Confidence 78899999 44556666666543 37889999999999999999999999999999999999
Q ss_pred cccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeeccccccee
Q 001092 1040 DKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGI 1119 (1159)
Q Consensus 1040 DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~ 1119 (1159)
||+||||+|||++|||||++||||+|||||||||||||+|||||++|||||+.+||++.++ ..+
T Consensus 952 DKihaRs~Gp~s~lTqQP~~Grsr~GG~RfGEME~~aL~a~GAa~~L~E~L~~kSD~~~~r----------------~~~ 1015 (1077)
T CHL00207 952 DKIHARTTGPYSLVTQQPLGGKAQHGGQRFGEMEVWALEAFGAAYTLKELLTIKSDDMQGR----------------NET 1015 (1077)
T ss_pred ccceeeccCCCcccccCCCCccccCCCeeeecccHHHHHhhhhHHHHHHHhhcCCccceeh----------------HHH
Confidence 9999999999999999999999999999999999999999999999999999999999853 146
Q ss_pred cccccCCCccccccccHhHHHHHHHHHhCCcccEEEe
Q 001092 1120 CSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKL 1156 (1159)
Q Consensus 1120 C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~ 1156 (1159)
|..|.++.+++++.+|||||+|+|||+||||.+++..
T Consensus 1016 ~~~~~~~~~i~~~~~P~sfklL~~EL~sl~i~~~~~~ 1052 (1077)
T CHL00207 1016 LNAIVKGQPIPKPGTPESFKVLMRELQSLGLDIEAYK 1052 (1077)
T ss_pred HHhhhCCCeecCCCCCchHHHHHHHHHHCCcCcEecc
Confidence 9999999999999999999999999999999999864
No 11
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=100.00 E-value=6.4e-194 Score=1848.89 Aligned_cols=950 Identities=23% Similarity=0.364 Sum_probs=770.3
Q ss_pred cccccccccccccccchHHHHHHHHHHHHH------hChHHHHhccCceeecCCCcEEEEEeEEEEcCCccccCCcCCCC
Q 001092 28 VVDKFQLLPEFLKVRGLVKQHLDSFNYFVN------TGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDGVSEKL 101 (1159)
Q Consensus 28 ~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~------~gL~~i~~~~~~I~~~~~~~~~l~f~~i~i~~P~~~~~~~~~~l 101 (1159)
.+.+|+.++..++.++|++.|.+||+||++ +||++++++++||+ +.++++.|+|.++++++|.+
T Consensus 11 ~R~~f~k~~~~~~iPdLleIQ~~SF~~FLq~~~~~~~GL~e~f~~~fPI~-d~~g~~~Lefv~Y~l~~Pk~--------- 80 (2890)
T PRK09603 11 LRADFTKTPTDLEVPNLLLLQRDSYDSFLYSKDGKESGIEKVFKSIFPIQ-DEHNRITLEYAGCEFGKSKY--------- 80 (2890)
T ss_pred EEeecccCCccCCCCCHHHHHHHHHHHHHhCCCcccccHHHHHHhcCCeE-CCCCcEEEEEEEEEeCCCCC---------
Confidence 456788899999999999999999999998 79999999999997 56788999999999999988
Q ss_pred ChhhHhhcCCccCccEEEEEEEEE---CCcc----cceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCC
Q 001092 102 NPHMCRLSDMTYAAPILVNIEYVQ---GSHT----EKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPG 174 (1159)
Q Consensus 102 ~P~EcR~r~lTYsa~L~v~i~~~~---~~~~----~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~G 174 (1159)
+|.||++|++||++||+|+++++. +..+ ..+++++++|++|+||+|+ ..
T Consensus 81 ~~~Ec~~rg~TYsapL~v~~rL~~~~~~~~t~~~~~ikeikeq~VylGdiPLMT------------------------~~ 136 (2890)
T PRK09603 81 TVREAMERGITYSIPLKIKVRLILWEKDTKSGEKNGIKDIKEQSIFIREIPLMT------------------------ER 136 (2890)
T ss_pred CHHHHHhhCCcccccEEEEEEEEEeeccccccccccccceEEeeEEEecCCccC------------------------CC
Confidence 579999999999999999999984 2211 1135778899999999999 79
Q ss_pred cEEEEcCchhhhHhhhhccCCeEEEEeCCC----Cc--EEEEEEecCCCcceEEEEEeeCCEEEEEEcceeccccHHHHH
Q 001092 175 GYFIIKGTEKVLLIQEQLSKNRVIIDTDKK----GN--INASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVM 248 (1159)
Q Consensus 175 GYFIING~ERVI~~q~~~s~N~i~~~~~~~----g~--~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~~~~IPl~ilL 248 (1159)
|+|||||+|||||+|++|||+ +|+..+.. |. |.|.++|.++ +|..+..++++.+|+|+++ +++||+++||
T Consensus 137 GTFIING~ERVIVsQL~RSPG-VyF~~~~~k~~s~k~lysa~IIP~RG--sWLefE~D~kd~l~vrIDr-krKipit~lL 212 (2890)
T PRK09603 137 TSFIINGVERVVVNQLHRSPG-VIFKEEESSTSLNKLIYTGQIIPDRG--SWLYFEYDSKDVLYARINK-RRKVPVTILF 212 (2890)
T ss_pred ceEEEcCceeEEEeeeccCCe-eEEeeccCcCCCCceeEEEEEecCCc--ceEEEEEcCCCeEEEEEcC-cceecHHHHH
Confidence 999999999999999999996 88765421 22 6799998764 5788888889999999999 4799999999
Q ss_pred HHhcCCCHHHHHHHhCC-------ch---------hh-----------------------------------------H-
Q 001092 249 KAMGMESDQEVVQMVGR-------DP---------RY-----------------------------------------S- 270 (1159)
Q Consensus 249 rALG~~sD~eI~~~i~~-------~~---------~~-----------------------------------------~- 270 (1159)
||||+ +++||++.++. +. .+ .
T Consensus 213 rAlG~-s~edIl~~f~~~~~~~i~~~~~~~~~~~~~l~~~~~~di~d~~g~vlv~~g~rit~~~~~~l~~~g~k~l~~~~ 291 (2890)
T PRK09603 213 RAMDY-QKQDIIKMFYPLVKVRYENDKYLIPFASLDANQRMEFDLKDPQGKIILLAGKKLTSRKIKELKENHLEWVEYPM 291 (2890)
T ss_pred HHhCC-CHHHHHHHhcccceEEEcccceeecccHHHhcCccceeecccCCCEEEecCccccHHHHHHHHhcCCceeccch
Confidence 99999 68999998741 00 00 0
Q ss_pred ----------------hhhhH--------hHHHHHhcC--------------------------------------CcCH
Q 001092 271 ----------------ALLLP--------SIEECANLD--------------------------------------IYTQ 288 (1159)
Q Consensus 271 ----------------~~l~~--------~l~~~~~~~--------------------------------------i~t~ 288 (1159)
+.+.. .++.....+ ..++
T Consensus 292 ~~l~g~~laedivd~~Evl~~~~~~Itee~le~i~~~gi~~i~vl~~~~~~~~~~i~~t~~~d~~~~~~~~~t~~~~~~~ 371 (2890)
T PRK09603 292 DILLNRHLAEPVMVGKEVLLDMLTQLDKNKLEKIHDLGVQEFVIINDLALGHDASIIHSFSADSESLKLLKQTEKIDDEN 371 (2890)
T ss_pred hhhcceeeeeeccCccceeeccCChhcHHHHHHHHHcCCceEEEEeecccccccccccccccccccchhhhhccccccch
Confidence 00000 000000000 0145
Q ss_pred HHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhccC-------CCCCCC------------CCCCcchhHHHHHHHHH
Q 001092 289 EKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLAN-------VPVHNN------------NFRPKCFYVAVMLRRMV 349 (1159)
Q Consensus 289 ~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~ll~H-------l~~~~~------------~~~~K~~~L~~Mi~kLl 349 (1159)
++|+..|++++|++ ++. ..+.|+.++.+.||.. +|.-+. ....+.+++ ..+++|+
T Consensus 372 eeAl~~iyr~lrpg----ep~-~~e~A~~l~~~lFFn~~rYdLg~vGR~klN~kL~l~~~~~~~~Lt~~Dil-~~i~~li 445 (2890)
T PRK09603 372 ALAAIRIHKVMKPG----DPV-TTEVAKQFVKKLFFDPERYDLTMVGRMKMNHKLGLHVPDYITTLTHEDII-TTVKYLM 445 (2890)
T ss_pred HHHHHHHHhccCCC----CCC-cHHHHHHHHHHHhcCcccccccccchhhhHhhhCCCCCCcccEecchhHH-HHHHHHH
Confidence 89999999999987 445 6778999999887651 221100 001123445 5799999
Q ss_pred HhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHHHHHHhcc
Q 001092 350 EAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVGLERTLST 429 (1159)
Q Consensus 350 ~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~i~~~~sT 429 (1159)
.+..|....||+|||+||||+++|+||++|||.+|.++.+.+|++|...... ...+.+.+++|++++++.+++||+|
T Consensus 446 ~l~~g~~~~DDiDhL~NRRvr~vGELl~~qfr~gl~rler~irerm~~~~~~---~~~~~p~~lin~k~i~~~ikeFFgs 522 (2890)
T PRK09603 446 KIKNNQGKIDDRDHLGNRRIRAVGELLANELHSGLVKMQKTIKDKLTTMSGA---FDSLMPHDLVNSKMITSTIMEFFMG 522 (2890)
T ss_pred HHHhCCCCCCcchhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc---ccccChhhhhccHHHHHHHHHHhcc
Confidence 9999999999999999999999999999999999999999999999753221 2345677889999999999999977
Q ss_pred CCCcccccccccccceEEcccccccccccccccccc----ccccccccCCCCccCCCCCccccccCCCCCCcchhhhhcc
Q 001092 430 GNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSP----QFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLA 505 (1159)
Q Consensus 430 Gnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s----~f~~~~K~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA 505 (1159)
+. +||++|++|+||.|+|.||+++ .+.+.+..+.+|++||||||||||+|||||+|||||++||
T Consensus 523 sq------------LSQfmDQtNpLseltHKRRlSaLGPGGlsr~ra~fevRdVH~shYGRiCPIETPEG~NiGLI~SLa 590 (2890)
T PRK09603 523 GQ------------LSQFMDQTNPLSEVTHKRRLSALGEGGLVKDRVGFEARDVHPTHYGRICPIETPEGQNIGLINTLS 590 (2890)
T ss_pred Cc------------hhhhhcccChhhhhhhcccccccCCCCccccccCCcccccCcccccccCCCCCCCCCcccchhhhh
Confidence 53 6999999999999999999984 3678899999999999999999999999999999999999
Q ss_pred cceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHHHHHhhcCCCCceeEEEec
Q 001092 506 LMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVN 585 (1159)
Q Consensus 506 ~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~ 585 (1159)
.+|+|+. +|+.. .+|....||++- ++. +|+.
T Consensus 591 ~~a~in~-------------~Gfie------------tPy~kV~~g~v~---~~i---------------------~yls 621 (2890)
T PRK09603 591 TFTRVND-------------LGFIE------------APYKKVVDGKVV---GET---------------------IYLT 621 (2890)
T ss_pred hheeccc-------------Cccee------------cceEEEecCccc---cce---------------------eeeC
Confidence 9999985 44422 133334566531 110 1222
Q ss_pred cc-CceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccCceeeeccccccceEEEeecCCCCCccee
Q 001092 586 EK-QRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNALIALYEGDATPDTTH 664 (1159)
Q Consensus 586 ~~-~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~~~~~th 664 (1159)
.. +....|....- | .-++|.. .+ ..|.-- ..+++..++ ..+.++
T Consensus 622 a~eE~~~~IA~a~~----~--~~~~~~~--~~-------------------~~v~~R--~~~e~~~~~------~~~v~~ 666 (2890)
T PRK09603 622 AIQEDSHIIAPAST----P--IDEEGNI--LG-------------------DLIETR--VEGEIVLNE------KSKVTL 666 (2890)
T ss_pred HHHhcCceEeccCC----c--cCCCCcc--cC-------------------CeEeEE--ECCceEEEC------hHHceE
Confidence 11 12233332110 0 0011110 00 000000 001111111 123689
Q ss_pred eeecCccccccccccccCCCCCCCCccccccccccCCccce-------------------------------eee----e
Q 001092 665 IEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNI-------------------------------AFN----Q 709 (1159)
Q Consensus 665 ~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~-------------------------------~~n----~ 709 (1159)
++++|.|++||+||||||++||||+|++||||||||||++. .+. +
T Consensus 667 ~dvsp~Q~vSvaasLIPFLEhdDAnRALMGSNMQRQAVPLl~~e~piVgTG~E~~va~dSg~~i~a~~~G~V~yvd~~~I 746 (2890)
T PRK09603 667 MDLSSSMLVGVAASLIPFLEHDDANRALMGTNMQRQAVPLLRSDAPIVGTGIEKIIARDSWGAIKANRAGVVEKIDSKNI 746 (2890)
T ss_pred EEeCccceeeehhhcCCccccCccccccccccchhhhhhhccccCCeEecCcchhhhccccceeEecCCeEEEEecCcEE
Confidence 99999999999999999999999999999999999999752 011 1
Q ss_pred cccccc------ceeee----------cCCCcceeeeceee----------eecCCCCCCCcceEEEEEecCCCCCCCcE
Q 001092 710 LCRMDS------LLYLL----------VYPQRPLLTTRTIE----------LVGYDKLGAGQNATVAVMSYSGYDIEDAI 763 (1159)
Q Consensus 710 ~~R~D~------~~y~l----------~ypQ~Plv~t~~~~----------~~~~~~~p~G~N~iVAv~~~~Gyn~EDai 763 (1159)
..|.+. ..|.| |+.|||+|+.+.+. .+..+||++|+|++||||||.||||||||
T Consensus 747 ~i~~~~~~~~~~~~Y~L~Ky~RSNQ~TcinqrPiV~~Gd~V~kGdilADG~st~~GELALG~NvlVAfmpW~GYNfEDAI 826 (2890)
T PRK09603 747 YILGEGKEEAYIDAYSLQKNLRTNQNTSFNQVPIVKVGDKVEAGQIIADGPSMDRGELALGKNVRVAFMPWNGYNFEDAI 826 (2890)
T ss_pred EEEecCCCCceeeEEeeccccccCCCceeeeccEecCCCEeccCCEEecCcccccCeeccCcccEEEEeeeccccCcccc
Confidence 111111 13665 77999999998763 24589999999999999999999999999
Q ss_pred EeeccccccCceeEEEEEEEEEEeccccCCCcceecC-CCCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEE
Q 001092 764 VMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILR-PDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVY 842 (1159)
Q Consensus 764 iink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~l 842 (1159)
|||++.+.+++|||+|+.+|++++++++.|.+|++.+ |+.+ ++.+++||++|||++|++|++||||
T Consensus 827 lISERlV~eD~fTSIHIee~ei~~r~Tk~G~EeITrdIPnvs-------------e~~l~~LDe~GII~iGa~V~~GDIL 893 (2890)
T PRK09603 827 VVSERITKDDIFTSTHIYEKEVDARELKHGVEEFTADIPDVK-------------EEALAHLDESGIVKVGTYVSAGMIL 893 (2890)
T ss_pred ccchhhhcCccceEEEEeeeEEEEEecCCCCcEEeccCCCCC-------------HHHHhcCCCCCCEeeCCEECCCCEE
Confidence 9999999999999999999999999999998887766 8863 3588999999999999999999999
Q ss_pred EEEecCCCCCCCCCC------CCCCCCcccccceeeecCCCCCceEEEEEEEeeCC------------------------
Q 001092 843 INKESPLETRGSIMS------PTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDK------------------------ 892 (1159)
Q Consensus 843 i~k~~~~~~~~~~~~------~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~~~------------------------ 892 (1159)
|||++|+.+.+..+. -++++....||+|+++.++. .|+|-.|.++...
T Consensus 894 VGKvTPkge~~~tPEekLLraIFGeka~~vkDtSLrvp~G~--~G~Vidv~~f~r~~~~k~~~~~~~~~~~~~~~~~~~~ 971 (2890)
T PRK09603 894 VGKTSPKGEIKSTPEERLLRAIFGDKAGHVVNKSLYCPPSL--EGTVIDVKVFTKKGYEKDARVLSAYEEEKAKLDMEHF 971 (2890)
T ss_pred EEeeccCCCCCCChHHHHHHHHhcccccccccCceecCCCC--cEEEEEEEEecccccchhHHHHHHHHHHHHHHhHhhH
Confidence 999999977654332 25778888999999888877 8998888866421
Q ss_pred --------------------------------------------------------------------------------
Q 001092 893 -------------------------------------------------------------------------------- 892 (1159)
Q Consensus 893 -------------------------------------------------------------------------------- 892 (1159)
T Consensus 972 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 (2890)
T PRK09603 972 DRLTMLNREELLRVSSLLSQAILEEPFSHNGKDYKEGDQIPKEEIASINRFTLASLVKKYSKEVQNHYEITKNNFLEQKK 1051 (2890)
T ss_pred HHHHHHHHHHHHhhhhhccccccccccccccccccccccccHHHHhhCCHHHhhhhhccCCHHHHHHHHHHHHHHHHHHH
Confidence
Q ss_pred --------------C-------CcEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCC
Q 001092 893 --------------N-------GDLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGF 951 (1159)
Q Consensus 893 --------------~-------~~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~ 951 (1159)
. ..+.|||++|+.|+|+||||||||||||||||+|||+|||||++||++||||+|||||
T Consensus 1052 ~~~~~~~~k~~~~~~gdeL~~Gv~~~VkV~ia~kR~~qvGDK~AgRHGnKGViS~I~p~EDMPfl~dG~~pDIIlNPlGv 1131 (2890)
T PRK09603 1052 VLGEEHEEKLSILEKDDILPNGVIKKVKLYIATKRKLKVGDKMAGRHGNKGIVSNIVPVADMPYTADGEPVDIVLNPLGV 1131 (2890)
T ss_pred HHHHHHHHHHHHhhcCCcCCCCcceEEEEEEEEeecccccchhhhccCCCeeEEEEEchhcCCCCCCCCCCcEEECCCCC
Confidence 0 1357999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccHHHHHHHhcccccccCCce--------------------------------------------------------
Q 001092 952 PSRMTVGKMIELLGGKAGVSCGRF-------------------------------------------------------- 975 (1159)
Q Consensus 952 PSRMtiGql~E~~~gk~~~~~g~~-------------------------------------------------------- 975 (1159)
|||||||||+|+++||||+..|.+
T Consensus 1132 PSRMnIGQilE~~LG~aa~~lg~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 1211 (2890)
T PRK09603 1132 PSRMNIGQILEMHLGLVGKEFGKQIASMLEDKTKDFAKELRAKMLEIANAINEKDPLTIHALENCSDEELLEYAKDWSKG 1211 (2890)
T ss_pred CccccHHHHHHHHHHHHHHhcCcChhhhhhhcchhhhHHHHHHHHhhhcccccccccccccccccchHHHHhhhhhhccC
Confidence 999999999999999999988754
Q ss_pred -eeeee-ccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCcccc
Q 001092 976 -HYGSA-FGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVML 1053 (1159)
Q Consensus 976 -~~~t~-F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~l 1053 (1159)
.++|| |+ +.+.+++.+.|.++||+++|++.||||+||++|+++||+|++|||||+|||+||+||||+|||+++
T Consensus 1212 ~~~~tpvF~-----g~~~~~i~~~l~~aG~~~~Gk~~LyDGrTGe~f~~~V~vG~~YylKL~HmVdDKiHaRstGPyslv 1286 (2890)
T PRK09603 1212 VKMAIPVFE-----GISQEKFYKLFELAKIAMDGKMDLYDGRTGEKMRERVNVGYMYMIKLHHLVDEKVHARSTGPYSLV 1286 (2890)
T ss_pred CcccCCCCC-----CCCHHHHHHHHHHcCCCCCCCEEEEcCCCCCCccceEEEEeeceeechhhccchhhhccCCCcchh
Confidence 12344 44 788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeecccccceecccccCCCcccccc
Q 001092 1054 TRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMK 1133 (1159)
Q Consensus 1054 T~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~ 1133 (1159)
||||++||+++|||||||||||||+|||||++|||||+.+||++.++. ..|..|.++.++.++.
T Consensus 1287 TqQPl~GKs~~GGqRfGEMEvwALeAyGAa~~LqE~Lt~kSDdv~gR~----------------~~y~~i~~g~~i~~~~ 1350 (2890)
T PRK09603 1287 THQPVGGKALFGGQRFGEMEVWALEAYGAAHTLKEMLTIKSDDIRGRE----------------NAYRAIAKGEQVGESE 1350 (2890)
T ss_pred hhCCCcccccCCCceeeeeeHHHHHHhhHHHHHHHHHhcCCcchhhhh----------------hhhhhhcCCCcccccC
Confidence 999999999999999999999999999999999999999999998652 2456778889999999
Q ss_pred ccHhHHHHHHHHHhCCcccEEEec
Q 001092 1134 LPYACKLLIQELQSMNIVPRLKLA 1157 (1159)
Q Consensus 1134 iPy~~k~L~~EL~sm~i~~~l~~~ 1157 (1159)
+|||||+|++||+||||++++...
T Consensus 1351 iPeSFkvL~~EL~sL~l~i~~~~~ 1374 (2890)
T PRK09603 1351 IPETFYVLTKELQSLALDINIFGD 1374 (2890)
T ss_pred CCHHHHHHHHHHHhCCcceEEEee
Confidence 999999999999999999999764
No 12
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=100.00 E-value=3.6e-190 Score=1807.41 Aligned_cols=956 Identities=23% Similarity=0.367 Sum_probs=769.9
Q ss_pred ccccccccc-ccccccccchHHHHHHHHHHHHH-----hChHHHHhccCceeecCCCcEEEEEeEEEEcCCccccCCcCC
Q 001092 26 KSVVDKFQL-LPEFLKVRGLVKQHLDSFNYFVN-----TGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDGVSE 99 (1159)
Q Consensus 26 ~~~~~~~~~-i~~~~~~~~Lv~~qi~SFn~Fl~-----~gL~~i~~~~~~I~~~~~~~~~l~f~~i~i~~P~~~~~~~~~ 99 (1159)
...+.+|+. .+..++.++|++.|.+||+||++ +||++++++++||+ +.++++.|+|.++++++|.+
T Consensus 13 ~~~R~~f~~~~~~~~~~PdL~~iQ~~Sf~~Fl~~~~~~~GL~~~f~~ifPI~-d~~g~~~lefv~y~l~~Pk~------- 84 (2836)
T PRK14844 13 FVPRVSYSRSIDLKDSLLDLVKVQKESYDSFTPKNKGNERLEVIFHTIFPIN-DPLHRATIEFISCRVDDPKY------- 84 (2836)
T ss_pred ceeeeecccCCcccCCCCCHHHHHHHHHHHHhcCCCccccHHHHHHhcCCeE-CCCCCEEEEEEEEEeCCCCC-------
Confidence 445566776 44558999999999999999997 69999999999997 56788999999999999998
Q ss_pred CCChhhHhhcCCccCccEEEEEEEEE-C-----------Ccc--------cceeeEEeeEEEeecceeeccccccCCCCC
Q 001092 100 KLNPHMCRLSDMTYAAPILVNIEYVQ-G-----------SHT--------EKTTMEKNDVVIGRIPIMLRSCRCVLYGKD 159 (1159)
Q Consensus 100 ~l~P~EcR~r~lTYsa~L~v~i~~~~-~-----------~~~--------~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls 159 (1159)
++.||++|++||+|||+|+++++. + ..+ .++++++++|++|+||+|+
T Consensus 85 --~~~Ec~~r~~TYsapl~v~~rL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ikeq~VylGdiPLMT----------- 151 (2836)
T PRK14844 85 --DESECIKRGITFSAQVIASIRLVIMQDGISLDEYKSIKESGDHSKLATVIKSIEEQEVHFCELPMMT----------- 151 (2836)
T ss_pred --CHHHHHhcCCcceeeEEEEEEEEEeccccccccccccccccccccccccccceeeeeEEEecCCccC-----------
Confidence 579999999999999999999975 1 100 1246678899999999999
Q ss_pred HHHHHhcCCCCCCCCcEEEEcCchhhhHhhhhccCCeEEEEeCC-----CCc--EEEEEEecCCCcceEEEEEeeCCEEE
Q 001092 160 EAELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKNRVIIDTDK-----KGN--INASVTSSTETVKSKTVIQMEKGKMY 232 (1159)
Q Consensus 160 ~~eli~~~E~~~d~GGYFIING~ERVI~~q~~~s~N~i~~~~~~-----~g~--~~a~v~s~~~~~~s~~~~~~~~g~i~ 232 (1159)
..|+|||||+|||||+|++|||+ +|+..+. .|. |.|.++|.++ +|..+....++.+|
T Consensus 152 -------------~~GTFIING~ERVIVSQL~RSPG-VyF~~~~~kt~~sgk~lysa~IIP~RG--sWLefE~D~kd~ly 215 (2836)
T PRK14844 152 -------------DKGTFIINGVEKVIVSQMHRSPG-VFFDSDKGKTYNSGKLIYSARVIPYRG--SWLDIEFDVKDHLY 215 (2836)
T ss_pred -------------CCeEEEEcCcceEEEEcceeCCe-EEEEcccCcccCCCceeEEEEEecCCc--ceEEEEEcCCCeEE
Confidence 79999999999999999999996 8876432 233 7799998764 57888888889999
Q ss_pred EEEcceeccccHHHHHHHhcCCCHHHHHHHhCCc-------h---------hhH--------------------------
Q 001092 233 LLLNQFVKKIPIMVVMKAMGMESDQEVVQMVGRD-------P---------RYS-------------------------- 270 (1159)
Q Consensus 233 ~r~~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~-------~---------~~~-------------------------- 270 (1159)
+|+++ ++++|+++||||||+ |++||++.++.. . .+.
T Consensus 216 vRIDR-kRKiPiT~LLrALGl-s~edIL~~F~~~~~~~~~d~~~~~~~~~e~l~g~~~~~Di~d~~g~vlvdkgrrit~~ 293 (2836)
T PRK14844 216 FRIDR-KRKLPISVLLKALGL-SNNDILDRFYEKIKYIKHKDGWKVPFVPDKFKGVRLPFDLMDVEGNVLLKANVRITSR 293 (2836)
T ss_pred EEecC-CeeeeHHHHHHHhCC-ChHHHHHhhcCceEEEEccCceeeccCHHHHhCCccceeeeccCCCEEEecCccccHH
Confidence 99999 469999999999999 689999977421 0 000
Q ss_pred --hhhh--------------------H---------------------hHH---H-----------------------HH
Q 001092 271 --ALLL--------------------P---------------------SIE---E-----------------------CA 281 (1159)
Q Consensus 271 --~~l~--------------------~---------------------~l~---~-----------------------~~ 281 (1159)
..+. . .+. . ..
T Consensus 294 ~~krlk~~gvkkl~i~~~~l~g~~LaeDIVD~eTGEiL~eagteIT~e~ik~l~~~gi~~i~~l~~d~~~~~~~i~~tL~ 373 (2836)
T PRK14844 294 LAKKLYDNELKEYLVPFDSICGLFLAEDLIDSASSTKILSAGESIKLEDIKKLELLSIDEISVLNIDNLSVGPYILNTLF 373 (2836)
T ss_pred HHHHHHHcccCcccCchHhhcCceehhhhcCCCCCeEEEcCCCccCHHHHHHHHHcCCCceeeEeecccccchHHHHHHh
Confidence 0000 0 000 0 01
Q ss_pred hcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhccC----CCC-CCCCCC--------------CcchhHH
Q 001092 282 NLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLAN----VPV-HNNNFR--------------PKCFYVA 342 (1159)
Q Consensus 282 ~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~ll~H----l~~-~~~~~~--------------~K~~~L~ 342 (1159)
.+...++++|+..|++++|++ ++. ..+.|+.++++.||.. ++. +...++ .+.+++
T Consensus 374 ~D~~~~~e~Al~eIy~~lRpg----e~~-~~e~a~~l~~~~ff~~~~YdLg~vGR~k~N~kl~~~~~~~~~~l~~~Dii- 447 (2836)
T PRK14844 374 LDENMSYQDALYEIYKVLRPG----EVP-VLEIVEEFFRNLFFSPEYYDLSNIGRLKLNSYLGLNYDEDLTVLTHEDII- 447 (2836)
T ss_pred hcccccHHHHHHHHHHhcCCC----CCC-cHHHHHHHHHHHhcCccccccccchhhhhhhhhccCCCCCCcEecHHHHH-
Confidence 123357899999999999987 445 6778999998887652 111 011111 122444
Q ss_pred HHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHH
Q 001092 343 VMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVG 422 (1159)
Q Consensus 343 ~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~ 422 (1159)
.++++|+.+..|....||+|||+||||+++|+||+++||.+|.++.+.+++++... ....+++..++++++|++.
T Consensus 448 ~~i~~Li~l~~g~~~~DDiDhL~NRRvr~vGeLl~~qfr~gl~r~~~~i~e~~~~~-----~~~~~~p~~lin~~~l~~~ 522 (2836)
T PRK14844 448 EIVRKIVLLRDGQGSVDDIDHLGNRRVRSVGEFIENQFRTGLLKLERAVVDSMSTS-----SLDKVSPSDFINPKVLTNV 522 (2836)
T ss_pred HHHHHHHHHhcCCCcccchhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHhhc-----cccccchhhcccchhHHHH
Confidence 68999999999999999999999999999999999999999999999999998642 1235678888999999999
Q ss_pred HHHHhccCCCcccccccccccceEEcccccccccccccccccc----ccccccccCCCCccCCCCCccccccCCCCCCcc
Q 001092 423 LERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSP----QFEKSRKVSGPRALQPSQWGMLCPCDTPEGEAC 498 (1159)
Q Consensus 423 i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s----~f~~~~K~t~~R~Lhps~wG~iCPveTPEG~~c 498 (1159)
+++||+| +++||+||++|++|.|+|+||+++ ++.++++.+.+|++||||||||||+|||||+||
T Consensus 523 i~~ff~s------------s~LSQfmDQtNpLseltHkRRlsaLGPGGL~r~~a~fevRdvH~shyGRiCPIETPEG~Ni 590 (2836)
T PRK14844 523 LRDFFNS------------SQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGQNI 590 (2836)
T ss_pred HHHHhcc------------cchhhhccCcChhhhhhhcceecccCCCCcccccCCCcccccCccccccccCCCCCCCCcc
Confidence 9999977 478999999999999999999996 688999999999999999999999999999999
Q ss_pred hhhhhcccceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHHHHHhhcCCCCc
Q 001092 499 GLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGE 578 (1159)
Q Consensus 499 GLi~~LA~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~ 578 (1159)
|||+|||.+|+|+. +|+.. .+|....||++- +..
T Consensus 591 GLI~SLA~yarIn~-------------~Gfie------------tPy~kV~~g~v~---~~i------------------ 624 (2836)
T PRK14844 591 GLINSLAIYARINK-------------YGFIE------------SPYRKVVNRVVT---DQI------------------ 624 (2836)
T ss_pred cchhhhhhheeccC-------------CceEe------------CCcEEEEcCcCc---ccc------------------
Confidence 99999999999985 44432 134444666531 111
Q ss_pred eeEEEecc-cCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCCCchhhhhccCceeeeccccccceEEEeecCC
Q 001092 579 FVSVFVNE-KQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGVRSFDDFLREGLIEYLDVNEENNALIALYEGD 657 (1159)
Q Consensus 579 ~vsi~~~~-~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~iE~id~~E~~~~~Ia~~~~~ 657 (1159)
.|+.. .+....|.... - |+ -++|.. .++ .+.-- ..+++..+ .
T Consensus 625 ---~ylsa~~E~~~~Ia~a~-~---~~--~~~~~~--~~~-------------------~v~~R--~~~ef~~~--~--- 667 (2836)
T PRK14844 625 ---EYLSAIDEGLYYIADTS-A---KL--DENNCF--VDD-------------------MLYCR--YAGSFVMV--S--- 667 (2836)
T ss_pred ---cccChHHhcCcEEEeCC-c---cC--CCCCcc--cCC-------------------eEEEe--cCCceEEe--c---
Confidence 01111 11223333221 0 11 011110 000 00000 00111111 1
Q ss_pred CCCcceeeeecCccccccccccccCCCCCCCCccccccccccCCccce-------e------------------------
Q 001092 658 ATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNI-------A------------------------ 706 (1159)
Q Consensus 658 ~~~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~-------~------------------------ 706 (1159)
..+.++++++|.|++||+||||||++||||+|++||||||||||++. .
T Consensus 668 -~~~v~~~dvsp~Q~~SvaasLIPFLEhdDAnRALMGSNMQRQAVPLl~~e~PiVGTG~E~~vA~DSg~~v~A~~~G~V~ 746 (2836)
T PRK14844 668 -SDQVSYIDVSPKQVISVAASLIPFLENDDANRALMGSNMQRQAVPLLKPTAPLVATGMESFVASGSGAVVLAKRDGIVD 746 (2836)
T ss_pred -HHHceEEEeCcchhhhhHhhcCCccccCccccccccccccccccccccCCCCeEecCcchhhhhcccceEEeccCceEE
Confidence 12368999999999999999999999999999999999999999752 1
Q ss_pred ee----ecccccc---------ceeee----------cCCCcceeeeceee----------eecCCCCCCCcceEEEEEe
Q 001092 707 FN----QLCRMDS---------LLYLL----------VYPQRPLLTTRTIE----------LVGYDKLGAGQNATVAVMS 753 (1159)
Q Consensus 707 ~n----~~~R~D~---------~~y~l----------~ypQ~Plv~t~~~~----------~~~~~~~p~G~N~iVAv~~ 753 (1159)
+. +..|.+. ..|.| |++|||+|+.+.+. .+..+||++|+|++|||||
T Consensus 747 yVda~kIvI~~~~~~~~~~~~~~~Y~L~ky~RSNQ~TcinQrPiV~~Gd~V~kGdilADG~st~~GELALG~NvlVAfmp 826 (2836)
T PRK14844 747 SSDSNSIVIRAFDKERVNYLDVDIYHLRKFQRSNHNTCINQKPLVCVGDYVKEGDVIADGPAINSGELALGQNLLVAFMS 826 (2836)
T ss_pred EEcCCEEEEEeCCCccccccccceEEeccccccccceeeeecceecCCCEeccCCEeccChhhcccccccccceEEEEec
Confidence 11 1112211 13655 67999999998764 2458999999999999999
Q ss_pred cCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceecC-CCCCCCCcccccccccchhhhccCCCCcccCC
Q 001092 754 YSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILR-PDRTGPGAERMQVVHHSNLLLLILDDDGLAAP 832 (1159)
Q Consensus 754 ~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~ 832 (1159)
|.||||||||+||++++.+++|||+|+++|++++++++.|.++++.+ |+.+ ++.+++||++|||++
T Consensus 827 W~GYNfEDAIliSErlv~eD~fTSiHIee~ei~~r~Tk~G~EeITrdIPnv~-------------e~~lr~LDe~GIV~i 893 (2836)
T PRK14844 827 WQGYNFEDSIIISSEVVKKDLFTSIHIEEFECVVHDTPLGSEKITRAIPGVN-------------EENLYHLDDSGIVKI 893 (2836)
T ss_pred cCCcccccccccchhhccCceeEEEeecceEEEEEeccCCCceecccCCCCC-------------hHHHhcCCCCCCeec
Confidence 99999999999999999999999999999999999999998777765 8863 258899999999999
Q ss_pred CceeCCCCEEEEEecCCCCCCCCCC------CCCCCCcccccceeeecCCCCCceEEEEEEEeeCC--------------
Q 001092 833 GEIIKPNDVYINKESPLETRGSIMS------PTGQTDSRYRSARQTYKGPDGETCVVDRVALCSDK-------------- 892 (1159)
Q Consensus 833 g~~v~~gd~li~k~~~~~~~~~~~~------~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~~~~~-------------- 892 (1159)
|++|++|||||||++|+.+.+..+. -++++....+|+|+++.++. .|+|-.|.++...
T Consensus 894 Ga~V~~GDILVGKvtPk~e~~~tPEekLL~aIFGek~~~vkdtSLrvp~G~--~G~Vidv~~f~~~~~~~~~~~~~~~~~ 971 (2836)
T PRK14844 894 GTRVGPGYILVGKVTPKPSLSLPPETKLLMTIFGEKSFDCADSSLYTSPDV--EGTVIDVQVFTRRGVEENERALLIKQK 971 (2836)
T ss_pred CCEECCCCEEEEeecCCCCCCCCHHHHHHHHHhCCcccccccCceecCCCC--CEEEEEEEEEcccccccchhhhhhhhh
Confidence 9999999999999999987654332 25788889999999888877 9998888876531
Q ss_pred --------------------------------------------------------------------------------
Q 001092 893 -------------------------------------------------------------------------------- 892 (1159)
Q Consensus 893 -------------------------------------------------------------------------------- 892 (1159)
T Consensus 972 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1051 (2836)
T PRK14844 972 EINDFEKERDYIINVTSEYFYDELKKLLINSGSQDREKFDSIEREQWWGIGLKNQSISEQVKSLKKDFDEKVSHAIAQFK 1051 (2836)
T ss_pred hhhhhhhhhhhhhhhhhhhhhhhhhhhhcccccccHHHHhhccHHhhhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence
Q ss_pred -------CC-------cEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHH
Q 001092 893 -------NG-------DLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVG 958 (1159)
Q Consensus 893 -------~~-------~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiG 958 (1159)
.| ...|||+|+++|++|||||+|||||||||||+|+|.|||||++||+++|||+||+|+|||||||
T Consensus 1052 ~k~~~~~~gdeL~~gv~~~VkVyia~KRkiqvGDKmAGRHGNKGVIS~IlP~eDMPyL~DGtpvDIvLNPLGVPSRMNvG 1131 (2836)
T PRK14844 1052 RKVEKLHEGYDLPQGVSMSVKVFIAVKHSLQPGDKMAGRHGNKGVISRVVPVEDMPYLEDGTPVDIILNPLGVPSRMNVG 1131 (2836)
T ss_pred HHHHhccCCCcCCCCCceEEEEEEEEeecCCccccccccCCCCceEeEEcccCCCCcCCCCCCceEEeCCCCCCccccHH
Confidence 01 2579999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcccccccCCcee--------------------------------------------------------------
Q 001092 959 KMIELLGGKAGVSCGRFH-------------------------------------------------------------- 976 (1159)
Q Consensus 959 ql~E~~~gk~~~~~g~~~-------------------------------------------------------------- 976 (1159)
|++|+|+|+||...|...
T Consensus 1132 QilE~hLG~A~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ 1211 (2836)
T PRK14844 1132 QILETHVGWACKKLGEKVGNILDEINKIKSAFCKGIRSLNDDNFTKFAAAYLDNKKIENIDDDEITASVLNTPNKNALND 1211 (2836)
T ss_pred HHHHHHHHHHHhhhhhhhHhhhhhhhcccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 999999999998876210
Q ss_pred --------------------------------------------------------eeeeccCCCCCCCcHHHHHHHHHH
Q 001092 977 --------------------------------------------------------YGSAFGEPSGHADTVESISETLVK 1000 (1159)
Q Consensus 977 --------------------------------------------------------~~t~F~~~~~~~~~~~~~~~~l~~ 1000 (1159)
.|.||..+.+++.+.+++.+.|++
T Consensus 1212 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~tpvf~g~~~~~i~~~L~~ 1291 (2836)
T PRK14844 1212 ELNELVENYLNSCKSAYSNLRNFLIEVYSCGSNVSICNNIRDISDNNLIEFARKLRDGIPVAAPVFEGPKDEQIAKLFEL 1291 (2836)
T ss_pred ccccchhccccccchhhHHHHHHHHHhhhcccccccccccccccHHHHHHHHhhhccCCeecCCCcCCCCHHHHHHHHHH
Confidence 022334445668889999999999
Q ss_pred cCCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHc
Q 001092 1001 HGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAY 1080 (1159)
Q Consensus 1001 ~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~ 1080 (1159)
+||+++|++.||||+||++|+++||+|++|||||+|||+||+|||++|||++|||||++||+++|||||||||||||+||
T Consensus 1292 ~g~~~~Gk~~l~dG~TGe~f~~~v~vG~~yy~kL~HmV~DKihaRs~Gp~s~lT~QPl~Gr~~~GG~RfGEME~~al~a~ 1371 (2836)
T PRK14844 1292 AGLDNSGQAVLYDGCSGEKFDRKVTVGYMYMLKLHHLVDGKIHARSVGPYSLVTQQPLGGKSHFGGQRFGEMECWALQAY 1371 (2836)
T ss_pred hCcCCCCCEEEEcCCCCCccchhheeCcchhhhhhhhhcchhhhcccCCCcccccCCCcccccCCCceeecchHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHhhccCCCcccceeccccccceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEecc
Q 001092 1081 GASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLAE 1158 (1159)
Q Consensus 1081 Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~~~ 1158 (1159)
|||++|||||+.+||++.+++|. +|..|+ +.+..+..+|||||+|+|||+||||.+++.+++
T Consensus 1372 Gaa~~L~E~Lt~kSD~~~gr~~~---------------~~~ivk-G~~~~~~~~PesfkvL~~EL~sl~i~~~~~~~~ 1433 (2836)
T PRK14844 1372 GAAYTLQEMLTVKSDDINGRVKI---------------YESIIK-GDSNFECGIPESFNVMIKELRSLCLNVDLKQND 1433 (2836)
T ss_pred hHHHHHHHHhcccccchhhhhHh---------------hhhhcc-CCCCCcCCCCchHHHHHHHHHhCccceEEeccc
Confidence 99999999999999999977652 233343 445566799999999999999999999998864
No 13
>PRK07225 DNA-directed RNA polymerase subunit B'; Validated
Probab=100.00 E-value=7.1e-185 Score=1648.52 Aligned_cols=600 Identities=46% Similarity=0.767 Sum_probs=564.6
Q ss_pred cEEEEEcCeEEEeecChhhHHHHHHHHhhcCCCCceeEEEecccCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhh
Q 001092 544 SFLVIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELL 623 (1159)
Q Consensus 544 ~~~V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~ 623 (1159)
.++|||||+|+|++++|..|+++||.+||.|.++.+++|+++...++|+|+||+||++|||++|++|++.++++|+++++
T Consensus 4 ~~~VflNG~~vG~~~~~~~lv~~lR~lRr~g~i~~~vsI~~~~~~~ei~I~tD~GR~~RPl~iv~~g~~~l~~~~~~~l~ 83 (605)
T PRK07225 4 KAKVYVNGKLIGTHDDPEELVEEIREARRSGEISEEVNVSYKEETNEVIINTDAGRARRPLIVVENGEPLLTEEHIEKLK 83 (605)
T ss_pred ccEEEECCEEEEEECCHHHHHHHHHHHHccCCCCCcEEEEEECCCCEEEEEccCCccceeEEEEeCCcccCCHHHHHHHH
Confidence 46899999999999999999999999999999999999999988899999999999999999999999999999999998
Q ss_pred cCCCchhhhhccCceeeeccccccceEEEeecCCCCCcceeeeecCccccccccccccCCCCCCCCccccccccccCCcc
Q 001092 624 DGVRSFDDFLREGLIEYLDVNEENNALIALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMG 703 (1159)
Q Consensus 624 ~~~~~~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~~~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g 703 (1159)
.++.+|+||+++|.|||||++||++++||+.++++...+||+||+|+++|||+||+|||+||||||||||||||+|||||
T Consensus 84 ~~~~~~~dl~~~G~IEyida~EE~~~~IA~~~~~l~~~~th~Ei~p~~ilgv~AslIPF~~hNQSPRn~yq~~M~KQa~g 163 (605)
T PRK07225 84 NGELTFDDLVKQGVIEYLDAEEEENAYIAVYEEDLTEEHTHLEIDPSLILGIGAGMIPYPEHNASPRITMGAGMIKQSLG 163 (605)
T ss_pred cCCCChHHHHhCCCeeecChhhhcCeEeccchhhhcccccccccCCcceeEEEeeccCCCCCCccchhhhhhhhhhcccC
Confidence 77889999999999999999999999999999999877999999999999999999999999999999999999999999
Q ss_pred ceeeeeccccccceeeecCCCcceeeeceeeeecCCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEE
Q 001092 704 NIAFNQLCRMDSLLYLLVYPQRPLLTTRTIELVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKY 783 (1159)
Q Consensus 704 ~~~~n~~~R~D~~~y~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~ 783 (1159)
++++|+..|+|++.|+|+|||+|||+|+.++.++++++|+|+||+||||||+||||||||||||+|+|||||||+||++|
T Consensus 164 ~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAvmsy~GYn~EDAiIiNkssidRGlf~s~~~k~~ 243 (605)
T PRK07225 164 LPAANYKLRPDTRGHLLHYPQVPLVKTQTQEIIGFDERPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLGRSHFFRTY 243 (605)
T ss_pred ccccceeeecCCcccEEeeCCcceEEccchHhhCCCccCCCeeEEEEEECcCCCChhHeeeeehhhhhcCceEEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccccCCCcceecCCCCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCC
Q 001092 784 TAINQKYANSTSDRILRPDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTD 863 (1159)
Q Consensus 784 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~~~~~~~ 863 (1159)
+++++++..+..+.+..|+....+ +++...|++||+||||++|++|++|||||||++|....+.. ..++...
T Consensus 244 ~~~~~~~~~~~~~~~~~p~~~~~~-------~~~~~~~~~LD~dGi~~~G~~v~~gdiligk~sp~~~~~~~-~~~~~~~ 315 (605)
T PRK07225 244 EGEERRYPGGQEDRFEIPDKDVRG-------YRGEEAYRHLDEDGLVNPETEVKEGDVLIGKTSPPRFLEEP-DDFGISP 315 (605)
T ss_pred EEEeeecCCCcceEEecCCchhcc-------ccChHHhhcCCCCCCccCCCEECCCCEEEEEecCCCCccch-hhhcccc
Confidence 999988777777788777642111 11235799999999999999999999999999997533211 0111223
Q ss_pred cccccceeeecCCCCCceEEEEEEEeeCCCCcEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCc
Q 001092 864 SRYRSARQTYKGPDGETCVVDRVALCSDKNGDLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPD 943 (1159)
Q Consensus 864 ~~~~~~s~~~~~~~~~~~~vd~v~~~~~~~~~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pD 943 (1159)
..++|+|++++.+| .|+||+|.++.+.++.+.|||++|+.|+|+||||||||||||||||+|||+||||||++|++||
T Consensus 316 ~~~~d~s~~~~~~e--~g~Vd~V~~~~~~~~~~~vkv~ir~~R~p~iGDKfssRHGQKGvvs~i~~~eDMPft~~G~~PD 393 (605)
T PRK07225 316 EKRRETSVTMRSGE--EGIVDTVILTETEEGSRLVKVRVRDLRIPELGDKFASRHGQKGVIGLIVPQEDMPFTESGVVPD 393 (605)
T ss_pred cCcceeeEEecCCC--cEEEEEEEEEecCCCCEEEEEEEEEEEeccccchhhhcccCceeEEeEeccccCCcCCCCCccc
Confidence 34799999999999 9999999999888888999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCCCCCCccHHHHHHHhcccccccCCceeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeee
Q 001092 944 LIMNPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAY 1023 (1159)
Q Consensus 944 iI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~ 1023 (1159)
|||||||||||||||||+|+++||||++.|.+.|+|||. +..++++++.|.++||+++|+|+||||+||++|+++
T Consensus 394 iIiNPhg~PSRMTiGql~E~~~gk~~~~~g~~~d~t~F~-----~~~~~~~~~~L~~~g~~~~G~e~my~G~TG~~~~~~ 468 (605)
T PRK07225 394 LIINPHAIPSRMTVGHVLEMIGGKVGSLEGRRVDGTAFS-----GEDEEDLREALEKLGFEHTGKEVMYDGITGEKIEAE 468 (605)
T ss_pred EEECcccccccCcHHHHHHHHHHHHHHhcCceEeecCCC-----CchHHHHHHHHHHhCcCCCCeEEEEcCCCCCEeccc
Confidence 999999999999999999999999999999999999999 567999999999999999999999999999999999
Q ss_pred EeEeeeeeeecccccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceecc
Q 001092 1024 IFMGPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCR 1103 (1159)
Q Consensus 1024 if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~ 1103 (1159)
||+|++|||||+|||.||+|||++||++.|||||++||||+|||||||||||||+|||||++|+|||+++||+++++||.
T Consensus 469 if~G~~yYqrL~HmV~DK~haR~~Gp~~~lTrQP~~GR~r~GG~RfGEMErd~lia~Gas~~L~Erl~~~SD~~~~~vC~ 548 (605)
T PRK07225 469 IFVGVIYYQKLHHMVANKLHARSRGPVQVLTRQPTEGRAREGGLRFGEMERDVLIGHGAAMLLKERLLDESDKVEIYVCA 548 (605)
T ss_pred EEEeehheeechhhhcchhhhccCCCCcccccCCccccccCCCeeeeeeehhhhhhhhhHHHHHHHHhccCcceeEEeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEecc
Q 001092 1104 VCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLAE 1158 (1159)
Q Consensus 1104 ~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~~~ 1158 (1159)
+||++++.+.+.+..+|+.|+++..+.++.||||||||+|||+||||++||.+++
T Consensus 549 ~CG~~~~~~~~~~~~~C~~C~~~~~i~~v~iPya~kll~~EL~sm~i~~~l~~~~ 603 (605)
T PRK07225 549 KCGMIAIYDKKRNRKYCPICGEETDIYPVEMSYAFKLLLDELKSLGIAPRLELED 603 (605)
T ss_pred CcCcceehhcccCceeecccCCCCceeeccCChhHHHHHHHHHHCCceeEEEecc
Confidence 9999998766566678999999899999999999999999999999999999875
No 14
>TIGR03670 rpoB_arch DNA-directed RNA polymerase subunit B. This model represents the archaeal version of DNA-directed RNA polymerase subunit B (rpoB) and is observed in all archaeal genomes.
Probab=100.00 E-value=9e-184 Score=1637.42 Aligned_cols=597 Identities=47% Similarity=0.788 Sum_probs=560.9
Q ss_pred EEEcCeEEEeecChhhHHHHHHHHhhcCCCCceeEEEecccCceEEEecCCCeeeeeEEEEecCcccchhhhHHHhhcCC
Q 001092 547 VIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADKGISRIKEHHMKELLDGV 626 (1159)
Q Consensus 547 V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~~~~~~ 626 (1159)
|||||+|+|++++|..|++.||.+||.|.++.++||+++...++|+|+||+||++|||++|++|++.++++|++.++.++
T Consensus 1 VflNG~~vG~~~~~~~lv~~LR~lRr~g~i~~~vsI~~~~~~~ei~I~tD~GR~~RPl~iv~~g~l~l~~~~l~~l~~~~ 80 (599)
T TIGR03670 1 VYLNGRLIGYHDDPEELVEEVRKLRRSGKLSQEVNVAYYEETNEVYINCDAGRIRRPLIVVENGKPKLTREHVEKLKEGE 80 (599)
T ss_pred CEECCEEEEEECCHHHHHHHHHHHhCcCCCCCcEEEEEeCCCCEEEEEcCCCccceeEEEeeCCCccccHHHHHHHhccC
Confidence 79999999999999999999999999999999999999998899999999999999999999999999999999998777
Q ss_pred CchhhhhccCceeeeccccccceEEEeecCCCCCcceeeeecCccccccccccccCCCCCCCCccccccccccCCcccee
Q 001092 627 RSFDDFLREGLIEYLDVNEENNALIALYEGDATPDTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIA 706 (1159)
Q Consensus 627 ~~~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~~~~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~ 706 (1159)
.+|+||+++|+|||||++||++++||+.++++...+||+||+|+++|||+||+|||+||||||||||||||+|||||+++
T Consensus 81 ~~~~~ll~~G~IEyida~Ee~~~~IA~~~~~l~~~~th~Ei~p~~ilgv~AslIPF~~hNqSpRn~YQc~M~KQamG~~~ 160 (599)
T TIGR03670 81 LTWDDLVKQGVIEYLDAEEEENAYIALDPEELTPEHTHLEIDPSAILGIIASTIPYPEHNQSPRNTMGAAMAKQSLGLYA 160 (599)
T ss_pred CCHHHHHhcCCeEecCchhhcCeEEecchHHhccCcCccccCCcceeeEEeeccCCCCcCcchhhHHHHhhhhccccccc
Confidence 89999999999999999999999999999998878999999999999999999999999999999999999999999999
Q ss_pred eeeccccccceeeecCCCcceeeeceeeeecCCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEE
Q 001092 707 FNQLCRMDSLLYLLVYPQRPLLTTRTIELVGYDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAI 786 (1159)
Q Consensus 707 ~n~~~R~D~~~y~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~ 786 (1159)
+|+..|+|+++|+|+|||+|||+|+.++.++++++|+|+||+||||||+||||||||||||+|+|||||||+||++|+++
T Consensus 161 ~n~~~R~D~~~~~l~ypQ~Plv~t~~~~~~~~~~~p~G~N~iVAvmsy~GYn~EDAiIink~si~rG~f~s~~~~~~~~~ 240 (599)
T TIGR03670 161 ANYRIRLDTRGHLLHYPQKPLVKTRVLELIGYDDRPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLARSTFFRTYEAE 240 (599)
T ss_pred cChhhcccccceEEcCCCCceeeeeeHHHhCccccCCCeeEEEEEEcccCcChhHeeeechhhhhcCCeEEEEEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccccCCCcceecCCCCCCCCcccccccccchhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCccc
Q 001092 787 NQKYANSTSDRILRPDRTGPGAERMQVVHHSNLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRY 866 (1159)
Q Consensus 787 ~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~~~~~~~~~~ 866 (1159)
+++++.+..|.+..|+....+ . +....|++||+||||++|++|++|||||||++|..+.+. ...++.+....
T Consensus 241 ~~~~~~~~~e~~~~p~~~~~~----~---~~~~~~~~LD~dGi~~~G~~v~~gdiligk~~p~~~~~~-~~~~~~~~~~~ 312 (599)
T TIGR03670 241 ERRYPGGQEDRFEIPEPDVRG----Y---RGEEAYKHLDEDGIVYPEVEVKGGDVLIGKTSPPRFLEE-LRELGLVTERR 312 (599)
T ss_pred eeccCCCCceEEecCCchhcc----c---cchhhhccCCCCCCcCCCcEeCCCCEEEEEecCCCCccc-hhhhccccccC
Confidence 988777777777777642111 1 112468999999999999999999999999998754321 00011223347
Q ss_pred ccceeeecCCCCCceEEEEEEEeeCCCCcEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEe
Q 001092 867 RSARQTYKGPDGETCVVDRVALCSDKNGDLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIM 946 (1159)
Q Consensus 867 ~~~s~~~~~~~~~~~~vd~v~~~~~~~~~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~ 946 (1159)
+|+|++++.+| .|+||+|.++.++++.+.|||++|+.|+|+||||||||||||||||+|||+||||||+||++|||||
T Consensus 313 ~d~s~~~~~~e--~g~Vd~V~~~~~~~~~~~vkv~~r~~R~p~iGDKfssRHGQKGvvs~i~~~eDMPft~~G~~pDiIi 390 (599)
T TIGR03670 313 RDTSVTVRHGE--KGIVDKVIITETEEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLII 390 (599)
T ss_pred ceEEEEecCCC--cEEEEEEEEEecCCCcEEEEEEEeeeecCcchhhhhhhccCcceEEeEeccCCCCcCCCCCCCCEEE
Confidence 89999999999 9999999999888888999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCccHHHHHHHhcccccccCCceeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeE
Q 001092 947 NPHGFPSRMTVGKMIELLGGKAGVSCGRFHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFM 1026 (1159)
Q Consensus 947 NPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~ 1026 (1159)
||||||||||||||+|+++||||++.|.+.|+|||+ +..++++++.|.++||+++|+|+||||+||++|+++||+
T Consensus 391 NPhg~PSRMTiGqllE~~~gk~~~~~g~~~d~t~F~-----~~~~~~~~~~L~~~g~~~~G~e~ly~G~TG~~~~~~if~ 465 (599)
T TIGR03670 391 NPHAIPSRMTVGQLLEMIAGKVAALEGRRVDGTPFE-----GEPEEELRKELLKLGFKPDGKEVMYDGITGEKLEAEIFI 465 (599)
T ss_pred CcccccccccHHHHHHHHHHHHHHhcCCEEEeCCCC-----CccHHHHHHHHHHcCCCCCCCEEEEcCCCCCCccccEEE
Confidence 999999999999999999999999999999999999 567899999999999999999999999999999999999
Q ss_pred eeeeeeecccccCcccEEecccCcccccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccc
Q 001092 1027 GPIYYQKLKHMVLDKMHARGSGPRVMLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCG 1106 (1159)
Q Consensus 1027 G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg 1106 (1159)
|++|||||+|||+||+|||++||++.|||||++||||+|||||||||||||+|||||++|+|||+++||++.++||.+||
T Consensus 466 G~~yyqrL~HmV~DK~h~Rs~Gp~~~lTrQP~~Gr~r~GG~RfGEMErd~lia~Gas~~L~ErL~~~SD~~~~~vC~~CG 545 (599)
T TIGR03670 466 GVIYYQKLHHMVADKIHARSRGPVQVLTRQPTEGRAREGGLRFGEMERDVLIGHGAAMLLKERLLDESDKYVVYVCENCG 545 (599)
T ss_pred EehhheechhhhcchhhhcccCCCcccccCCccccccCCCeeeeeeehhhHhhcchHHHHHHHHhccCcceeEEeecccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeecccccceecccccCCCccccccccHhHHHHHHHHHhCCcccEEEecc
Q 001092 1107 LLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQELQSMNIVPRLKLAE 1158 (1159)
Q Consensus 1107 ~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~EL~sm~i~~~l~~~~ 1158 (1159)
++++.+.+.+..+|+.|+++.++.++.+|||||||+|||+||||++||.+++
T Consensus 546 ~~~~~~~~~~~~~C~~c~~~~~i~~v~iPy~~k~l~~EL~am~i~~~l~~~~ 597 (599)
T TIGR03670 546 HIAWEDKRKGTAYCPVCGETGDISPVEMSYAFKLLLDELKSLGISPRLELGD 597 (599)
T ss_pred ceeehhcccCceeccccCCCCceeeecCChhHHHHHHHHHhCCcceEEEecc
Confidence 9997655556678999999889999999999999999999999999999875
No 15
>PF00562 RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; InterPro: IPR007120 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerases (2.7.7.6 from EC) catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain represents the hybrid-binding domain and the wall domain []. The hybrid-binding domain binds the nascent RNA strand/template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion []. This domain is also involved in binding to Rpb1 and Rpb3 []. Many of the bacterial members contain large insertions within this domain, which are known as dispensable region 2 (DRII).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2Y0S_R 3HKZ_B 2PMZ_R 3H0G_B 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B ....
Probab=100.00 E-value=9.9e-112 Score=982.77 Aligned_cols=367 Identities=47% Similarity=0.764 Sum_probs=314.7
Q ss_pred ccccccccCCCCCCCCccccccccccCCccceeeeeccccccceeeecCCCcceeeec-eeeeec---------CCCCCC
Q 001092 674 GVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLVYPQRPLLTTR-TIELVG---------YDKLGA 743 (1159)
Q Consensus 674 sv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~R~D~~~y~l~ypQ~Plv~t~-~~~~~~---------~~~~p~ 743 (1159)
||+|++|||++|||||||+|||||+|||||+|.+|+..|+|+.. +|||+|||+|+ .++..+ ++|+|+
T Consensus 1 si~As~ipf~~hn~s~R~~~~~~m~kQa~~~y~~~~~~R~d~~~---~~~q~Plv~~~~~~~~~~ilad~~~~~~~e~~~ 77 (386)
T PF00562_consen 1 SIVASLIPFPEHNQSPRNLYQCNMQKQAIGTYSLNKFNRSDQNT---CYPQKPLVKTGDRVEKGQILADGPSTKFGELPL 77 (386)
T ss_dssp -THGGTSSSGGGC-HHHHHHHHHHGCGBCSEEETTTTTS-TSSE---SS-BEESSBSSSTBTTTTECEE-TTECTTTS-S
T ss_pred CEEeCCCCEEEEEcCCcEEEEeCcCCCcccceeeeeeeccCcce---eccccceEEeeccccccCccccccccccccCcc
Confidence 68999999999999999999999999999999999999999987 99999999999 667666 999999
Q ss_pred CcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCC-cceecCCCCCCCCcccccccccchhhhc
Q 001092 744 GQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANST-SDRILRPDRTGPGAERMQVVHHSNLLLL 822 (1159)
Q Consensus 744 G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~-~~~~~~p~~~~~~~~~~~~~~~~~~~~~ 822 (1159)
|+|++||||||+||||||||||||+|++||+|||+||++ +++++.++.+. ++.+..|.... ...|+
T Consensus 78 G~N~iVAvmsy~GYN~EDAiIiNkssv~rG~f~s~~~k~-~~~~~~~~~g~~e~~~~~~~~~~------------~~~~~ 144 (386)
T PF00562_consen 78 GQNAIVAVMSYTGYNQEDAIIINKSSVDRGLFTSIHYKT-EIEIRDNKGGPSEEIFRPIPNVK------------EYNYS 144 (386)
T ss_dssp SEEEEEEESBSSSTTTSSEEEEECHHHHTTTTEEEEEEE-EEEEEEETTSEEBBESS--TSST------------STTGG
T ss_pred eeeeeEEeeehhcccchhhhhhhhhhhhcCeeeEEEEEE-EeeeecccCCcccccccccccch------------hhhhh
Confidence 999999999999999999999999999999999999999 88888777776 44454443211 25899
Q ss_pred cCCCCcccCCCceeCCCCEEEEEec-CCCCCCCCCCCCCCCCcccccceeeecCCCCCceEEEEEEE-------eeCCCC
Q 001092 823 ILDDDGLAAPGEIIKPNDVYINKES-PLETRGSIMSPTGQTDSRYRSARQTYKGPDGETCVVDRVAL-------CSDKNG 894 (1159)
Q Consensus 823 ~Ld~dGi~~~g~~v~~gd~li~k~~-~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~vd~v~~-------~~~~~~ 894 (1159)
+||+||||++|++|++||+||||++ |..........+.++....+|+|++++..+ .|+||+|.+ ..+.++
T Consensus 145 ~LD~dGii~~G~~v~~gDiligk~~~~~~~~~~~~~~~~~~~~~~~d~s~~~~~~e--~g~Vd~V~~~~~~~~~~~~~~~ 222 (386)
T PF00562_consen 145 KLDEDGIIKIGSRVEKGDILIGKITSPPRFSPLLKKIFGEKNRNYRDTSIKYKSGE--SGRVDKVIIFSNEKKDTSNNEG 222 (386)
T ss_dssp GBCTTSBB-TTCEEETTSEEEEEEESTSC--HHHHHHHHSSSCSEEEEEEES-TT---EEEEEEEEEECCCSSBEEETTC
T ss_pred hcccccccccCcEEecceeEEEEEecccccccchhhccccccccccceeecccccE--EeEeccccccccccccccccCc
Confidence 9999999999999999999999996 222110000001223334789999999998 999999999 566778
Q ss_pred cEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccCCc
Q 001092 895 DLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSCGR 974 (1159)
Q Consensus 895 ~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~ 974 (1159)
...|+|++|+.|+|+||||||||||||||||+|||+||||||++|++|||||||||||||||||||+|+++||++++.|.
T Consensus 223 ~~~iki~ir~~R~p~iGDKfssRHGqKGVvs~i~~~eDMPft~~G~~pDiIiNPhgiPSRMtiGqllE~~~g~~~~~~g~ 302 (386)
T PF00562_consen 223 YKKIKIRIRSTRRPQIGDKFSSRHGQKGVVSKILPQEDMPFTEDGIVPDIIINPHGIPSRMTIGQLLESLLGKAGALNGR 302 (386)
T ss_dssp EEEEEEEEEEEEE--TTEEEEETTSEEEEEEEEE-TTTSEEETTSEB-SEEE-GGGSTTTTBTHHHHHHHHHHHHHHSTC
T ss_pred ceEEEEEecccccchhHHHHhhhhcCceEEeeeeccccCccccCCCcceeeecccccccccchHHHHhhhhhhhhhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCccccc
Q 001092 975 FHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRVMLT 1054 (1159)
Q Consensus 975 ~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT 1054 (1159)
+.|+|||+ +.+.+++.+.|.++||+++|+|+||||+||++++++||+|++|||||+|||+||+|||++||++.||
T Consensus 303 ~~~~t~F~-----~~~~~~i~~~l~~~g~~~~g~~~l~~g~tG~~~~~~i~~G~~yy~rL~Hmv~DK~h~Rs~Gp~~~lT 377 (386)
T PF00562_consen 303 FVDATPFD-----ESSEEDISELLKKAGYNYPGKEVLYDGRTGEKFEAPIFIGPVYYQRLKHMVDDKIHARSRGPYSLLT 377 (386)
T ss_dssp EEB-TTTS-----SS-HHHHHHHHHHTTSHTTSEEEEBESSSSSBESSEEEEEEEEEEEBSTCGGGSTEEESS--BBSSS
T ss_pred ceecCCCC-----CcchhhhHhhhhcccccccceEEEEcCccCceEEeEEEeeeEEeccceEeCCcEEEEEecCCCcccc
Confidence 99999999 5777999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcccccc
Q 001092 1055 RQPTEGRAR 1063 (1159)
Q Consensus 1055 ~QP~~Gr~~ 1063 (1159)
|||++||+|
T Consensus 378 ~QP~~Gr~r 386 (386)
T PF00562_consen 378 RQPVEGRSR 386 (386)
T ss_dssp SSB-SSSSS
T ss_pred CCCCCCCCC
Confidence 999999997
No 16
>PRK09606 DNA-directed RNA polymerase subunit B''; Validated
Probab=100.00 E-value=1.8e-106 Score=968.10 Aligned_cols=486 Identities=33% Similarity=0.592 Sum_probs=431.3
Q ss_pred cccccccccccccccchHHHHHHHHHHHHHhChHHHHhccCceeecCCCcEEEEEeEEEEcCCccccCC-cCCCCChhhH
Q 001092 28 VVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGIDPSIFLRFKDVRIGQPSMTVDG-VSEKLNPHMC 106 (1159)
Q Consensus 28 ~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~~~~~~l~f~~i~i~~P~~~~~~-~~~~l~P~Ec 106 (1159)
.++.|.++++||+.++|++|||+|||+|+++||++++++.+||+...++.+.|+|+++++++|++.+++ ...+++|+||
T Consensus 2 ~~~~~~~i~~~~~~~~lv~~qi~SFn~Fi~~gl~~ii~~~~~i~~~~~~~~~l~~~~~~l~~P~~~~~~~~~~~l~P~ea 81 (494)
T PRK09606 2 MEDRRVLSDAYFKEHRLVRHHIDSYNDFVDNGLQKIIDEQGPIETEIEDGVYVELGKIRVGKPVVKEADGSEREIYPMEA 81 (494)
T ss_pred chHHHHHHHHHHCCCChHHHHHHHHHHHHHHhHHHHHHhcCCEEEecCCcEEEEEEEEEECCCcccccCCccccCCHHHH
Confidence 357899999999999999999999999999999999999999987766778999999999999987655 5678999999
Q ss_pred hhcCCccCccEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhhh
Q 001092 107 RLSDMTYAAPILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKVL 186 (1159)
Q Consensus 107 R~r~lTYsa~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ERVI 186 (1159)
|+|++||+|+++|+|.++.++ .....+++++|+|||||+|++|||++++|+||++.||||+|+||||||||+||||
T Consensus 82 R~r~~TYs~~l~v~i~~~~~~----~~~~~~~v~iG~iPiMv~S~~C~L~~~~~~~l~~~~E~~~d~GGyFIING~ErVi 157 (494)
T PRK09606 82 RLRNLTYSAPLYLEMSPVEGG----EEEEPEEVYIGELPVMVGSKICNLYGLSEEELIEVGEDPLDPGGYFIVNGSERVL 157 (494)
T ss_pred HhcCCCccceEEEEEEEEECC----CceEEeeEEeccCCeEeccCcccCCCCCHHHHHhcCCCcCCCCCeEEECCCeEEE
Confidence 999999999999999998654 2234568999999999999999999999999999999999999999999999999
Q ss_pred HhhhhccCCeEEEEeCCC---CcEEEEEEecCCCcce-EEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCHHHHHHH
Q 001092 187 LIQEQLSKNRVIIDTDKK---GNINASVTSSTETVKS-KTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQM 262 (1159)
Q Consensus 187 ~~q~~~s~N~i~~~~~~~---g~~~a~v~s~~~~~~s-~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD~eI~~~ 262 (1159)
|+||+++||++++++++. ..+.+.++|....++. ..+++..+|.+++++++..++||++++|||||.+||+||++.
T Consensus 158 ~~q~~~~~n~~~~~~~~~~~~~~~~~~i~s~~~~~~~~~~l~~~~~g~i~~~~~~~~~~iPi~~llkALg~~sd~eI~~~ 237 (494)
T PRK09606 158 MTLEDLAPNKILVEKDERYGDRIEVAKVFSQRRGYRALVTVERNRDGLLEVSFPSVPGSIPFVILMRALGLETDEEIVEA 237 (494)
T ss_pred EEEEeccCCeeEEEeccCCCccceEEEEEcccccceeeEEEEEecCCeEEEEEcCccccccHHHHHHHcCCCCHHHHHHH
Confidence 999999999999887543 2377899887764333 334445678999999987678999999999999999999999
Q ss_pred hCCchhhHhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHhhhccCCCCCCCCCCCcchhHH
Q 001092 263 VGRDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSILRDVFLANVPVHNNNFRPKCFYVA 342 (1159)
Q Consensus 263 i~~~~~~~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L~~~ll~Hl~~~~~~~~~K~~~L~ 342 (1159)
++.++.+.+.+..++++ .++.|+++||.|||+++++. .++.. ..+.|+++|++++|||++.+..+...|+++|+
T Consensus 238 i~~~~~~~~~l~~~~~~---~~~~t~~~al~~ig~~~~~~--~~~~~-~~~~~~~~l~~~~l~hig~~~~~~~~K~~~L~ 311 (494)
T PRK09606 238 VSDDPEIVKFMLENLEE---AEVDTQEEALEYIGKRVAPG--QTKEY-RIKRAEYVIDRYLLPHLGVEPEVRRAKAHYLG 311 (494)
T ss_pred hCCcHHHHHHHHHHHHh---cccCCHHHHHHHHHHhcCCC--CCcch-HHHHHHHHHHHhhhcccCCCcchhhHHHHHHH
Confidence 97665555555555554 35789999999999999875 23444 67899999999999999976555678999999
Q ss_pred HHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccccchHHH
Q 001092 343 VMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFIVRDSITVG 422 (1159)
Q Consensus 343 ~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i~~~~It~~ 422 (1159)
+|++||++++.|.+.+||+|||+||||+++|+||+.+||++|+++++.++..+.+...+. ..+++..+++++.||++
T Consensus 312 ~m~~kLl~~~~g~~~~Dd~D~l~nkRv~~~G~Ll~~~fr~~l~~~~~~~k~~l~~~~~~~---~~~~~~~~~~~~~It~~ 388 (494)
T PRK09606 312 RMAEACFELALGRREEDDKDHYANKRLKLAGDLMEDLFRVAFNRLARDVKYQLERANMRN---RELSIKTAVRSDVLTER 388 (494)
T ss_pred HHHHHHHHHhcCCCCCCCcccccCceeeccchhHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCCHHHhcCchhhhHH
Confidence 999999999999999999999999999999999999999999999999998888765332 24567777888999999
Q ss_pred HHHHhccCCCcccccccccccceEEccccccccccccccccccccccccccCCCCccCCCCCccccccCCCCCCcchhhh
Q 001092 423 LERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSPQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVK 502 (1159)
Q Consensus 423 i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s~f~~~~K~t~~R~Lhps~wG~iCPveTPEG~~cGLi~ 502 (1159)
|++|||||||.. +++|+||+|+|+||+|+|||+||+|+++.+.++.++||+||||||||+||||||||+||||||
T Consensus 389 l~~~~~TGnw~~-----~~~glSq~ldr~N~la~lSh~Rrv~s~~~r~~~~~~vR~lhps~~G~iCPveTPEG~~cGLv~ 463 (494)
T PRK09606 389 LEHAMATGNWVG-----GRTGVSQLLDRTDYMATLSHLRRVVSPLSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVK 463 (494)
T ss_pred HHHHhhcccccC-----CCceEEEEccCCCHHHHhhHHHhccCCccccCccccccccCcccceecccCcCCCCCcccHHH
Confidence 999999999985 468999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcccceeeccCCCchhHHHHHhhcCCeec
Q 001092 503 NLALMTHVTTDEEEGPLISLCYCLGVEDL 531 (1159)
Q Consensus 503 ~LA~~a~Vt~~~~~~~i~~~l~~lG~~~l 531 (1159)
|||++|+|+.+.+..++.++|.++|+.++
T Consensus 464 ~La~~a~V~~~~~~~~i~~~l~~lg~~~~ 492 (494)
T PRK09606 464 NFAQMVEISTGEDEEEVKEILKELGVEPE 492 (494)
T ss_pred hhhceEEEeCCCChHHHHHHHHHCcCeeC
Confidence 99999999998888899999999999864
No 17
>PF04563 RNA_pol_Rpb2_1: RNA polymerase beta subunit; InterPro: IPR007644 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the protrusion domain []. The other lobe, RNA polymerase Rpb2, domain 2, is nested within this domain.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C 3AOH_H ....
Probab=100.00 E-value=2.2e-44 Score=386.04 Aligned_cols=147 Identities=45% Similarity=0.837 Sum_probs=125.9
Q ss_pred chHHHHHHHHHHHHHhChHHHHhccCceeecC-CCcEEEEEeEEEEcCCccccCC-cCCCCChhhHhhcCCccCccEEEE
Q 001092 43 GLVKQHLDSFNYFVNTGIRKIVRANDRIVSGI-DPSIFLRFKDVRIGQPSMTVDG-VSEKLNPHMCRLSDMTYAAPILVN 120 (1159)
Q Consensus 43 ~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~-~~~~~l~f~~i~i~~P~~~~~~-~~~~l~P~EcR~r~lTYsa~L~v~ 120 (1159)
||++||++|||||+++||++++++.+||..+. +..+.++|++++|++|++.+.+ ...+++|+|||+|++||+|+++|+
T Consensus 1 ~Lv~~qi~SFn~Fl~~gl~~i~~~~~~i~~~~~~~~~~l~~~~~~i~~P~~~~~~~~~~~l~P~ecR~r~~TYs~~l~v~ 80 (203)
T PF04563_consen 1 GLVKHQIDSFNYFLNNGLKEILKEFPPIEFESSNNRISLKFENIRIGKPTYSESDGRERPLYPRECRLRGLTYSAPLYVD 80 (203)
T ss_dssp TTTHHHHHHHHHHHCTSSHHHHSCSSSCEECCCSTTEEEEEEEEEEESESSEHTTSCEEE--HHHHHHTT-B-EEEEEEE
T ss_pred CchHHHHHHHHHHHHCCCHHHhccCCceEecCCcceEEEEeeEEEEeeeeeccccccccCCCHHHHHhcCCCCCCccceE
Confidence 68999999999999999999999999998764 4689999999999999998855 788999999999999999999999
Q ss_pred EEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEEEcCchhhhHhhhhc
Q 001092 121 IEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFIIKGTEKVLLIQEQL 192 (1159)
Q Consensus 121 i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFIING~ERVI~~q~~~ 192 (1159)
|+++.++. ......++.+|+|||||+|++|||++++++|+++.||||+|+||||||||+|||||+|+++
T Consensus 81 i~~~~~~~---~~~~~~~v~iG~iPiMv~S~~C~L~~~~~~~l~~~~E~~~d~GGYFIInG~EkVi~~q~~~ 149 (203)
T PF04563_consen 81 IELTVNNK---KEIKEQEVFIGKIPIMVRSKRCNLNGLSPKELVQLGECPNDPGGYFIINGSEKVIRMQIMR 149 (203)
T ss_dssp EEEEESST---TEEEESEEEEEEEE-BTTTTTSGGGT--HHHHHHTTS-TT---SSEEETTEEEEE-EEEEE
T ss_pred EEEEeecc---ceEEeeEEEEeeCCeEeecceeeCCCCCHHHHHHcCCCCcCCCCEEEECCChhheehhhhh
Confidence 99998872 3667778999999999999999999999999999999999999999999999999999987
No 18
>PF04560 RNA_pol_Rpb2_7: RNA polymerase Rpb2, domain 7; InterPro: IPR007641 RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain comprised of the structural domains anchor and clamp. The clamp region (C-terminal) contains a zinc-binding motif. The clamp region is named due to its interaction with the clamp domain found in Rpb1. The domain also contains a region termed switch 4. The switches within the polymerase are thought to signal different stages of transcription [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C 3AOH_H 1IW7_M 2O5J_C 2CW0_M 2O5I_M ....
Probab=99.96 E-value=6.9e-31 Score=237.72 Aligned_cols=81 Identities=53% Similarity=0.892 Sum_probs=76.3
Q ss_pred CceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccceeecccccceecccccCCCccccccccHhHHHHHHH
Q 001092 1065 GGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYACKLLIQE 1144 (1159)
Q Consensus 1065 GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~~k~L~~E 1144 (1159)
|||||||||||||+|||||++|||||+++||.+.++||.+||++++ .|+.+.++.++.+|||||||+||
T Consensus 1 GG~R~GEMErd~LiahGas~~L~erl~~~SD~~~~~vc~~cg~~~~-----------~~~~~~~~~~~~ipy~~klL~~E 69 (81)
T PF04560_consen 1 GGLRFGEMERDALIAHGASFLLKERLFDKSDKYEIDVCSRCGSIAS-----------ICKGKPEVKKIEIPYSFKLLIQE 69 (81)
T ss_dssp CBEEEEHHHHHHHHHTTBHHHHHHHHTTTTTEEEEEEECCCHHHHH-----------TTTTSSSEEEEEEEHHHHHHHHH
T ss_pred CCcchhHHHHHHHHHhhHHHHHHHHhcCCCcCcchhhhccCCCcee-----------EECCCCeEEeeeCCHHHHHHHHH
Confidence 8999999999999999999999999999999999999999998765 46777889999999999999999
Q ss_pred HHhCCcccEEEe
Q 001092 1145 LQSMNIVPRLKL 1156 (1159)
Q Consensus 1145 L~sm~i~~~l~~ 1156 (1159)
|+||||++++.+
T Consensus 70 L~sm~I~~~~~~ 81 (81)
T PF04560_consen 70 LRSMGIKIRIKT 81 (81)
T ss_dssp HHCTTEEEEEEE
T ss_pred HHHCcCceEEeC
Confidence 999999999974
No 19
>PF04565 RNA_pol_Rpb2_3: RNA polymerase Rpb2, domain 3; InterPro: IPR007645 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 3, is also known as the fork domain and is proximal to catalytic site [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C 3AOH_H 1IW7_M 2O5J_C 2CW0_M ....
Probab=99.92 E-value=2.8e-26 Score=201.52 Aligned_cols=66 Identities=50% Similarity=0.899 Sum_probs=59.8
Q ss_pred EEccccccccccccccccc--cccccccccCCCCccCCCCCccccccCCCCCCcchhhhhcccceeec
Q 001092 446 QVLARLSFIGTLGHMTRVS--PQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVT 511 (1159)
Q Consensus 446 q~l~RlN~ls~LshlRrv~--s~f~~~~K~t~~R~Lhps~wG~iCPveTPEG~~cGLi~~LA~~a~Vt 511 (1159)
|+|||+|++++|||+|||+ +++.++.|.+.+|+|||||||||||||||||++|||++|||++|+||
T Consensus 1 Q~l~r~N~l~~ls~~Rri~~~~~~~~~~~~~~~R~lh~s~~G~iCPveTPEG~~~GLv~~La~~a~I~ 68 (68)
T PF04565_consen 1 QYLDRTNPLSELSHLRRINRLGPLSKESKSTEPRQLHPSQYGRICPVETPEGENCGLVKNLALMARIT 68 (68)
T ss_dssp EE--TSSHHHHHHHHTEEESCSSTSSSSSSSTTTSTTGGGTTTBSSSSS-SSTSTTTEEEBBTT-EE-
T ss_pred CCcccccHHHHHHHHHhcccccccchhhcccccccccccceeEEeecccCCCccEeehheeeeeEEeC
Confidence 8999999999999999999 68999999999999999999999999999999999999999999986
No 20
>PF04561 RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; InterPro: IPR007642 RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain []. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble. Many of the bacterial members contain large insertions within this domain, a region known as dispensable region 1 (DRI).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 2Y0S_R 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C ....
Probab=99.85 E-value=2.1e-21 Score=205.81 Aligned_cols=175 Identities=26% Similarity=0.388 Sum_probs=119.3
Q ss_pred cCCeEEEEeCCCCcEE-EEEEecCCCcce-EEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCHHHHHHHhCC-chhh
Q 001092 193 SKNRVIIDTDKKGNIN-ASVTSSTETVKS-KTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQEVVQMVGR-DPRY 269 (1159)
Q Consensus 193 s~N~i~~~~~~~g~~~-a~v~s~~~~~~s-~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD~eI~~~i~~-~~~~ 269 (1159)
+.|+|+++++++++.. +++.+.....++ +.....++..+.+....+..+||+++||||||++||+||++.|+. +...
T Consensus 1 Rsn~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IPi~ilLrALG~~sd~eI~~~i~~~~~~~ 80 (190)
T PF04561_consen 1 RSNGIYVEKDKDGNKIIRSVRSDIISSRGSWHYLEKDKKIIIFSRPKKKFKIPIVILLRALGIESDKEIIELICYSEEDF 80 (190)
T ss_dssp ESSSEEEEE-SSSSSCSSCEEEEECCSSSEEEEEECETTTEEEEETTSSSEEEHHHHHHHTT--STCHHHHHHCCCSTCH
T ss_pred CCCEEEEEEccCCCCeeEEEEeecCCCcceEEEEecCCcEEEEEEcCcccccceEEeehhhcCcCcccccceeecccccc
Confidence 3578999987665533 333333222222 222223444455555555678999999999999999999999963 3223
Q ss_pred HhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCCCCChHHHHHHHH---------Hhhhcc-CCCCCCCCCC--Cc
Q 001092 270 SALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSPPNDREGRAFSIL---------RDVFLA-NVPVHNNNFR--PK 337 (1159)
Q Consensus 270 ~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~~~~~~e~~~~~L---------~~~ll~-Hl~~~~~~~~--~K 337 (1159)
......++......++.|+++|+.|||++++.. ..+.. ..+.++.+| .+++|+ |++....... .|
T Consensus 81 ~~~~~~~~~~~~~~~~~t~~~al~~i~~~~~~~--~~~~~-~~~~~~~~l~~~y~l~~i~r~~l~~hl~~~~~~~~~~~k 157 (190)
T PF04561_consen 81 EDIEELMLSELEEEEIYTQEQALEYIGKKFRFR--QGKPP-KVEEARNFLQKRYDLGFIGRYKLNKHLGSDEPNENDRLK 157 (190)
T ss_dssp SCSTTTHHHHCCCTSSCSCHHHHHHHHHCCHSS--SSCHC-CHCHHHHHHTTCSSTCCCHHHCCHTTTTSSSSSSSSSCH
T ss_pred cccccccccccccccccccccceeEeccceeee--ccccc-chhhhhcccccccccccccccceeeeeeeeecccccccc
Confidence 333334455555678999999999999944433 22344 566778777 467777 9997754333 49
Q ss_pred chhHHHHHHHHHHhccCCCCCCCcccccCcEEc
Q 001092 338 CFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLE 370 (1159)
Q Consensus 338 ~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~ 370 (1159)
+.+|++|++||+.+..|.+.+||+|||+||||+
T Consensus 158 ~~~l~~m~~~ll~~~~g~~~~Dd~D~l~NkRv~ 190 (190)
T PF04561_consen 158 AEDLGLMIRKLLKLANGECEPDDRDHLGNKRVR 190 (190)
T ss_dssp HHHHHHHHHHHHHHHTTSS-S-STTSCCCEEEE
T ss_pred hhhHHHHHHHHHHHhcCCCCCCCccccCCcCCc
Confidence 999999999999999999999999999999996
No 21
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=99.70 E-value=3.5e-17 Score=141.33 Aligned_cols=63 Identities=37% Similarity=0.757 Sum_probs=59.5
Q ss_pred EEEcCeEEEeecChhhHHHHHHHHhhcCCCCceeEEEecccCceEEEecCCCeeeeeEEEEec
Q 001092 547 VIFNGLILGKHRRPKCFADVMRKLRRAGKIGEFVSVFVNEKQRCVYIASDGGRVCRPLVIADK 609 (1159)
Q Consensus 547 V~lnG~~iG~~~~~~~~~~~lr~~Rr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~~v~~ 609 (1159)
|||||.|+|++++|..|+..||.+||+|.++.++|++++...++|+|+||+||++|||++|+|
T Consensus 1 VFlNG~~iG~~~~p~~l~~~lr~~RR~g~i~~~vsi~~~~~~~ei~I~tD~GR~~RPL~vV~n 63 (63)
T PF04566_consen 1 VFLNGVWIGIHSDPEELVKTLRNLRRSGKISKEVSIVYDIREKEIRINTDAGRLCRPLFVVEN 63 (63)
T ss_dssp EEETTEEEEEESSHHHHHHHHHHHHHTTSS-TTSEEEEETTTTEEEEE-SSCEEEEEEEEESS
T ss_pred CEECCEEEEEEcCHHHHHHHHHHHhhccCCcceeEEEEeccCCEEEEEccCCcccceeEEecC
Confidence 799999999999999999999999999999999999999999999999999999999999975
No 22
>KOG0215 consensus RNA polymerase III, second largest subunit [Transcription]
Probab=99.12 E-value=2.4e-13 Score=160.75 Aligned_cols=537 Identities=8% Similarity=-0.124 Sum_probs=288.3
Q ss_pred CCcccccccccccccccccchHHHHHHHHHHHHHhChHHHHhccCceeecC---CCcEEEEEeEEEEcCCccccCC-cCC
Q 001092 24 PVKSVVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIRKIVRANDRIVSGI---DPSIFLRFKDVRIGQPSMTVDG-VSE 99 (1159)
Q Consensus 24 ~~~~~~~~~~~i~~~~~~~~Lv~~qi~SFn~Fl~~gL~~i~~~~~~I~~~~---~~~~~l~f~~i~i~~P~~~~~~-~~~ 99 (1159)
....-.|.|-..|++.+..++++.||.+++.+|..-...+ ||-.+. .++-.+.=.++-|+ ..+.-- ..+
T Consensus 93 fylky~dirvg~Ps~~~~~~~~~~~i~p~ecrlrd~tysa-----~i~vdieytrg~~~~~~~~v~ig--rmpimlrs~r 165 (1153)
T KOG0215|consen 93 FYLKYLDIRVGKPSIEEGNNVTNDNITPHECRLRDMTYSA-----PIYVDIEYTRGRQIIAKRDVIIG--RMPIMLRSSK 165 (1153)
T ss_pred hhheeeeeeccCcchhhccccccccCCchheeehhhhccc-----ceeEEEEEecCcceEEecccccc--cchhhhhccc
Confidence 4445567888899999999999999999999987544332 332221 11111112233333 222111 345
Q ss_pred CCChhhHhhcCCccC-ccEEEEEEEEECCcccceeeEEeeEEEeecceeeccccccCCCCCHHHHHhcCCCCCCCCcEEE
Q 001092 100 KLNPHMCRLSDMTYA-APILVNIEYVQGSHTEKTTMEKNDVVIGRIPIMLRSCRCVLYGKDEAELARLGECPLDPGGYFI 178 (1159)
Q Consensus 100 ~l~P~EcR~r~lTYs-a~L~v~i~~~~~~~~~~~~i~~~~v~lG~IPIMv~S~~C~L~~ls~~eli~~~E~~~d~GGYFI 178 (1159)
-+.|.+|+.+..-|. +|+ ..--..+..|.-|||+.+.-|.++....+ --..|||+.+.++||+
T Consensus 166 cvl~~~~e~~~a~~~ecpl---------------dpggyfiv~G~ekViLiqeqlsknrii~~-~~k~~~~~~svtsst~ 229 (1153)
T KOG0215|consen 166 CVLRGKDEEELARLNECPL---------------DPGGYFIVKGTEKVILIQEQLSKNRIIVE-EDKKGNLQASVTSSTH 229 (1153)
T ss_pred cccCCccHHHHHHhccCCC---------------CCCceeEeccceeEEEehhhhhccCeeec-cccCCcccccccccee
Confidence 566777774433322 111 11122477899999999999999999887 6688999999999999
Q ss_pred EcCchhhhHhhhhccCCeEEEEeCCCCcEEEEEEecCCCcceEEEEEeeCCEEEEEEcceeccccHHHHHHHhcCCCHHH
Q 001092 179 IKGTEKVLLIQEQLSKNRVIIDTDKKGNINASVTSSTETVKSKTVIQMEKGKMYLLLNQFVKKIPIMVVMKAMGMESDQE 258 (1159)
Q Consensus 179 ING~ERVI~~q~~~s~N~i~~~~~~~g~~~a~v~s~~~~~~s~~~~~~~~g~i~~r~~~~~~~IPl~ilLrALG~~sD~e 258 (1159)
..+++.+|.++....+++...+.+..+..++...+........+. +...+..|.++.-.....|+.+-+.+.+-..|..
T Consensus 230 e~kskt~v~~k~~k~ylk~~~~~d~ipiviv~ka~g~~sd~ei~~-~vg~~~~y~~~~~~s~ee~~~~~v~tqqqal~y~ 308 (1153)
T KOG0215|consen 230 ERKSKTYVTTKKGKYYLKHNSFTDDIPIVIVLKAMGLESDQEIVQ-LVGGDSKYQDIFAPSLEECVSLGVYTQQQALEYI 308 (1153)
T ss_pred eecceEEEEeccceeeeehhhhhccCCEEEEEeeccccchHHHHH-HhhcchHHHHhhccchhhhhhhhhHHHHHHHHHh
Confidence 999999999998877776655554443322211111110000000 0011222332222222344443333332221111
Q ss_pred HHHHhCCchhhHhhhhHhHHHHHhcCCcCHHHHHHHHhhhcccCCCCCC----CCChHHHHHHHHHhhhccCCCCCCCCC
Q 001092 259 VVQMVGRDPRYSALLLPSIEECANLDIYTQEKALEYLEGKVKRSTFGSP----PNDREGRAFSILRDVFLANVPVHNNNF 334 (1159)
Q Consensus 259 I~~~i~~~~~~~~~l~~~l~~~~~~~i~t~~~Al~yIg~r~r~~~~~~~----~~~~~e~~~~~L~~~ll~Hl~~~~~~~ 334 (1159)
+.+..... .....-.++|++.+...+.+...-++ .......+....--..+-|....++..
T Consensus 309 ~~kvk~~~---------------~t~~~~~~e~~~~l~~~~lahv~v~~~~~r~K~~yi~~m~rr~~~a~l~~~~~ddrd 373 (1153)
T KOG0215|consen 309 GSKVKVKR---------------GTTPTKDEEALEVLSTTVLAHVPVPDLNFRMKAIYIGLMVRRVIQAMLNKLAMDDRD 373 (1153)
T ss_pred hheEEecc---------------CCCCCchHHHHHHHHhhheeceeccCCCCcceeehHHHHHHHHHHHHhCcccccchh
Confidence 11111110 00112245677766655544322111 110111111111111122333222223
Q ss_pred CCcchhHHHHHHHHHHhccCCCCCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccc
Q 001092 335 RPKCFYVAVMLRRMVEAMLNKDAMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEVQKTVDIILSKPSRSSRFDLSQFI 414 (1159)
Q Consensus 335 ~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~ik~~i~k~~~~~~~~~~~~~~~~i 414 (1159)
.-+-..|.+|.+ |+.+..+.-..++.+.|++.+-...+.++..++-++++.+. ..++.+...+.+.-...+.++..+
T Consensus 374 ~~gnkrlelagq-llsllfeD~fk~~n~e~k~~~dk~l~k~~ra~~fD~~~~~n-~~~~~it~~l~ra~stgnw~iKrf- 450 (1153)
T KOG0215|consen 374 YVGNKRLELAGQ-LLSLLFEDLFKRFNSELKKNIDKILKKPIRAQEFDALKHLN-VRANMITSGLERAISTGNWSIKRF- 450 (1153)
T ss_pred hhccchHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhhhHHHHHHH-HHHHHHHHHHHHHhhcCchHHHHh-
Confidence 334444655554 45555666667788899999999999988888889888875 333333332222111112222221
Q ss_pred cccchHHHHHHHhccCCCcccccccccccceEEccccccccccccccccccccccccccCCCCccCCCCCccccccCCCC
Q 001092 415 VRDSITVGLERTLSTGNFDVKRFKMHRKGMTQVLARLSFIGTLGHMTRVSPQFEKSRKVSGPRALQPSQWGMLCPCDTPE 494 (1159)
Q Consensus 415 ~~~~It~~i~~~~sTGnw~~~~~~~q~sGvsq~l~RlN~ls~LshlRrv~s~f~~~~K~t~~R~Lhps~wG~iCPveTPE 494 (1159)
+-.-++...--+..|++|....+-+.++++.++..+..+-|.....-++..++++..+.+-.+-..+..|+-|||-++|+
T Consensus 451 rmer~gvt~VlsrlSyisaLgmmtri~s~fektrkvsgprSlq~sqwgmlcp~dtpegeacglvknlalmthittd~ee~ 530 (1153)
T KOG0215|consen 451 RMERAGVTQVLSRLSYISALGMMTRINSQFEKTRKVSGPRSLQPSQWGMLCPSDTPEGEACGLVKNLALMTHITTDSEEK 530 (1153)
T ss_pred hhhhccceeeehhhhhhhhhhhheehhhhheeehhccCccccChhhcccccCCCCCCccccccccchHHHhcccCCCCcc
Confidence 11111112222334566654333345689999988877877777777777788888888889999999999999999999
Q ss_pred CCcchhhhhcccceeeccCCCchhHHHHHhhcCCeeccccCccccCCCCcEEEEEcCeEEEeecChhhHHHHHHHHhhcC
Q 001092 495 GEACGLVKNLALMTHVTTDEEEGPLISLCYCLGVEDLELLSGEELHNPNSFLVIFNGLILGKHRRPKCFADVMRKLRRAG 574 (1159)
Q Consensus 495 G~~cGLi~~LA~~a~Vt~~~~~~~i~~~l~~lG~~~l~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~Rr~~ 574 (1159)
+.-|++.+..+...++..+..-.+.-.++.-++...+......+....+-..++.+|++-++++.....++..+.+++.|
T Consensus 531 pi~~~~~k~gv~di~~v~~~e~~~~~~~~v~Lng~iig~~~~~~~~v~~~r~lrr~G~i~~fvsv~~~~~q~~v~i~sdg 610 (1153)
T KOG0215|consen 531 PILKLCYKLGVEDIHVVSGRELHTPDSFLVFLNGLIIGITRRPQYFVNSFRRLRRKGKIGEFVSVFTNTTQRCVYIASDG 610 (1153)
T ss_pred hhHHHHHHhcceeeeeecccccCCCceEEEEecceeeccccchHHHHHHHHHHHHcCcccceeeeeeeeeeEEEEEecCC
Confidence 99999999999999987753322222233333333332221111111112235566766666654433333333333333
Q ss_pred CCCceeEEEecccCceEEEecCCCeeeeeE
Q 001092 575 KIGEFVSVFVNEKQRCVYIASDGGRVCRPL 604 (1159)
Q Consensus 575 ~i~~~vsi~~~~~~~~i~I~td~GRl~RPl 604 (1159)
-......|..+...+ +|-++.+|.++|-
T Consensus 611 gr~crp~Iiv~~~~~--~v~~~h~~el~~g 638 (1153)
T KOG0215|consen 611 GRVCRPLIIVDNGRP--RVKQHHMDELLDG 638 (1153)
T ss_pred CeEeeeEEEEeCCcc--hhhhhhHHHHHHh
Confidence 322222222222112 5555555555554
No 23
>KOG0214 consensus RNA polymerase II, second largest subunit [Transcription]
Probab=99.00 E-value=1.3e-11 Score=148.23 Aligned_cols=322 Identities=9% Similarity=-0.133 Sum_probs=214.4
Q ss_pred CCCCCCCcceEEEEEecCCCCCCCcEEeeccccccCceeEEEEEEEEEEeccccCCCcceecCCCCCCCCcccccccccc
Q 001092 738 YDKLGAGQNATVAVMSYSGYDIEDAIVMNKSSLDRGFGRCIVVKKYTAINQKYANSTSDRILRPDRTGPGAERMQVVHHS 817 (1159)
Q Consensus 738 ~~~~p~G~N~iVAv~~~~Gyn~EDaiiink~s~~rg~~~s~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~ 817 (1159)
.-..+.+.+|-++.+.+.+++.++...-|--..+.+++++++...|. +.++. .+....+...+...+ +.. ..
T Consensus 732 e~l~~~eL~aG~NaiVAi~~~~GYNqEDsvimn~s~v~rg~FrS~~~---RsYk~--q~~~~~~~~ee~~~~-~~~--~~ 803 (1141)
T KOG0214|consen 732 EYLRFRELPAGQNAIVAIACYSGYNQEDSVIMNQSSVDRGLFRSFFI---RSYKD--QEHKKDQGPEEIFEE-PPR--GE 803 (1141)
T ss_pred hhhhhhhcccccceEEEEecccCccHHHHHHHHhhhhhcchhhhhhh---hHHHh--hhhhccccccccccc-ccc--cc
Confidence 33557799999999999999999999999999999999999876654 33332 111222211110000 100 00
Q ss_pred hhhhccCCCCcccCCCceeCCCCEEEEEecCCCCCCCCCCCCCCCCcccccceeeecCCC------CCceEEEEEEEeeC
Q 001092 818 NLLLLILDDDGLAAPGEIIKPNDVYINKESPLETRGSIMSPTGQTDSRYRSARQTYKGPD------GETCVVDRVALCSD 891 (1159)
Q Consensus 818 ~~~~~~Ld~dGi~~~g~~v~~gd~li~k~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~------~~~~~vd~v~~~~~ 891 (1159)
..-.++.-.|-+-.-|-. .+|--+.| .+.-..|.+++.-+..+ --.+..+++.+..+
T Consensus 804 ~~~mr~~~~dkLdddG~i-~~G~~vs~----------------~Dv~iGk~t~~~~~~~~~~~~~~~~t~~d~s~~Lr~~ 866 (1141)
T KOG0214|consen 804 GRGMRNGKYDKLDDDGII-MPGSRVSG----------------GDVLIGKTTPQPAKEDESGPEDRLYTKRDHSTKLRHT 866 (1141)
T ss_pred cccccccccccccccCCc-cccceeec----------------CCEEeccccCCcccchhccccccccccccceeecccC
Confidence 001111111111111110 01100000 00000111111111111 00335566777766
Q ss_pred CCCcEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCCCCCCCCCCcEEeCCCCCCCCccHHHHHHHhccccccc
Q 001092 892 KNGDLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFPFSERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVS 971 (1159)
Q Consensus 892 ~~~~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~ 971 (1159)
+.| ...+|.++. .+.|+||+.+|++++-+.++-...++++-+-|++++++.+++.-+++|+|--.+++-.-
T Consensus 867 e~G-ivd~V~vt~---n~~G~kF~kv~vr~~ripqiGDKfasrHgqKG~ig~~~~qedmpft~eGi~pDiiiNPh----- 937 (1141)
T KOG0214|consen 867 ERG-IVDQVWVTK---NSEGPKFVKVRVRQVRIPQIGDKFASRHGQKGTIGITYRQEDMPFTIEGIVPDIIINPH----- 937 (1141)
T ss_pred Ccc-eEEEEEEec---CCCCCceeEEEEeecccccccchhccccccCccccceeecCCCCccccCCCcceEECcc-----
Confidence 666 555555554 99999999999999999999999999999999999999999999999987644333221
Q ss_pred CCceeeeeeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEeeeeeeecccccCcccEEecccCcc
Q 001092 972 CGRFHYGSAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGPIYYQKLKHMVLDKMHARGSGPRV 1051 (1159)
Q Consensus 972 ~g~~~~~t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~ 1051 (1159)
|.|= .-.+..+.+-|. |-..-++..++++.++.. -+-.+++..+++...|+..++.+++.+++..
T Consensus 938 ------aiPS------Rmtig~liEc~l--gk~~a~~~e~~~atpFs~-v~v~~is~~l~~~g~~~~G~e~~ynGrtG~~ 1002 (1141)
T KOG0214|consen 938 ------AIPS------RMTIGQLIECLL--GKVAAYEGEEGDATPFSD-VTVSKISANLHVYGYQYRGNERMYNGRTGRK 1002 (1141)
T ss_pred ------cCcc------ccchhhhHHHhh--hhhhhcccccccCCCCCc-cchhcccchHHHhccccCCCEEEecCCCCce
Confidence 1111 123333333321 113333445566666655 4666889999999999999999999999999
Q ss_pred cccccCccccccCCceeeeehhhhHHHHcccHHHHHHhhccCCCcccceeccccccc
Q 001092 1052 MLTRQPTEGRARNGGLRVGEMERDCLIAYGASMLIFERLMVSSDPFEVQVCRVCGLL 1108 (1159)
Q Consensus 1052 ~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erl~~~SD~~~~~vC~~cg~~ 1108 (1159)
..+++++++.-.+++.+++||+++|=..++.+-+.++.+...|++...++|+.|+.-
T Consensus 1003 ~~~~if~GptyyqrL~Hmvd~kih~R~~Gp~q~ltRQP~~gRsr~GGlRfGEMErdc 1059 (1141)
T KOG0214|consen 1003 LRAQIFIGPTYYQRLKHMVDDKIHSRARGPVQILTRQPVEGRSRDGGLRFGEMERDC 1059 (1141)
T ss_pred eeeeeecCchHHHHHHHhhhheeeecccCCceeeeccccccccccCCeeeehhHHHH
Confidence 999999999999999999999999999999999999999999999999999988854
No 24
>PF04567 RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; InterPro: IPR007647 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 5, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=98.84 E-value=1.5e-09 Score=89.05 Aligned_cols=41 Identities=46% Similarity=0.818 Sum_probs=33.4
Q ss_pred hhhhhccCceeeeccccccceEEEeecCCC-------CCcceeeeecC
Q 001092 629 FDDFLREGLIEYLDVNEENNALIALYEGDA-------TPDTTHIEIEP 669 (1159)
Q Consensus 629 ~~~l~~~g~iE~id~~E~~~~~Ia~~~~~~-------~~~~th~Ei~p 669 (1159)
|++|+++|+|||||++||++++||++++++ ...||||||||
T Consensus 1 w~~ll~~G~vE~id~eEEe~~~Iam~~~dl~~~~~~~~~~~TH~EI~P 48 (48)
T PF04567_consen 1 WDDLLKEGVVEYIDAEEEETCMIAMSPEDLESTNEDITHTYTHCEIHP 48 (48)
T ss_dssp HHHHHHTTSEEEEETTTCTT--EESSCCCCCHSGGCCSST-SEEES-G
T ss_pred ChhHhhCCCEEEecchhccccEEEEecccccccCCCCCCccEEEeEeC
Confidence 789999999999999999999999998665 34699999998
No 25
>COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
Probab=97.72 E-value=2.4e-05 Score=99.63 Aligned_cols=75 Identities=23% Similarity=0.368 Sum_probs=62.2
Q ss_pred cceeeeecCccccccccccccCCCCCCCCccccccccccCCccceeeeeccccccceeeecCCCcceeeeceeeeecCCC
Q 001092 661 DTTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAMGKQAMGNIAFNQLCRMDSLLYLLVYPQRPLLTTRTIELVGYDK 740 (1159)
Q Consensus 661 ~~th~Ei~p~~ilsv~aslIPF~~hNqspRn~yq~~M~KQa~g~~~~n~~~R~D~~~y~l~ypQ~Plv~t~~~~~~~~~~ 740 (1159)
..++|+++|.++.|+.+++|||.+|++++|++|+++|+|||+| |..+..|+|.|+ ++...-.|
T Consensus 525 ~~~~~dv~~~~~~~~~~~~~P~l~~dd~~~~l~~~~mqr~~~~----------------l~~~~~~lv~tG-~E~~~a~e 587 (1060)
T COG0085 525 GVDYMDVSPKQVVSVGRSLIPFLEHDDANRALMGSNMQRQAVP----------------LLRTEAPLVGTG-MEYLDAED 587 (1060)
T ss_pred cccceeccceEEeccccccCceeEEcCchHhhhhhhhhhhccc----------------ccccccccccCC-ceeecccc
Confidence 3678999999999999999999999999999999999999999 567899999999 77664221
Q ss_pred CCCCcceEEEEEecC
Q 001092 741 LGAGQNATVAVMSYS 755 (1159)
Q Consensus 741 ~p~G~N~iVAv~~~~ 755 (1159)
=-|++||.-++.
T Consensus 588 ---~~~~~ia~~~~~ 599 (1060)
T COG0085 588 ---SGAAVIAKRPGV 599 (1060)
T ss_pred ---ccceeEeccCCc
Confidence 235666665543
No 26
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=97.51 E-value=0.00012 Score=62.65 Aligned_cols=49 Identities=18% Similarity=0.266 Sum_probs=41.2
Q ss_pred EEeec--ChhhHHHHHHHHhhcC--CCCceeEEEec-----ccCceEEEecCCCeeee
Q 001092 554 LGKHR--RPKCFADVMRKLRRAG--KIGEFVSVFVN-----EKQRCVYIASDGGRVCR 602 (1159)
Q Consensus 554 iG~~~--~~~~~~~~lr~~Rr~~--~i~~~vsi~~~-----~~~~~i~I~td~GRl~R 602 (1159)
||+++ ..+.+++.||.+|..| .+|.+++|.+. ..+|++||||+++|++|
T Consensus 1 iG~~~~~~a~~~~~~LR~~Kv~~~~~vP~~lEI~~VP~~~~g~yPGLyLft~~aRm~R 58 (58)
T PF06883_consen 1 IGYVSPEEAEQIADQLRYLKVEGEHGVPPTLEIGYVPPSKGGQYPGLYLFTTPARMMR 58 (58)
T ss_pred CceecHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEECCCCCCCCeEEEeCCcccccC
Confidence 46665 5689999999999888 68898898664 35799999999999998
No 27
>PHA03394 lef-8 DNA-directed RNA polymerase subunit beta-like protein; Provisional
Probab=95.25 E-value=0.049 Score=67.51 Aligned_cols=123 Identities=21% Similarity=0.262 Sum_probs=79.4
Q ss_pred cEEEEEEEeeecCCCcccccccccCCccEEEeeeccCCCC-C-CCCCCCCcEEeCCCCCCCCccHHHHHHHhcccccccC
Q 001092 895 DLCIKFLIRHTRRPELGDKFSSRHGQKGVCGTIVQQEDFP-F-SERGICPDLIMNPHGFPSRMTVGKMIELLGGKAGVSC 972 (1159)
Q Consensus 895 ~~~vkv~~r~~R~p~iGDKf~sRhGqKGvvs~i~~~eDmP-f-~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~ 972 (1159)
...+|+++-..=.=-.|=|.||=||||||+. ..||+- | .|||+.|-|.++|.+|-||.|. ++-+--|-....
T Consensus 695 ~v~lKl~~Vtst~dLeGlKICgIHGQKGVln---~seDLtew~aeDg~~aQIclSPiSyLsRQtn---f~~~~~Ky~v~g 768 (865)
T PHA03394 695 TVYLKIRLVTSTSDLEGLKICGIHGQKGVLN---GSEDLTEWMAEDGTHAQICLSPISYLSRQTN---FDDIERKYVVRG 768 (865)
T ss_pred EEEEEEEEEEEecCcceeEEeeecccccccC---CcchhhhhhccCCCcceEEechHHhhccccc---cccCceEEEEEC
Confidence 4566766555555567999999999999986 356664 2 4789999999999999999986 333444555554
Q ss_pred Cceeee---------eeccCCCCCCCcHHHHHHHHHHcCCCCCCceEEEeCCCCceeeeeEeEee
Q 001092 973 GRFHYG---------SAFGEPSGHADTVESISETLVKHGFSYNGKDMIYSGITGCPLQAYIFMGP 1028 (1159)
Q Consensus 973 g~~~~~---------t~F~~~~~~~~~~~~~~~~l~~~g~~~~G~e~ly~G~tG~~~~~~if~G~ 1028 (1159)
|.+.|. +|+... ..+.+++.++.. |-++.|-|.+=--|.-.+--...|+|-
T Consensus 769 g~~~~~~~~rypi~~IPYm~F---nnTPDnI~kEf~--~~n~TG~EKvEGTRlDqwTINqsF~gN 828 (865)
T PHA03394 769 GDHSDPNAKRYPIFNIPYMLF---NNTPDNIYKEFI--KKNYTGHEKVEGTRLDQWTINQSFVGN 828 (865)
T ss_pred CCcCCCCCcccceEecceehh---cCCchHHHHHHh--ccCCcceeecceeeccceeEcceeccc
Confidence 544332 455432 355666666653 345677776543333333334556654
No 28
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=52.10 E-value=9.2 Score=38.38 Aligned_cols=28 Identities=21% Similarity=0.455 Sum_probs=22.2
Q ss_pred ceeccccccceeecccccceecccccCCCc
Q 001092 1099 VQVCRVCGLLGYYNHKLKAGICSTCKNGDN 1128 (1159)
Q Consensus 1099 ~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~ 1128 (1159)
+.-|+.||..++. +++..+|+.|.....
T Consensus 28 ~~hCp~Cg~PLF~--KdG~v~CPvC~~~~~ 55 (131)
T COG1645 28 AKHCPKCGTPLFR--KDGEVFCPVCGYREV 55 (131)
T ss_pred HhhCcccCCccee--eCCeEECCCCCceEE
Confidence 4459999999998 777789999985333
No 29
>PF04941 LEF-8: Late expression factor 8 (LEF-8); InterPro: IPR007025 Late expression factor 8 (LEF-8) is one of the primary components of RNA polymerase produced by polyhedrosis viruses. LEF-8 shows homology to the second largest subunit of prokaryotic DNA-directed RNA polymerase[].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=42.17 E-value=37 Score=42.82 Aligned_cols=35 Identities=17% Similarity=0.187 Sum_probs=28.8
Q ss_pred CCCCcccccCcEEcchhHHHHHHHHHHHHHHHHHH
Q 001092 357 AMDDKDYVGNKRLELSGQLVSLLFEDLFKTMISEV 391 (1159)
Q Consensus 357 ~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~~~i 391 (1159)
..=.+|+|+||=+--...|+...++..|+.+...+
T Consensus 209 i~Y~IDsLsNKiIYkh~yLl~l~y~~~L~~~~~~~ 243 (748)
T PF04941_consen 209 INYSIDSLSNKIIYKHSYLLELTYKPILKKYENLI 243 (748)
T ss_pred CCceecccccceeeCHHHHHHHHHHHHHHHHHHHH
Confidence 44589999999999999999999988777665544
No 30
>PF14251 DUF4346: Domain of unknown function (DUF4346)
Probab=38.93 E-value=15 Score=36.05 Aligned_cols=14 Identities=57% Similarity=0.890 Sum_probs=11.1
Q ss_pred CCCCCCCCcEEEEc
Q 001092 167 GECPLDPGGYFIIK 180 (1159)
Q Consensus 167 ~E~~~d~GGYFIIN 180 (1159)
.--..||+|||||.
T Consensus 10 R~i~LDp~GYfiI~ 23 (119)
T PF14251_consen 10 RFIDLDPAGYFIIY 23 (119)
T ss_pred CccccCCCccEEEE
Confidence 34467999999996
No 31
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=38.16 E-value=17 Score=32.39 Aligned_cols=47 Identities=19% Similarity=0.410 Sum_probs=27.5
Q ss_pred ceeccccccceeecccccceecccccCCCcccccccc------HhHHHHHHHHHh
Q 001092 1099 VQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLP------YACKLLIQELQS 1147 (1159)
Q Consensus 1099 ~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iP------y~~k~L~~EL~s 1147 (1159)
+.-| .||..+|.+....+.-| .|+..-+|.+..|= .-..-++++||.
T Consensus 3 ifrC-~Cgr~lya~e~~kTkkC-~CG~~l~vk~~rIl~~~~~~~eA~eiVrklQ~ 55 (68)
T PF09082_consen 3 IFRC-DCGRYLYAKEGAKTKKC-VCGKTLKVKERRILARAENAEEASEIVRKLQE 55 (68)
T ss_dssp EEEE-TTS--EEEETT-SEEEE-TTTEEEE--SSS-BS--SSHHHHHHHHHHHSS
T ss_pred EEEe-cCCCEEEecCCcceeEe-cCCCeeeeeeEEEEEecCCHHHHHHHHHHHHH
Confidence 4568 79999998777777789 99886666554442 233455566553
No 32
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=36.86 E-value=29 Score=28.27 Aligned_cols=27 Identities=19% Similarity=0.257 Sum_probs=18.9
Q ss_pred ceeccccccceeecccccceecccccC
Q 001092 1099 VQVCRVCGLLGYYNHKLKAGICSTCKN 1125 (1159)
Q Consensus 1099 ~~vC~~cg~~~~~~~~~~~~~C~~c~~ 1125 (1159)
.+.|.+||.............|+.|++
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~ 29 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGY 29 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCC
Confidence 467999998765543333456999975
No 33
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=36.01 E-value=18 Score=37.03 Aligned_cols=37 Identities=16% Similarity=0.456 Sum_probs=25.5
Q ss_pred CcccceeccccccceeecccccceecccccCCCcccccccc
Q 001092 1095 DPFEVQVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLP 1135 (1159)
Q Consensus 1095 D~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iP 1135 (1159)
-...+-.|.+||...+.. ..+|+.|.+..++..+.+|
T Consensus 25 ~kl~g~kC~~CG~v~~PP----r~~Cp~C~~~~~~E~vels 61 (140)
T COG1545 25 GKLLGTKCKKCGRVYFPP----RAYCPKCGSETELEWVELS 61 (140)
T ss_pred CcEEEEEcCCCCeEEcCC----cccCCCCCCCCceEEEEeC
Confidence 445667899999987652 3679999987554444443
No 34
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=32.72 E-value=24 Score=37.52 Aligned_cols=45 Identities=13% Similarity=0.168 Sum_probs=31.5
Q ss_pred cccHHHHHHhhccCCCcccceeccccccceee-cccccceecccccC
Q 001092 1080 YGASMLIFERLMVSSDPFEVQVCRVCGLLGYY-NHKLKAGICSTCKN 1125 (1159)
Q Consensus 1080 ~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~-~~~~~~~~C~~c~~ 1125 (1159)
|-...-|+++|-..++. ..++|++||..... ......+.|+.|+.
T Consensus 99 ~~~~~klk~~l~~e~~~-~~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg~ 144 (178)
T PRK06266 99 MEELKKLKEQLEEEENN-MFFFCPNCHIRFTFDEAMEYGFRCPQCGE 144 (178)
T ss_pred HHHHHHHHHHhhhccCC-CEEECCCCCcEEeHHHHhhcCCcCCCCCC
Confidence 45667789988777765 67899999976442 22233466999975
No 35
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=32.66 E-value=25 Score=29.08 Aligned_cols=25 Identities=20% Similarity=0.486 Sum_probs=16.5
Q ss_pred eccccccceeeccc-c-cceecccccC
Q 001092 1101 VCRVCGLLGYYNHK-L-KAGICSTCKN 1125 (1159)
Q Consensus 1101 vC~~cg~~~~~~~~-~-~~~~C~~c~~ 1125 (1159)
.|+.||.+++.... . ...+|+.|+-
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~ 28 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGY 28 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCC
Confidence 48888888876432 2 2456888875
No 36
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=32.32 E-value=20 Score=30.97 Aligned_cols=32 Identities=25% Similarity=0.464 Sum_probs=19.6
Q ss_pred CCcccceeccccccceeecccccceecccccC
Q 001092 1094 SDPFEVQVCRVCGLLGYYNHKLKAGICSTCKN 1125 (1159)
Q Consensus 1094 SD~~~~~vC~~cg~~~~~~~~~~~~~C~~c~~ 1125 (1159)
++.....+|..||..+....+...+.|+.|+.
T Consensus 2 ~~~~~~~~CtSCg~~i~~~~~~~~F~CPnCG~ 33 (59)
T PRK14890 2 SEMMEPPKCTSCGIEIAPREKAVKFLCPNCGE 33 (59)
T ss_pred cccccCccccCCCCcccCCCccCEeeCCCCCC
Confidence 34455667888887666433334455888754
No 37
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=32.28 E-value=22 Score=34.73 Aligned_cols=31 Identities=19% Similarity=0.357 Sum_probs=21.6
Q ss_pred cceeccccccceeecccccceecccccCCCcc
Q 001092 1098 EVQVCRVCGLLGYYNHKLKAGICSTCKNGDNI 1129 (1159)
Q Consensus 1098 ~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~ 1129 (1159)
.-|+|..||...|-= .+.-.+|+.|+..-.+
T Consensus 8 tKR~Cp~CG~kFYDL-nk~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDL-NKDPIVCPKCGTEFPP 38 (108)
T ss_pred CcccCCCCcchhccC-CCCCccCCCCCCccCc
Confidence 457999999988852 2234569999874433
No 38
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=32.26 E-value=27 Score=37.22 Aligned_cols=35 Identities=20% Similarity=0.304 Sum_probs=26.4
Q ss_pred eeccccccceeecccccceecccccCCCccccccccHh
Q 001092 1100 QVCRVCGLLGYYNHKLKAGICSTCKNGDNISSMKLPYA 1137 (1159)
Q Consensus 1100 ~vC~~cg~~~~~~~~~~~~~C~~c~~~~~~~~v~iPy~ 1137 (1159)
-.|++||..+.. +.....|+.|.+ ....|+..||-
T Consensus 150 A~CsrC~~~L~~--~~~~l~Cp~Cg~-tEkRKia~~y~ 184 (188)
T COG1096 150 ARCSRCRAPLVK--KGNMLKCPNCGN-TEKRKIAKDYG 184 (188)
T ss_pred EEccCCCcceEE--cCcEEECCCCCC-EEeeeeccccc
Confidence 369999987765 334567999986 66778888873
No 39
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 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. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=32.18 E-value=29 Score=26.86 Aligned_cols=26 Identities=31% Similarity=0.626 Sum_probs=16.8
Q ss_pred eeccccccceeecccccc-eecccccC
Q 001092 1100 QVCRVCGLLGYYNHKLKA-GICSTCKN 1125 (1159)
Q Consensus 1100 ~vC~~cg~~~~~~~~~~~-~~C~~c~~ 1125 (1159)
.-|..||.+++....... ..|+.|.-
T Consensus 2 ~FCp~C~nlL~p~~~~~~~~~C~~C~Y 28 (35)
T PF02150_consen 2 RFCPECGNLLYPKEDKEKRVACRTCGY 28 (35)
T ss_dssp -BETTTTSBEEEEEETTTTEEESSSS-
T ss_pred eeCCCCCccceEcCCCccCcCCCCCCC
Confidence 359999999986333222 26999964
No 40
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=30.16 E-value=37 Score=27.30 Aligned_cols=24 Identities=25% Similarity=0.429 Sum_probs=18.4
Q ss_pred eeccccccceeecccccceeccccc
Q 001092 1100 QVCRVCGLLGYYNHKLKAGICSTCK 1124 (1159)
Q Consensus 1100 ~vC~~cg~~~~~~~~~~~~~C~~c~ 1124 (1159)
..|..||.++.. .+++..+|..|.
T Consensus 18 ~~Cp~C~~PL~~-~k~g~~~Cv~C~ 41 (41)
T PF06677_consen 18 EHCPDCGTPLMR-DKDGKIYCVSCG 41 (41)
T ss_pred CccCCCCCeeEE-ecCCCEECCCCC
Confidence 359999999887 455567899984
No 41
>PRK00420 hypothetical protein; Validated
Probab=30.00 E-value=31 Score=33.88 Aligned_cols=25 Identities=28% Similarity=0.488 Sum_probs=19.4
Q ss_pred eeccccccceeecccccceecccccC
Q 001092 1100 QVCRVCGLLGYYNHKLKAGICSTCKN 1125 (1159)
Q Consensus 1100 ~vC~~cg~~~~~~~~~~~~~C~~c~~ 1125 (1159)
..|+.||..++.. +.+..+|+.|+.
T Consensus 24 ~~CP~Cg~pLf~l-k~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFEL-KDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceec-CCCceECCCCCC
Confidence 4599999988762 455678999986
No 42
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=27.44 E-value=37 Score=24.19 Aligned_cols=23 Identities=22% Similarity=0.417 Sum_probs=14.0
Q ss_pred ccccccceeecccccceeccccc
Q 001092 1102 CRVCGLLGYYNHKLKAGICSTCK 1124 (1159)
Q Consensus 1102 C~~cg~~~~~~~~~~~~~C~~c~ 1124 (1159)
|..||..+........+.|+.|+
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCcccCceEeCCCCC
Confidence 67787766543333345588885
No 43
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=26.09 E-value=35 Score=34.14 Aligned_cols=29 Identities=10% Similarity=0.093 Sum_probs=21.0
Q ss_pred ccceeccccccceeecccccceecccccCC
Q 001092 1097 FEVQVCRVCGLLGYYNHKLKAGICSTCKNG 1126 (1159)
Q Consensus 1097 ~~~~vC~~cg~~~~~~~~~~~~~C~~c~~~ 1126 (1159)
-.-|+|.+||...|- ..+.-.+|+.|+..
T Consensus 7 GtKr~Cp~cg~kFYD-Lnk~p~vcP~cg~~ 35 (129)
T TIGR02300 7 GTKRICPNTGSKFYD-LNRRPAVSPYTGEQ 35 (129)
T ss_pred CccccCCCcCccccc-cCCCCccCCCcCCc
Confidence 355899999998875 22344569999864
No 44
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=25.96 E-value=54 Score=38.01 Aligned_cols=15 Identities=13% Similarity=-0.064 Sum_probs=9.6
Q ss_pred HHHHHHHHhhhcccC
Q 001092 288 QEKALEYLEGKVKRS 302 (1159)
Q Consensus 288 ~~~Al~yIg~r~r~~ 302 (1159)
+-|+-.-||+.||..
T Consensus 68 t~e~~ltLGnLfRsR 82 (389)
T COG2956 68 TFEAHLTLGNLFRSR 82 (389)
T ss_pred hhHHHHHHHHHHHhc
Confidence 445555677777765
No 45
>PF10385 RNA_pol_Rpb2_45: RNA polymerase beta subunit external 1 domain; InterPro: IPR019462 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared with three in eukaryotes (not including mitochondrial or chloroplast polymerases). This entry represents a domain in prokaryotic polymerases that spans the gap between domains 4 and 5 of the protein. It is also known as the external 1 region of the polymerase and is bound in association with the external 2 region []. ; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2GHO_C 1YNN_C 1I6V_C 1YNJ_C 1HQM_C 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C ....
Probab=25.84 E-value=73 Score=28.29 Aligned_cols=22 Identities=36% Similarity=0.448 Sum_probs=17.2
Q ss_pred ceeeeccccccceEEEeecCCC
Q 001092 637 LIEYLDVNEENNALIALYEGDA 658 (1159)
Q Consensus 637 ~iE~id~~E~~~~~Ia~~~~~~ 658 (1159)
.++|+.+.||+...||.....+
T Consensus 12 ~i~YLtA~eEe~~~IAqA~~~l 33 (66)
T PF10385_consen 12 EIEYLTADEEEKYVIAQANAPL 33 (66)
T ss_dssp EEEEEECTTCCCSEEE-TTS-B
T ss_pred eeEEEchhhcCCcEecccCeee
Confidence 4899999999999999765443
No 46
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=24.75 E-value=52 Score=27.32 Aligned_cols=16 Identities=25% Similarity=0.426 Sum_probs=14.4
Q ss_pred ccCCCceeCCCCEEEE
Q 001092 829 LAAPGEIIKPNDVYIN 844 (1159)
Q Consensus 829 i~~~g~~v~~gd~li~ 844 (1159)
.++.|+.|++||+|+-
T Consensus 17 ~V~~G~~VkkGd~L~~ 32 (50)
T PF13533_consen 17 YVKEGQQVKKGDVLLV 32 (50)
T ss_pred EecCCCEEcCCCEEEE
Confidence 5789999999999975
No 47
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=24.42 E-value=49 Score=25.38 Aligned_cols=26 Identities=31% Similarity=0.588 Sum_probs=17.3
Q ss_pred ceeccccccceeecccccceecccccCC
Q 001092 1099 VQVCRVCGLLGYYNHKLKAGICSTCKNG 1126 (1159)
Q Consensus 1099 ~~vC~~cg~~~~~~~~~~~~~C~~c~~~ 1126 (1159)
.++|..||-+.... ..-..|+.|+..
T Consensus 2 ~~~C~~CG~i~~g~--~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGE--EAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECC--cCCCcCcCCCCc
Confidence 58999999764331 112369999864
No 48
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=23.32 E-value=60 Score=27.99 Aligned_cols=25 Identities=24% Similarity=0.737 Sum_probs=18.3
Q ss_pred cceeccccccceeecccccceecccccCCCc
Q 001092 1098 EVQVCRVCGLLGYYNHKLKAGICSTCKNGDN 1128 (1159)
Q Consensus 1098 ~~~vC~~cg~~~~~~~~~~~~~C~~c~~~~~ 1128 (1159)
.+++|.+||..... ..|+.|+....
T Consensus 4 ~mr~C~~CgvYTLk------~~CP~CG~~t~ 28 (56)
T PRK13130 4 KIRKCPKCGVYTLK------EICPVCGGKTK 28 (56)
T ss_pred cceECCCCCCEEcc------ccCcCCCCCCC
Confidence 46789999975443 67999987543
No 49
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=22.44 E-value=57 Score=33.68 Aligned_cols=26 Identities=27% Similarity=0.551 Sum_probs=16.3
Q ss_pred eeccccccceeecccccceecccccC
Q 001092 1100 QVCRVCGLLGYYNHKLKAGICSTCKN 1125 (1159)
Q Consensus 1100 ~vC~~cg~~~~~~~~~~~~~C~~c~~ 1125 (1159)
.||.+||............-|+.|+.
T Consensus 113 l~C~~Cg~~~~~~~~~~l~~Cp~C~~ 138 (146)
T PF07295_consen 113 LVCENCGHEVELTHPERLPPCPKCGH 138 (146)
T ss_pred EecccCCCEEEecCCCcCCCCCCCCC
Confidence 47888887655444444455888864
No 50
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=21.76 E-value=70 Score=25.66 Aligned_cols=24 Identities=21% Similarity=0.616 Sum_probs=15.0
Q ss_pred eccccccce-eecccccceeccccc
Q 001092 1101 VCRVCGLLG-YYNHKLKAGICSTCK 1124 (1159)
Q Consensus 1101 vC~~cg~~~-~~~~~~~~~~C~~c~ 1124 (1159)
+|+.||+-. ..+..+...+|+.|+
T Consensus 2 ~Cp~Cg~~~~~~D~~~g~~vC~~CG 26 (43)
T PF08271_consen 2 KCPNCGSKEIVFDPERGELVCPNCG 26 (43)
T ss_dssp SBTTTSSSEEEEETTTTEEEETTT-
T ss_pred CCcCCcCCceEEcCCCCeEECCCCC
Confidence 588888753 334445556788885
No 51
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=21.00 E-value=40 Score=24.14 Aligned_cols=22 Identities=27% Similarity=0.554 Sum_probs=15.1
Q ss_pred eeccccccceeecccccceecccccC
Q 001092 1100 QVCRVCGLLGYYNHKLKAGICSTCKN 1125 (1159)
Q Consensus 1100 ~vC~~cg~~~~~~~~~~~~~C~~c~~ 1125 (1159)
..|.+||..... ...+|+.|+.
T Consensus 3 ~~Cp~Cg~~~~~----~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDP----DAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCc----ccccChhhCC
Confidence 469999974332 2467999975
No 52
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=20.95 E-value=58 Score=37.01 Aligned_cols=15 Identities=20% Similarity=0.186 Sum_probs=10.1
Q ss_pred HHHHHHHhhhccCCC
Q 001092 314 RAFSILRDVFLANVP 328 (1159)
Q Consensus 314 ~~~~~L~~~ll~Hl~ 328 (1159)
....+|++.++.=+|
T Consensus 158 IK~~LLDQ~vvaGvG 172 (273)
T COG0266 158 IKTALLDQKVVAGVG 172 (273)
T ss_pred hHHHhhcCCceeccc
Confidence 455677777776666
No 53
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=20.77 E-value=51 Score=34.40 Aligned_cols=45 Identities=11% Similarity=0.127 Sum_probs=30.0
Q ss_pred cccHHHHHHhhccCCCcccceeccccccceee-cccccceecccccC
Q 001092 1080 YGASMLIFERLMVSSDPFEVQVCRVCGLLGYY-NHKLKAGICSTCKN 1125 (1159)
Q Consensus 1080 ~Gas~~L~erl~~~SD~~~~~vC~~cg~~~~~-~~~~~~~~C~~c~~ 1125 (1159)
|....-|+++|-..++. ..++|++|+..... .+....+.|+.|+.
T Consensus 91 ~~~~~~lk~~l~~e~~~-~~Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~ 136 (158)
T TIGR00373 91 EETAKKLREKLEFETNN-MFFICPNMCVRFTFNEAMELNFTCPRCGA 136 (158)
T ss_pred HHHHHHHHHHHhhccCC-CeEECCCCCcEeeHHHHHHcCCcCCCCCC
Confidence 45667788888665553 57899999965432 22223466999975
No 54
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=20.35 E-value=64 Score=34.01 Aligned_cols=24 Identities=33% Similarity=0.661 Sum_probs=16.8
Q ss_pred ceeccccccceeecccccceecccccC
Q 001092 1099 VQVCRVCGLLGYYNHKLKAGICSTCKN 1125 (1159)
Q Consensus 1099 ~~vC~~cg~~~~~~~~~~~~~C~~c~~ 1125 (1159)
+|||..||-+..- ..-..||.|+.
T Consensus 134 ~~vC~vCGy~~~g---e~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHEG---EAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCcccC---CCCCcCCCCCC
Confidence 8999999976442 11245999974
Done!