Query 000996
Match_columns 1195
No_of_seqs 228 out of 1686
Neff 6.7
Searched_HMMs 29240
Date Mon Mar 25 05:30:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000996.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/000996hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3h0g_B DNA-directed RNA polyme 100.0 2E-303 7E-308 2844.2 48.5 1157 22-1183 11-1209(1210)
2 1twf_B DNA-directed RNA polyme 100.0 3E-295 1E-299 2803.3 83.6 1152 21-1183 23-1221(1224)
3 4ayb_B DNA-directed RNA polyme 100.0 2E-268 7E-273 2574.6 81.1 1109 19-1186 4-1124(1131)
4 2a6h_C DNA-directed RNA polyme 100.0 2E-226 7E-231 2119.4 44.6 939 26-1184 3-1107(1119)
5 3lu0_C DNA-directed RNA polyme 100.0 6E-214 2E-218 1977.9 37.6 938 26-1179 12-1340(1342)
6 3mlq_A DNA-directed RNA polyme 100.0 6.3E-30 2.2E-34 266.2 11.8 123 40-215 2-134 (188)
7 3qqc_A DNA-directed RNA polyme 99.2 1.4E-11 4.8E-16 144.6 6.6 63 1120-1182 2-64 (436)
8 3tbi_B DNA-directed RNA polyme 99.2 1.5E-11 5.3E-16 129.4 6.2 96 819-921 2-108 (228)
9 3lti_A DNA-directed RNA polyme 98.8 2.2E-08 7.7E-13 110.5 13.0 71 208-295 4-77 (296)
10 3mlq_A DNA-directed RNA polyme 96.2 0.0016 5.6E-08 67.9 2.2 61 395-457 121-181 (188)
11 1gh9_A 8.3 kDa protein (gene M 69.9 1.7 5.8E-05 38.0 1.6 49 1121-1171 2-56 (71)
12 1yuz_A Nigerythrin; rubrythrin 47.9 9.2 0.00032 40.2 2.9 29 1119-1150 167-195 (202)
13 1vq8_Z 50S ribosomal protein L 39.7 13 0.00046 33.3 2.2 28 1122-1149 26-53 (83)
14 1dl6_A Transcription factor II 36.0 21 0.00071 29.8 2.7 34 1116-1149 4-38 (58)
15 1lko_A Rubrerythrin all-iron(I 33.0 22 0.00074 36.9 2.9 30 1119-1150 151-180 (191)
16 3pwf_A Rubrerythrin; non heme 32.9 25 0.00085 35.8 3.2 26 1122-1150 137-162 (170)
17 1pft_A TFIIB, PFTFIIBN; N-term 30.1 25 0.00084 28.1 2.1 27 1123-1149 5-32 (50)
18 3cc2_Z 50S ribosomal protein L 25.3 32 0.0011 32.7 2.2 29 1121-1149 58-86 (116)
19 3j21_i 50S ribosomal protein L 25.1 31 0.001 31.0 1.9 29 1121-1149 33-61 (83)
20 3jyw_9 60S ribosomal protein L 25.0 31 0.0011 30.1 1.9 28 1122-1149 25-52 (72)
21 4a17_Y RPL37A, 60S ribosomal p 23.7 34 0.0012 31.8 2.0 29 1121-1149 34-62 (103)
22 3iz5_m 60S ribosomal protein L 23.0 33 0.0011 31.3 1.8 29 1121-1149 34-62 (92)
23 3izc_m 60S ribosomal protein R 21.1 36 0.0012 31.1 1.6 29 1121-1149 34-62 (92)
24 2kn9_A Rubredoxin; metalloprot 20.7 55 0.0019 29.2 2.7 29 1122-1150 26-69 (81)
25 2v3b_B Rubredoxin 2, rubredoxi 20.2 51 0.0018 27.2 2.2 29 1122-1150 2-45 (55)
No 1
>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=2e-303 Score=2844.20 Aligned_cols=1157 Identities=65% Similarity=1.095 Sum_probs=1050.9
Q ss_pred ccchhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEEEccCc
Q 000996 22 EITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSKPM 101 (1195)
Q Consensus 22 ~~~~~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~v~~P~ 101 (1195)
+++.+|+|.++++||+.+||++|||||||+|+++||++|+++++||+++.+.++.+.. ++....+.|+|++++|++|+
T Consensus 11 ~~~~ed~w~li~aff~~~gLV~qHIdSFN~FI~~~Lq~IV~~~~~I~~~~~~~~~~~~--~~~~~~~~l~f~~i~v~kP~ 88 (1210)
T 3h0g_B 11 TLTQEDCWTVISSFFEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTGAQ--GDVTRRYEINFGQIYLSRPT 88 (1210)
T ss_dssp CCCHHHHHHHHHHHHHHTCTTCSSSSSSSSSTTTTHHHHSSTTCCCC---------------------CEEEEEECCCCC
T ss_pred cCCHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhHHHHHhccCcEEecCccCccccc--ccCCceEEEEEEEEEEcCCc
Confidence 3788999999999999999999999999999999999999999999876543322211 12345789999999999999
Q ss_pred cccCCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCC------Ccc--cccceeeEEEEecccceeeccCCccCCC
Q 000996 102 MTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHD------GEE--VTETQDFTKVFIGKVPIMLRSSYCTLYQ 173 (1195)
Q Consensus 102 ~~e~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~------~~~--~~~~~~~~~v~lG~IPIMvkS~~C~L~~ 173 (1195)
+.+.++..++|||+|||+|++||+|||+|+|++.+++...+ ... ..+.....++.||+|||||||++|||++
T Consensus 89 ~~e~d~~~~~l~P~EcRlR~lTYsapl~Vdi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~IG~iPIMlrS~~C~L~g 168 (1210)
T 3h0g_B 89 MTEADGSTTTMFPQEARLRNLTYSSPLYVDMRKKVMVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNG 168 (1210)
T ss_dssp CBCTTSCBCCCCTTTTTTTCCCCEEEEEEEEEC---------------------CCSSCCCEEEEEEECCSSSTTSSSSS
T ss_pred eecCCCcccccCHHHHHhcCCccceeEEEEEEEEEcCccccccccccccccccccccccceEEEecCCEEeCCCcccCCC
Confidence 99988889999999999999999999999999988653210 000 0011234579999999999999999999
Q ss_pred CChhhhhhcCCCCCCCCceEEEcCeeeEEeeeeeeecceEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEecCC
Q 000996 174 NSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTS 253 (1195)
Q Consensus 174 ~s~~eli~~gE~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~ 253 (1195)
+||+||+++||||+||||||||||+|||||+||++|+|+++++++++++++.|.|+|||+++++++..++++++++.+..
T Consensus 169 ~s~~eL~~~gEcp~D~GGYFIING~EKVII~qerla~N~~iv~~~~~~~~~~~~a~irS~~~~~~~~~s~~~v~~~~~~~ 248 (1210)
T 3h0g_B 169 VSDSELYDLNECPYDQGGYFIINGSEKVIIAQERSAANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQIKLMARNT 248 (1210)
T ss_dssp CCHHHHHHTTCCTTCCCCCBCGGGSCBCCCBCBCCCCSCCCCCCCCCSSSCCCCCCCCCCCCSSSCCCCCCCCCCCCCCT
T ss_pred CCHHHHHhcCCCCCCCCCEEEEeCEEEEEEechhhccceEEEEeecCCCCceEEEEEEEEecCCccceeEEEEEEEeccc
Confidence 99999999999999999999999999999999999999999988887788899999999999887766666666654321
Q ss_pred CCCCCCCcEEEEEeccccccchHHHHHHHhcCCChHHHHHHhcccccchHHHHHhHhhHhhhhccCCHHHHHHHHhhcCc
Q 000996 254 AKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYIGKRGA 333 (1195)
Q Consensus 254 ~k~~~~~~~i~v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~~~~l~~sl~e~~~i~t~~~al~yig~r~~ 333 (1195)
. ..++.+++++++++.+||+++||||||.+||+||++.|+++..|+++.++|+.+++++..++||++||+|||+||+
T Consensus 249 ~---~~~~~i~~~~~~~~~~IPi~ivlkALg~~sD~EI~~~I~~~~~d~~~~~~l~~slee~~~i~tq~~aL~yIG~r~~ 325 (1210)
T 3h0g_B 249 E---NSGQTIRATLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMKPCIEEAFVIQDKDIALDYIGKRGS 325 (1210)
T ss_dssp T---SCSCCCCCCCTTSCSCCCSHHHHTTTTCCSTTHHHHHHCCSSCCHHHHHTHHHHHHTTSSCCSSHHHHHTTCCCSS
T ss_pred c---CCCceEEEEEeccccCCcHHHHHHHcCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHhhhcCCHHHHHHHHHHhcc
Confidence 0 1146799999999999999999999999999999999998888889999999999998888999999999999998
Q ss_pred ccCCCchhhHHHHHHHHHhcccCCCCCCCCcchhHHHHHHHHHHHHHHhhcCCCCCCCCCccccceecccchhHHHHHHH
Q 000996 334 TVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRM 413 (1195)
Q Consensus 334 ~~~~~~~~~~e~~~~~L~~~llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~ 413 (1195)
....++.+++++|+++|++++||||+....++.+||+||+||+||||+++.|.+.+||+|||+||||+++|+||+.+||+
T Consensus 326 ~~~~~~~~~~~~a~~iL~~~lLpHl~~~~~~~~~Ka~fL~~MvrkLl~~~~G~~~~Dd~D~~~nkrl~l~G~Ll~~lfr~ 405 (1210)
T 3h0g_B 326 TTGVTREKRLRYAHDILQKELLPHITTMEGFETRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRM 405 (1210)
T ss_dssp SCCCCHHHHHHHHHHHHTTTSSCSSCCSSSCCSSHHHHHHHHHHHHHHHHTTSSCCCCTTCSSSCCBCCHHHHHHHHHHH
T ss_pred ccCCCchhHHHHHHHHHHhhEEeCcCCCccchhHHHHHHHHHHHHHHHHhCCCCCCCCCccccCeEEecHHHHHHHHHHH
Confidence 65567778899999999999999999988778899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhhccCCCCchhhcccccccccccccccccccccccc-cccccccceeeccccChhhhhccccccC
Q 000996 414 LFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHLRRLN 492 (1195)
Q Consensus 414 ~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~-~~~~~sG~sq~l~r~N~ls~lSh~Rrv~ 492 (1195)
.|+++++.+++.+++.+++.+.+++..+++++.||++|+||||||||+..+ +.++++||||+|+|+||+|+||||||++
T Consensus 406 ~~~~~~~~i~~~l~k~~~~~~~~~~~~~i~~~~It~~l~~~laTGNW~~~kk~~~~~sGvsqvl~R~n~~s~lShlRrv~ 485 (1210)
T 3h0g_B 406 LFRKMTRDVYKYMQKCVETNREFNLTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFASTLSHLRRTN 485 (1210)
T ss_dssp HHHHHHHHHHHHHHHHHTTCCSCCCTTSSCSTTTSHHHHHHHSSSCSSTTSSCCSCCCCSCCBCCCSSHHHHHHHTTBBC
T ss_pred HHHHHHHHHHHHHHHHhhcCCccCHHHhcchhhhHHHHHHHhhcCCcccccccccCcCCEEEEcccCCHHHHHHHHHhcc
Confidence 999999999999999888878888989999999999999999999999766 7789999999999999999999999999
Q ss_pred CCCCcCCCccccccccCCCcccccccCCCCCcccchhhcccccEEEccCCCchhHHHHHHHhCCccccccCCCCCCCceE
Q 000996 493 SPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATK 572 (1195)
Q Consensus 493 ~~~~~~~k~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~It~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~ 572 (1195)
+|+++++|+++||+||||||||+||+|||||++||||||||++|+||++.+.+||.++|.++||++++++.+...++.++
T Consensus 486 ~p~~~~~K~~~~R~Lhpt~WG~iCP~eTPEG~~cGLvknLal~~~Isvg~~~~pI~~~l~~~gme~le~~~~~~~~~~tk 565 (1210)
T 3h0g_B 486 TPIGRDGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPSAPIIEFLEEWGLETLEDYNPSASPNATK 565 (1210)
T ss_dssp CSCCSSCCSSSSSSCCGGGTTTCCCSCCCSSSSTTTSCBCCSSCCBCCCCCSSHHHHHHHSSSCCCCSCCCSSSSSSSCC
T ss_pred CchhhccccccccccChhhheeeccccCCCCCcccccccccceeeeECCCCcHHHHHHHHHhCCcchhhcCcccCCCceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999988888888999
Q ss_pred EEECCEEEEEEcChHHHHHHHHhhhccCCCCcceEEEEeccCCeEEEEeCCCceeeeEEEEecc-------cchhhHHHH
Q 000996 573 IFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQ-------RLLIKKRDI 645 (1195)
Q Consensus 573 V~lnG~~iG~~~~~~~~~~~lr~~rr~~~i~~~~~i~~~~~~~~i~I~td~GRl~RPl~~v~~~-------~~~~~~~~~ 645 (1195)
|||||+|||+|.+|..|++.||.|||+|.|+.+|||+++...++++||||+||+|||||+|+|+ ++.++++|+
T Consensus 566 VfvNG~wVGvh~dp~~Lv~~lR~lRR~g~Is~eVSIvrdir~rE~~IfTDaGRv~RPLfvVen~~~~~~~g~L~l~k~hi 645 (1210)
T 3h0g_B 566 VFVNGVWLGVHRDPAHLTETLRSLRRRLDISAEVSIVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHI 645 (1210)
T ss_dssp CCSTTCCCCCCSCHHHHHHHHHHHHTTTSSCTTCCCCCCTTTCCCCCCCSSCCBCCEEEECCCSSCSSSSCCCSSCHHHH
T ss_pred EEECCEEEEEeCCHHHHHHHHHHHhhcCCCCCceEEEecCCCCeEEEecCCCcccceEEEEccCCcccccccccccHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999986 899999999
Q ss_pred HHhhcCCCC------CCCCccccccCCeEEEecccccccceeecccchhhcccCC-----------C----C---ccCCC
Q 000996 646 IALQQRESP------EDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLH-----------P----E---EAYAD 701 (1195)
Q Consensus 646 ~~l~~~~~~------~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~-----------~----~---~~~~~ 701 (1195)
++|+.++.. ...+|++|+++|+||||||+||++++|||+++|+...+.. + + .....
T Consensus 646 ~~L~~~~~~~~~~~~~~~~w~~Lv~~GvIEylDaeEEet~mIamtpeDL~~~r~~~~g~~~~~~~d~~~r~k~~~~~~~~ 725 (1210)
T 3h0g_B 646 QQLIEDKDRYDIDPEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKPAPNPHVH 725 (1210)
T ss_dssp HHHHHHHTCCCSCTTCCCSSTTTTTTTSEEECCTTTGGGCCEESCHHHHHHHHHHTTCCCCCCSSCCSSCCCCCSCCSCC
T ss_pred HHHhcccccccccccccCCHHHHHhCCCEEEecHhhhhceeEEecHHHhhhhhhhhccccccccccchhhccccCCCccc
Confidence 999743100 0128999999999999999999999999999999652100 0 0 01135
Q ss_pred ceeeeecCCCccccccccccCCCCCCCCCccccccccccCcccccceeeEEEeeccceeeecCCCceeeccccccccccc
Q 000996 702 TYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ 781 (1195)
Q Consensus 702 ~~th~EI~P~~ilsv~AslIPF~~hNqSpRn~yqc~M~KQa~g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~~~~~ 781 (1195)
.||||||||++|||||||+||||||||||||||||||+|||||++++|++.|+||++|+|+|||+|||+|++++++++++
T Consensus 726 ~~THcEIhPsmILGIcASiIPFpdHNQSPRNtYQ~aMgKQamG~~~~n~~~R~Dt~~~~L~yPQkPlv~T~~~e~~~~~e 805 (1210)
T 3h0g_B 726 AWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRSMEYLKFRE 805 (1210)
T ss_dssp SCSEECSCGGGSSCSSSTTSSSSTTSCSHHHHHHHHHHTTCCSCCCTTTTTSCCSSEEEESSCBCCSSBCTTSTTTTCTT
T ss_pred ccccccccchhhhhheeecccCccccccchhhhhhhhhcccccccccccccccCccccEeecCcCccccchhHHHhCCCc
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceEEEEEEecCCccCCCcEEEecceeecCceeEEEEEEEEechhccCCcccccccCCCCCCCCCCCCCCcCCCCCC
Q 000996 782 LPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDD 861 (1195)
Q Consensus 782 ~~~G~N~~VAv~s~~Gyn~EDaiiink~s~~rG~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~Ld~d 861 (1195)
+|+|+||+||||||+||||||||||||+|+|||||||+||++|++++++.+.+..+.|++|+.....+++.+.|++||+|
T Consensus 806 lp~G~NaiVAvmsy~GYn~EDAiIink~sv~rg~~~s~~~~~y~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~LD~d 885 (1210)
T 3h0g_B 806 LPAGQNAIVAILCYSGYNQEDSIIMNQASIDRGLFRSIFYRTYTDQEKKIGMTVMEEFERPVRSTTLRMKHGTYDKLEDD 885 (1210)
T ss_dssp SCSCCEECBEECCCSSSSCSSCEEEEHHHHTTTTTCEEEEEEEEECCCCCSSSCCCCCCCCCTTSCCSCCSCCGGGCCTT
T ss_pred ccCccceEEEEeccCCCChhhheeeehhheecCceEEEEEEEEEEEeeecCCCceeEEcCCCcchhcccchhhHhhcCCC
Confidence 99999999999999999999999999999999999999999999999887666678999998766666777789999999
Q ss_pred CCcCCCcEECCCCEEEEEeCCCCcc--ccccccCCCccceeeEEeecCCCcEEEEEEEEecCCCcEEEEEEEeeecCCCC
Q 000996 862 GLAPPGTRVSGEDVIIGKTTPISQD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQI 939 (1195)
Q Consensus 862 Gi~~~G~~v~~gdvli~k~~~~~~~--~~~~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~~~~~v~v~~~~~R~~~i 939 (1195)
|||.||++|++|||||||++|+..+ +++...+....+|+|++++++|.|+||+|.++++++|.+.|||++|+.|+|++
T Consensus 886 Gi~~~G~~v~~gDiligK~~p~~~~~~~~~~~~~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkv~~~~~R~~~~ 965 (1210)
T 3h0g_B 886 GLIAPGTRVSGEDIIIGKTAPIPLDHEELGQRTQLHAKRDVSTPLRSTESGIVDQVMVTTNQEGLKFVKVRMRSTRIPQI 965 (1210)
T ss_dssp SSCCTTCCCCTTCCCCCCCCCC-----------CCCCCCCCCCCCCTTCCCCCCEEEEEECSSSSEEEEEEECCCBCCCT
T ss_pred CCcCCCCEecCCCEEEEEecCCCCCchhhcccccccccceeeEEecCCCCeEEEEEEEEEecCCCeEEEEEEEEecCCCc
Confidence 9999999999999999999998642 23333345568999999999999999999999999999999999999999999
Q ss_pred cccccccCCCceeEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCchhhHHHHhhhHHhhhcCCCcccCCCCCccHHHHH
Q 000996 940 GDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNIS 1019 (1195)
Q Consensus 940 GDKf~sRHGqKGvvs~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~tpF~~~~~~~~~ 1019 (1195)
|||||||||||||||+|||+|||||++||++|||||||||||||||||||+|+++|||+++.|.+.|+|||++.++++++
T Consensus 966 GDK~a~RhGqKGvi~~i~~~edmPf~~~G~~pDii~NP~~~PSRMtigq~~E~~~g~~~~~~g~~~~~tpF~~~~~~~~~ 1045 (1210)
T 3h0g_B 966 GDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHLVECQLSKVSALSGFEGDATPFTDVTVEAVS 1045 (1210)
T ss_dssp TCEEECTTCCCEEEEEEECTTTSCCBTTTBCCSEECCGGGSTTSCCHHHHHHHHHHHHSSSSCCCCBCCSSCSCCHHHHH
T ss_pred hhhhhcccCCCceeeEEeccccCCcCCCCCCCeEEECCCcCCCCccchhhhHhHHHHHHHhcCCceeeccCCCCcHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCCCCeEEEeeCCCCceeeeeEeEeeeehhccccccCcccEEeccCCccccccCCCCcccCCCccccchhhhh
Q 000996 1020 KALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERD 1099 (1195)
Q Consensus 1020 ~~l~~~g~~~~G~~~l~~G~tG~~~~~~if~G~~yy~rL~Hmv~dK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd 1099 (1195)
+.|+++||+++|+++||||+||++|+++||+|++|||||+|||+||+|||++|||+.|||||++||+|+|||||||||||
T Consensus 1046 ~~l~~~g~~~~G~~~l~~g~tg~~~~~~i~~G~~yy~kL~Hmv~dK~h~r~~gp~~~~t~QP~~gr~~~GG~r~GEME~~ 1125 (1210)
T 3h0g_B 1046 KLLRSHGFQSRGFEVMYHGHTGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEMERD 1125 (1210)
T ss_dssp HHHHTTTSCTTSCBCCBCSSSCCBCSSCBEECCEECEECSCCSTTTCEECSSCCBCSSSCSBCCSSTTCCCCCCCHHHHH
T ss_pred HHHHHcCcCCCCCEEEEcCCCCCCccccEEEEehHhhcchhhcccCcEEeccCCCchhccCCcccccccCCeeeehhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccHHHHHHhhhcCCCceeeeeccccCcceeeccccCceeeccCCCCCCceeecchHhhHHHHHHHHhCCCceEEE
Q 000996 1100 CMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRML 1179 (1195)
Q Consensus 1100 ~l~a~Gas~~l~Erl~~~SD~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~i~~~l~ 1179 (1195)
||+|||||++|||||+.+||++.++||+.||++++.+...+.++|+.|+++.++.++.||||||||+|||+||||.+||.
T Consensus 1126 ~l~a~Gaa~~l~e~l~~~SD~~~~~vC~~cg~~~~~~~~~~~~~c~~c~~~~~i~~~~~p~~~k~l~~El~~~~i~~rl~ 1205 (1210)
T 3h0g_B 1126 CQISHGCSSVLRERLFDCSDAYRVIVCDICGLIAIASYKKDSYECRSCQNRTRFSQVYLPYAAKLLFQELMSMNIAPRLF 1205 (1210)
T ss_dssp HHHHHTBHHHHHHHHHTTTTCCEEEEESSSCCBCCCCSSSCCCCCTTTCCSSCEEEEECCHHHHHHHHHHHTTTCCEECC
T ss_pred hhhhccHHHHHHHHhhcCCCcceeEeecCCCCeeeecccCCceEcCccCCCCccceecCCHHHHHHHHHHHhCCCceEEE
Confidence 99999999999999999999999999999999998777777899999999999999999999999999999999999999
Q ss_pred eccC
Q 000996 1180 TKED 1183 (1195)
Q Consensus 1180 ~~~~ 1183 (1195)
++++
T Consensus 1206 ~~~~ 1209 (1210)
T 3h0g_B 1206 TKNH 1209 (1210)
T ss_dssp CSTT
T ss_pred ecCC
Confidence 8654
No 2
>1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B 1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B* 1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B* 1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ...
Probab=100.00 E-value=3.3e-295 Score=2803.32 Aligned_cols=1152 Identities=63% Similarity=1.066 Sum_probs=1004.2
Q ss_pred cccchhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEEEccC
Q 000996 21 EEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSKP 100 (1195)
Q Consensus 21 ~~~~~~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~v~~P 100 (1195)
+.++.+++|.++++||+.++|++|||+|||+|+++||++++++++||++..+.++.... .....++.|+|++++|++|
T Consensus 23 ~~~~~~d~w~li~~~~~~~~Lv~~qidSFn~Fi~~gL~~iv~~~~~I~~~~~~~~~~~~--~~~~~~~~l~f~~i~l~~P 100 (1224)
T 1twf_B 23 APITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTES--DNISRKYEISFGKIYVTKP 100 (1224)
T ss_dssp CCCCTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHTHHHHHHHTTCBCC--------------------CCEECCCEEEEE
T ss_pred CccCHHHHHHhHHHHHcCccHHHHHHHHHHHHHHHhHHHHHHhcCceeecCcccccccc--cccceEEEEEEEEEEEeCC
Confidence 44688999999999999999999999999999999999999999999864321111100 0112358899999999999
Q ss_pred ccccCCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCCC--cc----cccc--ee--eEEEEecccceeeccCCcc
Q 000996 101 MMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDG--EE----VTET--QD--FTKVFIGKVPIMLRSSYCT 170 (1195)
Q Consensus 101 ~~~e~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~--~~----~~~~--~~--~~~v~lG~IPIMvkS~~C~ 170 (1195)
++.+.++..++|+|+|||+|++||+|||+|+|++.+....... .. .+.+ .+ .++|+||+|||||||++||
T Consensus 101 ~~~e~~~~~~~l~P~EcRlR~lTYsapl~v~v~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~v~iG~iPIMlrS~~C~ 180 (1224)
T 1twf_B 101 MVNESDGVTHALYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCY 180 (1224)
T ss_dssp EECCSSSCCEECCHHHHHHTTCCCEEEEECCEECCCCC-------------------------CCEEEEEECCTTSTTSG
T ss_pred ceeccCCccccCCHHHHhhcCCccceeEEEEEEEEEEeCCcccccccccccccccccccccceeeEeCCCCeEeccCccc
Confidence 9998888889999999999999999999999955432111100 00 0001 22 4569999999999999999
Q ss_pred CCCCChhhhhhcCCCCCCCCceEEEcCeeeEEeeeeeeecceEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEe
Q 000996 171 LYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLS 250 (1195)
Q Consensus 171 L~~~s~~eli~~gE~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~ 250 (1195)
|+|++++||+++||||+|+||||||||+|||||+|+++|||++|++++++++++.|.+++||+.++++...+.+.+++..
T Consensus 181 L~~~s~~el~~~gEcp~D~GGYFIING~ERVIv~Qe~~s~N~i~~~~~~~~~~~~~~~~irsv~~~~~~~~~~~~l~~~~ 260 (1224)
T 1twf_B 181 LSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQVKLYG 260 (1224)
T ss_dssp GGTCCHHHHHHTTCCTTCCCCSEEETTEEEEECEEEEECSSCCEEEECCTTSSEEEEEEEECCCSSSCCCCCEEEEEEES
T ss_pred CCCCCHHHHHhhccCccCCCCEEEEeCcEEEEEEeeeccCCeEEEEeccCCCcceEEEEEEEEeccCCcceeEEEEEEec
Confidence 99999999999999999999999999999999999999999999988877778889999999888876555667777653
Q ss_pred cCCCCCCCCCcEEEEEeccccccchHHHHHHHhcCCChHHHHHHhcccccchHHHHHhHhhHhhhhccCCHHHHHHHHhh
Q 000996 251 RTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYIGK 330 (1195)
Q Consensus 251 ~~~~k~~~~~~~i~v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~~~~l~~sl~e~~~i~t~~~al~yig~ 330 (1195)
+.+. .++.+++++++++++||+++||||||++||+||++.|+++..|+.+.+++..+++++..+.|+++||.|||+
T Consensus 261 ~~~~----~~~~i~vr~~~~k~~IPi~illkALG~~sD~eI~~~i~~~~~d~~~~~~l~~~l~e~~~~~t~~~AL~yIg~ 336 (1224)
T 1twf_B 261 REGS----SARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGR 336 (1224)
T ss_dssp CSSC----SSCCEEEECTTCSSCEEHHHHHHHTTCCSHHHHHHHHCCCTTCHHHHHHHHHHHHHTTTCCSHHHHHHHHHH
T ss_pred cccC----CCCEEEEEEecccccccHHHHHHHhcCCCHHHHHHHhcccCCcHHHHHHHHHHHHHhhhcCCHHHHHHHHHH
Confidence 2110 046899999998889999999999999999999999998767788999999999987778899999999999
Q ss_pred c-CcccCCCchhhHHHHHHHHHhcccCCCCCCCCcchhHHHHHHHHHHHHHHhhcCCCCCCCCCccccceecccchhHHH
Q 000996 331 R-GATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGG 409 (1195)
Q Consensus 331 r-~~~~~~~~~~~~e~~~~~L~~~llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~ 409 (1195)
| ++. ..++..+++.|+++|+++||||+|....+...|++||++|++||+.+..|.+.+||+|||+||||+++|+||+.
T Consensus 337 r~~~~-g~~~~~~~~~a~~iL~~~~l~Hvg~~~~~~~~K~~~L~~mi~kLl~~~~g~~~~DD~DhlgnkRv~l~G~Ll~~ 415 (1224)
T 1twf_B 337 RGTAL-GIKKEKRIQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQ 415 (1224)
T ss_dssp TTSCT-TSCHHHHHHHHHHHHHHTSSTTTCCSSSCHHHHHHHHHHHHHHHHHHHTTSSCCCCTTCGGGEEEECHHHHHHH
T ss_pred hhccC-CCCCccHHHHHHHHHHhhcccccCCCccccccHHHHHHHHHHHHHHHhcCCCCCCCCccccccEEehhhHHHHH
Confidence 9 543 44567888999999999999999987655578999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccCCCCchhhcccccccccccccccccccccccc-cccccccceeeccccChhhhhccc
Q 000996 410 LFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHL 488 (1195)
Q Consensus 410 lfr~~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~-~~~~~sG~sq~l~r~N~ls~lSh~ 488 (1195)
|||+.|+++++.++++|++.+++.+.+++..+++++.||++|++|||||||+.++ +.++++||||+|||+||+|+||||
T Consensus 416 lfr~~~~r~~~~i~~~l~~~~~~~~~~~~~~~i~~~~It~~lk~~~aTGNw~~~k~~~~~~sGvSQvldr~n~ls~LSH~ 495 (1224)
T 1twf_B 416 LFKTLFKKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTLSHL 495 (1224)
T ss_dssp HHHHHHHHHHHHHHHHHHSCCC--------CCCCTHHHHHHHHHHHHHCCCC---------CCCEEECCCSSHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccchhhhhcccchhhcchhheeeccccccccccccccceeEeecccchhhhhhhh
Confidence 9999999999999999999877777889999999999999999999999999877 778999999999999999999999
Q ss_pred cccCCCCCcCCCccccccccCCCcccccccCCCCCcccchhhcccccEEEccCCCchhHHHHHHHhCCccccccCCCCCC
Q 000996 489 RRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIP 568 (1195)
Q Consensus 489 Rrv~~~~~~~~k~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~It~~~~~~~i~~~l~~~g~~~~~~~~~~~~~ 568 (1195)
||+|+|+++++|.++||+||||||||+||+|||||+|||||||||++|+|+++.+.+|+.++|.++||++++++.+..++
T Consensus 496 RRi~~~~~r~~k~~~~R~LHpshwG~iCPiETPEG~~cGLVknLAl~a~Is~g~~~~pi~~~l~~~G~~~l~e~~~~~~~ 575 (1224)
T 1twf_B 496 RRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSP 575 (1224)
T ss_dssp TEEECCC------CCTTSCCGGGTTTBCSSCCCSGGGBTTEEEBCTTCEECCCCCCHHHHHHHHHTTCEEGGGCCGGGCT
T ss_pred hcccccccccccccccccccCccceeecCCCCCCCcccchhhhHHhhCcccCCCCHHHHHHHHHHcCCcceeecccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999988877778
Q ss_pred CceEEEECCEEEEEEcChHHHHHHHHhhhccCCCCcceEEEEeccCCeEEEEeCCCceeeeEEEEecc------cchhhH
Q 000996 569 QATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQ------RLLIKK 642 (1195)
Q Consensus 569 ~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~i~~~~~i~~~~~~~~i~I~td~GRl~RPl~~v~~~------~~~~~~ 642 (1195)
+.++|||||+|||+|.+|..|+..||.|||.|.|+.++||+++...++++||||+||+||||++|+++ ++.+++
T Consensus 576 ~~~kVfvnG~~vG~~~~p~~lv~~lr~lRR~g~i~~evsiv~d~r~~ei~I~TD~GRv~RPl~vV~~~~~~~~~~l~l~k 655 (1224)
T 1twf_B 576 DATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRK 655 (1224)
T ss_dssp TCEEEEETTEEEEEESCHHHHHHHHHHHHHHTSSCTTCEEEEETTTTEEEEECCSCCEEEEEEEEECCCTTSSCEESCCH
T ss_pred CceEEEECCEEEEEeCCHHHHHHHHHHHHhccCCCCeEEEEEecccCeEEEeccCceeeeeEEEecCCCccccccceecH
Confidence 89999999999999999999999999999999999999999999999999999999999999999998 999999
Q ss_pred HHHHHhhcC-------------CCCCCCCccccccCCeEEEecccccccceeecccchhhcccCCC------------C-
Q 000996 643 RDIIALQQR-------------ESPEDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHP------------E- 696 (1195)
Q Consensus 643 ~~~~~l~~~-------------~~~~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~~------------~- 696 (1195)
+|+++|+.+ .+ +|++|+++|+||||||+||++++||++++++.+.+... +
T Consensus 656 ~hi~~L~~~~~~~~~~~~~~~~~~----~w~~Lv~~G~iEyldaeEEe~~~Ia~~~~dl~~~~~~~~~~~~~~~~~R~~~ 731 (1224)
T 1twf_B 656 GHIAKLMATEYQDIEGGFEDVEEY----TWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRV 731 (1224)
T ss_dssp HHHHHHHHHHHCC---------CC----CHHHHHHTTSEEEEEHHHHTTCCEESSGGGGCC---------CCCTTSCCCC
T ss_pred HHHHHhhhcccccccccccccccc----chhHhccCCcEEEcChhhhcCcEEeccccccCcccccccccccccccccccC
Confidence 999999644 14 89999999999999999999999999999997632100 0
Q ss_pred ccCCCceeeeecCCCccccccccccCCCCCCCCCccccccccccCcccccceeeEEEeeccceeeecCCCceeecccccc
Q 000996 697 EAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEH 776 (1195)
Q Consensus 697 ~~~~~~~th~EI~P~~ilsv~AslIPF~~hNqSpRn~yqc~M~KQa~g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~ 776 (1195)
......+|||||||++|||||||+||||||||||||||||||||||||++.+|+..|+|++.|+|+|||+|||+|+.++.
T Consensus 732 ~~~~~~~Th~EI~Ps~ILgV~ASlIPF~dHNqSpRn~yqs~M~kQA~g~~~~n~~~r~dt~~~~l~ypQkPlV~t~~~~~ 811 (1224)
T 1twf_B 732 SHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEY 811 (1224)
T ss_dssp CCCCSCCCEECSCGGGGSCTTGGGSSSGGGSCHHHHHHHHHHGGGBCBCSCTTTTTCCCSEEEEESSCBCCSEECTTHHH
T ss_pred CcCchhhcccccCCccccceeecccCCccccccchhhhcccccccccccccceeeeecccccceeecCcCCeEEcccccc
Confidence 00123689999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCceEEEEEEecCCccCCCcEEEecceeecCceeEEEEEEEEechhccCCcccccccCCCCCCCCCCCCCCcC
Q 000996 777 LHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYD 856 (1195)
Q Consensus 777 ~~~~~~~~G~N~~VAv~s~~Gyn~EDaiiink~s~~rG~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~ 856 (1195)
++++|+|+|+||+||||||+||||||||||||+|++||+|||+||++|++++++++.+..|.|++|+.....+++...|+
T Consensus 812 ~~~~elp~G~N~iVAvm~y~GYN~EDAiIin~~sv~rg~~~s~~~~~y~~~~~~~~~~~~e~~~~P~~~~~~~~~~~~~~ 891 (1224)
T 1twf_B 812 LKFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYD 891 (1224)
T ss_dssp HTTTTSCCCEEEEEEECBSSSTTTTTEEEEEHHHHHTTTTCEEEEEEEEECCCCSCTTCCCEESCCCCSSSCBCCSSCGG
T ss_pred cccccCCCCeeEEEEEecccCcccchhhhhhhhHHhcCCeeEEEEEEEEEEeeeCCCCceeEecCCChhhccCccHHHHh
Confidence 99999999999999999999999999999999999999999999999999988765455677999987555666777899
Q ss_pred CCCCCCCcCCCcEECCCCEEEEEeCCCCcc--ccccccCCCccceeeEEeecCCCcEEEEEEEEecCCCcEEEEEEEeee
Q 000996 857 KLDDDGLAPPGTRVSGEDVIIGKTTPISQD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSV 934 (1195)
Q Consensus 857 ~Ld~dGi~~~G~~v~~gdvli~k~~~~~~~--~~~~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~~~~~v~v~~~~~ 934 (1195)
+||+||||+||++|++|||||||++|+..+ ++....+....+|+|++++++|.|+||+|.++++.+|.+.|||++|+.
T Consensus 892 ~LD~dGiv~~G~~V~~gDilvgK~~p~~~~~~~~~~~~~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkV~ir~~ 971 (1224)
T 1twf_B 892 KLDDDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTT 971 (1224)
T ss_dssp GCCTTSBCCTTCEECTTCEEECEECCCC-------------CCBBCCEECCTTCCEEEEEEEEEECSSSCEEEEEEEEEE
T ss_pred hcccCCccCCccEecCCCEEEEEecCCCccccccccccccCccceeEEEeeCCCCeEEEEEEEEecCCCCEEEEEEEEec
Confidence 999999999999999999999999998742 233334456789999999999999999999999999999999999999
Q ss_pred cCCCCcccccccCCCceeEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCchhhHHHHhhhHHhhhcCCCcccCCCCCcc
Q 000996 935 RIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVT 1014 (1195)
Q Consensus 935 R~~~iGDKf~sRHGqKGvvs~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~tpF~~~~ 1014 (1195)
|+|+||||||||||||||||+|||+|||||++||++|||||||||||||||||||+|+++||||++.|.+.|+|||++.+
T Consensus 972 R~p~iGDKfasRHGqKGvis~i~p~eDMPf~~dG~~pDiIiNPhg~PSRMtiGqllE~~lgka~~~~G~~~datpF~~~~ 1051 (1224)
T 1twf_B 972 KIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFTDIT 1051 (1224)
T ss_dssp ECCCTTCEEECTTSCEEEEEEEECTTTSCEETTSCCCSEEECGGGSTTTTCHHHHHHHHHHHHHHHHCSCEECCSSSSCC
T ss_pred CCCCchhhhhhhccCcceeeeecccccCCcCCCCCCccEEeCCCcCccccccchhHHHHhhHHHHhcCceeecCCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHcCCCCCCeEEEeeCCCCceeeeeEeEeeeehhccccccCcccEEeccCCccccccCCCCcccCCCccccc
Q 000996 1015 VDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFG 1094 (1195)
Q Consensus 1015 ~~~~~~~l~~~g~~~~G~~~l~~G~tG~~~~~~if~G~~yy~rL~Hmv~dK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~G 1094 (1195)
++++++.|+++||+++|+|+||||+||++|+++||+||+|||||+|||+|||||||+|||+.|||||++||+|+||||||
T Consensus 1052 ~~~i~~~L~~~g~~~~G~e~ly~G~TG~~~~~~i~vG~~YyqkL~HmV~DKihaRs~GP~~~lT~QP~~Gr~r~GG~RfG 1131 (1224)
T 1twf_B 1052 VEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFG 1131 (1224)
T ss_dssp HHHHHHHHHTTTSCTTSEECEECTTTCCBCSSCEEEEEEEEEEBSSCGGGTCEEECCCC----------------CCCCC
T ss_pred HHHHHHHHHHcCCCCCCCEEeecCCCCCCccceEEEehhHhhcchhhcccCceEEeeCCCcccccCCCcccccCCceecc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhHHHhhccHHHHHHhhhcCCCceeeeeccccCcc-eeeccccCceeeccCCCCCCceeecchHhhHHHHHHHHhCC
Q 000996 1095 EMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLI-AIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMA 1173 (1195)
Q Consensus 1095 EMErd~l~a~Gas~~l~Erl~~~SD~~~~~vC~~cG~~-~~~~~~~~~~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~ 1173 (1195)
|||||||+|||||++|||||+.+||++.++||+.||++ ++.+..++.|+|+.|+++.++.++.||||||||+|||+|||
T Consensus 1132 EMErd~L~a~Gaa~~L~ErL~~~SD~~~~~vC~~cG~~~~~~~~~~~~~~c~~c~~~~~i~~~~iPysfklL~~EL~sm~ 1211 (1224)
T 1twf_B 1132 EMERDCMIAHGAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMN 1211 (1224)
T ss_dssp HHHHHHHHHHTCHHHHHHHHCCSSCCCEEEEESSSCSSCCEEETTTTEEEBTTTTBSSSEEEEECCHHHHHHHHHHHHTT
T ss_pred hhhhhhHHhccHHHHHHHHHhcCCccceeEeeccCCCeeeecccccCceECCcCCCCCccccccCCHhHHHHHHHHHHCC
Confidence 99999999999999999999999999999999999999 77777778899999998889999999999999999999999
Q ss_pred CceEEEeccC
Q 000996 1174 IAPRMLTKED 1183 (1195)
Q Consensus 1174 i~~~l~~~~~ 1183 (1195)
|++++.+++.
T Consensus 1212 i~~~l~~~~~ 1221 (1224)
T 1twf_B 1212 ITPRLYTDRS 1221 (1224)
T ss_dssp BCCEEESCSS
T ss_pred CeeEEEeccc
Confidence 9999998753
No 3
>4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B 2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B
Probab=100.00 E-value=1.9e-268 Score=2574.59 Aligned_cols=1109 Identities=44% Similarity=0.732 Sum_probs=1011.8
Q ss_pred cccccchhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEEEc
Q 000996 19 EEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLS 98 (1195)
Q Consensus 19 ~~~~~~~~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~v~ 98 (1195)
.+..++.+|+|.+|++||+.+||++|||||||||+++||++++++++||+.. ...+.|+|++++|+
T Consensus 4 ~~~~~~~~d~w~~i~~~f~~~gLV~~qidSfn~Fl~~gL~~i~~~~~pI~~~--------------~~~~~l~f~~~~l~ 69 (1131)
T 4ayb_B 4 LSSNLSIDERWKVIEAYFKSKGLVRQHLDSYNDFVRNKLQEIIDEQGEIPTE--------------IPGLKVRLGKIRIG 69 (1131)
T ss_dssp ---CCCHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHTTTHHHHHHHCSCCCS--------------STTCEEEEEEEEEC
T ss_pred ccccCChhHHHHHHHHHhCCCCCcHHHHHHHHHHHHhCHHHHHHhcCCeeec--------------CCCEEEEEEEEEEe
Confidence 3467899999999999999999999999999999999999999999999742 24588999999999
Q ss_pred cCccccCCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCCCcccccceeeEEEEecccceeeccCCccCCCCChhh
Q 000996 99 KPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKD 178 (1195)
Q Consensus 99 ~P~~~e~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~e 178 (1195)
+|++.+.++..+++||+|||+|++||+|||+|++.+..++. +.+.++|++|+|||||+|++|||++++++|
T Consensus 70 ~P~~~e~d~~~~~l~P~EcR~r~~TYsapl~v~v~~~~~~~---------~~~~~~v~lG~iPiM~~S~~C~L~~~s~~e 140 (1131)
T 4ayb_B 70 KPRVRESDRGEREISPMEARLRNLTYAAPLWLTMIPVENNI---------EAEPEEVYIGDLPIMLKSAIDPISQYTLDK 140 (1131)
T ss_dssp CSEEEETTTEEEECCHHHHHHHTCCCEEEEEEEEEEEETTE---------ECCCEEEEEEEEECCTTSTTSGGGGCCHHH
T ss_pred CCeeecCCCCcCccCHHHHHhcCCCccceEEEEEEEEECCc---------EEEEEEEEEEECCEEeCCCcccCCCCCHHH
Confidence 99999888888899999999999999999999998876543 235678999999999999999999999999
Q ss_pred hhhcCCCCCCCCceEEEcCeeeEEeeeeeeecceEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEecCCCCCCC
Q 000996 179 LTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGS 258 (1195)
Q Consensus 179 li~~gE~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~~k~~~ 258 (1195)
|++.||||+||||||||||+|||||+|+++|||++|+.+.+..++..|.|.++| .+++|.. .+.+++..
T Consensus 141 l~~~gEc~~D~GGyFIING~ERVIv~Q~~~spn~~~~~~~~~~~~~~~~a~ii~--~~~~~~~-~~~i~~~~-------- 209 (1131)
T 4ayb_B 141 LIEIGEDPKDPGGYFIVNGSERVIVTQEDLAPNRVLVDTGKTGSNITHTAKIIS--STAGYRV-PVTIERLK-------- 209 (1131)
T ss_dssp HHHHTCCTTCCCCCEEETTEEEEECEEEEECCSSCEEEECCTTCSEEEEEECEE--ECSSCEE-ECCEEEET--------
T ss_pred HHhcCCCcCCCCcEEEeCCEEEEEEEeeccCCCeEEEEeccCCCcEEEEEEEEE--CCCCcee-eEEEEEeC--------
Confidence 999999999999999999999999999999999999877666667778888865 5666721 23333321
Q ss_pred CCcEEEEEeccccccchHHHHHHHhcCCChHHHHHHhcccccchHHHHHhHhhHhhhhccCCHHHHHHHHhhcCcccCCC
Q 000996 259 SGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVT 338 (1195)
Q Consensus 259 ~~~~i~v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~~~~l~~sl~e~~~i~t~~~al~yig~r~~~~~~~ 338 (1195)
++.+++++++.+++||+++||||||+.||+||++.++. +.++.+.+..+++++..+.|+++||.||++|++. ...
T Consensus 210 -~~~~~v~~~~~~~~iPi~illrALG~~sD~eI~~~i~~---~~~~~~~l~~~~~~~~~i~~~~~al~~i~~r~~~-~~~ 284 (1131)
T 4ayb_B 210 -DGTFHVSFPAVPGKIPFVILMRALGILTDRDIVYAVSL---DPEIQNELFPSLEQASSIANVDDALDFIGSRVAI-GQK 284 (1131)
T ss_dssp -TTCCEECCSSSCCCEEHHHHHHHHTCCSHHHHHHHHCS---CHHHHTTTHHHHHHHTTTCCSSHHHHHHHHHHHC-SSC
T ss_pred -CCEEEEEEcCcCceeeHHHHHHHhCCcchhhHHHHhcc---cHHHHHHHHHHHHHhcccccHHHHHHHHhhhhhc-CCC
Confidence 46799999998889999999999999999999999964 3455566667777877889999999999999753 334
Q ss_pred chhhHHHHHHHHHhcccCCCCCCCCcchhHHHHHHHHHHHHHHhhcCCCCCCCCCccccceecccchhHHHHHHHHHHHH
Q 000996 339 RDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKL 418 (1195)
Q Consensus 339 ~~~~~e~~~~~L~~~llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~ 418 (1195)
.....+.|+++|++++|||++....++..|+.+|++|++||+.+..|.+.+||+|||+||||+++|+||++|||.+|+++
T Consensus 285 ~~~~~~~a~~il~~~~l~hl~~~~~~~~~K~~~L~~mi~~Ll~l~~g~~~~DD~Dhl~NkRvr~vGeLl~~~fr~~l~r~ 364 (1131)
T 4ayb_B 285 RENRIEKAQQIIDKYFLPHLGTSADDRRKKAYYLAYAISKVIELYLGRREPDDKDHYANKRLRLAGDLFASLFRVAFKAF 364 (1131)
T ss_dssp HHHHHHHHHHHHHTTSSTTSCSSTTSHHHHHHHHHHHHHHHHHHHHTSSCCCCTTSGGGEEEECHHHHHHHHHHHHHHHH
T ss_pred CchhHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHHHHcCCCCCCCCcchhcceecchhHHHHHHHHHHHHHH
Confidence 55667899999999999999998888889999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhccCCCCchhhcccccccccccccccccccccccccccccccceeeccccChhhhhccccccCCCCCcC
Q 000996 419 TRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGRE 498 (1195)
Q Consensus 419 ~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~~~~~~sG~sq~l~r~N~ls~lSh~Rrv~~~~~~~ 498 (1195)
++.+++++.+...+.+.+++..+++++.||++|++|||||||.. +++||||+|||+||+|+|||+||+|++++++
T Consensus 365 ~r~ir~~~~~~~~~~~~~~~~~li~~~~it~~i~~~~aTGn~~~-----~~sglSQ~mdq~NpLs~lsH~RRlsagl~re 439 (1131)
T 4ayb_B 365 VKDLTYQLEKSKVRGRKLALKALVRPDIVTERIRHALATGNWVG-----GRTGVSQLLDRTNWLSMLSHLRRVISSLARG 439 (1131)
T ss_dssp HHHHHHHHHHHSTTCSCCCHHHHCCTHHHHHHHHHHHHTTBCSS-----SCBCCEEECCCSSHHHHHHHHTEEEECSCSS
T ss_pred HHHhhhhcccchhcccccchhhhcCCchhhhhhHHHHhhccccc-----CCCceEEEeccCCHHHHHHhhhhhcCCcccc
Confidence 99999999987666667889999999999999999999999973 6899999999999999999999999999999
Q ss_pred CCccccccccCCCcccccccCCCCCcccchhhcccccEEEccCCCchhHHHHHHHhCCcccccc----CC-----CCCCC
Q 000996 499 GKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEI----SP-----AVIPQ 569 (1195)
Q Consensus 499 ~k~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~It~~~~~~~i~~~l~~~g~~~~~~~----~~-----~~~~~ 569 (1195)
+|.++||+|||||||||||||||||+|||||||||++|+|+.++++.++.+++.++|+.++++. .. .....
T Consensus 440 ra~~evRdlHpShyGriCPIETPEG~niGLI~sLA~~a~I~~g~~e~~i~~~l~~~g~~~~e~~~~~~~~~~~~~~~~~~ 519 (1131)
T 4ayb_B 440 QPNFEARDLHGTQWGRMCPFETPEGPNSGLVKNLALMAQIAVGINEKIVEKTLYEMGVVPVEEVIRRVTEGGEDQNEYLK 519 (1131)
T ss_dssp SCCHHHHSCCGGGTTTBCSSCCCSSTTBTTEEEBBSSCEECCCCCHHHHHHHHHHTTCEEHHHHHHTTTTC-----CCCC
T ss_pred cccccccccCHhhccccccccCCCCccccccccceeeEEEecCCCCcceeeehhhcCceeeeeeehhhcccccccchhhh
Confidence 9999999999999999999999999999999999999999999999999999999999876532 11 11224
Q ss_pred ceEEEECCEEEEEEcChHHHHHHHHhhhccCCCCcceEEEEec--cCCeEEEEeCCCceeeeEEEEecccchhhHHHHHH
Q 000996 570 ATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDI--RLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIA 647 (1195)
Q Consensus 570 ~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~i~~~~~i~~~~--~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~ 647 (1195)
..+||+||+|+|++.++..++..+|.+||.+.++.++||.+.. ..+++++++|+||++|||++++++++.+..++++.
T Consensus 520 ~~~v~lng~~vg~~~~~~~~~~~~~~~~~~~~i~~~vsi~~~~~~~~~~~~i~~d~~r~~rpv~~~~~~~p~v~~~~~~~ 599 (1131)
T 4ayb_B 520 WSKVILNGRLVGYYRDGEELAKKIRERRRKGEISDEVNVGHIVTDFINEVHVNCDSGRVRRPLIIVSNGNPLVTREDIEK 599 (1131)
T ss_dssp CCEEEETTEEEEECSCHHHHHHHHHHHHHHTSSCTTCEEEEECTTTCCEEEEECCTTCEEEEEEEBSSSSBSCCHHHHHH
T ss_pred hcceeecCceEEEeccchhhhhhhhhhhccCccCceEEEeeccccccceeeeecCCcccccceEEeecccccccHHHHHH
Confidence 5689999999999999999999999999999999999997764 34799999999999999999999999999999999
Q ss_pred hhcCCCCCCCCccccccCCeEEEecccccccceeecccchhhcccCCCCccCCCceeeeecCCCccccccccccCCCCCC
Q 000996 648 LQQRESPEDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHN 727 (1195)
Q Consensus 648 l~~~~~~~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~~~~~~~~~~th~EI~P~~ilsv~AslIPF~~hN 727 (1195)
+..+.. .|.++++.|.|||+|++|+++++||+.+.++.. .+||+||+|+.++|++|++|||++||
T Consensus 600 ~~~g~~----~~~~~~~~g~veyvd~~e~~~~~ia~~~~~~~~-----------~~th~ei~p~~il~v~a~lipf~~~N 664 (1131)
T 4ayb_B 600 LDSGSI----TFDDLVRQGKIEYLDAEEEENAYVALEPSDLTP-----------EHTHLEIWSPAILGITASIIPYPEHN 664 (1131)
T ss_dssp HHTTTC----CHHHHHHTTSEEEEEHHHHTTCCEESSGGGCCT-----------TCSEECSCGGGGSBTTGGGCSSGGGS
T ss_pred HhcCCh----hHHHHhhCCceeeeeccccceeEEEeecccccc-----------cccceeeccccccccccceecccccC
Confidence 988877 899999999999999999999999999988743 58999999999999999999999999
Q ss_pred CCCccccccccccCcccccceeeEEEeeccceeeecCCCceeecccccccccccCCCCceEEEEEEecCCccCCCcEEEe
Q 000996 728 QSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMN 807 (1195)
Q Consensus 728 qSpRn~yqc~M~KQa~g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~~~~~~~~G~N~~VAv~s~~Gyn~EDaiiin 807 (1195)
|||||+|||||+|||||++.+|++.|+|+++|+|+|||+|||+|+.++.++++++|+|+||+||||||+|||||||||||
T Consensus 665 qspRn~yq~~m~KQa~G~~~~~~~~r~D~~~~~l~ypQ~PlV~t~~~~~~~~~e~p~G~N~lVA~m~w~GYN~EDAIIin 744 (1131)
T 4ayb_B 665 QSPRNTYQSAMAKQALGLYAANYQLRTDTRAHLLHYPQRPLVQTRALDIIGYTNRPAGNNAILAVISFTGYNMEDSIIMN 744 (1131)
T ss_dssp CHHHHHHHHHHGGGBCSCCCGGGGTCCCSEEEEESSCCCCSSBCHHHHHHTCTTSCCSEEEEEEECCCSSCCCTTCEEEE
T ss_pred ccchheeccccccccCCceeecceeeeccccceeecCCccccccchhhhhccCCCCCceeEEEEEEccCCccHHHhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeecCceeEEEEEEEEechhccCCcccccccCCCCCCCCCCCCCCcCCCCCCCCcCCCcEECCCCEEEEEeCCCCccc
Q 000996 808 QSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDE 887 (1195)
Q Consensus 808 k~s~~rG~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~Ld~dGi~~~G~~v~~gdvli~k~~~~~~~~ 887 (1195)
|++++||+|||+||++|++++++++.+..|+|+.|.++.........|++||+||||++|++|++|||||||++|+...+
T Consensus 745 e~~v~rg~ftSihi~~y~~e~r~~~~g~~e~it~~~p~v~~~~~~~~~~~LDe~Gii~iGa~V~~gDilvGKvtP~~~~~ 824 (1131)
T 4ayb_B 745 RSSVERGMYRSTFFRLYSTEEVKYPGGQEDKIVMPEPGVRGYKGKEYYRLLEDNGVVSPEVEVKGGDVLIGKVSPPRFLQ 824 (1131)
T ss_dssp HHHHTTTTTCEEEEEEEEEECCCCTTSCCCCCCCCCSSCSSCCCGGGGTTCCTTSBCCTTCEECTTCEEECCCCCCC---
T ss_pred cchhhcccceeeEEEEEEEEEEecCCCCceEEecCCccccccchHHHhhcCCccccccCCcEecCCCEEEEEecCCcchh
Confidence 99999999999999999999988876666778766543221123345899999999999999999999999999976321
Q ss_pred -cccccCCCccceeeEEeecCCCcEEEEEEEEecCCCcEEEEEEEeeecCCCCcccccccCCCceeEEeeecCCCCCCCC
Q 000996 888 -AQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTV 966 (1195)
Q Consensus 888 -~~~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~~~~~v~v~~~~~R~~~iGDKf~sRHGqKGvvs~i~~~~dmPf~~ 966 (1195)
+..-......+|+|+++++++.|+||.|.++.+.+|.+.|||++|+.|+|+||||||||||||||||+|||+|||||++
T Consensus 825 ~~~~~~~~~~~~d~sl~~~~g~~g~Vd~v~~~~~~~~~~~vkV~i~~~R~~~vGDK~agRHGnKGvvs~i~p~eDMPf~~ 904 (1131)
T 4ayb_B 825 EFKELSPEQAKRDTSIVTRHGEMGIVDLVLITETAEGNKLVKVRVRDLRIPSIGDKFASRHGQKGVIGMLIPQVDMPYTV 904 (1131)
T ss_dssp --------CCCCCCCEECCTTCCEEEEEEEEEECSSSCEEEEEEEEEEECCCTTCEEEETTSCEEEEEEEECTTTSEEET
T ss_pred hhhhcCcceeeeeeeEEccCCCceEEEEEEEeeccCCceEEEEEEeccccCcccccccccccccceeeeecccccCCcCC
Confidence 1111112346899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcEEeCCCCCCCCCchhhHHHHhhhHHhhhcCCCcccCCCCCccHHHHHHHHHHcCCCCCCeEEEeeCCCCceeee
Q 000996 967 EGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTA 1046 (1195)
Q Consensus 967 ~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~tpF~~~~~~~~~~~l~~~g~~~~G~~~l~~G~tG~~~~~ 1046 (1195)
||++|||||||||||||||||||+|+++||||++.|.+.|+|||.+...+++++.|.++||+++|+++||||+||++|++
T Consensus 905 dG~~~DiilNP~gvPSRMniGqilE~~~gk~~~~~g~~~~atpf~~~~~e~~~~~l~~~g~~~~g~~~lydG~TGe~~~~ 984 (1131)
T 4ayb_B 905 KGVVPDVILNPHALPSRMTLGQIMEGIAGKYAALSGNIVDATPFYKTPIEQLQNEILKYGYLPDATEVTYDGRTGQKIKS 984 (1131)
T ss_dssp TSCCCSEECCTTSSTTTTCHHHHHHHHHHHHHHHHCCCCBCCTTSSCCTHHHHHHHHHTTSCTTSEECEEETTTCCBCSS
T ss_pred CCCCccEEECCCCCcccCcHHHHHHHHHHHHHHhCCCceecCccCCCcHHHHHHHHHHcCCCCCCCEEEeCCCCCCEecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEeEeeeehhccccccCcccEEeccCCccccccCCCCcccCCCccccchhhhhHHHhhccHHHHHHhhhcCCCceeeeec
Q 000996 1047 MIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVC 1126 (1195)
Q Consensus 1047 ~if~G~~yy~rL~Hmv~dK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~Erl~~~SD~~~~~vC 1126 (1195)
+||+|++|||||+|||+|||||||||||++|||||++||+|+|||||||||||||+|||||++||||||.+||++.++||
T Consensus 985 ~i~vG~~Yy~kL~HmV~DKihaRs~GP~s~~TqQPl~Gra~~GG~RfGEME~~aL~a~Gaa~~LqE~L~~~SD~~~~~vc 1064 (1131)
T 4ayb_B 985 RIYFGVVYYQKLHHMVADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGFGTAMLLKDRLLDNSDRTTIYVC 1064 (1131)
T ss_dssp CEEEEEEEEEEBSCCHHHHCEEESSCCBCTTTCCBCSSGGGTCCCEECHHHHHHHHHHTCHHHHHHHTTTTTCEEEEEEC
T ss_pred cEEEEhhhhhccchhhccCCEeeccCCCCCcccCCCCCcccCCCcceeHHHHHHHHHHhHHHHHHHHhhccCCccceeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCcceeeccccCceeeccCCCCCCceeecchHhhHHHHHHHHhCCCceEEEeccCCcc
Q 000996 1127 EHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKEDTKQ 1186 (1195)
Q Consensus 1127 ~~cG~~~~~~~~~~~~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~i~~~l~~~~~~~~ 1186 (1195)
+.||++++++...+.++|+.|+++.++.++.||||||||+|||+||||++||.+++....
T Consensus 1065 ~~cG~~~~~~~~~~~~~c~~~~~~~~i~~~~iP~sfk~L~~EL~sm~i~~~l~~~d~~~~ 1124 (1131)
T 4ayb_B 1065 DQCGYIGWYDKNKNKYVCPIHGDKSNLFPVTVSYAFKLLIQELMSMIISPRLILEDRVGL 1124 (1131)
T ss_dssp SSSCCBCEEETTTTEEECSSCSSSSCCEEEEEEHHHHHHHHHHHTTTCEEEEEEEESSCC
T ss_pred cCCCceEEEeccCCceeCCccCCCCCccccCCCHHHHHHHHHHHHCCcceEEEecccccc
Confidence 999999987766778899999999999999999999999999999999999999876655
No 4
>2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1 PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C* 2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C* 3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ...
Probab=100.00 E-value=2.1e-226 Score=2119.38 Aligned_cols=939 Identities=25% Similarity=0.392 Sum_probs=790.2
Q ss_pred hhhhhhhhcccCccchHHHHHHHHHHHH----------HhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEE
Q 000996 26 EDAWAVISAYFEEKGLVRQQLDSFDEFI----------QNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQI 95 (1195)
Q Consensus 26 ~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi----------~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v 95 (1195)
...|+.++.+|+.++|+++|++|||||| ++||++++++++||+... ..+..+.|+|.++
T Consensus 3 r~~~~~~~~~~~~p~Lv~~QidSFn~Fl~~~~~~~~~~~~GL~~i~~~~~pI~~~~-----------~~~~~~~l~f~~~ 71 (1119)
T 2a6h_C 3 IKRFGRIREVIPLPPLTEIQVESYRRALQADVPPEKRENVGIQAAFRETFPIEEED-----------KGKGGLVLDFLEY 71 (1119)
T ss_dssp EEECCCCCCCSCCCCTTHHHHHHHHHHSCTTSCTTSSCCCHHHHHHHHHCSEEECC-----------SSSCCEEEEECCC
T ss_pred ceecccccccccCcCHHHHHHHHHHHHHccCCccccchhhhHHHHHHhcCCEeccC-----------CCCCeEEEEEEEE
Confidence 3579999999999999999999999999 999999999999998521 1235689999999
Q ss_pred EEccCccccCCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCCCcccccceeeEEEEecccceeeccCCccCCCCC
Q 000996 96 YLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNS 175 (1195)
Q Consensus 96 ~v~~P~~~e~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s 175 (1195)
+|++|++ +|+|||+|++||+|||+|++++.+++.. +++.++|++|+|||||.
T Consensus 72 ~l~~P~~----------~p~Ecr~r~lTYsapL~V~v~l~~~~~~--------~ik~~~V~iG~iPiMt~---------- 123 (1119)
T 2a6h_C 72 RLGEPPF----------PQDECREKDLTYQAPLYARLQLIHKDTG--------LIKEDEVFLGHIPLMTE---------- 123 (1119)
T ss_dssp CBCCCSS----------CHHHHHHTTCCCEEEBCCCEEECCSSSC--------CEECCCCCCCEEECCCT----------
T ss_pred EEcCCCC----------CHHHHHhcCCcccceEEEEEEEEECCCc--------eeeeeEEEecCCCeECC----------
Confidence 9999976 7999999999999999999999764322 23456899999999995
Q ss_pred hhhhhhcCCCCCCCCceEEEcCeeeEEeeeeeeecceEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEecCCCC
Q 000996 176 EKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAK 255 (1195)
Q Consensus 176 ~~eli~~gE~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~~k 255 (1195)
||||||||+|||||+|+++|||++|.......++..|++.+ ++.+|+|....+ .
T Consensus 124 --------------gGyFIING~ERVIVsQ~~rspgv~~~~~~~~~g~~~ysa~i--i~~rgs~l~~~~----d------ 177 (1119)
T 2a6h_C 124 --------------DGSFIINGADRVIVSQIHRSPGVYFTPDPARPGRYIASIIP--LPKRGPWIDLEV----E------ 177 (1119)
T ss_dssp --------------TSCCCSSSSCEEECEEEEECSCEEEECCSSCSSCCEEEECC--CSSSSCCEEEEE----E------
T ss_pred --------------CcEEEEeCeEEEEEEEEecCCcEEEEeeccCCCceEEEEEE--EeccCceEEEEE----c------
Confidence 99999999999999999999998886543334556788877 568888843221 1
Q ss_pred CCCCCcEEEEEeccccccchHHHHHHHhcCCChHHHHHHhcccccchHHHHHhHhhHhhh-hccCCHHHHHHHHhhcCcc
Q 000996 256 GGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEA-FVIQNQQVALDYIGKRGAT 334 (1195)
Q Consensus 256 ~~~~~~~i~v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~~~~l~~sl~e~-~~i~t~~~al~yig~r~~~ 334 (1195)
.++.+|+++++ ++||+++||||||+ ||+||++.|+.+ +.+.+.+ .+. ..+.|+++||.||+++++.
T Consensus 178 ---~~~~i~vri~r--~kIPi~ilLrALG~-sD~eIl~~~~~~---~~~~~tl----~~d~~~~~~~~eAl~~i~~~lr~ 244 (1119)
T 2a6h_C 178 ---PNGVVSMKVNK--RKFPLVLLLRVLGY-DQETLARELGAY---GELVQGL----MDESVFAMRPEEALIRLFTLLRP 244 (1119)
T ss_dssp ---TTTEEEEESSS--SEECHHHHHHHHTC-CHHHHHHHHHSS---CTTHHHH----SSCHHHHTCHHHHHHHHHHHSSS
T ss_pred ---CCCEEEEEEeC--cceeHHHHHHHHCC-CHHHHHHHHccC---HHHHHHH----HhhhcccCCHHHHHHHHHHHhcC
Confidence 15689999998 79999999999999 999999999743 2333333 221 1256899999999999764
Q ss_pred cCCCchhhHHHHHHHHHhcc-------cCCCCCCCC------------------cchhHHHHHHHHHHHHHHhhcCCC--
Q 000996 335 VGVTRDKRIKYAKEILQKEM-------LPHVGTGDF------------------CETKKAYYFGYIIHRLLLCALGRR-- 387 (1195)
Q Consensus 335 ~~~~~~~~~e~~~~~L~~~l-------lpHl~~~~~------------------~~~~K~~~L~~Mi~kLl~~~~g~~-- 387 (1195)
......+.|+++|.+.| |+|+|.... ....|.+ +++|+++|+.+..|.+
T Consensus 245 ---g~~~~~e~a~~~l~~~ff~~~rydl~~vGr~~ln~kl~l~~~~~~~~~~~~~~l~~~d-i~~mi~~Ll~l~~G~~~~ 320 (1119)
T 2a6h_C 245 ---GDPPKRDKAVAYVYGLIADPRRYDLGEAGRYKAEEKLGIRLSGRTLARFEDGEFKDEV-FLPTLRYLFALTAGVPGH 320 (1119)
T ss_dssp ---CCCSCCSSHHHHHTSSSSSSCCSCTTTSSHHHHHTTSCSCCSTTTTCCCSSSCCCCTT-HHHHHHHHHHHHTSCSSC
T ss_pred ---CCCCcHHHHHHHHHHhhCCcccccchhcchhhhhhhhccCCccccccccccccccHHH-HHHHHHHHHHhhcCCCCC
Confidence 22344567888999888 678763210 0112233 5689999999999999
Q ss_pred CCCCCCccccceecccchhHHHHHHHHHHHHHHHHHHHhhhhhccCCCCchhhccccccccccccccccccccccccccc
Q 000996 388 AEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAG 467 (1195)
Q Consensus 388 ~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~~~~ 467 (1195)
.+||+|||+||||+++|+||+.+||..|+++.+.+++++.+. ..+.+++..+++++.||++|++||+||
T Consensus 321 ~~DD~DhlgNkRv~~~GeLl~~~fr~~l~r~~~~i~~~~~~~--~~~~~~~~~~i~~~~It~~lk~ff~tg--------- 389 (1119)
T 2a6h_C 321 EVDDIDHLGNRRIRTVGELMTDQFRVGLARLARGVRERMLMG--SEDSLTPAKLVNSRPLEAAIREFFSRS--------- 389 (1119)
T ss_dssp CCCCTTSTTTEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHS--CSSCCSSTTTCCSHHHHHHHHHHHHTC---------
T ss_pred CCcCcchhhceEehhhhHHHHHHHHHHHHHHHHHHHHHhhhh--cccccchHHhhccchhHHHHHHHhhcc---------
Confidence 999999999999999999999999999999999999999864 335678888899999999999999986
Q ss_pred ccccceeeccccChhhhhccccccCC--C--CCcCCCccccccccCCCcccccccCCCCCcccchhhcccccEEEcc-CC
Q 000996 468 TRAGVSQVLNRLTYASTLSHLRRLNS--P--IGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITV-GS 542 (1195)
Q Consensus 468 ~~sG~sq~l~r~N~ls~lSh~Rrv~~--~--~~~~~k~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~It~-~~ 542 (1195)
+|||+|+|+||+|+||||||+++ | +++++|.++||+||||||||+||+|||||+|||||||||++|+|+. +.
T Consensus 390 ---~lSQ~Ldq~N~ls~LsH~RRisslgpggl~re~k~~~vRdlHpShwGriCPiETPEG~ncGLVknLAl~a~I~~~G~ 466 (1119)
T 2a6h_C 390 ---QLSQFKDETNPLSSLRHKRRISALGPGGLTRERAGFDVRDVHRTHYGRICPVETPEGANIGLITSLAAYARVDELGF 466 (1119)
T ss_dssp ---SSEEECCCSSTHHHHHHHHEEESSSSSSSCCSSCCHHHHSCCGGGTTTBCSSCSCSSSSCSSEEEBCSSCEECSSSC
T ss_pred ---CccccccccchHhhhhhhheecccCCCccccccccCcccccCHhhCcccCCCcCCCCCcccchhhhhhheeecccCc
Confidence 57899999999999999999986 4 7899999999999999999999999999999999999999999985 32
Q ss_pred CchhHHHHHHHhCCccccccCCCCCCCceEEEECCEEEEEEc--ChHHHHHHHHhhhccCCCCcceEEEEeccCCeEEEE
Q 000996 543 AAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHR--DPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIY 620 (1195)
Q Consensus 543 ~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~--~~~~~~~~lr~~rr~~~i~~~~~i~~~~~~~~i~I~ 620 (1195)
.+. ...+| +||+|.+... +++.-. . .-|. ...+.
T Consensus 467 ~e~-----------------------p~~~V-~nG~v~~~i~yl~a~ee~---------~-----~~i~----~~~~~-- 502 (1119)
T 2a6h_C 467 IRT-----------------------PYRRV-VGGVVTDEVVYMTATEED---------R-----YTIA----QANTP-- 502 (1119)
T ss_dssp EEE-----------------------EEEEE-ETTEEEEEEEEECHHHHH---------H-----SCEE----CTTSC--
T ss_pred ccC-----------------------CcEEE-ECCEEeeeeEEeChhccc---------c-----eEEe----cCcee--
Confidence 111 13455 6999865322 111000 0 0011 01111
Q ss_pred eCCCceeeeEEEEecccchhhHHHHHHhhcCCCCCCCCccccccCCeEEEecccccccceeecccchhhcccCCCCccCC
Q 000996 621 TDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHPEEAYA 700 (1195)
Q Consensus 621 td~GRl~RPl~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~~~~~~~ 700 (1195)
.|.||++||++.+.++. ||+ .+. .
T Consensus 503 l~~gr~~r~~i~~r~~~-------------------------------e~~----------~~~---------------~ 526 (1119)
T 2a6h_C 503 LEGNRIAAERVVARRKG-------------------------------EPV----------IVS---------------P 526 (1119)
T ss_dssp BSSSBBCCSSEEEESSS-------------------------------SEE----------EEC---------------T
T ss_pred ecCCccccCceeEEecc-------------------------------cee----------eec---------------h
Confidence 25599999998877420 121 110 1
Q ss_pred CceeeeecCCCccccccccccCCCCCCCCCccccccccccCcccccce--------------------------------
Q 000996 701 DTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVT-------------------------------- 748 (1195)
Q Consensus 701 ~~~th~EI~P~~ilsv~AslIPF~~hNqSpRn~yqc~M~KQa~g~~~~-------------------------------- 748 (1195)
..+|||||||++||||+||||||+||||||||||||||||||||++.+
T Consensus 527 ~~~~~~ei~P~~ilsv~aslIPF~ehn~s~R~lmgsnM~kQAv~l~~~~~p~vgTg~e~~~a~ds~~~~~a~~~G~v~~v 606 (1119)
T 2a6h_C 527 EEVEFMDVSPKQVFSVNTNLIPFLEHDDANRALMGSNMQTQAVPLIRAQAPVVMTGLEERVVRDSLAALYAEEDGEVAKV 606 (1119)
T ss_dssp TTCCEEECCTTTTSCHHHHTCTTGGGBCHHHHHHHHHHHTTBCCBSSCCCCSEECSCHHHHHHHTTCSEECSSSEEEEEE
T ss_pred hHeEEEEeccccccccccccCCCcccCCCcccccccccccccccccccCCCeeeccccceeeeccCceeEeccCCEEEEe
Confidence 358999999999999999999999999999999999999999998755
Q ss_pred ---eeEEEee---ccceee----------ecCCCceeeccc----cc------ccccccCCCCceEEEEEEecCCccCCC
Q 000996 749 ---NYQFRMD---TLAYVL----------YYPQKPLVTTRA----ME------HLHFRQLPAGINAIVAIACYSGYNQED 802 (1195)
Q Consensus 749 ---n~~~r~D---~~~~~l----------~ypQ~Plv~t~~----~~------~~~~~~~~~G~N~~VAv~s~~Gyn~ED 802 (1195)
++.+|.| +..|.| +|||+|||+++. ++ .++++|+|+|+|++||||||+||||||
T Consensus 607 d~~~i~ir~~~~~~~~y~L~~~~rsnq~t~~~QkPiV~~g~~v~~g~~ladg~~~~~gel~lG~N~lVA~m~~~GYN~ED 686 (1119)
T 2a6h_C 607 DGNRIVVRYEDGRLVEYPLRRFYRSNQGTALDQRPRVVVGQRVRKGDLLADGPASENGFLALGQNVLVAIMPFDGYNFED 686 (1119)
T ss_dssp CSSBEEEEETTTEEECCBCCCSEECTTSCEECCEECCCSSCCBCTTCEEEECTTBSSSSBCCSEEEEEECSCCSSTTSSS
T ss_pred cCceEEEEccCCcceeEEeeccccccccccccccceEeeCceeeccceeccccccCCCcccCceeEEEEEecccCCcchh
Confidence 4567773 466766 899999999974 24 357899999999999999999999999
Q ss_pred cEEEecceeecCceeEEEEEEEEechhccCCccccccc--CCCCCCCCCCCCCCcCCCCCCCCcCCCcEECCCCEEEEEe
Q 000996 803 SVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFG--RPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKT 880 (1195)
Q Consensus 803 aiiink~s~~rG~f~s~~~~~~~~~~~~~~~~~~e~~~--~p~~~~~~~~~~~~~~~Ld~dGi~~~G~~v~~gdvli~k~ 880 (1195)
||||||++++||+|||+|+++|+++.++++.+ .|++. +|+. ....|++||+||||++|++|++|||||||+
T Consensus 687 Aiiine~~v~rg~~tSihi~~~e~~~r~~~~g-~eeit~~ip~~------~~~~~~~LD~dGiv~iG~~V~~gDiLvgK~ 759 (1119)
T 2a6h_C 687 AIVISEELLKRDFYTSIHIERYEIEARDTKLG-PERITRDIPHL------SEAALRDLDEEGVVRIGAEVKPGDILVGRT 759 (1119)
T ss_dssp EEEEETHHHHTTCSEEEEEEEEEEEEECCTTC-CCBCCSCCSSS------CSGGGSSCCSSSBCCTTCBCCTTSEEECCE
T ss_pred hhhhhhhHHhcCCceEEEEEEEEeeeeecCCC-ceeeeccCCCc------chhhhhccCCCcccCCCCEECCCCEEEEEe
Confidence 99999999999999999999999998876433 45564 4442 234589999999999999999999999999
Q ss_pred CCCCcccccc---------ccCCCccceeeEEeecCCCcEEEEEEEEecCC-Cc-------EEEEEEEeeecCCCCcccc
Q 000996 881 TPISQDEAQG---------QASRYTRRDHSISLRHSETGMVDQVLLTTNAD-GL-------RFVKVRVRSVRIPQIGDKF 943 (1195)
Q Consensus 881 ~~~~~~~~~~---------~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~-~~-------~~v~v~~~~~R~~~iGDKf 943 (1195)
+|+...+... ..+....+|+|+++++++.|+|++|.++++++ |. +.|||++|+.|+|+|||||
T Consensus 760 tP~~~~~~~~ee~ll~aifg~k~~~~rd~Sl~~~~~e~G~V~~V~~~~~~~~g~~l~~~~~~~vkV~i~~~R~~~vGDKf 839 (1119)
T 2a6h_C 760 SFKGESEPTPEERLLRSIFGEKARDVKDTSLRVPPGEGGIVVRTVRLRRGDPGVELKPGVREVVRVYVAQKRKLQVGDKL 839 (1119)
T ss_dssp EESSSSSCCHHHHHHHHHHHSCCCCEEECCEECCSSCCCEEEEEEEECSSCSSCCCCTTEEEEEEEEEEEEEECCTTCEE
T ss_pred cCCccccCChhhhhhhhhhcccccccceeeEEccCCccEEEEEEEEEccCCCCcccCCCcceEEEEEEcccCCcccCchh
Confidence 9987433211 13445689999999999999999999998876 63 7899999999999999999
Q ss_pred cccCCCceeEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCchhhHHHHhhhHHhhhcCCCcccCC-CCCccHHHHHHHH
Q 000996 944 SSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATP-FTDVTVDNISKAL 1022 (1195)
Q Consensus 944 ~sRHGqKGvvs~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~tp-F~~~~~~~~~~~l 1022 (1195)
|||||||||||+|||+|||||++||++|||||||||||||||||||+|+++||||++.|... +|| |++.+.+++++.|
T Consensus 840 asRHGqKGVis~i~p~eDMPf~~dG~~pDiIlNPhgvPSRMtiGqllE~~lG~a~~~~g~~~-atp~F~~~~~~~i~~~L 918 (1119)
T 2a6h_C 840 ANRHGNKGVVAKILPVEDMPHLPDGTPVDVILNPLGVPSRMNLGQILETHLGLAGYFLGQRY-ISPIFDGAKEPEIKELL 918 (1119)
T ss_dssp ECTTSCEEEEEEEECTTTSCBCSSSCBCSEECCSTTTTTTTBTHHHHHHHHHHHHHHTTEEE-ECCTTTSCCHHHHHHHH
T ss_pred hhccCCCceEEeeeccCCCccccCCCCccEEeCCCcCccccchhhhhHHHhhhHHhhcCCce-EecccCCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999876 999 9999999999999
Q ss_pred HHc-----------------------------CC--------------CCCCeEEEeeCCCCceeeeeEeEeeeehhccc
Q 000996 1023 HKC-----------------------------GY--------------QMRGFETMYNGHTGRRLTAMIFLGPTYYQRLK 1059 (1195)
Q Consensus 1023 ~~~-----------------------------g~--------------~~~G~~~l~~G~tG~~~~~~if~G~~yy~rL~ 1059 (1195)
+++ || +++|+++||||+||++|+++||+|++|||||+
T Consensus 919 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~Gk~~lydG~TGe~~~~~I~vG~~Yy~kL~ 998 (1119)
T 2a6h_C 919 AQAFEVYFGKRKGEGFGVDKREVEVLRRAEKLGLVTPGKTPEEQLKELFLQGKVVLYDGRTGEPIEGPIVVGQMFIMKLY 998 (1119)
T ss_dssp HHHHHHHHHHHHHHTCCCBHHHHHHHHHHHTTTSSCTTSCHHHHHHHHHHTTEECCBCSSSCCBCSSCEEEEEEEEEEBC
T ss_pred HHhhhhccccccccccccchhhhhhhhhhhcCCcccccccchhhhcccCCCCceEeecCCCCCCccceEEEEhHHhhcch
Confidence 999 99 99999999999999999999999999999999
Q ss_pred cccCcccEEeccCCccccccCCCCcccCCCccccchhhhhHHHhhccHHHHHHhhhcCCCceeeeeccccCcceeecccc
Q 000996 1060 HMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKK 1139 (1195)
Q Consensus 1060 Hmv~dK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~Erl~~~SD~~~~~vC~~cG~~~~~~~~~ 1139 (1195)
|||+||+||||+|||++|||||++||+|+|||||||||||||+|||||++|||||+.+||. .||+..
T Consensus 999 HmVdDKihaRs~GP~s~lTqQP~~Gra~~GGqRfGEME~~aL~a~GAa~~L~E~L~~kSD~-------~~gr~~------ 1065 (1119)
T 2a6h_C 999 HMVEDKMHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEMLTLKSDD-------IEGRNA------ 1065 (1119)
T ss_dssp CCTTTSCEEESSCCBCSSSCSBCCCSSSCCCEEECHHHHHHHHHTTCSHHHHHHHTTTTTC-------HHHHHH------
T ss_pred hhcccCcEEeeccccceeecCCCcccccCCCeeeehhehhhhhhccHHHHHHHHhccCCcc-------cccccc------
Confidence 9999999999999999999999999999999999999999999999999999999999994 456542
Q ss_pred CceeeccCCCCCCceeecchHhhHHHHHHHHhCCCceEEEeccCC
Q 000996 1140 NSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKEDT 1184 (1195)
Q Consensus 1140 ~~~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~i~~~l~~~~~~ 1184 (1195)
.+|..|+ +.++.++.||||||||+|||+||||++++.+++..
T Consensus 1066 --~~~~~~~-~~~i~~~~iP~sfk~L~~EL~sl~i~~~l~~~~~~ 1107 (1119)
T 2a6h_C 1066 --AYEAIIK-GEDVPEPSVPESFRVLVKELQALALDVQTLDEKDN 1107 (1119)
T ss_dssp --HHHHHHT-TCCCCCCCCCHHHHHHHHHHHHSSCEECCBCSSSC
T ss_pred --eEEEeec-CCccCccCCCHHHHHHHHHHHhCCCceEEEecCCc
Confidence 2466674 46899999999999999999999999999986443
No 5
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_C*
Probab=100.00 E-value=5.8e-214 Score=1977.86 Aligned_cols=938 Identities=25% Similarity=0.384 Sum_probs=791.4
Q ss_pred hhhhhhhhcccCccchHHHHHHHHHHHHH------hhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEEEcc
Q 000996 26 EDAWAVISAYFEEKGLVRQQLDSFDEFIQ------NTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSK 99 (1195)
Q Consensus 26 ~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi~------~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~v~~ 99 (1195)
...|+.++..++.|+|+++|++||+||++ +||++++++++||+. ....+.|+|.++++++
T Consensus 12 R~~f~k~~~~~~~P~Ll~iQ~~Sf~~Fl~~~~r~~~GL~evf~~~fPI~d--------------~~~~~~Lef~~y~l~~ 77 (1342)
T 3lu0_C 12 RKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYGLEAAFRSVFPIQS--------------YSGNSELQYVSYRLGE 77 (1342)
T ss_dssp CCCSSCCCCSSCCCCGGGTTHHHHHHHSCSSSCSCSTTHHHHTTTSSCEE--------------TTTTEECCEEEECCCC
T ss_pred EeccccCCcCCCCCCHHHHHHHHHHHHHcCCccccchHHHHHHhcCCEEC--------------CCCCEEEEEeeEEeCC
Confidence 55788899999999999999999999997 899999999999983 3457899999999999
Q ss_pred CccccCCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCCCcccccceeeEEEEecccceeeccCCccCCCCChhhh
Q 000996 100 PMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDL 179 (1195)
Q Consensus 100 P~~~e~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~el 179 (1195)
|.+.+ .|||+|++||+|||+|++++++.+...++ +.++++++++|++|+||+|+.
T Consensus 78 Pk~~~----------~Ec~~r~lTYsapL~v~~rL~~~~~d~~~-~~~~eikeq~Vy~GdiPLMT~-------------- 132 (1342)
T 3lu0_C 78 PVFDV----------QECQIRGVTYSAPLRVKLRLVIYEREAPE-GTVKDIKEQEVYMGEIPLMTD-------------- 132 (1342)
T ss_dssp CSCCS----------STTTSSCCCCCCCCBEEECCEECCCSSCC-CCCCCCCBCCCBCCCCCCCCS--------------
T ss_pred CCCCH----------HHHHhcCCCcccceEEEEEEEEecccccc-ccccceEEEEEEEecCceECC--------------
Confidence 99854 68999999999999999999887543222 224456788999999999997
Q ss_pred hhcCCCCCCCCceEEEcCeeeEEeeeeeeecceEEEEEec---CCCcceEEEEEEEeecCCCCCCceEEEEEEecCCCCC
Q 000996 180 TELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKR---QPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKG 256 (1195)
Q Consensus 180 i~~gE~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~---~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~~k~ 256 (1195)
+|||||||+|||||+|++||||.+|..... ..++..|+|.| +|.+|+|+.++++
T Consensus 133 ----------~GtFIING~ERVIVsQl~RSPGVyf~~~~~k~~~~gk~lysa~I--IP~RGsWlefe~D----------- 189 (1342)
T 3lu0_C 133 ----------NGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNARI--IPYRGSWLDFEFD----------- 189 (1342)
T ss_dssp ----------SSCEESSSSEEECCEEEECCSSCCCCSCCSCSSSCCCSCCEEEE--CCSSSCCEEEEEE-----------
T ss_pred ----------CcEEEEcCceEEEEEeecccCceeEeccccccCCCCceEEEEEE--ecCCCccEEEEEc-----------
Confidence 999999999999999999999966542211 13566799987 7899999654442
Q ss_pred CCCCcEEEEEeccccccchHHHHHHHhcCCChHHHHHHhcccc---------------------------cc--------
Q 000996 257 GSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDF---------------------------QD-------- 301 (1195)
Q Consensus 257 ~~~~~~i~v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~---------------------------~~-------- 301 (1195)
.++.+|+++++ +++||+++||||||++ ++||++.++... .+
T Consensus 190 --~kd~l~vrIdr-~rKipvt~lLrALG~~-~~~Il~~f~~~~~~~~~~~~~~~~~~~e~~~g~~~~~di~~~g~vi~~~ 265 (1342)
T 3lu0_C 190 --PKDNLFVRIDR-RRKLPATIILRALNYT-TEQILDLFFEKVIFEIRDNKLQMELVPERLRGETASFDIEANGKVYVEK 265 (1342)
T ss_dssp --TTTEEEEEESS-CSCEETTHHHHTTTCC-HHHHHTTTSCEEEECEETTEEEECCCGGGGTTEECCSCEEETTEEEECS
T ss_pred --CCCeEEEEecC-CCceeeehhHhHhCCC-HHHHHHHhcccceEEeccCceeeecchhhhcccccccchhccccceecc
Confidence 15689999998 7799999999999995 689998874210 00
Q ss_pred -----------------------------------------------------hHHHHHhHh------------------
Q 000996 302 -----------------------------------------------------TQMMELLRP------------------ 310 (1195)
Q Consensus 302 -----------------------------------------------------~~~~~~l~~------------------ 310 (1195)
++.++.+..
T Consensus 266 g~~it~~~~~~l~~~g~~~i~v~~~~l~g~~la~divd~~tge~~~~~~~~i~~~~l~~l~~~~i~~~~~l~~~~~~~~~ 345 (1342)
T 3lu0_C 266 GRRITARHIRQLEKDDVKLIEVPVEYIAGKVVAKDYIDESTGELICAANMELSLDLLAKLSQSGHKRIETLFTNDLDHGP 345 (1342)
T ss_dssp SSEECSHHHHHHHHTTCCCEECCSHHHHTSEECSCEECTTTCCEEECSSCBCCTTHHHHHHHHTCSCEEEECCCSSSSCC
T ss_pred cccccHHHHHHHHhccCcccccCHHHhhcchhhheeeecCCCeEEecCCcccCHHHHHHHHHcCCcEEEEEecccccccH
Confidence 000111110
Q ss_pred ----hHhhhhccCCHHHHHHHHhhcCcccCCCchhhHHHHHHHHHhccc-------CCCC---------CC--CCcchhH
Q 000996 311 ----SLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEML-------PHVG---------TG--DFCETKK 368 (1195)
Q Consensus 311 ----sl~e~~~i~t~~~al~yig~r~~~~~~~~~~~~e~~~~~L~~~ll-------pHl~---------~~--~~~~~~K 368 (1195)
++.. ....|+++|+.+|++++++ ..+...+.|+.++++.|| +|+| .+ ..+..-+
T Consensus 346 ~i~~tl~~-d~~~~~~eAl~~iyr~lrp---gep~t~e~a~~l~~~lFf~~~rYdL~~VGR~k~N~kL~l~~~~~~~~Lt 421 (1342)
T 3lu0_C 346 YISETLRV-DPTNDRLSALVEIYRMMRP---GEPPTREAAESLFENLFFSEDRYDLSAVGRMKFNRSLLREEIEGSGILS 421 (1342)
T ss_dssp SGGGTTTT-CCCCSSHHHHHHHHHHHSC---SSCCCTTHHHHHHHHHHSCTTTCCCTTTHHHHHHTTTTCSCCCCCSSCC
T ss_pred HHHHHHhh-ccCCCHHHHHHHHHHhcCC---CCCCCHHHHHHHHHHhhcCcccccchhhhhHHHhhhcCCCcCccccEec
Confidence 0000 1235799999999999864 333446778888877665 6766 11 1112223
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCccccceecccchhHHHHHHHHHHHHHHHHHHHhhhhhccCCCCchhhcccccccc
Q 000996 369 AYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTIT 448 (1195)
Q Consensus 369 ~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It 448 (1195)
...+..++++|+.+..|....||+|||+||||+++|+||+++||.+|.++.+.++++|.+. ..+.+++..+++++.++
T Consensus 422 ~~DIi~~i~~Li~l~~g~~~~DDiDHLgNrRvr~vGeLl~~qfr~~l~r~~r~i~~~~~~~--~~~~~~~~~lin~~~i~ 499 (1342)
T 3lu0_C 422 KDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLG--DLDTLMPQDMINAKPIS 499 (1342)
T ss_dssp TTHHHHHHHHHHHHHHTSSCCCCSSSTTTSEEECHHHHHHHTHHHHHHHHHHHHTTHHHHC--CSSCCSSTTTCCSSTTH
T ss_pred HHHHHHHHHHHHHHhhCCCCCcchhhhhcchhchHHHHHHHHHHHHHHHHHHHHHHHHhhc--ccccCCHHHHhccchHH
Confidence 4456679999999999999999999999999999999999999999999999999999863 34567888999999999
Q ss_pred cccccccccccccccccccccccceeeccccChhhhhccccccCC--C--CCcCCCccccccccCCCcccccccCCCCCc
Q 000996 449 SGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNS--P--IGREGKLAKPRQLHNSQWGMMCPAETPEGQ 524 (1195)
Q Consensus 449 ~~i~~~~sTGnw~~~~~~~~~sG~sq~l~r~N~ls~lSh~Rrv~~--~--~~~~~k~t~vR~Lhps~wG~iCPveTPEG~ 524 (1195)
.++++||+ ++||||+|||+||||+|||+||+++ | +.++++.+++|+|||||||||||+|||||+
T Consensus 500 ~~~k~ffg------------~s~lSQ~lDqtNpLseltHkRRlsalGPGGLsr~~a~fevRdvH~thyGRiCPiETPEG~ 567 (1342)
T 3lu0_C 500 AAVKEFFG------------SSQLSQFMVQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGP 567 (1342)
T ss_dssp HHHTTTTT------------TCSSCEECCCSSHHHHHHHHSBEESCCSTTSCCSSCCTTTSSCCTTCSSSSCTTCCCSSS
T ss_pred HHHHHHhC------------ccccceeecCCCHHHHHhhhhcccccCCCCccccccCceecccCcccccccccccCCCCC
Confidence 99999874 5899999999999999999999985 3 458889999999999999999999999999
Q ss_pred ccchhhcccccEEEcc-CCCchhHHHHHHHhCCccccccCCCCCCCceEEEECCEEEEEEcChHHHHHHHHhhhccCCCC
Q 000996 525 ACGLVKNLALMVYITV-GSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVN 603 (1195)
Q Consensus 525 ~cGLvk~LA~~a~It~-~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~i~ 603 (1195)
|||||+|||++|+|+. |+.++| +.+..||++-
T Consensus 568 niGLI~sLA~~a~in~~GfietP------------------------yr~V~~g~v~----------------------- 600 (1342)
T 3lu0_C 568 NIGLINSLSVYAQTNEYGFLETP------------------------YRKVTDGVVT----------------------- 600 (1342)
T ss_dssp CSSSCCBCCSSCCBCSSSCBCEE------------------------EEEEETTEEE-----------------------
T ss_pred ceeeecchhheEEeccCCcccCC------------------------cEEEECCEEc-----------------------
Confidence 9999999999999986 443332 3444555530
Q ss_pred cceEEEEeccCCeEEEEeCCCceeeeEEEEecccchhhHHHHHHhhcCCCCCCCCccccccCCeEEEecccccccceeec
Q 000996 604 TEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFIEYIDTEEEETTMISM 683 (1195)
Q Consensus 604 ~~~~i~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~ 683 (1195)
+.|+|++|.||+...||.
T Consensus 601 --------------------------------------------------------------~~i~yLsA~eE~~~~IAq 618 (1342)
T 3lu0_C 601 --------------------------------------------------------------DEIHYLSAIEEGNYVIAQ 618 (1342)
T ss_dssp --------------------------------------------------------------EEEEEECTTTGGGSCBCC
T ss_pred --------------------------------------------------------------CceeeCChHHhcCceEEe
Confidence 237899999999999999
Q ss_pred ccchhhcccCCCC--------c----cCCCceeeeecCCCccccccccccCCCCCCCCCccccccccccCccccc-----
Q 000996 684 TINDLVQARLHPE--------E----AYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIY----- 746 (1195)
Q Consensus 684 ~~~~~~~~~~~~~--------~----~~~~~~th~EI~P~~ilsv~AslIPF~~hNqSpRn~yqc~M~KQa~g~~----- 746 (1195)
....+.+.+.+.. . ..+.+++||+++|.||+||+||||||+|||||||++|||||||||||+.
T Consensus 619 an~~l~~~g~~~~~~v~~R~~~e~~~~~~~~v~~~dvsP~qivSvaaslIPFLEhdDAnRaLMGsNMQRQAVPLl~~e~p 698 (1342)
T 3lu0_C 619 ANSNLDEEGHFVEDLVTCRSKGESSLFSRDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALMGANMQRQAVPTLRADKP 698 (1342)
T ss_dssp SSSCCSSSSCCSCSSEEEECSSCEEEECTTTCCEEESCTTTTSCHHHHSCTTSTTBCHHHHHHHHHTTTTBCCCSSCCCC
T ss_pred cCcccCCCCcccCCeEEEEecCceEEeChHHCeeEecCHHHhcchhhccCCCcccCCccccchhhhccccccccccCCCC
Confidence 8877765432210 0 0246799999999999999999999999999999999999999999997
Q ss_pred ------------------------------ceeeEEEeec----------ccee----------eecCCCceeecc----
Q 000996 747 ------------------------------VTNYQFRMDT----------LAYV----------LYYPQKPLVTTR---- 772 (1195)
Q Consensus 747 ------------------------------~~n~~~r~D~----------~~~~----------l~ypQ~Plv~t~---- 772 (1195)
+.++.+|.|. ..|. +||+|+|+|+++
T Consensus 699 ~VgTG~E~~~a~dsg~~i~a~~~G~v~~vda~~I~Ir~~~~~~~~~~~~~~~y~L~kf~RSNq~Tc~~QrPiV~~G~~V~ 778 (1342)
T 3lu0_C 699 LVGTGMERAVAVDSGVTAVAKRGGVVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQNTCINQMPCVSLGEPVE 778 (1342)
T ss_dssp SSBCSCHHHHHHHTTTSCBCSSCBEECCCCSSBCCEEECSSSSSSSCCEEECCBCCCSCBCSSSCBCCCCBCCCSSCCBC
T ss_pred eEecccchheeecCCceEEecCCCEEEEecCCeEEEEeCCCccccccCcceEEEecccccccccccccccceeecCCEEe
Confidence 6677888875 2232 489999999997
Q ss_pred ccccc------ccccCCCCceEEEEEEecCCccCCCcEEEecceeecCceeEEEEEEEEechhccCCccccccc--CCCC
Q 000996 773 AMEHL------HFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFG--RPDR 844 (1195)
Q Consensus 773 ~~~~~------~~~~~~~G~N~~VAv~s~~Gyn~EDaiiink~s~~rG~f~s~~~~~~~~~~~~~~~~~~e~~~--~p~~ 844 (1195)
.++.+ ..+|+|+|+|++||||||.|||||||||||+++|++|+|||+|+++|+++.+.++.| .|+++ +|+.
T Consensus 779 ~GdilADG~st~~GElaLG~N~lVAfMpW~GYNfEDAIlISErlV~eD~fTSIHIee~e~~aRdtklG-~EeiTrdIPnv 857 (1342)
T 3lu0_C 779 RGDVLADGPSTDLGELALGQNMRVAFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLG-PEEITADIPNV 857 (1342)
T ss_dssp TTCBCBCCSSCSSSSCCCSEECCEECCCCSSTTSSSEEEECTHHHHTTTSCEEEEEEEEEECCEETTE-ECCCCSCCSSC
T ss_pred cCcEecccccccCCeeecccccEEEEecccCcccccchhhhhhhhhcCCceeEEEEEEeeeeeecCCC-CceecccCCCC
Confidence 45665 899999999999999999999999999999999999999999999999999988544 56664 6654
Q ss_pred CCCCCCCCCCcCCCCCCCCcCCCcEECCCCEEEEEeCCCCccccc---------cccCCCccceeeEEeecCCCcEEEEE
Q 000996 845 SNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQ---------GQASRYTRRDHSISLRHSETGMVDQV 915 (1195)
Q Consensus 845 ~~~~~~~~~~~~~Ld~dGi~~~G~~v~~gdvli~k~~~~~~~~~~---------~~~~~~~~~~~s~~~~~~~~g~v~~v 915 (1195)
. ...+++||++|||++|++|++|||||||++|+...++. ..++....+|+|+++++++.|+|..|
T Consensus 858 ~------e~al~~LDe~GIv~iGa~V~~GDILVGKvtPkge~~~tpEekLLraIFGeka~~vkDtSL~vp~g~~G~Vidv 931 (1342)
T 3lu0_C 858 G------EAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNGVSGTVIDV 931 (1342)
T ss_dssp C------HHHHHSBCSSSCBCTTCCCCTTCEEECCCCBCCTTTCCHHHHHGGGTSCSSSSSBCCCCEECCTTCCCEEEEC
T ss_pred C------hHHHhcCCCCCCeecCcEECCCCEEEeccCCCCCCcCChHHHHHHHHhcCcccccccCcEecCCCCcEEEEEE
Confidence 2 23488999999999999999999999999998743321 23466789999999999999999999
Q ss_pred EEEecC--------------------------------------------------------------------------
Q 000996 916 LLTTNA-------------------------------------------------------------------------- 921 (1195)
Q Consensus 916 ~~~~~~-------------------------------------------------------------------------- 921 (1195)
.+++.+
T Consensus 932 ~~f~r~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~~g~t~~~l~~~~~~~~~~~~~~~~~~~~~~ 1011 (1342)
T 3lu0_C 932 QVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEKQNQL 1011 (1342)
T ss_dssp CCCCCGGGCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCHHHHTTSCGGGTTTCCCCSSHHHHHH
T ss_pred EEEecccccchhhhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhcCCCHHHHhhCCHHHhhccccCcHHHHHHH
Confidence 776532
Q ss_pred ---------------------------------CCcEEEEEEEeeecCCCCcccccccCCCceeEEeeecCCCCCCCCCC
Q 000996 922 ---------------------------------DGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEG 968 (1195)
Q Consensus 922 ---------------------------------~~~~~v~v~~~~~R~~~iGDKf~sRHGqKGvvs~i~~~~dmPf~~~G 968 (1195)
+..+.|||++|+.|+|++|||||||||||||||+|||+|||||++||
T Consensus 1012 ~~~~~~~~~~~~~~~~~~~~k~~~~~~gd~l~~gv~k~VkV~ia~kRk~qvGDK~AgRHGnKGVis~I~p~EDMPf~~dG 1091 (1342)
T 3lu0_C 1012 EQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENG 1091 (1342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCCSSSSCEEEEEEEEEECCCTTCEEECSSSCCEEECCCCCTTTSCEETTE
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccCcccCcCCceEEEEEEEEeccCCCCCCcccccCCCceEEEEecccCCCCCCCC
Confidence 13579999999999999999999999999999999999999999999
Q ss_pred CCCcEEeCCCCCCCCCchhhHHHHhhhHHhhhcCCC--------------------------------------------
Q 000996 969 ITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKE-------------------------------------------- 1004 (1195)
Q Consensus 969 ~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~-------------------------------------------- 1004 (1195)
++|||||||||||||||||||+|+++||||+..|..
T Consensus 1092 ~~pDIIlNP~gvPSRMnIGqilE~~lG~aa~~~G~~i~~~~~~~~~~~~~r~~~~~~y~~~~~~~~~~~~~~~~~~~~~~ 1171 (1342)
T 3lu0_C 1092 TPVDIVLNPLGVPSRMNIGQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVDLSTFSDEEVMR 1171 (1342)
T ss_dssp EECSEECCGGGTTSSCBTHHHHHHHHHHGGGTSSTHHHHTTTHHHHCTTTHHHHHHHTTTTCCCSSSCCTTTSCHHHHHH
T ss_pred CCCcEEeCCCCCCCccchhhhhHHhhhHHHHhcCchHHHHHHhhhhhHHHHHHHHHHhhcccccchhhhhcccchHHHHH
Confidence 999999999999999999999999999999988752
Q ss_pred ---------cccCC-CCCccHHHHHHHHHHcCCCCCCeEEEeeCCCCceeeeeEeEeeeehhccccccCcccEEeccCCc
Q 000996 1005 ---------GDATP-FTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPV 1074 (1195)
Q Consensus 1005 ---------~~~tp-F~~~~~~~~~~~l~~~g~~~~G~~~l~~G~tG~~~~~~if~G~~yy~rL~Hmv~dK~~~R~~Gp~ 1074 (1195)
..+|| |++.+.+++.+.|.++||+++|+++||||+||++|+++||+|++|||||+|||+||+||||+|||
T Consensus 1172 ~~~~~~~g~~~aTPvFdga~~~~i~~~L~~aG~~~~Gk~~LydGrTGe~f~~~V~vG~~YylKL~HmVdDKiHaRs~GPy 1251 (1342)
T 3lu0_C 1172 LAENLRKGMPIATPVFDGAKEAEIKELLKLGDLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSY 1251 (1342)
T ss_dssp TTTTTSSCTTCBCCSSSSCCHHHHHHHTSSSSSCSSSCBCCBCSSSCSBCSSCBCEECCEEEEBCCCGGGSCCCBSSCCB
T ss_pred HhhhhccCCcccCCCCCCCCHHHHHHHHHHcCCCCCCCEEEEcCCCCCCcccceeeeehhHhhhhhccccceEEeccCCC
Confidence 12888 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCcccCCCccccchhhhhHHHhhccHHHHHHhhhcCCCceeeeeccccCcceeeccccCceeeccCCCCCCce
Q 000996 1075 QILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIV 1154 (1195)
Q Consensus 1075 ~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~Erl~~~SD~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~~~ 1154 (1195)
++|||||++||+++|||||||||||||+|||||++|||||+.+|| +.||+.. .+|..|+ +.++.
T Consensus 1252 sllTqQPl~Gkaq~GGqRfGEMEvwaL~a~GAa~~LqE~Lt~kSD-------dv~gr~~--------~y~~i~~-g~~~~ 1315 (1342)
T 3lu0_C 1252 SLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSD-------DVNGRTK--------MYKNIVD-GNHQM 1315 (1342)
T ss_dssp CSSSCCBCCCSSSCCCCCCCHHHHHHHHHSSCSHHHHHHTTTSSS-------CHHHHHH--------HHHHHTT-TSCCC
T ss_pred cccccCCCCccccCCCeeeehHHHHHHHhccHHHHHHHHhhcCCC-------ccccchh--------hhhhhcC-CCCCC
Confidence 999999999999999999999999999999999999999999999 4566543 2465564 46889
Q ss_pred eecchHhhHHHHHHHHhCCCceEEE
Q 000996 1155 QVHIPYACKLLFQELMAMAIAPRML 1179 (1195)
Q Consensus 1155 ~v~iPy~~kll~~EL~sm~i~~~l~ 1179 (1195)
.+.||||||+|++||+||||++++.
T Consensus 1316 ~~~iPesfkvL~~EL~sl~l~v~l~ 1340 (1342)
T 3lu0_C 1316 EPGMPESFNVLLKEIRSLGINIELE 1340 (1342)
T ss_dssp CCCCCHHHHHHHHHHHTSSCCEECC
T ss_pred cCCCCHHHHHHHHHHHhCCCCeEec
Confidence 9999999999999999999999874
No 6
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus}
Probab=99.96 E-value=6.3e-30 Score=266.21 Aligned_cols=123 Identities=25% Similarity=0.431 Sum_probs=107.7
Q ss_pred chHHHHHHHHHHHH----------HhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEEEccCccccCCCcc
Q 000996 40 GLVRQQLDSFDEFI----------QNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSKPMMTESDGET 109 (1195)
Q Consensus 40 ~Lv~~qi~SFn~Fi----------~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~v~~P~~~e~~~~~ 109 (1195)
+|+++|++|||||+ ++||++++++++||+...+ .+.++.|+|.++++++|.+
T Consensus 2 ~Lv~~Q~~SF~~Flq~~~~~~~r~~~GL~ei~~~~~pI~~~~~-----------~~~~~~L~f~~~~l~~P~~------- 63 (188)
T 3mlq_A 2 PLTEIQVESYKKALQADVPPEKRENVGIQAAFKETFPIEEGDK-----------GKGGLVLDFLEYRIGDPPF------- 63 (188)
T ss_dssp CCHHHHHHHHHHHHCTTSCGGGCCSCHHHHHHHHHCCEEECCS-----------SSCCEEEEEEEEEECCCSS-------
T ss_pred CHHHHHHHHHHHHHhCCcccccchhhcHHHHHHhcCCeeeccC-----------CCCeEEEEEEEEEecCCCC-------
Confidence 79999999999999 8999999999999985310 1257999999999999964
Q ss_pred cCCChHHHHhcCCccceeEEEEEEEEEeccCCCCcccccceeeEEEEecccceeeccCCccCCCCChhhhhhcCCCCCCC
Q 000996 110 ATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQ 189 (1195)
Q Consensus 110 ~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~ 189 (1195)
+|+|||+|++||+|||+|++++...+.. +++.++|++|+|||||.
T Consensus 64 ---~p~Ecr~r~lTYsapl~v~v~l~~~~~~--------~i~~~~v~iG~iPlMt~------------------------ 108 (188)
T 3mlq_A 64 ---SQDECREKDLTYQAPLYARLQLIHKDTG--------LIKEDEVFLGHLPLMTE------------------------ 108 (188)
T ss_dssp ---CHHHHHHTTCCCEEEEEEEEEEEETTTC--------CEEEEEEEEEEEECCCT------------------------
T ss_pred ---CHHHHHhcCCCcceeEEEEEEEEECCCc--------eEEEEEEEEcccCEECC------------------------
Confidence 8999999999999999999999764321 34678999999999994
Q ss_pred CceEEEcCeeeEEeeeeeeecceEEE
Q 000996 190 GGYFIINGSEKVLIAQEKMSTNHVYV 215 (1195)
Q Consensus 190 GGYFIING~ERVII~Qe~~s~N~~~~ 215 (1195)
||||||||+|||||+|+++++|.++.
T Consensus 109 gGyFIING~ERVIVsQe~r~~gell~ 134 (188)
T 3mlq_A 109 DGSFIINGADRVIVSQGGRTVGELMA 134 (188)
T ss_dssp TSCEEETTEEEECCCCSSSCHHHHHH
T ss_pred CCEEEECCEEEEEEEeecccCCeeeE
Confidence 99999999999999999999997753
No 7
>3qqc_A DNA-directed RNA polymerase subunit B, DNA-direct polymerase subunit A', DNA-directed...; transcription, fusion protein, chimera protein, multiprotein; 3.30A {Pyrococcus furiosus}
Probab=99.17 E-value=1.4e-11 Score=144.60 Aligned_cols=63 Identities=38% Similarity=0.698 Sum_probs=58.9
Q ss_pred ceeeeeccccCcceeeccccCceeeccCCCCCCceeecchHhhHHHHHHHHhCCCceEEEecc
Q 000996 1120 AYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKE 1182 (1195)
Q Consensus 1120 ~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~i~~~l~~~~ 1182 (1195)
+++++||..||++++.+.++..++|+.|+++.++.+|.||||||||+|||+||||.+|+.+++
T Consensus 2 k~~~~VC~~CG~~~~~~~~~~~~~C~~C~~~~~i~~v~iPYa~KlL~qEL~smnI~~rl~~~d 64 (436)
T 3qqc_A 2 KTEVWVCENCGHIALEDKRRRRVYCPVCGEEERISKVEMSYAFKLLLDELKAMVIRPKLNLSE 64 (436)
T ss_dssp CEEEEEETTTCCBCEEETTTTEEECTTTCCSSSEEEEEECHHHHHHHHHHHHTTBCCEEEEEC
T ss_pred ceEEEEeCCCCceeeeccccCccCCCCCCCCCeEEEEEcChHHHHHHHHHHhCCeeceeeccc
Confidence 578999999999998877777899999999999999999999999999999999999999974
No 8
>3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory protein, transcription; 3.00A {Escherichia coli}
Probab=99.17 E-value=1.5e-11 Score=129.43 Aligned_cols=96 Identities=21% Similarity=0.331 Sum_probs=77.5
Q ss_pred EEEEEEEechhccCCccccccc--CCCCCCCCCCCCCCcCCCCCCCCcCCCcEECCCCEEEEEeCCCCccccc-------
Q 000996 819 LFFRSYRDEEKKMGTLVKEDFG--RPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQ------- 889 (1195)
Q Consensus 819 ~~~~~~~~~~~~~~~~~~e~~~--~p~~~~~~~~~~~~~~~Ld~dGi~~~G~~v~~gdvli~k~~~~~~~~~~------- 889 (1195)
+|+..|+++.+.+..| .|.|+ +|+.+ ...|++||++|||++|++|++|||||||++|+...++.
T Consensus 2 iHIeeyei~~r~tk~G-~EeIT~dIPnv~------e~~l~~LDe~GIV~iGs~V~~GDILVGKvTPk~~~~~tpEekLL~ 74 (228)
T 3tbi_B 2 IHIQELACVSRDTKLG-PEEITADIPNVG------EAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLR 74 (228)
T ss_dssp CEEEEEEEEEEEETTE-ECEESSCCSSCC------HHHHHTBCTTSBBCTTCCCBTTCEEECEEEECCGGGCCHHHHHHH
T ss_pred ccEEEEEEEEEEcCCC-CeEEecCCCCcc------HHHHhcCCCCCCeecCCEECCCCEEEeccCCCCCCCCChHHHHHH
Confidence 6899999999887554 58885 55532 23589999999999999999999999999998743221
Q ss_pred --cccCCCccceeeEEeecCCCcEEEEEEEEecC
Q 000996 890 --GQASRYTRRDHSISLRHSETGMVDQVLLTTNA 921 (1195)
Q Consensus 890 --~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~ 921 (1195)
...+....+|+|+++++++.|+|+.|.+++..
T Consensus 75 aIfg~k~~~vkDtSL~vp~G~~G~VidV~if~r~ 108 (228)
T 3tbi_B 75 AIFGEKASDVKDSSLRVPNGVSGTVIDVQVFTRD 108 (228)
T ss_dssp HHHCTTSSCEEECCEECCSSCBEEEEEEEEEEBT
T ss_pred HHhCCccccceeCcEecCCCCcEEEEEEEEEecC
Confidence 12355678999999999999999999998754
No 9
>3lti_A DNA-directed RNA polymerase subunit beta; BBM2, nucleotidyltransferase, transcription, transferase; HET: MLY MSE; 1.60A {Escherichia coli} PDB: 3e7h_A
Probab=98.80 E-value=2.2e-08 Score=110.52 Aligned_cols=71 Identities=20% Similarity=0.290 Sum_probs=53.3
Q ss_pred eecceEEEEEec---CCCcceEEEEEEEeecCCCCCCceEEEEEEecCCCCCCCCCcEEEEEeccccccchHHHHHHHhc
Q 000996 208 MSTNHVYVFKKR---QPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALG 284 (1195)
Q Consensus 208 ~s~N~~~~~~~~---~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~~k~~~~~~~i~v~i~~~~~~IPl~ilLrALG 284 (1195)
|||+.+|..... ..++..|+|.| +|.+|+|..++++ .++.+|+++++ ++++|+++||||||
T Consensus 4 ~SPGv~f~~~~~~ths~g~~~y~~~i--IP~RGsWlefe~d-------------~~d~~~vrIdr-~rK~p~t~lLrAlG 67 (296)
T 3lti_A 4 MSPGVFFDSDKGKTHSSGKVLYNARI--IPYRGSWLDFEFD-------------PKDNLFVRIDR-RRKLPATIILRALN 67 (296)
T ss_dssp CCCEEEEEEC---------CCEEEEE--ECSBSCCEEEEEC-------------TTSCEEEEETT-CCCEETHHHHHHTT
T ss_pred CCCEEEEecccCCcCCCCcEEEEEEE--ecCCCceEEEEEc-------------CCCeEEEEEcC-cccchHHHHHHHcC
Confidence 789987764321 24566799988 7899999654441 14689999998 77999999999999
Q ss_pred CCChHHHHHHh
Q 000996 285 FVADKDILEHI 295 (1195)
Q Consensus 285 ~~sD~eI~~~i 295 (1195)
+ +++||++.+
T Consensus 68 ~-~~edIL~~F 77 (296)
T 3lti_A 68 Y-TTEQILDLF 77 (296)
T ss_dssp C-CHHHHHHHH
T ss_pred C-ChHHHHHhc
Confidence 9 578999988
No 10
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus}
Probab=96.17 E-value=0.0016 Score=67.85 Aligned_cols=61 Identities=15% Similarity=0.221 Sum_probs=54.3
Q ss_pred cccceecccchhHHHHHHHHHHHHHHHHHHHhhhhhccCCCCchhhccccccccccccccccc
Q 000996 395 YGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLAT 457 (1195)
Q Consensus 395 l~NKRv~l~G~Ll~~lfr~~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sT 457 (1195)
+-+|+.+++|+||+..++.+|.++.|.+|++|... ....+++.+++|.+.++.+++.||.|
T Consensus 121 IVsQe~r~~gell~~q~r~gl~r~ek~~~e~~~~~--~~~~~~~~~l~n~kp~~~~ik~ff~s 181 (188)
T 3mlq_A 121 IVSQGGRTVGELMADQFRVGLARLARGVRERMVMG--SPDTLTPAKLVNSRPLEAALREFFSR 181 (188)
T ss_dssp CCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHS--CGGGCCHHHHCCCHHHHHHHHHHHHT
T ss_pred EEEeecccCCeeeEEehhhHHHHHHHHHHhhhccc--cccccCcccchhhHHHHHHHHHhhcc
Confidence 45789999999999999999999999999999754 23567899999999999999999975
No 11
>1gh9_A 8.3 kDa protein (gene MTH1184); beta+alpha complex structure, structural genomics, PSI, protein structure initiative; NMR {Methanothermobacterthermautotrophicus} SCOP: g.41.6.1
Probab=69.89 E-value=1.7 Score=38.00 Aligned_cols=49 Identities=16% Similarity=0.371 Sum_probs=32.7
Q ss_pred eeeeeccccCcceeeccccCceeeccCCCCCCce------eecchHhhHHHHHHHHh
Q 000996 1121 YRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIV------QVHIPYACKLLFQELMA 1171 (1195)
Q Consensus 1121 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~~~------~v~iPy~~kll~~EL~s 1171 (1195)
|.+..|+ ||+..+.........|+ |+..-++. .++-.....-+...|++
T Consensus 2 Y~vv~C~-C~~~~~~~~~~kT~~C~-CG~~~~~~k~rif~~~~d~~eA~e~~~~lqa 56 (71)
T 1gh9_A 2 YIIFRCD-CGRALYSREGAKTRKCV-CGRTVNVKDRRIFGRADDFEEASELVRKLQE 56 (71)
T ss_dssp EEEEEET-TSCCEEEETTCSEEEET-TTEEEECCSSSCBSCCSSHHHHHHHHHHHSS
T ss_pred eEEEECC-CCCEEEEcCCCcEEECC-CCCeeeeceEEEEEecCCHHHHHHHHHHHHh
Confidence 6788999 99998776666677898 99743333 24444555555555543
No 12
>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A
Probab=47.89 E-value=9.2 Score=40.16 Aligned_cols=29 Identities=28% Similarity=0.605 Sum_probs=21.8
Q ss_pred CceeeeeccccCcceeeccccCceeeccCCCC
Q 000996 1119 DAYRVHVCEHCGLIAIANLKKNSFECRGCKNK 1150 (1195)
Q Consensus 1119 D~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 1150 (1195)
|....|+|..||-+... ...+.|+.|+..
T Consensus 167 ~~~~~~~C~~CG~i~~g---~~p~~CP~C~~~ 195 (202)
T 1yuz_A 167 DDDKFHLCPICGYIHKG---EDFEKCPICFRP 195 (202)
T ss_dssp CSCCEEECSSSCCEEES---SCCSBCTTTCCB
T ss_pred CCCcEEEECCCCCEEcC---cCCCCCCCCCCC
Confidence 55679999999988532 234689999874
No 13
>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...
Probab=39.75 E-value=13 Score=33.31 Aligned_cols=28 Identities=21% Similarity=0.584 Sum_probs=22.7
Q ss_pred eeeeccccCcceeeccccCceeeccCCC
Q 000996 1122 RVHVCEHCGLIAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1122 ~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 1149 (1195)
.-+.|+.||.........+.+.|..|+.
T Consensus 26 ~~y~Cp~CG~~~v~r~atGiW~C~~Cg~ 53 (83)
T 1vq8_Z 26 EDHACPNCGEDRVDRQGTGIWQCSYCDY 53 (83)
T ss_dssp SCEECSSSCCEEEEEEETTEEEETTTCC
T ss_pred ccCcCCCCCCcceeccCCCeEECCCCCC
Confidence 3567999999776666677899999987
No 14
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Probab=36.00 E-value=21 Score=29.76 Aligned_cols=34 Identities=18% Similarity=0.343 Sum_probs=24.6
Q ss_pred cCCCceeeeeccccCc-ceeeccccCceeeccCCC
Q 000996 1116 DQSDAYRVHVCEHCGL-IAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1116 ~~SD~~~~~vC~~cG~-~~~~~~~~~~~~C~~C~~ 1149 (1195)
..|+...+.+|..||. ....+...+..+|..|+-
T Consensus 4 ~~~~ll~~~~Cp~C~~~~lv~D~~~ge~vC~~CGl 38 (58)
T 1dl6_A 4 SRLDALPRVTCPNHPDAILVEDYRAGDMICPECGL 38 (58)
T ss_dssp CSCCCCSCCSBTTBSSSCCEECSSSCCEECTTTCC
T ss_pred chhhccccccCcCCCCCceeEeCCCCeEEeCCCCC
Confidence 3567777778999997 344455566789999974
No 15
>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubre like, electron transport; 1.63A {Desulfovibrio vulgaris} SCOP: a.25.1.1 g.41.5.1 PDB: 1dvb_A 1jyb_A 1b71_A 1lkm_A 1lkp_A 1qyb_A 1s2z_A 1s30_A 1ryt_A
Probab=32.98 E-value=22 Score=36.92 Aligned_cols=30 Identities=17% Similarity=0.435 Sum_probs=20.3
Q ss_pred CceeeeeccccCcceeeccccCceeeccCCCC
Q 000996 1119 DAYRVHVCEHCGLIAIANLKKNSFECRGCKNK 1150 (1195)
Q Consensus 1119 D~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 1150 (1195)
|....|+|..||-+...... .-.|+.|+..
T Consensus 151 ~~~~~~~C~~CG~~~~g~~~--p~~CP~C~~~ 180 (191)
T 1lko_A 151 EQATKWRCRNCGYVHEGTGA--PELCPACAHP 180 (191)
T ss_dssp EEEEEEEETTTCCEEEEEEC--CSBCTTTCCB
T ss_pred CCCceEEECCCCCEeeCCCC--CCCCCCCcCC
Confidence 44458999999988542111 1279999974
No 16
>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress, oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A 3pza_A 3qvd_A 1nnq_A 2hr5_A
Probab=32.89 E-value=25 Score=35.84 Aligned_cols=26 Identities=27% Similarity=0.638 Sum_probs=18.9
Q ss_pred eeeeccccCcceeeccccCceeeccCCCC
Q 000996 1122 RVHVCEHCGLIAIANLKKNSFECRGCKNK 1150 (1195)
Q Consensus 1122 ~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 1150 (1195)
..|+|..||-+.... -...|+.|+..
T Consensus 137 ~~~~C~~CG~i~~~~---~p~~CP~Cg~~ 162 (170)
T 3pwf_A 137 KVYICPICGYTAVDE---APEYCPVCGAP 162 (170)
T ss_dssp CEEECTTTCCEEESC---CCSBCTTTCCB
T ss_pred CeeEeCCCCCeeCCC---CCCCCCCCCCC
Confidence 579999999876422 12289999864
No 17
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=30.08 E-value=25 Score=28.10 Aligned_cols=27 Identities=22% Similarity=0.513 Sum_probs=20.3
Q ss_pred eeeccccCc-ceeeccccCceeeccCCC
Q 000996 1123 VHVCEHCGL-IAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1123 ~~vC~~cG~-~~~~~~~~~~~~C~~C~~ 1149 (1195)
..+|..||. .+..+...+..+|..|+-
T Consensus 5 ~~~CP~C~~~~l~~d~~~gelvC~~CG~ 32 (50)
T 1pft_A 5 QKVCPACESAELIYDPERGEIVCAKCGY 32 (50)
T ss_dssp CCSCTTTSCCCEEEETTTTEEEESSSCC
T ss_pred cEeCcCCCCcceEEcCCCCeEECcccCC
Confidence 457999998 555555666789999975
No 18
>3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic sequnece for R-proteins, ribonucleoprotein, ribosoma protein, RNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z* 3i56_Z* 3cpw_Y* 4adx_Z
Probab=25.28 E-value=32 Score=32.69 Aligned_cols=29 Identities=21% Similarity=0.548 Sum_probs=22.2
Q ss_pred eeeeeccccCcceeeccccCceeeccCCC
Q 000996 1121 YRVHVCEHCGLIAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1121 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 1149 (1195)
+.-+.|..||.....-...+.|.|+.|+.
T Consensus 58 ~akytCPfCGk~~vKR~avGIW~C~~Cgk 86 (116)
T 3cc2_Z 58 NEDHACPNCGEDRVDRQGTGIWQCSYCDY 86 (116)
T ss_dssp HSCEECSSSCCEEEEEEETTEEEETTTCC
T ss_pred ccCCcCCCCCCceeEecCceeEECCCCCC
Confidence 45578999998765444457899999986
No 19
>3j21_i 50S ribosomal protein L37AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=25.06 E-value=31 Score=30.97 Aligned_cols=29 Identities=24% Similarity=0.702 Sum_probs=22.7
Q ss_pred eeeeeccccCcceeeccccCceeeccCCC
Q 000996 1121 YRVHVCEHCGLIAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1121 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 1149 (1195)
+.-+.|.-||.....-...+.|.|..|+.
T Consensus 33 ~~ky~CpfCGk~~vkR~a~GIW~C~kCg~ 61 (83)
T 3j21_i 33 RQKHTCPVCGRKAVKRISTGIWQCQKCGA 61 (83)
T ss_dssp HSCBCCSSSCSSCEEEEETTEEEETTTCC
T ss_pred hcccCCCCCCCceeEecCcCeEEcCCCCC
Confidence 34567999999876655567899999986
No 20
>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}
Probab=25.02 E-value=31 Score=30.09 Aligned_cols=28 Identities=21% Similarity=0.514 Sum_probs=22.4
Q ss_pred eeeeccccCcceeeccccCceeeccCCC
Q 000996 1122 RVHVCEHCGLIAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1122 ~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 1149 (1195)
.-+.|.-||.....-...+.|.|..|+.
T Consensus 25 ~ky~C~fCgk~~vkR~a~GIW~C~~C~~ 52 (72)
T 3jyw_9 25 ARYDCSFCGKKTVKRGAAGIWTCSCCKK 52 (72)
T ss_dssp SCBCCSSCCSSCBSBCSSSCBCCSSSCC
T ss_pred cCccCCCCCCceeEecCCCeEECCCCCC
Confidence 4567999999886655667899999986
No 21
>4a17_Y RPL37A, 60S ribosomal protein L32; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_Y 4a1c_Y 4a1e_Y
Probab=23.74 E-value=34 Score=31.80 Aligned_cols=29 Identities=24% Similarity=0.616 Sum_probs=22.9
Q ss_pred eeeeeccccCcceeeccccCceeeccCCC
Q 000996 1121 YRVHVCEHCGLIAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1121 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 1149 (1195)
+.-|.|.-||.....-...+.|.|..|+.
T Consensus 34 ~aky~CpfCgk~~vKR~a~GIW~C~kCg~ 62 (103)
T 4a17_Y 34 HAKYGCPFCGKVAVKRAAVGIWKCKPCKK 62 (103)
T ss_dssp HSCEECTTTCCEEEEEEETTEEEETTTTE
T ss_pred hcCCCCCCCCCceeeecCcceEEcCCCCC
Confidence 34577999999886655567899999975
No 22
>3iz5_m 60S ribosomal protein L43 (L37AE); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_m 1ysh_D 2zkr_z
Probab=22.99 E-value=33 Score=31.31 Aligned_cols=29 Identities=24% Similarity=0.620 Sum_probs=22.7
Q ss_pred eeeeeccccCcceeeccccCceeeccCCC
Q 000996 1121 YRVHVCEHCGLIAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1121 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 1149 (1195)
+.-+.|.-||.....-...+.|.|..|+.
T Consensus 34 ~~ky~CpfCgk~~vkR~a~GIW~C~~Cg~ 62 (92)
T 3iz5_m 34 HSKYFCEFCGKFAVKRKAVGIWGCKDCGK 62 (92)
T ss_dssp HSCBCCTTTCSSCBEEEETTEEECSSSCC
T ss_pred hccccCcccCCCeeEecCcceEEcCCCCC
Confidence 34467999999886655567899999986
No 23
>3izc_m 60S ribosomal protein RPL43 (L37AE); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_m 3o58_g 3o5h_g 3u5e_p 3u5i_p 4b6a_p 1s1i_9
Probab=21.08 E-value=36 Score=31.05 Aligned_cols=29 Identities=21% Similarity=0.471 Sum_probs=22.5
Q ss_pred eeeeeccccCcceeeccccCceeeccCCC
Q 000996 1121 YRVHVCEHCGLIAIANLKKNSFECRGCKN 1149 (1195)
Q Consensus 1121 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 1149 (1195)
+.-+.|.-||.....-...+.|.|..|+.
T Consensus 34 ~~ky~CpfCgk~~vkR~a~GIW~C~~C~~ 62 (92)
T 3izc_m 34 HARYDCSFCGKKTVKRGAAGIWTCSCCKK 62 (92)
T ss_dssp HSCCCCSSSCSSCCEEEETTEEECTTTCC
T ss_pred hcCCcCCCCCCceeeecccceEEcCCCCC
Confidence 34567999998876555567899999976
No 24
>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious electron transport, iron; NMR {Mycobacterium tuberculosis}
Probab=20.71 E-value=55 Score=29.20 Aligned_cols=29 Identities=17% Similarity=0.503 Sum_probs=19.5
Q ss_pred eeeeccccCcceeec---------------cccCceeeccCCCC
Q 000996 1122 RVHVCEHCGLIAIAN---------------LKKNSFECRGCKNK 1150 (1195)
Q Consensus 1122 ~~~vC~~cG~~~~~~---------------~~~~~~~C~~C~~~ 1150 (1195)
..++|..||-+.... ..-..|.|+.|+..
T Consensus 26 ~~y~C~vCGyvYD~~~Gdp~~gI~pGT~fedlPddW~CPvCga~ 69 (81)
T 2kn9_A 26 KLFRCIQCGFEYDEALGWPEDGIAAGTRWDDIPDDWSCPDCGAA 69 (81)
T ss_dssp CEEEETTTCCEEETTTCBTTTTBCTTCCTTTSCTTCCCTTTCCC
T ss_pred ceEEeCCCCEEEcCCcCCcccCcCCCCChhHCCCCCcCCCCCCC
Confidence 468999999775211 01235789999975
No 25
>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur protein, oxidoreductase, ELE transfer, electron transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas aeruginosa}
Probab=20.19 E-value=51 Score=27.16 Aligned_cols=29 Identities=28% Similarity=0.542 Sum_probs=19.4
Q ss_pred eeeeccccCcceeecc---------------ccCceeeccCCCC
Q 000996 1122 RVHVCEHCGLIAIANL---------------KKNSFECRGCKNK 1150 (1195)
Q Consensus 1122 ~~~vC~~cG~~~~~~~---------------~~~~~~C~~C~~~ 1150 (1195)
..++|..||-+-.... .-..|.|+.|+..
T Consensus 2 ~~y~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cga~ 45 (55)
T 2v3b_B 2 RKWQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVG 45 (55)
T ss_dssp CEEEETTTCCEEETTTCBTTTTBCTTCCGGGSCTTCCCTTTCCC
T ss_pred CcEEeCCCCeEECCCcCCcccCcCCCCChhHCCCCCcCCCCCCC
Confidence 3589999997752210 1235689999975
Done!