Query 003180
Match_columns 842
No_of_seqs 177 out of 1717
Neff 6.5
Searched_HMMs 29240
Date Mon Mar 25 16:11:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003180.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/003180hhsearch_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-248 6E-253 2251.1 52.4 830 1-830 346-1209(1210)
2 1twf_B DNA-directed RNA polyme 100.0 3E-242 1E-246 2219.3 62.3 830 1-830 360-1221(1224)
3 4ayb_B DNA-directed RNA polyme 100.0 4E-216 1E-220 1996.8 61.9 814 1-834 300-1125(1131)
4 2a6h_C DNA-directed RNA polyme 100.0 3E-184 1E-188 1670.1 43.1 679 17-830 301-1106(1119)
5 3lu0_C DNA-directed RNA polyme 100.0 3E-171 9E-176 1539.0 35.8 671 10-826 416-1340(1342)
6 3qqc_A DNA-directed RNA polyme 99.3 1.8E-12 6.3E-17 146.2 6.7 63 767-829 2-64 (436)
7 3tbi_B DNA-directed RNA polyme 99.1 3E-11 1E-15 122.9 6.1 96 466-568 2-108 (228)
8 3mlq_A DNA-directed RNA polyme 93.2 0.063 2.2E-06 53.8 4.4 63 42-106 121-183 (188)
9 1gh9_A 8.3 kDa protein (gene M 78.8 0.72 2.5E-05 38.8 1.5 48 768-817 2-55 (71)
10 1yuz_A Nigerythrin; rubrythrin 62.6 3.9 0.00013 41.2 2.9 29 766-797 167-195 (202)
11 1lko_A Rubrerythrin all-iron(I 53.7 6.6 0.00023 39.1 2.8 30 766-797 151-180 (191)
12 3pwf_A Rubrerythrin; non heme 52.9 8.2 0.00028 37.8 3.3 26 769-797 137-162 (170)
13 1vq8_Z 50S ribosomal protein L 46.8 9.5 0.00032 33.0 2.3 28 769-796 26-53 (83)
14 1dl6_A Transcription factor II 40.9 17 0.00057 29.1 2.8 33 764-796 5-38 (58)
15 1pft_A TFIIB, PFTFIIBN; N-term 39.9 15 0.0005 28.2 2.2 27 770-796 5-32 (50)
16 3j21_g 50S ribosomal protein L 33.3 18 0.00062 28.3 1.8 26 768-797 12-37 (51)
17 2kn9_A Rubredoxin; metalloprot 30.3 24 0.00082 30.3 2.2 29 769-797 26-69 (81)
18 2v3b_B Rubredoxin 2, rubredoxi 30.1 26 0.00088 27.8 2.2 28 770-797 3-45 (55)
19 2k4x_A 30S ribosomal protein S 28.8 22 0.00074 28.2 1.5 27 770-796 18-44 (55)
20 6rxn_A Rubredoxin; electron tr 27.4 28 0.00096 26.6 1.9 29 769-797 3-39 (46)
21 3j21_i 50S ribosomal protein L 26.9 28 0.00097 30.0 2.0 29 768-796 33-61 (83)
22 3j20_Y 30S ribosomal protein S 25.6 32 0.0011 26.7 1.9 27 770-796 19-45 (50)
23 4a17_Y RPL37A, 60S ribosomal p 25.0 32 0.0011 30.7 2.1 29 768-796 34-62 (103)
24 1yk4_A Rubredoxin, RD; electro 24.8 37 0.0013 26.5 2.2 28 770-797 2-44 (52)
25 3cc2_Z 50S ribosomal protein L 24.0 33 0.0011 31.4 2.0 29 768-796 58-86 (116)
26 1s24_A Rubredoxin 2; electron 23.7 36 0.0012 29.6 2.1 30 768-797 33-77 (87)
27 3jyw_9 60S ribosomal protein L 23.6 31 0.0011 28.9 1.6 29 768-796 24-52 (72)
28 1dx8_A Rubredoxin; electron tr 23.5 32 0.0011 28.7 1.7 29 769-797 6-49 (70)
29 3iz5_m 60S ribosomal protein L 22.2 33 0.0011 30.1 1.6 29 768-796 34-62 (92)
30 1e8j_A Rubredoxin; iron-sulfur 21.5 47 0.0016 26.0 2.2 28 770-797 3-45 (52)
31 1twf_L ABC10-alpha, DNA-direct 20.8 40 0.0014 28.0 1.8 28 769-797 27-54 (70)
32 3izc_m 60S ribosomal protein R 20.1 37 0.0013 29.8 1.4 29 768-796 34-62 (92)
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=1.8e-248 Score=2251.06 Aligned_cols=830 Identities=67% Similarity=1.136 Sum_probs=784.1
Q ss_pred CccccCCCCCCcchHHHHHHHHHHHHHhhcCCCCCCCCCCccCCcEECchhHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 003180 1 MLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNG 80 (842)
Q Consensus 1 llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkRv~~~G~Ll~~lf~~~~~~~~~~~~~~~~~~~~~~ 80 (842)
||||++....++.+||+||++|+||||+++.|.+.+||+|||+||||+++|+||+.+||+.|+++++.+++++++.+++.
T Consensus 346 lLpHl~~~~~~~~~Ka~fL~~MvrkLl~~~~G~~~~Dd~D~~~nkrl~l~G~Ll~~lfr~~~~~~~~~i~~~l~k~~~~~ 425 (1210)
T 3h0g_B 346 LLPHITTMEGFETRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDVYKYMQKCVETN 425 (1210)
T ss_dssp SSCSSCCSSSCCSSHHHHHHHHHHHHHHHHTTSSCCCCTTCSSSCCBCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred EEeCcCCCccchhHHHHHHHHHHHHHHHHhCCCCCCCCCccccCeEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 69999998888899999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred CCCchhccccccchhhhhhhhhccCcccccc-ccccccceeEeccccChhhhhcccccccCCcccCCCcCCcccccCCCc
Q 003180 81 KDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQLHNSQW 159 (842)
Q Consensus 81 ~~~~~~~~~~~~~it~~i~~~~sTGnw~~~~-~~~~~~G~sq~l~r~N~l~~lShlRrv~~~~~~~~K~t~~R~LhpS~w 159 (842)
+.+++..+++++.||++|++|||||||+.++ +.++++||||+|+|+||+|+|||||||++|+++++|+++||+||||||
T Consensus 426 ~~~~~~~~i~~~~It~~l~~~laTGNW~~~kk~~~~~sGvsqvl~R~n~~s~lShlRrv~~p~~~~~K~~~~R~Lhpt~W 505 (1210)
T 3h0g_B 426 REFNLTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFASTLSHLRRTNTPIGRDGKLAKPRQLHNTHW 505 (1210)
T ss_dssp CSCCCTTSSCSTTTSHHHHHHHSSSCSSTTSSCCSCCCCSCCBCCCSSHHHHHHHTTBBCCSCCSSCCSSSSSSCCGGGT
T ss_pred CccCHHHhcchhhhHHHHHHHhhcCCcccccccccCcCCEEEEcccCCHHHHHHHHHhccCchhhccccccccccChhhh
Confidence 8889999999999999999999999999776 778999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCCCCcchhhhhcccceEEecCCCchhHHHHHHHhCCccccccCCCCCCCcEEEEECCEEEEEEcChHHHHHH
Q 003180 160 GMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKT 239 (842)
Q Consensus 160 GfiCPveTPEG~~cGLvknLA~~a~Is~~~~~~~i~~~L~~~g~~~~~~~~~~~~~~~~~VflnG~~iG~~~~~~~lv~~ 239 (842)
||+||+|||||++||||||||++|+||++++.+||.++|.++||++++++.+...++.++|||||+|||+|++|..|+++
T Consensus 506 G~iCP~eTPEG~~cGLvknLal~~~Isvg~~~~pI~~~l~~~gme~le~~~~~~~~~~tkVfvNG~wVGvh~dp~~Lv~~ 585 (1210)
T 3h0g_B 506 GMVCPAETPEGQACGLVKNLSLMSYVSVGSPSAPIIEFLEEWGLETLEDYNPSASPNATKVFVNGVWLGVHRDPAHLTET 585 (1210)
T ss_dssp TTCCCSCCCSSSSTTTSCBCCSSCCBCCCCCSSHHHHHHHSSSCCCCSCCCSSSSSSSCCCCSTTCCCCCCSCHHHHHHH
T ss_pred eeeccccCCCCCcccccccccceeeeECCCCcHHHHHHHHHhCCcchhhcCcccCCCceEEEECCEEEEEeCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999998888888999999999999999999999999
Q ss_pred HHHhhhcCCCCCcEEEEEeccCCeEEEecCCCeeeeeEEEeecc-------cccccHHHHHHHhcCCC------CCCCCc
Q 003180 240 LRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQ-------RLLIKKRDIIALQQRES------PEDGGW 306 (842)
Q Consensus 240 lR~lRr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~vv~n~-------~~~~~~~~~~~l~~~~~------~~~~~~ 306 (842)
||.|||+|.|+.+|||++|.+++||+||||+||+|||||+|+|+ ++.++++|+++|+.+.. .+..+|
T Consensus 586 lR~lRR~g~Is~eVSIvrdir~rE~~IfTDaGRv~RPLfvVen~~~~~~~g~L~l~k~hi~~L~~~~~~~~~~~~~~~~w 665 (1210)
T 3h0g_B 586 LRSLRRRLDISAEVSIVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHIQQLIEDKDRYDIDPEQRFGW 665 (1210)
T ss_dssp HHHHHTTTSSCTTCCCCCCTTTCCCCCCCSSCCBCCEEEECCCSSCSSSSCCCSSCHHHHHHHHHHHTCCCSCTTCCCSS
T ss_pred HHHHhhcCCCCCceEEEecCCCCeEEEecCCCcccceEEEEccCCcccccccccccHHHHHHHhcccccccccccccCCH
Confidence 99999999999999999999999999999999999999999986 89999999999974321 124699
Q ss_pred hhccccCcEEEeccccccceeEeecccccccccCCC---------------Cc---CCCCceeeeeccCCcccccccccc
Q 003180 307 HDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHP---------------EE---AYADTYTHCEIHPSLILGVCASII 368 (842)
Q Consensus 307 ~~l~~~g~IE~Id~~Eq~~~~Ia~~~~~l~~~~~~~---------------k~---~~~~~~TH~EI~Ps~ilgv~AslI 368 (842)
++|+++|+|||||++||++++|||+++||++++..+ +. ...+.||||||||++|||||||+|
T Consensus 666 ~~Lv~~GvIEylDaeEEet~mIamtpeDL~~~r~~~~g~~~~~~~d~~~r~k~~~~~~~~~~THcEIhPsmILGIcASiI 745 (1210)
T 3h0g_B 666 TALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKPAPNPHVHAWTHCEIHPAMILGILASII 745 (1210)
T ss_dssp TTTTTTTSEEECCTTTGGGCCEESCHHHHHHHHHHTTCCCCCCSSCCSSCCCCCSCCSCCSCSEECSCGGGSSCSSSTTS
T ss_pred HHHHhCCCEEEecHhhhhceeEEecHHHhhhhhhhhccccccccccchhhccccCCCcccccccccccchhhhhheeecc
Confidence 999999999999999999999999999996532110 00 124679999999999999999999
Q ss_pred CCCCCCCCccchhhhcccccccccccceeEEecccCcceeccCCcceeeccccccccCCCCCCCceeeEEeeeccCCCCC
Q 003180 369 PFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQE 448 (842)
Q Consensus 369 PF~~HNqSpRn~yq~~M~KQaig~~~~n~~~R~Dt~~~~L~ypQ~PlV~t~~~~~~~~~e~p~G~N~iVAvmsy~GYn~E 448 (842)
|||||||||||||||||+|||||++.+|++.|+||++|+|+|||+|||+|+++|+++++++|+|+||+||||||+|||||
T Consensus 746 PFpdHNQSPRNtYQ~aMgKQamG~~~~n~~~R~Dt~~~~L~yPQkPlv~T~~~e~~~~~elp~G~NaiVAvmsy~GYn~E 825 (1210)
T 3h0g_B 746 PFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRSMEYLKFRELPAGQNAIVAILCYSGYNQE 825 (1210)
T ss_dssp SSSTTSCSHHHHHHHHHHTTCCSCCCTTTTTSCCSSEEEESSCBCCSSBCTTSTTTTCTTSCSCCEECBEECCCSSSSCS
T ss_pred cCccccccchhhhhhhhhcccccccccccccccCccccEeecCcCccccchhHHHhCCCcccCccceEEEEeccCCCChh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeeeccccccCceeEEEEEEEEeeehhcCCccccccccCCCCCCCCCCCCCccCCCCCCCcCCCcEEcCCCEEEEeeC
Q 003180 449 DSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTT 528 (842)
Q Consensus 449 DAiIiNk~si~rG~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~k~~~~~~Ld~dGl~~~G~~v~~gdvli~k~~ 528 (842)
|||||||+|+|||||||+||++|++++++.+.+..+.|++|+.+...++|.+.|++||+||||+||++|++|||||||++
T Consensus 826 DAiIink~sv~rg~~~s~~~~~y~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~LD~dGi~~~G~~v~~gDiligK~~ 905 (1210)
T 3h0g_B 826 DSIIMNQASIDRGLFRSIFYRTYTDQEKKIGMTVMEEFERPVRSTTLRMKHGTYDKLEDDGLIAPGTRVSGEDIIIGKTA 905 (1210)
T ss_dssp SCEEEEHHHHTTTTTCEEEEEEEEECCCCCSSSCCCCCCCCCTTSCCSCCSCCGGGCCTTSSCCTTCCCCTTCCCCCCCC
T ss_pred hheeeehhheecCceEEEEEEEEEEEeeecCCCceeEEcCCCcchhcccchhhHhhcCCCCCcCCCCEecCCCEEEEEec
Confidence 99999999999999999999999999988776667899999876665677788999999999999999999999999999
Q ss_pred CCCcc--ccccccCCCccceeeEEeeccccceEEeEEEeecCCCceEEEEEEeeecCCcccccccccCCCcceeeeeecc
Q 003180 529 PISQD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQ 606 (842)
Q Consensus 529 ~~~~~--~~~~~~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~v~v~~r~~R~p~iGDKfssRhGqKGvvs~i~~~ 606 (842)
|+..+ +++...+....+|+|++++++|.|+||+|.++++++|.+.|||++|+.|+|++|||||||||||||||+|||+
T Consensus 906 p~~~~~~~~~~~~~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkv~~~~~R~~~~GDK~a~RhGqKGvi~~i~~~ 985 (1210)
T 3h0g_B 906 PIPLDHEELGQRTQLHAKRDVSTPLRSTESGIVDQVMVTTNQEGLKFVKVRMRSTRIPQIGDKFASRHGQKGTIGMTYRH 985 (1210)
T ss_dssp CC-----------CCCCCCCCCCCCCTTCCCCCCEEEEEECSSSSEEEEEEECCCBCCCTTCEEECTTCCCEEEEEEECT
T ss_pred CCCCCchhhcccccccccceeeEEecCCCCeEEEEEEEEEecCCCeEEEEEEEEecCCCchhhhhcccCCCceeeEEecc
Confidence 98642 2333333456799999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCCceEEeCCCCCCCCCcHHHHHHHHhhhhhhccCCcceecCCCCCCHHHHHHHHHHcCCCCCCeEEEeeCC
Q 003180 607 EDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGH 686 (842)
Q Consensus 607 ~dmPft~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~tpF~~~~~~~~~~~l~~~g~~~~G~e~ly~g~ 686 (842)
|||||++||++|||||||||||||||||||+|+++|||+++.|.+.|+|||++..++++++.|+++||+++|+|.||||+
T Consensus 986 edmPf~~~G~~pDii~NP~~~PSRMtigq~~E~~~g~~~~~~g~~~~~tpF~~~~~~~~~~~l~~~g~~~~G~~~l~~g~ 1065 (1210)
T 3h0g_B 986 EDMPFSAQGIVPDIIINPHAIPSRMTVAHLVECQLSKVSALSGFEGDATPFTDVTVEAVSKLLRSHGFQSRGFEVMYHGH 1065 (1210)
T ss_dssp TTSCCBTTTBCCSEECCGGGSTTSCCHHHHHHHHHHHHSSSSCCCCBCCSSCSCCHHHHHHHHHTTTSCTTSCBCCBCSS
T ss_pred ccCCcCCCCCCCeEEECCCcCCCCccchhhhHhHHHHHHHhcCCceeeccCCCCcHHHHHHHHHHcCcCCCCCEEEEcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcEEeeeEeEeeehhhhccCccCcceEEeccCCccccccCCCCcccCCCcceeeehhhHHHHhhccHHHHHHhhhcCCC
Q 003180 687 TGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSD 766 (842)
Q Consensus 687 tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~erl~~~SD 766 (842)
||++|+++||+|++|||||+|||+||+|||++|||+.|||||++||+|+|||||||||||||+|||||++|+|||+++||
T Consensus 1066 tg~~~~~~i~~G~~yy~kL~Hmv~dK~h~r~~gp~~~~t~QP~~gr~~~GG~r~GEME~~~l~a~Gaa~~l~e~l~~~SD 1145 (1210)
T 3h0g_B 1066 TGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEMERDCQISHGCSSVLRERLFDCSD 1145 (1210)
T ss_dssp SCCBCSSCBEECCEECEECSCCSTTTCEECSSCCBCSSSCSBCCSSTTCCCCCCCHHHHHHHHHHTBHHHHHHHHHTTTT
T ss_pred CCCCccccEEEEehHhhcchhhcccCcEEeccCCCchhccCCcccccccCCeeeehhhhhhhhhccHHHHHHHHhhcCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeeeccccCcceeecccCCceeeccCCCCCCceeecchHhHHHHHHHHHhCCCceEEEEccC
Q 003180 767 AYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKED 830 (842)
Q Consensus 767 ~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~i~~v~iPy~~kll~~EL~sm~I~~~l~~~~~ 830 (842)
.++++||+.||++++.+..++.++|+.|.++.+|.++.||||||||+|||+||||.+||.++++
T Consensus 1146 ~~~~~vC~~cg~~~~~~~~~~~~~c~~c~~~~~i~~~~~p~~~k~l~~El~~~~i~~rl~~~~~ 1209 (1210)
T 3h0g_B 1146 AYRVIVCDICGLIAIASYKKDSYECRSCQNRTRFSQVYLPYAAKLLFQELMSMNIAPRLFTKNH 1209 (1210)
T ss_dssp CCEEEEESSSCCBCCCCSSSCCCCCTTTCCSSCEEEEECCHHHHHHHHHHHTTTCCEECCCSTT
T ss_pred cceeEeecCCCCeeeecccCCceEcCccCCCCccceecCCHHHHHHHHHHHhCCCceEEEecCC
Confidence 9999999999999987777778899999999999999999999999999999999999998653
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=3.4e-242 Score=2219.27 Aligned_cols=830 Identities=67% Similarity=1.129 Sum_probs=742.1
Q ss_pred CccccCCCCCCcchHHHHHHHHHHHHHhhcCCCCCCCCCCccCCcEECchhHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 003180 1 MLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNG 80 (842)
Q Consensus 1 llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkRv~~~G~Ll~~lf~~~~~~~~~~~~~~~~~~~~~~ 80 (842)
||||+|....++.+|++||++|++|||.+..|.+.+||+|||+||||+++|+||+.+||+.|+++++.+++++++.+++.
T Consensus 360 ~l~Hvg~~~~~~~~K~~~L~~mi~kLl~~~~g~~~~DD~DhlgnkRv~l~G~Ll~~lfr~~~~r~~~~i~~~l~~~~~~~ 439 (1224)
T 1twf_B 360 FLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMQRTVEEA 439 (1224)
T ss_dssp SSTTTCCSSSCHHHHHHHHHHHHHHHHHHHTTSSCCCCTTCGGGEEEECHHHHHHHHHHHHHHHHHHHHHHHHHSCCC--
T ss_pred cccccCCCccccccHHHHHHHHHHHHHHHhcCCCCCCCCccccccEEehhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 68999987656679999999999999999999999999999999999999999999999999999999999999987777
Q ss_pred CCCchhccccccchhhhhhhhhccCcccccc-ccccccceeEeccccChhhhhcccccccCCcccCCCcCCcccccCCCc
Q 003180 81 KDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQLHNSQW 159 (842)
Q Consensus 81 ~~~~~~~~~~~~~it~~i~~~~sTGnw~~~~-~~~~~~G~sq~l~r~N~l~~lShlRrv~~~~~~~~K~t~~R~LhpS~w 159 (842)
+.+++..+++++.||++|++|||||||+.++ +.++++||||+|+|+||+|+||||||+|+|+++++|+++||+||||||
T Consensus 440 ~~~~~~~~i~~~~It~~lk~~~aTGNw~~~k~~~~~~sGvSQvldr~n~ls~LSH~RRi~~~~~r~~k~~~~R~LHpshw 519 (1224)
T 1twf_B 440 HDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKLAKPRQLHNTHW 519 (1224)
T ss_dssp ------CCCCTHHHHHHHHHHHHHCCCC---------CCCEEECCCSSHHHHHHHHTEEECCC------CCTTSCCGGGT
T ss_pred cccchhhhhcccchhhcchhheeeccccccccccccccceeEeecccchhhhhhhhhcccccccccccccccccccCccc
Confidence 7889999999999999999999999999887 778999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCCCCcchhhhhcccceEEecCCCchhHHHHHHHhCCccccccCCCCCCCcEEEEECCEEEEEEcChHHHHHH
Q 003180 160 GMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKT 239 (842)
Q Consensus 160 GfiCPveTPEG~~cGLvknLA~~a~Is~~~~~~~i~~~L~~~g~~~~~~~~~~~~~~~~~VflnG~~iG~~~~~~~lv~~ 239 (842)
||+||+|||||++||||||||+||+||++++++||.++|.++||+++++..+...++.++|||||+|||+|++|..|++.
T Consensus 520 G~iCPiETPEG~~cGLVknLAl~a~Is~g~~~~pi~~~l~~~G~~~l~e~~~~~~~~~~kVfvnG~~vG~~~~p~~lv~~ 599 (1224)
T 1twf_B 520 GLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARLMET 599 (1224)
T ss_dssp TTBCSSCCCSGGGBTTEEEBCTTCEECCCCCCHHHHHHHHHTTCEEGGGCCGGGCTTCEEEEETTEEEEEESCHHHHHHH
T ss_pred eeecCCCCCCCcccchhhhHHhhCcccCCCCHHHHHHHHHHcCCcceeecccccCCCceEEEECCEEEEEeCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999988777778899999999999999999999999
Q ss_pred HHHhhhcCCCCCcEEEEEeccCCeEEEecCCCeeeeeEEEeecc------cccccHHHHHHHhcCC-------C--CCCC
Q 003180 240 LRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQ------RLLIKKRDIIALQQRE-------S--PEDG 304 (842)
Q Consensus 240 lR~lRr~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~vv~n~------~~~~~~~~~~~l~~~~-------~--~~~~ 304 (842)
||.|||++.|+.+|||++|+++++++||||+||+|||||+|+|+ ++.++++|+++|+.++ . .+..
T Consensus 600 lr~lRR~g~i~~evsiv~d~r~~ei~I~TD~GRv~RPl~vV~~~~~~~~~~l~l~k~hi~~L~~~~~~~~~~~~~~~~~~ 679 (1224)
T 1twf_B 600 LRTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAKLMATEYQDIEGGFEDVEEY 679 (1224)
T ss_dssp HHHHHHHTSSCTTCEEEEETTTTEEEEECCSCCEEEEEEEEECCCTTSSCEESCCHHHHHHHHHHHHCC---------CC
T ss_pred HHHHHhccCCCCeEEEEEecccCeEEEeccCceeeeeEEEecCCCccccccceecHHHHHHhhhcccccccccccccccc
Confidence 99999999999999999999999999999999999999999998 9999999999996431 0 0135
Q ss_pred CchhccccCcEEEeccccccceeEeecccccccccCCC------------C-cCCCCceeeeeccCCccccccccccCCC
Q 003180 305 GWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHP------------E-EAYADTYTHCEIHPSLILGVCASIIPFP 371 (842)
Q Consensus 305 ~~~~l~~~g~IE~Id~~Eq~~~~Ia~~~~~l~~~~~~~------------k-~~~~~~~TH~EI~Ps~ilgv~AslIPF~ 371 (842)
+|++|+++|+||||||+||++++||++++++.+.+... + ...+..||||||||++|||||||+|||+
T Consensus 680 ~w~~Lv~~G~iEyldaeEEe~~~Ia~~~~dl~~~~~~~~~~~~~~~~~R~~~~~~~~~~Th~EI~Ps~ILgV~ASlIPF~ 759 (1224)
T 1twf_B 680 TWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVSHHATTFTHCEIHPSMILGVAASIIPFP 759 (1224)
T ss_dssp CHHHHHHTTSEEEEEHHHHTTCCEESSGGGGCC---------CCCTTSCCCCCCCCSCCCEECSCGGGGSCTTGGGSSSG
T ss_pred chhHhccCCcEEEcChhhhcCcEEeccccccCcccccccccccccccccccCCcCchhhcccccCCccccceeecccCCc
Confidence 99999999999999999999999999999997632110 0 0113479999999999999999999999
Q ss_pred CCCCCccchhhhcccccccccccceeEEecccCcceeccCCcceeeccccccccCCCCCCCceeeEEeeeccCCCCCCce
Q 003180 372 DHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSV 451 (842)
Q Consensus 372 ~HNqSpRn~yq~~M~KQaig~~~~n~~~R~Dt~~~~L~ypQ~PlV~t~~~~~~~~~e~p~G~N~iVAvmsy~GYn~EDAi 451 (842)
||||||||||||||+|||||++.+|+..|+|++.|+|+|||+|||+|+.++.++++|+|+|+||+||||||+||||||||
T Consensus 760 dHNqSpRn~yqs~M~kQA~g~~~~n~~~r~dt~~~~l~ypQkPlV~t~~~~~~~~~elp~G~N~iVAvm~y~GYN~EDAi 839 (1224)
T 1twf_B 760 DHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSM 839 (1224)
T ss_dssp GGSCHHHHHHHHHHGGGBCBCSCTTTTTCCCSEEEEESSCBCCSEECTTHHHHTTTTSCCCEEEEEEECBSSSTTTTTEE
T ss_pred cccccchhhhcccccccccccccceeeeecccccceeecCcCCeEEcccccccccccCCCCeeEEEEEecccCcccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeccccccCceeEEEEEEEEeeehhcCCccccccccCCCCCCCCCCCCCccCCCCCCCcCCCcEEcCCCEEEEeeCCCC
Q 003180 452 IMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPIS 531 (842)
Q Consensus 452 IiNk~si~rG~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~k~~~~~~Ld~dGl~~~G~~v~~gdvli~k~~~~~ 531 (842)
||||+|+|||+|||+||++|++++++++.+..|.|++|+..+..+++...|++||+||||+||++|++|||||||++|..
T Consensus 840 Iin~~sv~rg~~~s~~~~~y~~~~~~~~~~~~e~~~~P~~~~~~~~~~~~~~~LD~dGiv~~G~~V~~gDilvgK~~p~~ 919 (1224)
T 1twf_B 840 IMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPIS 919 (1224)
T ss_dssp EEEHHHHHTTTTCEEEEEEEEECCCCSCTTCCCEESCCCCSSSCBCCSSCGGGCCTTSBCCTTCEECTTCEEECEECCCC
T ss_pred hhhhhHHhcCCeeEEEEEEEEEEeeeCCCCceeEecCCChhhccCccHHHHhhcccCCccCCccEecCCCEEEEEecCCC
Confidence 99999999999999999999999887655666789999876666677788999999999999999999999999999986
Q ss_pred cc--ccccccCCCccceeeEEeeccccceEEeEEEeecCCCceEEEEEEeeecCCcccccccccCCCcceeeeeecccCC
Q 003180 532 QD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDM 609 (842)
Q Consensus 532 ~~--~~~~~~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~~~~~v~v~~r~~R~p~iGDKfssRhGqKGvvs~i~~~~dm 609 (842)
++ ++....+....+|+|++++++|.|+||+|.++++.+|.+.|||++|+.|+|+||||||||||||||||+|||+|||
T Consensus 920 ~~~~~~~~~~~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkV~ir~~R~p~iGDKfasRHGqKGvis~i~p~eDM 999 (1224)
T 1twf_B 920 PDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDM 999 (1224)
T ss_dssp -------------CCBBCCEECCTTCCEEEEEEEEEECSSSCEEEEEEEEEEECCCTTCEEECTTSCEEEEEEEECTTTS
T ss_pred ccccccccccccCccceeEEEeeCCCCeEEEEEEEEecCCCCEEEEEEEEecCCCCchhhhhhhccCcceeeeecccccC
Confidence 42 2222333456899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCceEEeCCCCCCCCCcHHHHHHHHhhhhhhccCCcceecCCCCCCHHHHHHHHHHcCCCCCCeEEEeeCCCCc
Q 003180 610 PWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGR 689 (842)
Q Consensus 610 Pft~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~tpF~~~~~~~~~~~l~~~g~~~~G~e~ly~g~tG~ 689 (842)
|||+||++|||||||||||||||||||+|+++||||++.|.+.|+|||++.+++++++.|+++||+++|+|.||||+||+
T Consensus 1000 Pf~~dG~~pDiIiNPhg~PSRMtiGqllE~~lgka~~~~G~~~datpF~~~~~~~i~~~L~~~g~~~~G~e~ly~G~TG~ 1079 (1224)
T 1twf_B 1000 PFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGK 1079 (1224)
T ss_dssp CEETTSCCCSEEECGGGSTTTTCHHHHHHHHHHHHHHHHCSCEECCSSSSCCHHHHHHHHHTTTSCTTSEECEECTTTCC
T ss_pred CcCCCCCCccEEeCCCcCccccccchhHHHHhhHHHHhcCceeecCCCCCccHHHHHHHHHHcCCCCCCCEEeecCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeeEeEeeehhhhccCccCcceEEeccCCccccccCCCCcccCCCcceeeehhhHHHHhhccHHHHHHhhhcCCCcee
Q 003180 690 RLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYR 769 (842)
Q Consensus 690 ~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~erl~~~SD~~~ 769 (842)
+|+++||+|++|||||+|||+||+||||+|||+.|||||++||+|+|||||||||||||+|||||++|||||+.+||.+.
T Consensus 1080 ~~~~~i~vG~~YyqkL~HmV~DKihaRs~GP~~~lT~QP~~Gr~r~GG~RfGEMErd~L~a~Gaa~~L~ErL~~~SD~~~ 1159 (1224)
T 1twf_B 1080 KLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHGAASFLKERLMEASDAFR 1159 (1224)
T ss_dssp BCSSCEEEEEEEEEEBSSCGGGTCEEECCCC----------------CCCCCHHHHHHHHHHTCHHHHHHHHCCSSCCCE
T ss_pred CccceEEEehhHhhcchhhcccCceEEeeCCCcccccCCCcccccCCceecchhhhhhHHhccHHHHHHHHHhcCCccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeccccCcc-eeecccCCceeeccCCCCCCceeecchHhHHHHHHHHHhCCCceEEEEccC
Q 003180 770 VHVCEHCGLI-AIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKED 830 (842)
Q Consensus 770 ~~vC~~cG~~-~~~~~~~~~~~C~~C~~~~~i~~v~iPy~~kll~~EL~sm~I~~~l~~~~~ 830 (842)
++||+.||++ ++.+..++.++|+.|+++.++.++.||||||||+|||+||||++++.+++.
T Consensus 1160 ~~vC~~cG~~~~~~~~~~~~~~c~~c~~~~~i~~~~iPysfklL~~EL~sm~i~~~l~~~~~ 1221 (1224)
T 1twf_B 1160 VHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMNITPRLYTDRS 1221 (1224)
T ss_dssp EEEESSSCSSCCEEETTTTEEEBTTTTBSSSEEEEECCHHHHHHHHHHHHTTBCCEEESCSS
T ss_pred eEeeccCCCeeeecccccCceECCcCCCCCccccccCCHhHHHHHHHHHHCCCeeEEEeccc
Confidence 9999999999 777777788899999988899999999999999999999999999998754
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=4.1e-216 Score=1996.75 Aligned_cols=814 Identities=46% Similarity=0.773 Sum_probs=758.9
Q ss_pred CccccCCCCCCcchHHHHHHHHHHHHHhhcCCCCCCCCCCccCCcEECchhHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 003180 1 MLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNG 80 (842)
Q Consensus 1 llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkRv~~~G~Ll~~lf~~~~~~~~~~~~~~~~~~~~~~ 80 (842)
+|||++...+++..|+.+|++|++||+.+..|.+.+||+|||+||||+++|+||+.+||..|+++++.+++++.+...+.
T Consensus 300 ~l~hl~~~~~~~~~K~~~L~~mi~~Ll~l~~g~~~~DD~Dhl~NkRvr~vGeLl~~~fr~~l~r~~r~ir~~~~~~~~~~ 379 (1131)
T 4ayb_B 300 FLPHLGTSADDRRKKAYYLAYAISKVIELYLGRREPDDKDHYANKRLRLAGDLFASLFRVAFKAFVKDLTYQLEKSKVRG 379 (1131)
T ss_dssp SSTTSCSSTTSHHHHHHHHHHHHHHHHHHHHTSSCCCCTTSGGGEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred hcccccccccchhHHHHHHHHHHHHHHHHHcCCCCCCCCcchhcceecchhHHHHHHHHHHHHHHHHHhhhhcccchhcc
Confidence 68999999888999999999999999999999999999999999999999999999999999999999999998876666
Q ss_pred CCCchhccccccchhhhhhhhhccCccccccccccccceeEeccccChhhhhcccccccCCcccCCCcCCcccccCCCcc
Q 003180 81 KDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQLHNSQWG 160 (842)
Q Consensus 81 ~~~~~~~~~~~~~it~~i~~~~sTGnw~~~~~~~~~~G~sq~l~r~N~l~~lShlRrv~~~~~~~~K~t~~R~LhpS~wG 160 (842)
+.+++..+++++.||++|++|||||||.. +++|+||+|||+||+++|||+||+|+++++++|.++||+|||||||
T Consensus 380 ~~~~~~~li~~~~it~~i~~~~aTGn~~~-----~~sglSQ~mdq~NpLs~lsH~RRlsagl~rera~~evRdlHpShyG 454 (1131)
T 4ayb_B 380 RKLALKALVRPDIVTERIRHALATGNWVG-----GRTGVSQLLDRTNWLSMLSHLRRVISSLARGQPNFEARDLHGTQWG 454 (1131)
T ss_dssp SCCCHHHHCCTHHHHHHHHHHHHTTBCSS-----SCBCCEEECCCSSHHHHHHHHTEEEECSCSSSCCHHHHSCCGGGTT
T ss_pred cccchhhhcCCchhhhhhHHHHhhccccc-----CCCceEEEeccCCHHHHHHhhhhhcCCcccccccccccccCHhhcc
Confidence 77889999999999999999999999963 6899999999999999999999999999999999999999999999
Q ss_pred ccccCCCCCCCcchhhhhcccceEEecCCCchhHHHHHHHhCCcccccc----CC-----CCCCCcEEEEECCEEEEEEc
Q 003180 161 MMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEI----SP-----AVIPQATKIFVNGCWVGIHR 231 (842)
Q Consensus 161 fiCPveTPEG~~cGLvknLA~~a~Is~~~~~~~i~~~L~~~g~~~~~~~----~~-----~~~~~~~~VflnG~~iG~~~ 231 (842)
||||+|||||+|||||||||++|+|+.+.++.++.+++.++|+.++++. .. .......+||+||+|+|+++
T Consensus 455 riCPIETPEG~niGLI~sLA~~a~I~~g~~e~~i~~~l~~~g~~~~e~~~~~~~~~~~~~~~~~~~~~v~lng~~vg~~~ 534 (1131)
T 4ayb_B 455 RMCPFETPEGPNSGLVKNLALMAQIAVGINEKIVEKTLYEMGVVPVEEVIRRVTEGGEDQNEYLKWSKVILNGRLVGYYR 534 (1131)
T ss_dssp TBCSSCCCSSTTBTTEEEBBSSCEECCCCCHHHHHHHHHHTTCEEHHHHHHTTTTC-----CCCCCCEEEETTEEEEECS
T ss_pred ccccccCCCCccccccccceeeEEEecCCCCcceeeehhhcCceeeeeeehhhcccccccchhhhhcceeecCceEEEec
Confidence 9999999999999999999999999999999999999999999876532 11 11234568999999999999
Q ss_pred ChHHHHHHHHHhhhcCCCCCcEEEEEecc--CCeEEEecCCCeeeeeEEEeecccccccHHHHHHHhcCCCCCCCCchhc
Q 003180 232 DPEMLVKTLRRLRRRVDVNTEVGVVRDIR--LKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDL 309 (842)
Q Consensus 232 ~~~~lv~~lR~lRr~~~i~~~vsi~~~~~--~~~i~I~td~GRl~RPl~vv~n~~~~~~~~~~~~l~~~~~~~~~~~~~l 309 (842)
+++.++..+|.+||.+.++.++||.+... .++++|++|+||++|||++++++.+.+..++++++..+.. .|.++
T Consensus 535 ~~~~~~~~~~~~~~~~~i~~~vsi~~~~~~~~~~~~i~~d~~r~~rpv~~~~~~~p~v~~~~~~~~~~g~~----~~~~~ 610 (1131)
T 4ayb_B 535 DGEELAKKIRERRRKGEISDEVNVGHIVTDFINEVHVNCDSGRVRRPLIIVSNGNPLVTREDIEKLDSGSI----TFDDL 610 (1131)
T ss_dssp CHHHHHHHHHHHHHHTSSCTTCEEEEECTTTCCEEEEECCTTCEEEEEEEBSSSSBSCCHHHHHHHHTTTC----CHHHH
T ss_pred cchhhhhhhhhhhccCccCceEEEeeccccccceeeeecCCcccccceEEeecccccccHHHHHHHhcCCh----hHHHH
Confidence 99999999999999999999999987653 4899999999999999999999999999999999977755 89999
Q ss_pred cccCcEEEeccccccceeEeecccccccccCCCCcCCCCceeeeeccCCccccccccccCCCCCCCCccchhhhcccccc
Q 003180 310 VAKGFIEYIDTEEEETTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQA 389 (842)
Q Consensus 310 ~~~g~IE~Id~~Eq~~~~Ia~~~~~l~~~~~~~k~~~~~~~TH~EI~Ps~ilgv~AslIPF~~HNqSpRn~yq~~M~KQa 389 (842)
++.|.|||+|++|+++++||+.++++.. .+||+||+|+.++|++|++|||++|||||||+|||||+|||
T Consensus 611 ~~~g~veyvd~~e~~~~~ia~~~~~~~~-----------~~th~ei~p~~il~v~a~lipf~~~NqspRn~yq~~m~KQa 679 (1131)
T 4ayb_B 611 VRQGKIEYLDAEEEENAYVALEPSDLTP-----------EHTHLEIWSPAILGITASIIPYPEHNQSPRNTYQSAMAKQA 679 (1131)
T ss_dssp HHTTSEEEEEHHHHTTCCEESSGGGCCT-----------TCSEECSCGGGGSBTTGGGCSSGGGSCHHHHHHHHHHGGGB
T ss_pred hhCCceeeeeccccceeEEEeecccccc-----------cccceeeccccccccccceecccccCccchheecccccccc
Confidence 9999999999999999999999998753 58999999999999999999999999999999999999999
Q ss_pred cccccceeEEecccCcceeccCCcceeeccccccccCCCCCCCceeeEEeeeccCCCCCCceeeeccccccCceeEEEEE
Q 003180 390 MGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFR 469 (842)
Q Consensus 390 ig~~~~n~~~R~Dt~~~~L~ypQ~PlV~t~~~~~~~~~e~p~G~N~iVAvmsy~GYn~EDAiIiNk~si~rG~f~s~~~~ 469 (842)
||++.+|+..|+|++.|+|+|||+|||+|+.++.++++++|+|+|++||||||+||||||||||||++++||+|||+||+
T Consensus 680 ~G~~~~~~~~r~D~~~~~l~ypQ~PlV~t~~~~~~~~~e~p~G~N~lVA~m~w~GYN~EDAIIine~~v~rg~ftSihi~ 759 (1131)
T 4ayb_B 680 LGLYAANYQLRTDTRAHLLHYPQRPLVQTRALDIIGYTNRPAGNNAILAVISFTGYNMEDSIIMNRSSVERGMYRSTFFR 759 (1131)
T ss_dssp CSCCCGGGGTCCCSEEEEESSCCCCSSBCHHHHHHTCTTSCCSEEEEEEECCCSSCCCTTCEEEEHHHHTTTTTCEEEEE
T ss_pred CCceeecceeeeccccceeecCCccccccchhhhhccCCCCCceeEEEEEEccCCccHHHhhhhhcchhhcccceeeEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeehhcCCccccccccCCCCCCCCCCCCCccCCCCCCCcCCCcEEcCCCEEEEeeCCCCccc-cccccCCCccceee
Q 003180 470 SYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDE-AQGQASRYTRRDHS 548 (842)
Q Consensus 470 ~~~~~~~~~~~~~~e~~~~p~~~~~~~~k~~~~~~Ld~dGl~~~G~~v~~gdvli~k~~~~~~~~-~~~~~~~~~~~d~s 548 (842)
+|+++++++..+..|.|..|.+..........|++||+||||++|++|++|||||||++|....+ +..-......+|+|
T Consensus 760 ~y~~e~r~~~~g~~e~it~~~p~v~~~~~~~~~~~LDe~Gii~iGa~V~~gDilvGKvtP~~~~~~~~~~~~~~~~~d~s 839 (1131)
T 4ayb_B 760 LYSTEEVKYPGGQEDKIVMPEPGVRGYKGKEYYRLLEDNGVVSPEVEVKGGDVLIGKVSPPRFLQEFKELSPEQAKRDTS 839 (1131)
T ss_dssp EEEEECCCCTTSCCCCCCCCCSSCSSCCCGGGGTTCCTTSBCCTTCEECTTCEEECCCCCCC-----------CCCCCCC
T ss_pred EEEEEEEecCCCCceEEecCCccccccchHHHhhcCCccccccCCcEecCCCEEEEEecCCcchhhhhhcCcceeeeeee
Confidence 99999998877777778766543222123356899999999999999999999999999975321 11111122368999
Q ss_pred EEeeccccceEEeEEEeecCCCceEEEEEEeeecCCcccccccccCCCcceeeeeecccCCCCCCCCCCceEEeCCCCCC
Q 003180 549 ISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIP 628 (842)
Q Consensus 549 ~~~~~~e~g~Vd~V~~~~~~~~~~~v~v~~r~~R~p~iGDKfssRhGqKGvvs~i~~~~dmPft~~G~~pDiIiNPh~~P 628 (842)
+++++++.|+||.|.++.+.++.+.|||++|+.|+|+||||||||||||||||+|||+|||||++||++|||||||||||
T Consensus 840 l~~~~g~~g~Vd~v~~~~~~~~~~~vkV~i~~~R~~~vGDK~agRHGnKGvvs~i~p~eDMPf~~dG~~~DiilNP~gvP 919 (1131)
T 4ayb_B 840 IVTRHGEMGIVDLVLITETAEGNKLVKVRVRDLRIPSIGDKFASRHGQKGVIGMLIPQVDMPYTVKGVVPDVILNPHALP 919 (1131)
T ss_dssp EECCTTCCEEEEEEEEEECSSSCEEEEEEEEEEECCCTTCEEEETTSCEEEEEEEECTTTSEEETTSCCCSEECCTTSST
T ss_pred EEccCCCceEEEEEEEeeccCCceEEEEEEeccccCcccccccccccccceeeeecccccCCcCCCCCCccEEECCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcHHHHHHHHhhhhhhccCCcceecCCCCCCHHHHHHHHHHcCCCCCCeEEEeeCCCCcEEeeeEeEeeehhhhccCc
Q 003180 629 SRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHM 708 (842)
Q Consensus 629 SRMtiGql~E~~~gk~~~~~g~~~d~tpF~~~~~~~~~~~l~~~g~~~~G~e~ly~g~tG~~~~~~if~G~~yy~rL~Hm 708 (842)
||||||||+|+++||+|++.|.+.|+|||.+...+++.+.|.++||+++|+|.||||+||++|+++||+|++|||||+||
T Consensus 920 SRMniGqilE~~~gk~~~~~g~~~~atpf~~~~~e~~~~~l~~~g~~~~g~~~lydG~TGe~~~~~i~vG~~Yy~kL~Hm 999 (1131)
T 4ayb_B 920 SRMTLGQIMEGIAGKYAALSGNIVDATPFYKTPIEQLQNEILKYGYLPDATEVTYDGRTGQKIKSRIYFGVVYYQKLHHM 999 (1131)
T ss_dssp TTTCHHHHHHHHHHHHHHHHCCCCBCCTTSSCCTHHHHHHHHHTTSCTTSEECEEETTTCCBCSSCEEEEEEEEEEBSCC
T ss_pred ccCcHHHHHHHHHHHHHHhCCCceecCccCCCcHHHHHHHHHHcCCCCCCCEEEeCCCCCCEecCcEEEEhhhhhccchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcceEEeccCCccccccCCCCcccCCCcceeeehhhHHHHhhccHHHHHHhhhcCCCceeeeeccccCcceeecccCCc
Q 003180 709 VDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNS 788 (842)
Q Consensus 709 v~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~erl~~~SD~~~~~vC~~cG~~~~~~~~~~~ 788 (842)
|+||+||||||||+.|||||++||+|+|||||||||||||+|||||++|||||+.+||.+.++||+.||++++++...+.
T Consensus 1000 V~DKihaRs~GP~s~~TqQPl~Gra~~GG~RfGEME~~aL~a~Gaa~~LqE~L~~~SD~~~~~vc~~cG~~~~~~~~~~~ 1079 (1131)
T 4ayb_B 1000 VADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGFGTAMLLKDRLLDNSDRTTIYVCDQCGYIGWYDKNKNK 1079 (1131)
T ss_dssp HHHHCEEESSCCBCTTTCCBCSSGGGTCCCEECHHHHHHHHHHTCHHHHHHHTTTTTCEEEEEECSSSCCBCEEETTTTE
T ss_pred hccCCEeeccCCCCCcccCCCCCcccCCCcceeHHHHHHHHHHhHHHHHHHHhhccCCccceeeccCCCceEEEeccCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999987777778
Q ss_pred eeeccCCCCCCceeecchHhHHHHHHHHHhCCCceEEEEccCCccc
Q 003180 789 FECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKEDTKQS 834 (842)
Q Consensus 789 ~~C~~C~~~~~i~~v~iPy~~kll~~EL~sm~I~~~l~~~~~~~~~ 834 (842)
++|+.|+++.++.++.||||||||+|||+||||+++|.++|....+
T Consensus 1080 ~~c~~~~~~~~i~~~~iP~sfk~L~~EL~sm~i~~~l~~~d~~~~~ 1125 (1131)
T 4ayb_B 1080 YVCPIHGDKSNLFPVTVSYAFKLLIQELMSMIISPRLILEDRVGLS 1125 (1131)
T ss_dssp EECSSCSSSSCCEEEEEEHHHHHHHHHHHTTTCEEEEEEEESSCCC
T ss_pred eeCCccCCCCCccccCCCHHHHHHHHHHHHCCcceEEEeccccccc
Confidence 8999999999999999999999999999999999999999876554
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=2.8e-184 Score=1670.10 Aligned_cols=679 Identities=27% Similarity=0.445 Sum_probs=583.8
Q ss_pred HHHHHHHHHHHhhcCCCC--CCCCCCccCCcEECchhHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCchhccccccch
Q 003180 17 YYFGYIIHRLLLCALGRR--AEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTI 94 (842)
Q Consensus 17 ~~L~~Mi~kLl~~~~g~~--~~Dd~D~~~nkRv~~~G~Ll~~lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 94 (842)
..|++|+++|+.+..|.+ .+||+|||+||||+++|+||+.+||..|+++.+.+++.+.+. ..+.+++..+++++.|
T Consensus 301 ~di~~mi~~Ll~l~~G~~~~~~DD~DhlgNkRv~~~GeLl~~~fr~~l~r~~~~i~~~~~~~--~~~~~~~~~~i~~~~I 378 (1119)
T 2a6h_C 301 EVFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGELMTDQFRVGLARLARGVRERMLMG--SEDSLTPAKLVNSRPL 378 (1119)
T ss_dssp TTHHHHHHHHHHHHTSCSSCCCCCTTSTTTEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHS--CSSCCSSTTTCCSHHH
T ss_pred HHHHHHHHHHHHhhcCCCCCCCcCcchhhceEehhhhHHHHHHHHHHHHHHHHHHHHHhhhh--cccccchHHhhccchh
Confidence 346889999999999999 999999999999999999999999999999999999999764 3356778888899999
Q ss_pred hhhhhhhhccCccccccccccccceeEeccccChhhhhcccccccC----CcccCCCcCCcccccCCCccccccCCCCCC
Q 003180 95 TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNS----PIGREGKLAKPRQLHNSQWGMMCPAETPEG 170 (842)
Q Consensus 95 t~~i~~~~sTGnw~~~~~~~~~~G~sq~l~r~N~l~~lShlRrv~~----~~~~~~K~t~~R~LhpS~wGfiCPveTPEG 170 (842)
|++|++||+||+ |||+|+|+||+|+|||+||+++ ++++++|+++||+||||||||+||+|||||
T Consensus 379 t~~lk~ff~tg~------------lSQ~Ldq~N~ls~LsH~RRisslgpggl~re~k~~~vRdlHpShwGriCPiETPEG 446 (1119)
T 2a6h_C 379 EAAIREFFSRSQ------------LSQFKDETNPLSSLRHKRRISALGPGGLTRERAGFDVRDVHRTHYGRICPVETPEG 446 (1119)
T ss_dssp HHHHHHHHHTCS------------SEEECCCSSTHHHHHHHHEEESSSSSSSCCSSCCHHHHSCCGGGTTTBCSSCSCSS
T ss_pred HHHHHHHhhccC------------ccccccccchHhhhhhhheecccCCCccccccccCcccccCHhhCcccCCCcCCCC
Confidence 999999999875 5799999999999999999986 488999999999999999999999999999
Q ss_pred CcchhhhhcccceEEecCCCchhHHHHHHHhCCccccccCCCCCCCcEEEEECCEEEEEEcChHHHHHHHHHhhhcCCCC
Q 003180 171 QACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVN 250 (842)
Q Consensus 171 ~~cGLvknLA~~a~Is~~~~~~~i~~~L~~~g~~~~~~~~~~~~~~~~~VflnG~~iG~~~~~~~lv~~lR~lRr~~~i~ 250 (842)
++||||||||++|+|+. +|+.. . ...+| +||+|.+....-....+. .
T Consensus 447 ~ncGLVknLAl~a~I~~-------------~G~~e----~-----p~~~V-~nG~v~~~i~yl~a~ee~-------~--- 493 (1119)
T 2a6h_C 447 ANIGLITSLAAYARVDE-------------LGFIR----T-----PYRRV-VGGVVTDEVVYMTATEED-------R--- 493 (1119)
T ss_dssp SSCSSEEEBCSSCEECS-------------SSCEE----E-----EEEEE-ETTEEEEEEEEECHHHHH-------H---
T ss_pred Ccccchhhhhhheeecc-------------cCccc----C-----CcEEE-ECCEEeeeeEEeChhccc-------c---
Confidence 99999999999999984 23321 0 13455 599986533210000000 0
Q ss_pred CcEEEEEeccCCeEEEecCCCeeeeeEEEeecccccccHHHHHHHhcCCCCCCCCchhccccCcEEEeccccccceeEee
Q 003180 251 TEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFIEYIDTEEEETTMISM 330 (842)
Q Consensus 251 ~~vsi~~~~~~~~i~I~td~GRl~RPl~vv~n~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~g~IE~Id~~Eq~~~~Ia~ 330 (842)
.-|. ...+. .|.||++||++++.++ + ||+ .+
T Consensus 494 --~~i~----~~~~~--l~~gr~~r~~i~~r~~-----------------------------~--e~~----------~~ 524 (1119)
T 2a6h_C 494 --YTIA----QANTP--LEGNRIAAERVVARRK-----------------------------G--EPV----------IV 524 (1119)
T ss_dssp --SCEE----CTTSC--BSSSBBCCSSEEEESS-----------------------------S--SEE----------EE
T ss_pred --eEEe----cCcee--ecCCccccCceeEEec-----------------------------c--cee----------ee
Confidence 0011 11111 2559999999887631 0 111 11
Q ss_pred cccccccccCCCCcCCCCceeeeeccCCccccccccccCCCCCCCCccchhhhcccccccccccc---------------
Q 003180 331 TINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVT--------------- 395 (842)
Q Consensus 331 ~~~~l~~~~~~~k~~~~~~~TH~EI~Ps~ilgv~AslIPF~~HNqSpRn~yq~~M~KQaig~~~~--------------- 395 (842)
. +..+|||||||++||||+||+|||+||||||||||||||+|||||++.+
T Consensus 525 ~---------------~~~~~~~ei~P~~ilsv~aslIPF~ehn~s~R~lmgsnM~kQAv~l~~~~~p~vgTg~e~~~a~ 589 (1119)
T 2a6h_C 525 S---------------PEEVEFMDVSPKQVFSVNTNLIPFLEHDDANRALMGSNMQTQAVPLIRAQAPVVMTGLEERVVR 589 (1119)
T ss_dssp C---------------TTTCCEEECCTTTTSCHHHHTCTTGGGBCHHHHHHHHHHHTTBCCBSSCCCCSEECSCHHHHHH
T ss_pred c---------------hhHeEEEEeccccccccccccCCCcccCCCcccccccccccccccccccCCCeeeccccceeee
Confidence 1 2358999999999999999999999999999999999999999998765
Q ss_pred --------------------eeEEecc---cCccee----------ccCCcceeecccc----c------cccCCCCCCC
Q 003180 396 --------------------NYQFRMD---TLAYVL----------YYPQKPLVTTRAM----E------HLHFRQLPAG 432 (842)
Q Consensus 396 --------------------n~~~R~D---t~~~~L----------~ypQ~PlV~t~~~----~------~~~~~e~p~G 432 (842)
++..|.| ++.|.| +|||+|||+|+.. + .++++|+|+|
T Consensus 590 ds~~~~~a~~~G~v~~vd~~~i~ir~~~~~~~~y~L~~~~rsnq~t~~~QkPiV~~g~~v~~g~~ladg~~~~~gel~lG 669 (1119)
T 2a6h_C 590 DSLAALYAEEDGEVAKVDGNRIVVRYEDGRLVEYPLRRFYRSNQGTALDQRPRVVVGQRVRKGDLLADGPASENGFLALG 669 (1119)
T ss_dssp HTTCSEECSSSEEEEEECSSBEEEEETTTEEECCBCCCSEECTTSCEECCEECCCSSCCBCTTCEEEECTTBSSSSBCCS
T ss_pred ccCceeEeccCCEEEEecCceEEEEccCCcceeEEeeccccccccccccccceEeeCceeeccceeccccccCCCcccCc
Confidence 3556764 456766 8999999999742 3 3678999999
Q ss_pred ceeeEEeeeccCCCCCCceeeeccccccCceeEEEEEEEEeeehhcCCccccccc--cCCCCCCCCCCCCCccCCCCCCC
Q 003180 433 INAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFG--RPDRSNTMGMRHGSYDKLDDDGL 510 (842)
Q Consensus 433 ~N~iVAvmsy~GYn~EDAiIiNk~si~rG~f~s~~~~~~~~~~~~~~~~~~e~~~--~p~~~~~~~~k~~~~~~Ld~dGl 510 (842)
+|++||||||+||||||||||||++++||+|||+|+++|+++.+.+..+. |.+. .|+. ....|++||+|||
T Consensus 670 ~N~lVA~m~~~GYN~EDAiiine~~v~rg~~tSihi~~~e~~~r~~~~g~-eeit~~ip~~------~~~~~~~LD~dGi 742 (1119)
T 2a6h_C 670 QNVLVAIMPFDGYNFEDAIVISEELLKRDFYTSIHIERYEIEARDTKLGP-ERITRDIPHL------SEAALRDLDEEGV 742 (1119)
T ss_dssp EEEEEECSCCSSTTSSSEEEEETHHHHTTCSEEEEEEEEEEEEECCTTCC-CBCCSCCSSS------CSGGGSSCCSSSB
T ss_pred eeEEEEEecccCCcchhhhhhhhhHHhcCCceEEEEEEEEeeeeecCCCc-eeeeccCCCc------chhhhhccCCCcc
Confidence 99999999999999999999999999999999999999999988765443 4453 3432 3346899999999
Q ss_pred cCCCcEEcCCCEEEEeeCCCCcccccc---------ccCCCccceeeEEeeccccceEEeEEEeecCC-Cc-------eE
Q 003180 511 APPGTRVSGEDVIIGKTTPISQDEAQG---------QASRYTRRDHSISLRHSETGMVDQVLLTTNAD-GL-------RF 573 (842)
Q Consensus 511 ~~~G~~v~~gdvli~k~~~~~~~~~~~---------~~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~~-~~-------~~ 573 (842)
|++|++|++|||||||++|....+... ..+....+|+|+++++++.|+|++|.++++++ |. +.
T Consensus 743 v~iG~~V~~gDiLvgK~tP~~~~~~~~ee~ll~aifg~k~~~~rd~Sl~~~~~e~G~V~~V~~~~~~~~g~~l~~~~~~~ 822 (1119)
T 2a6h_C 743 VRIGAEVKPGDILVGRTSFKGESEPTPEERLLRSIFGEKARDVKDTSLRVPPGEGGIVVRTVRLRRGDPGVELKPGVREV 822 (1119)
T ss_dssp CCTTCBCCTTSEEECCEEESSSSSCCHHHHHHHHHHHSCCCCEEECCEECCSSCCCEEEEEEEECSSCSSCCCCTTEEEE
T ss_pred cCCCCEECCCCEEEEEecCCccccCChhhhhhhhhhcccccccceeeEEccCCccEEEEEEEEEccCCCCcccCCCcceE
Confidence 999999999999999999986422111 12334579999999999999999999998776 63 78
Q ss_pred EEEEEeeecCCcccccccccCCCcceeeeeecccCCCCCCCCCCceEEeCCCCCCCCCcHHHHHHHHhhhhhhccCCcce
Q 003180 574 VKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGD 653 (842)
Q Consensus 574 v~v~~r~~R~p~iGDKfssRhGqKGvvs~i~~~~dmPft~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~d 653 (842)
|||++|+.|+|+||||||||||||||||+|||+|||||++||++|||||||||||||||||||+|+++||||++.|...
T Consensus 823 vkV~i~~~R~~~vGDKfasRHGqKGVis~i~p~eDMPf~~dG~~pDiIlNPhgvPSRMtiGqllE~~lG~a~~~~g~~~- 901 (1119)
T 2a6h_C 823 VRVYVAQKRKLQVGDKLANRHGNKGVVAKILPVEDMPHLPDGTPVDVILNPLGVPSRMNLGQILETHLGLAGYFLGQRY- 901 (1119)
T ss_dssp EEEEEEEEEECCTTCEEECTTSCEEEEEEEECTTTSCBCSSSCBCSEECCSTTTTTTTBTHHHHHHHHHHHHHHTTEEE-
T ss_pred EEEEEcccCCcccCchhhhccCCCceEEeeeccCCCccccCCCCccEEeCCCcCccccchhhhhHHHhhhHHhhcCCce-
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred ecC-CCCCCHHHHHHHHHHc-----------------------------CC--------------CCCCeEEEeeCCCCc
Q 003180 654 ATP-FTDVTVDNISKALHKC-----------------------------GY--------------QMRGFETMYNGHTGR 689 (842)
Q Consensus 654 ~tp-F~~~~~~~~~~~l~~~-----------------------------g~--------------~~~G~e~ly~g~tG~ 689 (842)
+|| |++.+.+++.+.|+++ || +++|++.||||+||+
T Consensus 902 atp~F~~~~~~~i~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~Gk~~lydG~TGe 981 (1119)
T 2a6h_C 902 ISPIFDGAKEPEIKELLAQAFEVYFGKRKGEGFGVDKREVEVLRRAEKLGLVTPGKTPEEQLKELFLQGKVVLYDGRTGE 981 (1119)
T ss_dssp ECCTTTSCCHHHHHHHHHHHHHHHHHHHHHHTCCCBHHHHHHHHHHHTTTSSCTTSCHHHHHHHHHHTTEECCBCSSSCC
T ss_pred EecccCCCCHHHHHHHHHHhhhhccccccccccccchhhhhhhhhhhcCCcccccccchhhhcccCCCCceEeecCCCCC
Confidence 999 9999999999999999 99 999999999999999
Q ss_pred EEeeeEeEeeehhhhccCccCcceEEeccCCccccccCCCCcccCCCcceeeehhhHHHHhhccHHHHHHhhhcCCCcee
Q 003180 690 RLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYR 769 (842)
Q Consensus 690 ~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~erl~~~SD~~~ 769 (842)
+|+++||+|++|||||+|||+||+||||+|||+.|||||++||+|+|||||||||||||+|||||++|||||+.+||.+
T Consensus 982 ~~~~~I~vG~~Yy~kL~HmVdDKihaRs~GP~s~lTqQP~~Gra~~GGqRfGEME~~aL~a~GAa~~L~E~L~~kSD~~- 1060 (1119)
T 2a6h_C 982 PIEGPIVVGQMFIMKLYHMVEDKMHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEMLTLKSDDI- 1060 (1119)
T ss_dssp BCSSCEEEEEEEEEEBCCCTTTSCEEESSCCBCSSSCSBCCCSSSCCCEEECHHHHHHHHHTTCSHHHHHHHTTTTTCH-
T ss_pred CccceEEEEhHHhhcchhhcccCcEEeeccccceeecCCCcccccCCCeeeehhehhhhhhccHHHHHHHHhccCCccc-
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999953
Q ss_pred eeeccccCcceeecccCCceeeccCCCCCCceeecchHhHHHHHHHHHhCCCceEEEEccC
Q 003180 770 VHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKED 830 (842)
Q Consensus 770 ~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~i~~v~iPy~~kll~~EL~sm~I~~~l~~~~~ 830 (842)
||+.. .+|..|+ +.++.++.||||||||+|||+||||++++.+++.
T Consensus 1061 ------~gr~~--------~~~~~~~-~~~i~~~~iP~sfk~L~~EL~sl~i~~~l~~~~~ 1106 (1119)
T 2a6h_C 1061 ------EGRNA--------AYEAIIK-GEDVPEPSVPESFRVLVKELQALALDVQTLDEKD 1106 (1119)
T ss_dssp ------HHHHH--------HHHHHHT-TCCCCCCCCCHHHHHHHHHHHHSSCEECCBCSSS
T ss_pred ------ccccc--------eEEEeec-CCccCccCCCHHHHHHHHHHHhCCCceEEEecCC
Confidence 45432 2477774 4679999999999999999999999999998754
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=2.7e-171 Score=1539.00 Aligned_cols=671 Identities=27% Similarity=0.406 Sum_probs=584.8
Q ss_pred CCcchHHHHHHHHHHHHHhhcCCCCCCCCCCccCCcEECchhHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCchhccc
Q 003180 10 FCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAI 89 (842)
Q Consensus 10 ~~~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkRv~~~G~Ll~~lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (842)
++..-+...++.++++|+.+..|....||+|||+||||+++|+||+.+|+..|.++.+.+++++.+. ....+++..++
T Consensus 416 ~~~~Lt~~DIi~~i~~Li~l~~g~~~~DDiDHLgNrRvr~vGeLl~~qfr~~l~r~~r~i~~~~~~~--~~~~~~~~~li 493 (1342)
T 3lu0_C 416 GSGILSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLG--DLDTLMPQDMI 493 (1342)
T ss_dssp CCSSCCTTHHHHHHHHHHHHHHTSSCCCCSSSTTTSEEECHHHHHHHTHHHHHHHHHHHHTTHHHHC--CSSCCSSTTTC
T ss_pred cccEecHHHHHHHHHHHHHHhhCCCCCcchhhhhcchhchHHHHHHHHHHHHHHHHHHHHHHHHhhc--ccccCCHHHHh
Confidence 3455678889999999999999999999999999999999999999999999999999999988763 34567788899
Q ss_pred cccchhhhhhhhhccCccccccccccccceeEeccccChhhhhcccccccC----CcccCCCcCCcccccCCCccccccC
Q 003180 90 KAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNS----PIGREGKLAKPRQLHNSQWGMMCPA 165 (842)
Q Consensus 90 ~~~~it~~i~~~~sTGnw~~~~~~~~~~G~sq~l~r~N~l~~lShlRrv~~----~~~~~~K~t~~R~LhpS~wGfiCPv 165 (842)
++..++.++++||. ++|+||+|||+||+++|||+||++. .+.++++.+++|++||||||+|||+
T Consensus 494 n~~~i~~~~k~ffg------------~s~lSQ~lDqtNpLseltHkRRlsalGPGGLsr~~a~fevRdvH~thyGRiCPi 561 (1342)
T 3lu0_C 494 NAKPISAAVKEFFG------------SSQLSQFMVQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPI 561 (1342)
T ss_dssp CSSTTHHHHTTTTT------------TCSSCEECCCSSHHHHHHHHSBEESCCSTTSCCSSCCTTTSSCCTTCSSSSCTT
T ss_pred ccchHHHHHHHHhC------------ccccceeecCCCHHHHHhhhhcccccCCCCccccccCceecccCcccccccccc
Confidence 99999999998873 6899999999999999999999984 3568999999999999999999999
Q ss_pred CCCCCCcchhhhhcccceEEec-CCCchhHHHHHHHhCCccccccCCCCCCCcEEEEECCEEEEEEcChHHHHHHHHHhh
Q 003180 166 ETPEGQACGLVKNLALMVYITV-GSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLR 244 (842)
Q Consensus 166 eTPEG~~cGLvknLA~~a~Is~-~~~~~~i~~~L~~~g~~~~~~~~~~~~~~~~~VflnG~~iG~~~~~~~lv~~lR~lR 244 (842)
|||||++||||+|||++|+|+. |+.++ -+.++.||++-
T Consensus 562 ETPEG~niGLI~sLA~~a~in~~Gfiet------------------------Pyr~V~~g~v~----------------- 600 (1342)
T 3lu0_C 562 ETPEGPNIGLINSLSVYAQTNEYGFLET------------------------PYRKVTDGVVT----------------- 600 (1342)
T ss_dssp CCCSSSCSSSCCBCCSSCCBCSSSCBCE------------------------EEEEEETTEEE-----------------
T ss_pred cCCCCCceeeecchhheEEeccCCcccC------------------------CcEEEECCEEc-----------------
Confidence 9999999999999999999974 33221 14444565430
Q ss_pred hcCCCCCcEEEEEeccCCeEEEecCCCeeeeeEEEeecccccccHHHHHHHhcCCCCCCCCchhccccCcEEEecccccc
Q 003180 245 RRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFIEYIDTEEEE 324 (842)
Q Consensus 245 r~~~i~~~vsi~~~~~~~~i~I~td~GRl~RPl~vv~n~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~g~IE~Id~~Eq~ 324 (842)
+.|+|++|.||+
T Consensus 601 --------------------------------------------------------------------~~i~yLsA~eE~ 612 (1342)
T 3lu0_C 601 --------------------------------------------------------------------DEIHYLSAIEEG 612 (1342)
T ss_dssp --------------------------------------------------------------------EEEEEECTTTGG
T ss_pred --------------------------------------------------------------------CceeeCChHHhc
Confidence 237899999999
Q ss_pred ceeEeecccccccccCCCC---------c---CCCCceeeeeccCCccccccccccCCCCCCCCccchhhhccccccccc
Q 003180 325 TTMISMTINDLVQARLHPE---------E---AYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGI 392 (842)
Q Consensus 325 ~~~Ia~~~~~l~~~~~~~k---------~---~~~~~~TH~EI~Ps~ilgv~AslIPF~~HNqSpRn~yq~~M~KQaig~ 392 (842)
...||.....+.+.+.... + ..+.++|||+++|.+|+||+||||||++||||+|++|||||+|||+|+
T Consensus 613 ~~~IAqan~~l~~~g~~~~~~v~~R~~~e~~~~~~~~v~~~dvsP~qivSvaaslIPFLEhdDAnRaLMGsNMQRQAVPL 692 (1342)
T 3lu0_C 613 NYVIAQANSNLDEEGHFVEDLVTCRSKGESSLFSRDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALMGANMQRQAVPT 692 (1342)
T ss_dssp GSCBCCSSSCCSSSSCCSCSSEEEECSSCEEEECTTTCCEEESCTTTTSCHHHHSCTTSTTBCHHHHHHHHHTTTTBCCC
T ss_pred CceEEecCcccCCCCcccCCeEEEEecCceEEeChHHCeeEecCHHHhcchhhccCCCcccCCccccchhhhcccccccc
Confidence 9999987666554322110 0 024678999999999999999999999999999999999999999999
Q ss_pred c-----------------------------------cceeEEeccc----------Ccce----------eccCCcceee
Q 003180 393 Y-----------------------------------VTNYQFRMDT----------LAYV----------LYYPQKPLVT 417 (842)
Q Consensus 393 ~-----------------------------------~~n~~~R~Dt----------~~~~----------L~ypQ~PlV~ 417 (842)
. +.++..|.|. ..|. +||+|+|+|+
T Consensus 693 l~~e~p~VgTG~E~~~a~dsg~~i~a~~~G~v~~vda~~I~Ir~~~~~~~~~~~~~~~y~L~kf~RSNq~Tc~~QrPiV~ 772 (1342)
T 3lu0_C 693 LRADKPLVGTGMERAVAVDSGVTAVAKRGGVVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQNTCINQMPCVS 772 (1342)
T ss_dssp SSCCCCSSBCSCHHHHHHHTTTSCBCSSCBEECCCCSSBCCEEECSSSSSSSCCEEECCBCCCSCBCSSSCBCCCCBCCC
T ss_pred ccCCCCeEecccchheeecCCceEEecCCCEEEEecCCeEEEEeCCCccccccCcceEEEecccccccccccccccceee
Confidence 8 5677788775 2232 5899999999
Q ss_pred cc----ccccc------cCCCCCCCceeeEEeeeccCCCCCCceeeeccccccCceeEEEEEEEEeeehhcCCcccccc-
Q 003180 418 TR----AMEHL------HFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDF- 486 (842)
Q Consensus 418 t~----~~~~~------~~~e~p~G~N~iVAvmsy~GYn~EDAiIiNk~si~rG~f~s~~~~~~~~~~~~~~~~~~e~~- 486 (842)
++ ..+.+ ..+|+|+|+|++||||||.|||||||||||++++++|+|||+|+++|+++.+.++.|. |.+
T Consensus 773 ~G~~V~~GdilADG~st~~GElaLG~N~lVAfMpW~GYNfEDAIlISErlV~eD~fTSIHIee~e~~aRdtklG~-EeiT 851 (1342)
T 3lu0_C 773 LGEPVERGDVLADGPSTDLGELALGQNMRVAFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLGP-EEIT 851 (1342)
T ss_dssp SSCCBCTTCBCBCCSSCSSSSCCCSEECCEECCCCSSTTSSSEEEECTHHHHTTTSCEEEEEEEEEECCEETTEE-CCCC
T ss_pred cCCEEecCcEecccccccCCeeecccccEEEEecccCcccccchhhhhhhhhcCCceeEEEEEEeeeeeecCCCC-ceec
Confidence 97 34655 8899999999999999999999999999999999999999999999999999886654 445
Q ss_pred -ccCCCCCCCCCCCCCccCCCCCCCcCCCcEEcCCCEEEEeeCCCCccccc---------cccCCCccceeeEEeecccc
Q 003180 487 -GRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQ---------GQASRYTRRDHSISLRHSET 556 (842)
Q Consensus 487 -~~p~~~~~~~~k~~~~~~Ld~dGl~~~G~~v~~gdvli~k~~~~~~~~~~---------~~~~~~~~~d~s~~~~~~e~ 556 (842)
.+|+. ....+++||++|||++|++|++|||||||++|+...++. ...+....+|+|+++++++.
T Consensus 852 rdIPnv------~e~al~~LDe~GIv~iGa~V~~GDILVGKvtPkge~~~tpEekLLraIFGeka~~vkDtSL~vp~g~~ 925 (1342)
T 3lu0_C 852 ADIPNV------GEAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNGVS 925 (1342)
T ss_dssp SCCSSC------CHHHHHSBCSSSCBCTTCCCCTTCEEECCCCBCCTTTCCHHHHHGGGTSCSSSSSBCCCCEECCTTCC
T ss_pred ccCCCC------ChHHHhcCCCCCCeecCcEECCCCEEEeccCCCCCCcCChHHHHHHHHhcCcccccccCcEecCCCCc
Confidence 45653 234689999999999999999999999999998742211 12344568999999999999
Q ss_pred ceEEeEEEeecC--------------------------------------------------------------------
Q 003180 557 GMVDQVLLTTNA-------------------------------------------------------------------- 568 (842)
Q Consensus 557 g~Vd~V~~~~~~-------------------------------------------------------------------- 568 (842)
|+|..|.+++.+
T Consensus 926 G~Vidv~~f~r~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~l~~~g~t~~~l~~~~~~~~~~~~~~~~ 1005 (1342)
T 3lu0_C 926 GTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDE 1005 (1342)
T ss_dssp CEEEECCCCCCGGGCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCHHHHTTSCGGGTTTCCCCSS
T ss_pred EEEEEEEEEecccccchhhhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhcCCCHHHHhhCCHHHhhccccCcH
Confidence 999988765421
Q ss_pred ---------------------------------------CCceEEEEEEeeecCCcccccccccCCCcceeeeeecccCC
Q 003180 569 ---------------------------------------DGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDM 609 (842)
Q Consensus 569 ---------------------------------------~~~~~v~v~~r~~R~p~iGDKfssRhGqKGvvs~i~~~~dm 609 (842)
+..+.|||++++.|+|++|||||||||||||||+|||+|||
T Consensus 1006 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~gd~l~~gv~k~VkV~ia~kRk~qvGDK~AgRHGnKGVis~I~p~EDM 1085 (1342)
T 3lu0_C 1006 EKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDM 1085 (1342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCCSSSSCEEEEEEEEEECCCTTCEEECSSSCCEEECCCCCTTTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccCcCCceEEEEEEEEeccCCCCCCcccccCCCceEEEEecccCC
Confidence 13578999999999999999999999999999999999999
Q ss_pred CCCCCCCCceEEeCCCCCCCCCcHHHHHHHHhhhhhhccCCcc-------------------------------------
Q 003180 610 PWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEG------------------------------------- 652 (842)
Q Consensus 610 Pft~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~------------------------------------- 652 (842)
||++||++|||||||||||||||||||+|+++||||+..|...
T Consensus 1086 Pf~~dG~~pDIIlNP~gvPSRMnIGqilE~~lG~aa~~~G~~i~~~~~~~~~~~~~r~~~~~~y~~~~~~~~~~~~~~~~ 1165 (1342)
T 3lu0_C 1086 PYDENGTPVDIVLNPLGVPSRMNIGQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVDLSTFS 1165 (1342)
T ss_dssp CEETTEEECSEECCGGGTTSSCBTHHHHHHHHHHGGGTSSTHHHHTTTHHHHCTTTHHHHHHHTTTTCCCSSSCCTTTSC
T ss_pred CCCCCCCCCcEEeCCCCCCCccchhhhhHHhhhHHHHhcCchHHHHHHhhhhhHHHHHHHHHHhhcccccchhhhhcccc
Confidence 9999999999999999999999999999999999999887531
Q ss_pred ----------------eecC-CCCCCHHHHHHHHHHcCCCCCCeEEEeeCCCCcEEeeeEeEeeehhhhccCccCcceEE
Q 003180 653 ----------------DATP-FTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHS 715 (842)
Q Consensus 653 ----------------d~tp-F~~~~~~~~~~~l~~~g~~~~G~e~ly~g~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~ 715 (842)
.+|| |++...+++.+.|.++||+++|+++||||+||++|+++||+|++|||||+|||+||+||
T Consensus 1166 ~~~~~~~~~~~~~g~~~aTPvFdga~~~~i~~~L~~aG~~~~Gk~~LydGrTGe~f~~~V~vG~~YylKL~HmVdDKiHa 1245 (1342)
T 3lu0_C 1166 DEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLGDLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHA 1245 (1342)
T ss_dssp HHHHHHTTTTTSSCTTCBCCSSSSCCHHHHHHHTSSSSSCSSSCBCCBCSSSCSBCSSCBCEECCEEEEBCCCGGGSCCC
T ss_pred hHHHHHHhhhhccCCcccCCCCCCCCHHHHHHHHHHcCCCCCCCEEEEcCCCCCCcccceeeeehhHhhhhhccccceEE
Confidence 2788 99999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCccccccCCCCcccCCCcceeeehhhHHHHhhccHHHHHHhhhcCCCceeeeeccccCcceeecccCCceeeccCC
Q 003180 716 RGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCK 795 (842)
Q Consensus 716 R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~erl~~~SD~~~~~vC~~cG~~~~~~~~~~~~~C~~C~ 795 (842)
||+|||+.+||||++||+++|||||||||||||+|||||++|||||+.+||. .||+.. .+|..|+
T Consensus 1246 Rs~GPysllTqQPl~Gkaq~GGqRfGEMEvwaL~a~GAa~~LqE~Lt~kSDd-------v~gr~~--------~y~~i~~ 1310 (1342)
T 3lu0_C 1246 RSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDD-------VNGRTK--------MYKNIVD 1310 (1342)
T ss_dssp BSSCCBCSSSCCBCCCSSSCCCCCCCHHHHHHHHHSSCSHHHHHHTTTSSSC-------HHHHHH--------HHHHHTT
T ss_pred eccCCCcccccCCCCccccCCCeeeehHHHHHHHhccHHHHHHHHhhcCCCc-------cccchh--------hhhhhcC
Confidence 9999999999999999999999999999999999999999999999999994 355432 2466665
Q ss_pred CCCCceeecchHhHHHHHHHHHhCCCceEEE
Q 003180 796 NKTDIVQVHIPYACKLLFQELMAMAIAPRML 826 (842)
Q Consensus 796 ~~~~i~~v~iPy~~kll~~EL~sm~I~~~l~ 826 (842)
. .++..+.||||||+|++||+||||++++.
T Consensus 1311 g-~~~~~~~iPesfkvL~~EL~sl~l~v~l~ 1340 (1342)
T 3lu0_C 1311 G-NHQMEPGMPESFNVLLKEIRSLGINIELE 1340 (1342)
T ss_dssp T-SCCCCCCCCHHHHHHHHHHHTSSCCEECC
T ss_pred C-CCCCcCCCCHHHHHHHHHHHhCCCCeEec
Confidence 4 57889999999999999999999999874
No 6
>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=99.29 E-value=1.8e-12 Score=146.16 Aligned_cols=63 Identities=38% Similarity=0.698 Sum_probs=59.0
Q ss_pred ceeeeeccccCcceeecccCCceeeccCCCCCCceeecchHhHHHHHHHHHhCCCceEEEEcc
Q 003180 767 AYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKE 829 (842)
Q Consensus 767 ~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~i~~v~iPy~~kll~~EL~sm~I~~~l~~~~ 829 (842)
+++++||..||++++.+.+++.++|+.|+++..+.+|.||||||||+|||+||||.+++.+++
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 478999999999998887777899999999999999999999999999999999999999974
No 7
>3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory protein, transcription; 3.00A {Escherichia coli}
Probab=99.14 E-value=3e-11 Score=122.92 Aligned_cols=96 Identities=21% Similarity=0.326 Sum_probs=75.9
Q ss_pred EEEEEEEeeehhcCCccccccc--cCCCCCCCCCCCCCccCCCCCCCcCCCcEEcCCCEEEEeeCCCCccccc-------
Q 003180 466 LFFRSYRDEEKKMGTLVKEDFG--RPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQ------- 536 (842)
Q Consensus 466 ~~~~~~~~~~~~~~~~~~e~~~--~p~~~~~~~~k~~~~~~Ld~dGl~~~G~~v~~gdvli~k~~~~~~~~~~------- 536 (842)
+|+..|+++.+.+..| .|.|+ +|+. ....|++||++||+++|++|++|||||||++|....++.
T Consensus 2 iHIeeyei~~r~tk~G-~EeIT~dIPnv------~e~~l~~LDe~GIV~iGs~V~~GDILVGKvTPk~~~~~tpEekLL~ 74 (228)
T 3tbi_B 2 IHIQELACVSRDTKLG-PEEITADIPNV------GEAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLR 74 (228)
T ss_dssp CEEEEEEEEEEEETTE-ECEESSCCSSC------CHHHHHTBCTTSBBCTTCCCBTTCEEECEEEECCGGGCCHHHHHHH
T ss_pred ccEEEEEEEEEEcCCC-CeEEecCCCCc------cHHHHhcCCCCCCeecCCEECCCCEEEeccCCCCCCCCChHHHHHH
Confidence 5889999999887665 47775 4543 234689999999999999999999999999998732211
Q ss_pred --cccCCCccceeeEEeeccccceEEeEEEeecC
Q 003180 537 --GQASRYTRRDHSISLRHSETGMVDQVLLTTNA 568 (842)
Q Consensus 537 --~~~~~~~~~d~s~~~~~~e~g~Vd~V~~~~~~ 568 (842)
...+....+|+|+++++++.|+|+.|.+++..
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 12234568999999999999999999988654
No 8
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus}
Probab=93.20 E-value=0.063 Score=53.76 Aligned_cols=63 Identities=14% Similarity=0.220 Sum_probs=54.0
Q ss_pred cCCcEECchhHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCchhccccccchhhhhhhhhccCc
Q 003180 42 YGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGN 106 (842)
Q Consensus 42 ~~nkRv~~~G~Ll~~lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~i~~~~sTGn 106 (842)
..+|+.+++|+||+..++..+.++.+.+|.++.-. ....+++..+++.+.++..|+.||.|..
T Consensus 121 IVsQe~r~~gell~~q~r~gl~r~ek~~~e~~~~~--~~~~~~~~~l~n~kp~~~~ik~ff~ss~ 183 (188)
T 3mlq_A 121 IVSQGGRTVGELMADQFRVGLARLARGVRERMVMG--SPDTLTPAKLVNSRPLEAALREFFSRSQ 183 (188)
T ss_dssp CCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHS--CGGGCCHHHHCCCHHHHHHHHHHHHTCE
T ss_pred EEEeecccCCeeeEEehhhHHHHHHHHHHhhhccc--cccccCcccchhhHHHHHHHHHhhcccc
Confidence 46889999999999999999999999999987654 2345789999999999999999997543
No 9
>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=78.79 E-value=0.72 Score=38.79 Aligned_cols=48 Identities=17% Similarity=0.375 Sum_probs=31.9
Q ss_pred eeeeeccccCcceeecccCCceeeccCCCCCCcee------ecchHhHHHHHHHHH
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQ------VHIPYACKLLFQELM 817 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~i~~------v~iPy~~kll~~EL~ 817 (842)
|.+..|+ ||...+.....+...|+ |+..-++.+ +.-.....-+...|+
T Consensus 2 Y~vv~C~-C~~~~~~~~~~kT~~C~-CG~~~~~~k~rif~~~~d~~eA~e~~~~lq 55 (71)
T 1gh9_A 2 YIIFRCD-CGRALYSREGAKTRKCV-CGRTVNVKDRRIFGRADDFEEASELVRKLQ 55 (71)
T ss_dssp EEEEEET-TSCCEEEETTCSEEEET-TTEEEECCSSSCBSCCSSHHHHHHHHHHHS
T ss_pred eEEEECC-CCCEEEEcCCCcEEECC-CCCeeeeceEEEEEecCCHHHHHHHHHHHH
Confidence 6788999 99998776666677898 997543333 334444445555544
No 10
>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=62.62 E-value=3.9 Score=41.20 Aligned_cols=29 Identities=28% Similarity=0.605 Sum_probs=21.9
Q ss_pred CceeeeeccccCcceeecccCCceeeccCCCC
Q 003180 766 DAYRVHVCEHCGLIAIANLKKNSFECRGCKNK 797 (842)
Q Consensus 766 D~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 797 (842)
|....|+|..||.+... ...+.|+.|+..
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 55679999999988643 223689999874
No 11
>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=53.73 E-value=6.6 Score=39.09 Aligned_cols=30 Identities=17% Similarity=0.435 Sum_probs=20.4
Q ss_pred CceeeeeccccCcceeecccCCceeeccCCCC
Q 003180 766 DAYRVHVCEHCGLIAIANLKKNSFECRGCKNK 797 (842)
Q Consensus 766 D~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 797 (842)
|....|+|..||.+...... ...|+.|+..
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 33458999999988643211 1279999874
No 12
>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=52.91 E-value=8.2 Score=37.76 Aligned_cols=26 Identities=27% Similarity=0.626 Sum_probs=19.2
Q ss_pred eeeeccccCcceeecccCCceeeccCCCC
Q 003180 769 RVHVCEHCGLIAIANLKKNSFECRGCKNK 797 (842)
Q Consensus 769 ~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 797 (842)
..|+|.+||-+..... ...|+.|+..
T Consensus 137 ~~~~C~~CG~i~~~~~---p~~CP~Cg~~ 162 (170)
T 3pwf_A 137 KVYICPICGYTAVDEA---PEYCPVCGAP 162 (170)
T ss_dssp CEEECTTTCCEEESCC---CSBCTTTCCB
T ss_pred CeeEeCCCCCeeCCCC---CCCCCCCCCC
Confidence 5899999998875321 2389999863
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=46.83 E-value=9.5 Score=32.95 Aligned_cols=28 Identities=21% Similarity=0.584 Sum_probs=22.8
Q ss_pred eeeeccccCcceeecccCCceeeccCCC
Q 003180 769 RVHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 769 ~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
.-+.|+.||.........+.+.|..|+.
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 3578999998776666677899999987
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=40.91 E-value=17 Score=29.09 Aligned_cols=33 Identities=18% Similarity=0.348 Sum_probs=23.5
Q ss_pred CCCceeeeeccccCc-ceeecccCCceeeccCCC
Q 003180 764 QSDAYRVHVCEHCGL-IAIANLKKNSFECRGCKN 796 (842)
Q Consensus 764 ~SD~~~~~vC~~cG~-~~~~~~~~~~~~C~~C~~ 796 (842)
.|+.-.+..|..||. -...+...+..+|..|+-
T Consensus 5 ~~~ll~~~~Cp~C~~~~lv~D~~~ge~vC~~CGl 38 (58)
T 1dl6_A 5 RLDALPRVTCPNHPDAILVEDYRAGDMICPECGL 38 (58)
T ss_dssp SCCCCSCCSBTTBSSSCCEECSSSCCEECTTTCC
T ss_pred hhhccccccCcCCCCCceeEeCCCCeEEeCCCCC
Confidence 466667778999987 334445556789999975
No 15
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=39.87 E-value=15 Score=28.19 Aligned_cols=27 Identities=22% Similarity=0.513 Sum_probs=20.3
Q ss_pred eeeccccCc-ceeecccCCceeeccCCC
Q 003180 770 VHVCEHCGL-IAIANLKKNSFECRGCKN 796 (842)
Q Consensus 770 ~~vC~~cG~-~~~~~~~~~~~~C~~C~~ 796 (842)
..+|..||. -+..+...+..+|..|+.
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 555555566789999986
No 16
>3j21_g 50S ribosomal protein L40E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=33.34 E-value=18 Score=28.29 Aligned_cols=26 Identities=31% Similarity=0.708 Sum_probs=19.7
Q ss_pred eeeeeccccCcceeecccCCceeeccCCCC
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKNK 797 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 797 (842)
+..+||..||... ..+.+.|+.|+..
T Consensus 12 ~~k~iCpkC~a~~----~~gaw~CrKCG~~ 37 (51)
T 3j21_g 12 FKKYVCLRCGATN----PWGAKKCRKCGYK 37 (51)
T ss_dssp SSEEECTTTCCEE----CTTCSSCSSSSSC
T ss_pred hCCccCCCCCCcC----CCCceecCCCCCc
Confidence 3468999999874 2456789999874
No 17
>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious electron transport, iron; NMR {Mycobacterium tuberculosis}
Probab=30.31 E-value=24 Score=30.29 Aligned_cols=29 Identities=17% Similarity=0.503 Sum_probs=19.6
Q ss_pred eeeeccccCcceeec---------------ccCCceeeccCCCC
Q 003180 769 RVHVCEHCGLIAIAN---------------LKKNSFECRGCKNK 797 (842)
Q Consensus 769 ~~~vC~~cG~~~~~~---------------~~~~~~~C~~C~~~ 797 (842)
..|+|..||-+.... .--..|.|+.|+..
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 468999999875311 01235789999874
No 18
>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=30.14 E-value=26 Score=27.81 Aligned_cols=28 Identities=25% Similarity=0.506 Sum_probs=19.0
Q ss_pred eeeccccCcceeecc---------------cCCceeeccCCCC
Q 003180 770 VHVCEHCGLIAIANL---------------KKNSFECRGCKNK 797 (842)
Q Consensus 770 ~~vC~~cG~~~~~~~---------------~~~~~~C~~C~~~ 797 (842)
.++|..||-+..... --..+.|+.|+..
T Consensus 3 ~y~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cga~ 45 (55)
T 2v3b_B 3 KWQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVG 45 (55)
T ss_dssp EEEETTTCCEEETTTCBTTTTBCTTCCGGGSCTTCCCTTTCCC
T ss_pred cEEeCCCCeEECCCcCCcccCcCCCCChhHCCCCCcCCCCCCC
Confidence 589999998753210 1235689999874
No 19
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8
Probab=28.77 E-value=22 Score=28.23 Aligned_cols=27 Identities=19% Similarity=0.549 Sum_probs=18.1
Q ss_pred eeeccccCcceeecccCCceeeccCCC
Q 003180 770 VHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 770 ~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
...|+.||....-....+.++|..|+-
T Consensus 18 ~~fCPkCG~~~~ma~~~dr~~C~kCgy 44 (55)
T 2k4x_A 18 HRFCPRCGPGVFLAEHADRYSCGRCGY 44 (55)
T ss_dssp SCCCTTTTTTCCCEECSSEEECTTTCC
T ss_pred cccCcCCCCceeEeccCCEEECCCCCC
Confidence 467999998442112346789999964
No 20
>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} SCOP: g.41.5.1
Probab=27.42 E-value=28 Score=26.61 Aligned_cols=29 Identities=21% Similarity=0.437 Sum_probs=19.4
Q ss_pred eeeeccccCcceee---c-----ccCCceeeccCCCC
Q 003180 769 RVHVCEHCGLIAIA---N-----LKKNSFECRGCKNK 797 (842)
Q Consensus 769 ~~~vC~~cG~~~~~---~-----~~~~~~~C~~C~~~ 797 (842)
..++|..||-+... + .--..+.|+.|+..
T Consensus 3 ~~y~C~vCGyvyd~~~Gd~t~f~~lP~dw~CP~Cg~~ 39 (46)
T 6rxn_A 3 QKYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVS 39 (46)
T ss_dssp CCEEETTTCCEECGGGGTTCCGGGSCTTCBCTTTCCB
T ss_pred CEEECCCCCeEEeCCcCCCcchhhCCCCCcCcCCCCc
Confidence 35899999977631 1 11234789999864
No 21
>3j21_i 50S ribosomal protein L37AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=26.92 E-value=28 Score=29.97 Aligned_cols=29 Identities=24% Similarity=0.702 Sum_probs=22.5
Q ss_pred eeeeeccccCcceeecccCCceeeccCCC
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
+.-+.|+.||.....-...+.|.|..|+.
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 34578999999876555567899999976
No 22
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=25.57 E-value=32 Score=26.70 Aligned_cols=27 Identities=19% Similarity=0.507 Sum_probs=16.8
Q ss_pred eeeccccCcceeecccCCceeeccCCC
Q 003180 770 VHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 770 ~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
..-|+.||.-.......++++|..|+-
T Consensus 19 ~k~CP~CG~~~fm~~~~~R~~C~kCG~ 45 (50)
T 3j20_Y 19 NKFCPRCGPGVFMADHGDRWACGKCGY 45 (50)
T ss_dssp SEECSSSCSSCEEEECSSEEECSSSCC
T ss_pred cccCCCCCCceEEecCCCeEECCCCCC
Confidence 356999997221112245788999863
No 23
>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=24.97 E-value=32 Score=30.72 Aligned_cols=29 Identities=24% Similarity=0.616 Sum_probs=22.7
Q ss_pred eeeeeccccCcceeecccCCceeeccCCC
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
+.-+.|+-||.....-...+.|.|..|+.
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 45578999998876555567899999975
No 24
>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 3kyu_A 3kyv_A 3kyw_A 3kyx_A 3kyy_A 3ryg_A 3rz6_A 3rzt_A 3ss2_A 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A ...
Probab=24.80 E-value=37 Score=26.54 Aligned_cols=28 Identities=21% Similarity=0.449 Sum_probs=18.8
Q ss_pred eeeccccCcceeec---------------ccCCceeeccCCCC
Q 003180 770 VHVCEHCGLIAIAN---------------LKKNSFECRGCKNK 797 (842)
Q Consensus 770 ~~vC~~cG~~~~~~---------------~~~~~~~C~~C~~~ 797 (842)
.++|..||-+.... .--..+.|+.|+..
T Consensus 2 ~~~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cg~~ 44 (52)
T 1yk4_A 2 KLSCKICGYIYDEDEGDPDNGISPGTKFEDLPDDWVCPLCGAP 44 (52)
T ss_dssp EEEESSSSCEEETTTCBGGGTBCTTCCGGGSCTTCBCTTTCCB
T ss_pred cEEeCCCCeEECCCcCCcccCcCCCCCHhHCCCCCcCCCCCCC
Confidence 58999999875311 11235789999874
No 25
>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=23.98 E-value=33 Score=31.36 Aligned_cols=29 Identities=21% Similarity=0.548 Sum_probs=21.9
Q ss_pred eeeeeccccCcceeecccCCceeeccCCC
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
+.-+.|+.||.....-...+.|.|+.|+.
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 45678999998664434456899999986
No 26
>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} SCOP: g.41.5.1
Probab=23.69 E-value=36 Score=29.61 Aligned_cols=30 Identities=23% Similarity=0.513 Sum_probs=20.0
Q ss_pred eeeeeccccCcceeec---------------ccCCceeeccCCCC
Q 003180 768 YRVHVCEHCGLIAIAN---------------LKKNSFECRGCKNK 797 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~---------------~~~~~~~C~~C~~~ 797 (842)
...|+|..||-+.... .--..|.|+.|+..
T Consensus 33 m~~y~C~vCGyvYD~~~Gdp~~gI~pGT~fedlPddW~CPvCga~ 77 (87)
T 1s24_A 33 YLKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGAT 77 (87)
T ss_dssp CCEEEETTTTEEEETTSCCTTTTCCSCCCGGGCCTTCCCSSSCCC
T ss_pred CceEECCCCCeEecCCcCCcccCcCCCCChhHCCCCCCCCCCCCC
Confidence 3479999999775310 11234689999874
No 27
>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}
Probab=23.59 E-value=31 Score=28.93 Aligned_cols=29 Identities=21% Similarity=0.471 Sum_probs=22.2
Q ss_pred eeeeeccccCcceeecccCCceeeccCCC
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
+.-+.|+.||.....-...+.|.|..|+.
T Consensus 24 ~~ky~C~fCgk~~vkR~a~GIW~C~~C~~ 52 (72)
T 3jyw_9 24 HARYDCSFCGKKTVKRGAAGIWTCSCCKK 52 (72)
T ss_dssp HSCBCCSSCCSSCBSBCSSSCBCCSSSCC
T ss_pred ccCccCCCCCCceeEecCCCeEECCCCCC
Confidence 34577999998876555566789999976
No 28
>1dx8_A Rubredoxin; electron transport, zinc-substitution; NMR {Guillardia theta} SCOP: g.41.5.1 PDB: 1h7v_A
Probab=23.46 E-value=32 Score=28.67 Aligned_cols=29 Identities=31% Similarity=0.631 Sum_probs=19.5
Q ss_pred eeeeccccCcceeec---------------ccCCceeeccCCCC
Q 003180 769 RVHVCEHCGLIAIAN---------------LKKNSFECRGCKNK 797 (842)
Q Consensus 769 ~~~vC~~cG~~~~~~---------------~~~~~~~C~~C~~~ 797 (842)
..|+|..||-+.... .--..|.|+.|+..
T Consensus 6 ~~y~C~vCGyiYd~~~Gdp~~gi~pGT~f~~lPddw~CP~Cga~ 49 (70)
T 1dx8_A 6 GKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSP 49 (70)
T ss_dssp SCEEETTTCCEECTTTCCTTTTCCSSCCGGGSCTTCBCTTTCCB
T ss_pred ceEEeCCCCEEEcCCCCCcccCcCCCCchhhCCCCCcCCCCCCC
Confidence 468999999875311 01235789999874
No 29
>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=22.16 E-value=33 Score=30.12 Aligned_cols=29 Identities=24% Similarity=0.620 Sum_probs=22.5
Q ss_pred eeeeeccccCcceeecccCCceeeccCCC
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
+.-+.|+-||.....-...+.|.|..|+.
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 44568999999876555567899999986
No 30
>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} SCOP: g.41.5.1 PDB: 1rdg_A 2dsx_A 1spw_A
Probab=21.50 E-value=47 Score=25.97 Aligned_cols=28 Identities=21% Similarity=0.529 Sum_probs=18.6
Q ss_pred eeeccccCcceee---cc------------cCCceeeccCCCC
Q 003180 770 VHVCEHCGLIAIA---NL------------KKNSFECRGCKNK 797 (842)
Q Consensus 770 ~~vC~~cG~~~~~---~~------------~~~~~~C~~C~~~ 797 (842)
.++|..||-+... +. --..+.|+.|+..
T Consensus 3 ~y~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cg~~ 45 (52)
T 1e8j_A 3 IYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGAS 45 (52)
T ss_dssp CEECSSSCCCCCTTTCCTTTTCCSSCCTTSSCTTCCCSSSCCC
T ss_pred cEEeCCCCeEEcCCcCCcccCcCCCCchHHCCCCCcCCCCCCc
Confidence 5899999987521 00 1234689999874
No 31
>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L 1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L* 1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...
Probab=20.78 E-value=40 Score=28.04 Aligned_cols=28 Identities=14% Similarity=0.578 Sum_probs=19.3
Q ss_pred eeeeccccCcceeecccCCceeeccCCCC
Q 003180 769 RVHVCEHCGLIAIANLKKNSFECRGCKNK 797 (842)
Q Consensus 769 ~~~vC~~cG~~~~~~~~~~~~~C~~C~~~ 797 (842)
..++|..||...... ..+...|+.|+..
T Consensus 27 v~Y~C~~CG~~~e~~-~~d~irCp~CG~R 54 (70)
T 1twf_L 27 LKYICAECSSKLSLS-RTDAVRCKDCGHR 54 (70)
T ss_dssp CCEECSSSCCEECCC-TTSTTCCSSSCCC
T ss_pred EEEECCCCCCcceeC-CCCCccCCCCCce
Confidence 568999999874221 2344579999873
No 32
>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=20.11 E-value=37 Score=29.83 Aligned_cols=29 Identities=21% Similarity=0.471 Sum_probs=22.2
Q ss_pred eeeeeccccCcceeecccCCceeeccCCC
Q 003180 768 YRVHVCEHCGLIAIANLKKNSFECRGCKN 796 (842)
Q Consensus 768 ~~~~vC~~cG~~~~~~~~~~~~~C~~C~~ 796 (842)
+.-+.|+-||.....-...+.|.|..|+.
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 44577999998875545567899999976
Done!