Query psy8410
Match_columns 951
No_of_seqs 244 out of 1880
Neff 6.4
Searched_HMMs 29240
Date Fri Aug 16 18:06:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8410.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/8410hhsearch_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 4E-217 2E-221 2000.0 21.2 825 63-951 25-1015(1210)
2 1twf_B DNA-directed RNA polyme 100.0 2E-205 7E-210 1916.7 57.0 824 63-951 38-1026(1224)
3 4ayb_B DNA-directed RNA polyme 100.0 2E-182 8E-187 1717.3 51.4 810 64-951 22-927 (1131)
4 2a6h_C DNA-directed RNA polyme 100.0 4E-152 1E-156 1406.7 30.6 722 50-951 2-885 (1119)
5 3lu0_C DNA-directed RNA polyme 100.0 6E-128 2E-132 1177.2 26.1 741 47-951 8-1112(1342)
6 3mlq_A DNA-directed RNA polyme 99.9 4E-28 1.4E-32 247.1 10.0 117 67-219 2-130 (188)
7 1twf_B DNA-directed RNA polyme 98.9 7.2E-11 2.5E-15 150.1 -0.3 130 721-850 984-1163(1224)
8 4ayb_B DNA-directed RNA polyme 98.7 1.7E-09 5.9E-14 137.9 -1.2 134 721-854 885-1068(1131)
9 3h0g_B DNA-directed RNA polyme 98.7 1.9E-09 6.6E-14 135.9 -1.0 117 721-837 973-1132(1210)
10 2a6h_C DNA-directed RNA polyme 98.6 2.7E-09 9.2E-14 133.5 -0.9 68 770-837 967-1045(1119)
11 3lu0_C DNA-directed RNA polyme 98.2 1.7E-07 5.8E-12 117.0 -0.1 70 768-837 1203-1283(1342)
12 3tbi_B DNA-directed RNA polyme 98.2 1.2E-06 4.1E-11 90.5 5.8 70 809-878 17-108 (228)
13 3lti_A DNA-directed RNA polyme 85.1 1.8 6E-05 46.9 7.8 78 283-360 203-296 (296)
14 3mlq_A DNA-directed RNA polyme 53.5 8.1 0.00028 39.1 3.4 58 364-421 120-186 (188)
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=4.4e-217 Score=2000.01 Aligned_cols=825 Identities=27% Similarity=0.395 Sum_probs=706.6
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecc----------cEEEEEEeeEEEcCCcccCCCCCcccccCChH
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYG----------KTLKLNIVKAAISEPKVPAGPVGIHFNKYYPT 132 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~----------~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~ 132 (951)
...++||+|||||||+|+++||++|++++++|+++.++ .+++|+|++++|++|++.++++ ..++|||+
T Consensus 25 f~~~gLV~qHIdSFN~FI~~~Lq~IV~~~~~I~~~~~~~~~~~~~~~~~~~~l~f~~i~v~kP~~~e~d~--~~~~l~P~ 102 (1210)
T 3h0g_B 25 FEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTGAQGDVTRRYEINFGQIYLSRPTMTEADG--STTTMFPQ 102 (1210)
T ss_dssp HHHTCTTCSSSSSSSSSTTTTHHHHSSTTCCCC-------------------CEEEEEECCCCCCBCTTS--CBCCCCTT
T ss_pred hcccchHHHHHHHHHHHHHHhHHHHHhccCcEEecCccCcccccccCCceEEEEEEEEEEcCCceecCCC--cccccCHH
Confidence 46789999999999999999999999999999887532 3699999999999999998876 57899999
Q ss_pred HHHhcCCccceeEEEEEEEEeCCCc-----------------ceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCC
Q psy8410 133 EARQTRSVYSGPFNVTVAWSWDGKA-----------------GGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPD 195 (951)
Q Consensus 133 EcRlr~lTYsa~l~v~i~~~~~~~~-----------------~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~ 195 (951)
|||+|++||+|||+|+|+|++++.+ ....++.||+|||||||++|||++++++||+++||||+
T Consensus 103 EcRlR~lTYsapl~Vdi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~IG~iPIMlrS~~C~L~g~s~~eL~~~gEcp~ 182 (1210)
T 3h0g_B 103 EARLRNLTYSSPLYVDMRKKVMVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNGVSDSELYDLNECPY 182 (1210)
T ss_dssp TTTTTCCCCEEEEEEEEEC---------------------CCSSCCCEEEEEEECCSSSTTSSSSSCCHHHHHHTTCCTT
T ss_pred HHHhcCCccceeEEEEEEEEEcCccccccccccccccccccccccceEEEecCCEEeCCCcccCCCCCHHHHHhcCCCCC
Confidence 9999999999999999999886532 12346899999999999999999999999999999999
Q ss_pred CCCCeEEEcCceeEEEEEEeccCCeeEEEEeccccccCcccceeEEEEEEecCCCcc--eeEEEEEee------cCcEEE
Q psy8410 196 EWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESA--TNNVLHFVT------NGSARF 267 (951)
Q Consensus 196 D~GGYFIInG~EKVIr~li~~r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s--~~~~l~yl~------~g~~~~ 267 (951)
||||||||||+||||++|+..+.|+|++ |++++..++.+++.|||++++++. .+..++|+. ++.+.+
T Consensus 183 D~GGYFIING~EKVII~qerla~N~~iv-----~~~~~~~~~~~~a~irS~~~~~~~~~s~~~v~~~~~~~~~~~~~i~~ 257 (1210)
T 3h0g_B 183 DQGGYFIINGSEKVIIAQERSAANIVQV-----FKKAAPSPIAYVAEIRSALERGSRLISSMQIKLMARNTENSGQTIRA 257 (1210)
T ss_dssp CCCCCBCGGGSCBCCCBCBCCCCSCCCC-----CCCCCSSSCCCCCCCCCCCCSSSCCCCCCCCCCCCCCTTSCSCCCCC
T ss_pred CCCCEEEEeCEEEEEEechhhccceEEE-----EeecCCCCceEEEEEEEEecCCccceeEEEEEEEeccccCCCceEEE
Confidence 9999999999999997777777899987 456677788899999999987642 234455554 445555
Q ss_pred Eeeh----------hhHH-------------------HHHHhHHHHHHhC--CCCHHHHHHHHHhhhcccccccccCCcH
Q psy8410 268 MFSH----------RKSM-------------------CLLGMMQSLHEEG--IHTQHDSKVFFGQIFKEKLQYDLRHLNE 316 (951)
Q Consensus 268 ~~~~----------~k~l-------------------~v~~~L~~~~~~~--i~t~e~aL~yIG~~fr~~~~~~~~~~~~ 316 (951)
.|.+ .|++ .++++|+.+.++. ++||++||+|||++|+... . ++.++
T Consensus 258 ~~~~~~~~IPi~ivlkALg~~sD~EI~~~I~~~~~d~~~~~~l~~slee~~~i~tq~~aL~yIG~r~~~~~--~-~~~~~ 334 (1210)
T 3h0g_B 258 TLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMKPCIEEAFVIQDKDIALDYIGKRGSTTG--V-TREKR 334 (1210)
T ss_dssp CCTTSCSCCCSHHHHTTTTCCSTTHHHHHHCCSSCCHHHHHTHHHHHHTTSSCCSSHHHHHTTCCCSSSCC--C-CHHHH
T ss_pred EEeccccCCcHHHHHHHcCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHhhhcCCHHHHHHHHHHhccccC--C-CchhH
Confidence 5443 2333 2456666666654 6899999999999998532 2 45668
Q ss_pred HHHHHHHhhccccCCCCCch----hhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc--
Q psy8410 317 VEICDYMLTNCILPHLDDYW----DKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA-- 390 (951)
Q Consensus 317 ~~~~~~iL~~~llpHl~~~~----~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~-- 390 (951)
+++|+++|+++|||||++.. +||+||++|+||||+++.|++.+||+|||+||||+|||+||+.+||+.|++...
T Consensus 335 ~~~a~~iL~~~lLpHl~~~~~~~~~Ka~fL~~MvrkLl~~~~G~~~~Dd~D~~~nkrl~l~G~Ll~~lfr~~~~~~~~~i 414 (1210)
T 3h0g_B 335 LRYAHDILQKELLPHITTMEGFETRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDV 414 (1210)
T ss_dssp HHHHHHHHTTTSSCSSCCSSSCCSSHHHHHHHHHHHHHHHHTTSSCCCCTTCSSSCCBCCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhEEeCcCCCccchhHHHHHHHHHHHHHHHHhCCCCCCCCCccccCeEEecHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999998754 899999999999999999999999999999999999999999999998776211
Q ss_pred ---------cCChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCcccc
Q psy8410 391 ---------VLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQ 461 (951)
Q Consensus 391 ---------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~ 461 (951)
..+..++..+++++.||++|+||||||||+++|+ +++|++||||+|+|+||+|+|||||||+ +++++
T Consensus 415 ~~~l~k~~~~~~~~~~~~~i~~~~It~~l~~~laTGNW~~~kk---~~~~~sGvsqvl~R~n~~s~lShlRrv~-~p~~~ 490 (1210)
T 3h0g_B 415 YKYMQKCVETNREFNLTLAVKSNIITNGLRYSLATGNWGDQKR---SMVNRVGVSQVLNRYTFASTLSHLRRTN-TPIGR 490 (1210)
T ss_dssp HHHHHHHHTTCCSCCCTTSSCSTTTSHHHHHHHSSSCSSTTSS---CCSCCCCSCCBCCCSSHHHHHHHTTBBC-CSCCS
T ss_pred HHHHHHHhhcCCccCHHHhcchhhhHHHHHHHhhcCCcccccc---cccCcCCEEEEcccCCHHHHHHHHHhcc-Cchhh
Confidence 1123445667788999999999999999998554 5699999999999999999999999997 67999
Q ss_pred ccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEE
Q psy8410 462 EMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVM 541 (951)
Q Consensus 462 ~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~ 541 (951)
++|+++||+||||||||+||+|||||++||||||||++|+||++.+. ++|.++|.++||+++++..+...+..++||
T Consensus 491 ~~K~~~~R~Lhpt~WG~iCP~eTPEG~~cGLvknLal~~~Isvg~~~---~pI~~~l~~~gme~le~~~~~~~~~~tkVf 567 (1210)
T 3h0g_B 491 DGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPS---APIIEFLEEWGLETLEDYNPSASPNATKVF 567 (1210)
T ss_dssp SCCSSSSSSCCGGGTTTCCCSCCCSSSSTTTSCBCCSSCCBCCCCCS---SHHHHHHHSSSCCCCSCCCSSSSSSSCCCC
T ss_pred ccccccccccChhhheeeccccCCCCCcccccccccceeeeECCCCc---HHHHHHHHHhCCcchhhcCcccCCCceEEE
Confidence 99999999999999999999999999999999999999999999775 899999999999998765445556689999
Q ss_pred ECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeecc---------
Q psy8410 542 LDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAA--------- 612 (951)
Q Consensus 542 lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~--------- 612 (951)
|||+|||+|. ++..+++.||.+||+|. ||.++||+++... ++++||||+||+||||+++++
T Consensus 568 vNG~wVGvh~--dp~~Lv~~lR~lRR~g~-Is~eVSIvrdir~-------rE~~IfTDaGRv~RPLfvVen~~~~~~~g~ 637 (1210)
T 3h0g_B 568 VNGVWLGVHR--DPAHLTETLRSLRRRLD-ISAEVSIVRDIRE-------KELRLFTDAGRICRPLFIVDNNPNSERRGE 637 (1210)
T ss_dssp STTCCCCCCS--CHHHHHHHHHHHHTTTS-SCTTCCCCCCTTT-------CCCCCCCSSCCBCCEEEECCCSSCSSSSCC
T ss_pred ECCEEEEEeC--CHHHHHHHHHHHhhcCC-CCCceEEEecCCC-------CeEEEecCCCcccceEEEEccCCccccccc
Confidence 9999999987 46999999999999998 9999999876543 469999999999999998653
Q ss_pred ----------------------------------ccccccCCccceeeeeeecccccCc---------------------
Q psy8410 613 ----------------------------------GNIEWIGTFEQVFMDICITMKEAYP--------------------- 637 (951)
Q Consensus 613 ----------------------------------g~iE~I~~~Eq~~~~Ia~~~~~~~~--------------------- 637 (951)
|.|||||++||++++||++++|+..
T Consensus 638 L~l~k~hi~~L~~~~~~~~~~~~~~~~w~~Lv~~GvIEylDaeEEet~mIamtpeDL~~~r~~~~g~~~~~~~d~~~r~k 717 (1210)
T 3h0g_B 638 LCIRKEHIQQLIEDKDRYDIDPEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVK 717 (1210)
T ss_dssp CSSCHHHHHHHHHHHTCCCSCTTCCCSSTTTTTTTSEEECCTTTGGGCCEESCHHHHHHHHHHTTCCCCCCSSCCSSCCC
T ss_pred ccccHHHHHHHhcccccccccccccCCHHHHHhCCCEEEecHhhhhceeEEecHHHhhhhhhhhccccccccccchhhcc
Confidence 5789999999999999999999842
Q ss_pred -------ceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeeccc
Q psy8410 638 -------GITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVH 710 (951)
Q Consensus 638 -------~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~ 710 (951)
..||||||||++|||||||+||||||||||||||||||||||||+|++||+.|+||++|+|+|||+|||+|++
T Consensus 718 ~~~~~~~~~~THcEIhPsmILGIcASiIPFpdHNQSPRNtYQ~aMgKQamG~~~~n~~~R~Dt~~~~L~yPQkPlv~T~~ 797 (1210)
T 3h0g_B 718 PAPNPHVHAWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRS 797 (1210)
T ss_dssp CCSCCSCCSCSEECSCGGGSSCSSSTTSSSSTTSCSHHHHHHHHHHTTCCSCCCTTTTTSCCSSEEEESSCBCCSSBCTT
T ss_pred ccCCCcccccccccccchhhhhheeecccCccccccchhhhhhhhhcccccccccccccccCccccEeecCcCccccchh
Confidence 3589999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEE
Q psy8410 711 YDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQI 790 (951)
Q Consensus 711 ~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i 790 (951)
++.++++++|+||||+||||||+||||||||||||+|+|||||++.+|+++..++++ +|.+
T Consensus 798 ~e~~~~~elp~G~NaiVAvmsy~GYn~EDAiIink~sv~rg~~~s~~~~~y~~~~~~----~~~~--------------- 858 (1210)
T 3h0g_B 798 MEYLKFRELPAGQNAIVAILCYSGYNQEDSIIMNQASIDRGLFRSIFYRTYTDQEKK----IGMT--------------- 858 (1210)
T ss_dssp STTTTCTTSCSCCEECBEECCCSSSSCSSCEEEEHHHHTTTTTCEEEEEEEEECCCC----CSSS---------------
T ss_pred HHHhCCCcccCccceEEEEeccCCCChhhheeeehhheecCceEEEEEEEEEEEeee----cCCC---------------
Confidence 999999999999999999999999999999999999999999999999999876543 1110
Q ss_pred EeceeeeeeeeecccccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecCCC--------------CeE
Q psy8410 791 FFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKESE--------------NRY 856 (951)
Q Consensus 791 ~~g~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~--------------~~~ 856 (951)
..+++.....-.....+...|++||+||||++|+.|++||+|+||++|.. .++
T Consensus 859 -------------~~~~~~~p~~~~~~~~~~~~~~~LD~dGi~~~G~~v~~gDiligK~~p~~~~~~~~~~~~~~~~~rd 925 (1210)
T 3h0g_B 859 -------------VMEEFERPVRSTTLRMKHGTYDKLEDDGLIAPGTRVSGEDIIIGKTAPIPLDHEELGQRTQLHAKRD 925 (1210)
T ss_dssp -------------CCCCCCCCCTTSCCSCCSCCGGGCCTTSSCCTTCCCCTTCCCCCCCCCC-----------CCCCCCC
T ss_pred -------------ceeEEcCCCcchhcccchhhHhhcCCCCCcCCCCEecCCCEEEEEecCCCCCchhhcccccccccce
Confidence 00000000000000001124889999999999999999999999987631 135
Q ss_pred EEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEE
Q psy8410 857 VTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIV 936 (951)
Q Consensus 857 ~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI 936 (951)
.+++|+++|+|+||+|.++++++ + .+.|||++|+.|+|++|||||||||||||||+|||+||||||++|++||||
T Consensus 926 ~s~~~~~~e~g~Vd~V~~~~~~~-g----~~~vkv~~~~~R~~~~GDK~a~RhGqKGvi~~i~~~edmPf~~~G~~pDii 1000 (1210)
T 3h0g_B 926 VSTPLRSTESGIVDQVMVTTNQE-G----LKFVKVRMRSTRIPQIGDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDII 1000 (1210)
T ss_dssp CCCCCCTTCCCCCCEEEEEECSS-S----SEEEEEEECCCBCCCTTCEEECTTCCCEEEEEEECTTTSCCBTTTBCCSEE
T ss_pred eeEEecCCCCeEEEEEEEEEecC-C----CeEEEEEEEEecCCCchhhhhcccCCCceeeEEeccccCCcCCCCCCCeEE
Confidence 67899999999999999998753 2 689999999999999999999999999999999999999999999999999
Q ss_pred eCCCCCCcccCCCCC
Q psy8410 937 FNPHGFPSRMTIGFL 951 (951)
Q Consensus 937 ~NPhg~PSRMTiG~l 951 (951)
|||||||||||||||
T Consensus 1001 ~NP~~~PSRMtigq~ 1015 (1210)
T 3h0g_B 1001 INPHAIPSRMTVAHL 1015 (1210)
T ss_dssp CCGGGSTTSCCHHHH
T ss_pred ECCCcCCCCccchhh
Confidence 999999999999985
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=2e-205 Score=1916.65 Aligned_cols=824 Identities=27% Similarity=0.390 Sum_probs=697.5
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecc----------cEEEEEEeeEEEcCCcccCCCCCcccccCChH
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYG----------KTLKLNIVKAAISEPKVPAGPVGIHFNKYYPT 132 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~----------~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~ 132 (951)
..+++|++|||||||+|+++||++++++++||+++..+ .+++|+|++++|++|++.++++ ..++|||+
T Consensus 38 ~~~~~Lv~~qidSFn~Fi~~gL~~iv~~~~~I~~~~~~~~~~~~~~~~~~~~l~f~~i~l~~P~~~e~~~--~~~~l~P~ 115 (1224)
T 1twf_B 38 FREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESDG--VTHALYPQ 115 (1224)
T ss_dssp HHHHTTCHHHHHHHHHHHHTHHHHHHHTTCBCC------------------CCEECCCEEEEEEECCSSS--CCEECCHH
T ss_pred HcCccHHHHHHHHHHHHHHHhHHHHHHhcCceeecCcccccccccccceEEEEEEEEEEEeCCceeccCC--ccccCCHH
Confidence 46899999999999999999999999999999874321 2589999999999999998775 57899999
Q ss_pred HHHhcCCccceeEEEEEEEEe-CCCcc------------e------EEEEeecccceEecCCcccCCCCCHHHHHHcCCC
Q psy8410 133 EARQTRSVYSGPFNVTVAWSW-DGKAG------------G------TFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEH 193 (951)
Q Consensus 133 EcRlr~lTYsa~l~v~i~~~~-~~~~~------------~------~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~ 193 (951)
|||+|++||+|||+|+|+|.. ++... . ..+++||+|||||||++|||+|++++||+++|||
T Consensus 116 EcRlR~lTYsapl~v~v~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~v~iG~iPIMlrS~~C~L~~~s~~el~~~gEc 195 (1224)
T 1twf_B 116 EARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYLSEATESDLYKLKEC 195 (1224)
T ss_dssp HHHHTTCCCEEEEECCEECCCCC-------------------------CCEEEEEECCTTSTTSGGGTCCHHHHHHTTCC
T ss_pred HHhhcCCccceeEEEEEEEEEEeCCcccccccccccccccccccccceeeEeCCCCeEeccCcccCCCCCHHHHHhhccC
Confidence 999999999999999995543 22211 1 2358999999999999999999999999999999
Q ss_pred CCCCCCeEEEcCceeEEEEEEeccCCeeEEEEeccccccCcccceeEEEEEEecCC--CcceeEEEEEee-----cCcEE
Q psy8410 194 PDEWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRD--ESATNNVLHFVT-----NGSAR 266 (951)
Q Consensus 194 ~~D~GGYFIInG~EKVIr~li~~r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d--~~s~~~~l~yl~-----~g~~~ 266 (951)
|+|+||||||||+||||++|+++++|++++.. +++..++.+++.+||+.++ +++..+.++|.+ +|.+.
T Consensus 196 p~D~GGYFIING~ERVIv~Qe~~s~N~i~~~~-----~~~~~~~~~~~~irsv~~~~~~~~~~~~l~~~~~~~~~~~~i~ 270 (1224)
T 1twf_B 196 PFDMGGYFIINGSEKVLIAQERSAGNIVQVFK-----KAAPSPISHVAEIRSALEKGSRFISTLQVKLYGREGSSARTIK 270 (1224)
T ss_dssp TTCCCCSEEETTEEEEECEEEEECSSCCEEEE-----CCTTSSEEEEEEEECCCSSSCCCCCEEEEEEESCSSCSSCCEE
T ss_pred ccCCCCEEEEeCcEEEEEEeeeccCCeEEEEe-----ccCCCcceEEEEEEEEeccCCcceeEEEEEEeccccCCCCEEE
Confidence 99999999999999999999999999999863 3455677889999998876 466778899988 89999
Q ss_pred EEeehh----------hHH-------------------HHHHhHHHHHHh--CCCCHHHHHHHHHhh-hcccccccccCC
Q psy8410 267 FMFSHR----------KSM-------------------CLLGMMQSLHEE--GIHTQHDSKVFFGQI-FKEKLQYDLRHL 314 (951)
Q Consensus 267 ~~~~~~----------k~l-------------------~v~~~L~~~~~~--~i~t~e~aL~yIG~~-fr~~~~~~~~~~ 314 (951)
+.+.+. |++ .+.++|....++ .+.|+++||.|||++ +++.. ++.
T Consensus 271 vr~~~~k~~IPi~illkALG~~sD~eI~~~i~~~~~d~~~~~~l~~~l~e~~~~~t~~~AL~yIg~r~~~~g~----~~~ 346 (1224)
T 1twf_B 271 ATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRGTALGI----KKE 346 (1224)
T ss_dssp EECTTCSSCEEHHHHHHHTTCCSHHHHHHHHCCCTTCHHHHHHHHHHHHHTTTCCSHHHHHHHHHHTTSCTTS----CHH
T ss_pred EEEecccccccHHHHHHHhcCCCHHHHHHHhcccCCcHHHHHHHHHHHHHhhhcCCHHHHHHHHHHhhccCCC----CCc
Confidence 888763 333 122444444443 478999999999999 76642 234
Q ss_pred cHHHHHHHHhhccccCCCCCc----hhhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc
Q psy8410 315 NEVEICDYMLTNCILPHLDDY----WDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA 390 (951)
Q Consensus 315 ~~~~~~~~iL~~~llpHl~~~----~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~ 390 (951)
++.+.|+.+|++++|||++.. .+|++||++|+|||+.++.|.+.+||+|||+||||+++|+||+.+||+.|.+...
T Consensus 347 ~~~~~a~~iL~~~~l~Hvg~~~~~~~~K~~~L~~mi~kLl~~~~g~~~~DD~DhlgnkRv~l~G~Ll~~lfr~~~~r~~~ 426 (1224)
T 1twf_B 347 KRIQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTK 426 (1224)
T ss_dssp HHHHHHHHHHHHTSSTTTCCSSSCHHHHHHHHHHHHHHHHHHHTTSSCCCCTTCGGGEEEECHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHhhcccccCCCccccccHHHHHHHHHHHHHHHhcCCCCCCCCccccccEEehhhHHHHHHHHHHHHHHHH
Confidence 678999999999999999875 6899999999999999999999999999999999999999999999997766211
Q ss_pred -----------cCChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCcc
Q psy8410 391 -----------VLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSY 459 (951)
Q Consensus 391 -----------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~ 459 (951)
..+..++..+++++.||++|+||||||||+++| .+++|++||||+|+|+||+|+||||||+|+ ++
T Consensus 427 ~i~~~l~~~~~~~~~~~~~~~i~~~~It~~lk~~~aTGNw~~~k---~~~~~~sGvSQvldr~n~ls~LSH~RRi~~-~~ 502 (1224)
T 1twf_B 427 DIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQK---KAMSSRAGVSQVLNRYTYSSTLSHLRRTNT-PI 502 (1224)
T ss_dssp HHHHHHHSCCC--------CCCCTHHHHHHHHHHHHHCCCC------------CCCEEECCCSSHHHHHHHHTEEEC-CC
T ss_pred HHHHHHHHHhhcccccchhhhhcccchhhcchhheeeccccccc---cccccccceeEeecccchhhhhhhhhcccc-cc
Confidence 122345666778889999999999999999844 478999999999999999999999999998 58
Q ss_pred ccccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceE
Q psy8410 460 FQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALM 539 (951)
Q Consensus 460 f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~ 539 (951)
+.++|.++||+||||||||+||+|||||++||||||||++|+|+++.++ ++|.++|.++||+++++..+...+..++
T Consensus 503 ~r~~k~~~~R~LHpshwG~iCPiETPEG~~cGLVknLAl~a~Is~g~~~---~pi~~~l~~~G~~~l~e~~~~~~~~~~k 579 (1224)
T 1twf_B 503 GRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDP---MPIITFLSEWGMEPLEDYVPHQSPDATR 579 (1224)
T ss_dssp ------CCTTSCCGGGTTTBCSSCCCSGGGBTTEEEBCTTCEECCCCCC---HHHHHHHHHTTCEEGGGCCGGGCTTCEE
T ss_pred cccccccccccccCccceeecCCCCCCCcccchhhhHHhhCcccCCCCH---HHHHHHHHHcCCcceeecccccCCCceE
Confidence 8999999999999999999999999999999999999999999998765 8999999999999987543333356899
Q ss_pred EEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeeccc------
Q psy8410 540 VMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAG------ 613 (951)
Q Consensus 540 V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g------ 613 (951)
|||||+|+|++. ++..+++.||.+||.|. |+.++||+++... .+++||||+||+||||+++++|
T Consensus 580 VfvnG~~vG~~~--~p~~lv~~lr~lRR~g~-i~~evsiv~d~r~-------~ei~I~TD~GRv~RPl~vV~~~~~~~~~ 649 (1224)
T 1twf_B 580 VFVNGVWHGVHR--NPARLMETLRTLRRKGD-INPEVSMIRDIRE-------KELKIFTDAGRVYRPLFIVEDDESLGHK 649 (1224)
T ss_dssp EEETTEEEEEES--CHHHHHHHHHHHHHHTS-SCTTCEEEEETTT-------TEEEEECCSCCEEEEEEEEECCCTTSSC
T ss_pred EEECCEEEEEeC--CHHHHHHHHHHHHhccC-CCCeEEEEEeccc-------CeEEEeccCceeeeeEEEecCCCccccc
Confidence 999999999997 46999999999999998 9999999998754 3699999999999999999875
Q ss_pred ---------------------------------------cccccCCccceeeeeeecccccCcc----------------
Q psy8410 614 ---------------------------------------NIEWIGTFEQVFMDICITMKEAYPG---------------- 638 (951)
Q Consensus 614 ---------------------------------------~iE~I~~~Eq~~~~Ia~~~~~~~~~---------------- 638 (951)
.|||||++||++++||++++|+.+.
T Consensus 650 ~l~l~k~hi~~L~~~~~~~~~~~~~~~~~~~w~~Lv~~G~iEyldaeEEe~~~Ia~~~~dl~~~~~~~~~~~~~~~~~R~ 729 (1224)
T 1twf_B 650 ELKVRKGHIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRI 729 (1224)
T ss_dssp EESCCHHHHHHHHHHHHCC---------CCCHHHHHHTTSEEEEEHHHHTTCCEESSGGGGCC---------CCCTTSCC
T ss_pred cceecHHHHHHhhhccccccccccccccccchhHhccCCcEEEcChhhhcCcEEeccccccCcccccccccccccccccc
Confidence 6999999999999999999998651
Q ss_pred -------eeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeecccc
Q psy8410 639 -------ITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHY 711 (951)
Q Consensus 639 -------~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~~ 711 (951)
.+|||||||++|||||||+||||||||||||||||||+|||||++.+|+..|+|++.|+|+|||+|||+|+.+
T Consensus 730 ~~~~~~~~~Th~EI~Ps~ILgV~ASlIPF~dHNqSpRn~yqs~M~kQA~g~~~~n~~~r~dt~~~~l~ypQkPlV~t~~~ 809 (1224)
T 1twf_B 730 RVSHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAM 809 (1224)
T ss_dssp CCCCCCSCCCEECSCGGGGSCTTGGGSSSGGGSCHHHHHHHHHHGGGBCBCSCTTTTTCCCSEEEEESSCBCCSEECTTH
T ss_pred cCCcCchhhcccccCCccccceeecccCCccccccchhhhcccccccccccccceeeeecccccceeecCcCCeEEcccc
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEE
Q psy8410 712 DTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIF 791 (951)
Q Consensus 712 ~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~ 791 (951)
+.++++++|+||||+||||||+||||||||||||+|+|||+|++.+|+++.++.++ . ..|.|..+.
T Consensus 810 ~~~~~~elp~G~N~iVAvm~y~GYN~EDAiIin~~sv~rg~~~s~~~~~y~~~~~~-~-~~~~~e~~~------------ 875 (1224)
T 1twf_B 810 EYLKFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKK-Y-GMSITETFE------------ 875 (1224)
T ss_dssp HHHTTTTSCCCEEEEEEECBSSSTTTTTEEEEEHHHHHTTTTCEEEEEEEEECCCC-S-CTTCCCEES------------
T ss_pred cccccccCCCCeeEEEEEecccCcccchhhhhhhhHHhcCCeeEEEEEEEEEEeee-C-CCCceeEec------------
Confidence 99999999999999999999999999999999999999999999999999887543 1 112111000
Q ss_pred eceeeeeeeeecccccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecCCC--------------CeEE
Q psy8410 792 FGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKESE--------------NRYV 857 (951)
Q Consensus 792 ~g~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~--------------~~~~ 857 (951)
.| + ...+.+ .+...|++||+||||++|+.|++||+|+||++|.. .++.
T Consensus 876 -~P-----------~---~~~~~~---~~~~~~~~LD~dGiv~~G~~V~~gDilvgK~~p~~~~~~~~~~~~~~~~~rd~ 937 (1224)
T 1twf_B 876 -KP-----------Q---RTNTLR---MKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDA 937 (1224)
T ss_dssp -CC-----------C---CSSSCB---CCSSCGGGCCTTSBCCTTCEECTTCEEECEECCCC-------------CCBBC
T ss_pred -CC-----------C---hhhccC---ccHHHHhhcccCCccCCccEecCCCEEEEEecCCCccccccccccccCcccee
Confidence 00 0 000011 11234889999999999999999999999998732 2457
Q ss_pred EEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEe
Q psy8410 858 TCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVF 937 (951)
Q Consensus 858 ~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~ 937 (951)
+++++++|.|+||+|.++++++ + .+.|||++|+.|+|+||||||||||||||||+|||+||||||++|++|||||
T Consensus 938 s~~~~~~e~g~Vd~V~~~~~~~-g----~~~vkV~ir~~R~p~iGDKfasRHGqKGvis~i~p~eDMPf~~dG~~pDiIi 1012 (1224)
T 1twf_B 938 STPLRSTENGIVDQVLVTTNQD-G----LKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLII 1012 (1224)
T ss_dssp CEECCTTCCEEEEEEEEEECSS-S----CEEEEEEEEEEECCCTTCEEECTTSCEEEEEEEECTTTSCEETTSCCCSEEE
T ss_pred EEEeeCCCCeEEEEEEEEecCC-C----CEEEEEEEEecCCCCchhhhhhhccCcceeeeecccccCCcCCCCCCccEEe
Confidence 8999999999999999998753 2 6899999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccCCCCC
Q psy8410 938 NPHGFPSRMTIGFL 951 (951)
Q Consensus 938 NPhg~PSRMTiG~l 951 (951)
||||||||||||||
T Consensus 1013 NPhg~PSRMtiGql 1026 (1224)
T 1twf_B 1013 NPHAIPSRMTVAHL 1026 (1224)
T ss_dssp CGGGSTTTTCHHHH
T ss_pred CCCcCccccccchh
Confidence 99999999999995
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=2.4e-182 Score=1717.30 Aligned_cols=810 Identities=27% Similarity=0.405 Sum_probs=699.3
Q ss_pred hhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCccce
Q psy8410 64 FLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSG 143 (951)
Q Consensus 64 ~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTYsa 143 (951)
..++||+|||||||+|+++||++|+++++||+... +.++|+|++++|++|++.++++ ..+++||+|||+|++||+|
T Consensus 22 ~~~gLV~~qidSfn~Fl~~gL~~i~~~~~pI~~~~--~~~~l~f~~~~l~~P~~~e~d~--~~~~l~P~EcR~r~~TYsa 97 (1131)
T 4ayb_B 22 KSKGLVRQHLDSYNDFVRNKLQEIIDEQGEIPTEI--PGLKVRLGKIRIGKPRVRESDR--GEREISPMEARLRNLTYAA 97 (1131)
T ss_dssp HHSCSSCHHHHHHHHHHHTTTHHHHHHHCSCCCSS--TTCEEEEEEEEECCSEEEETTT--EEEECCHHHHHHHTCCCEE
T ss_pred CCCCCcHHHHHHHHHHHHhCHHHHHHhcCCeeecC--CCEEEEEEEEEEeCCeeecCCC--CcCccCHHHHHhcCCCccc
Confidence 45789999999999999999999999999998664 5689999999999999988776 5679999999999999999
Q ss_pred eEEEEEEEEeCCCcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCeeEE
Q psy8410 144 PFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPIA 223 (951)
Q Consensus 144 ~l~v~i~~~~~~~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~ia 223 (951)
||+|++.+..++.+....++++|+|||||+|++|||++++++||+++||||+||||||||||+||||++|+..++|.++.
T Consensus 98 pl~v~v~~~~~~~~~~~~~v~lG~iPiM~~S~~C~L~~~s~~el~~~gEc~~D~GGyFIING~ERVIv~Q~~~spn~~~~ 177 (1131)
T 4ayb_B 98 PLWLTMIPVENNIEAEPEEVYIGDLPIMLKSAIDPISQYTLDKLIEIGEDPKDPGGYFIVNGSERVIVTQEDLAPNRVLV 177 (1131)
T ss_dssp EEEEEEEEEETTEECCCEEEEEEEEECCTTSTTSGGGGCCHHHHHHHTCCTTCCCCCEEETTEEEEECEEEEECCSSCEE
T ss_pred eEEEEEEEEECCcEEEEEEEEEEECCEEeCCCcccCCCCCHHHHHhcCCCcCCCCcEEEeCCEEEEEEEeeccCCCeEEE
Confidence 99999999998877778899999999999999999999999999999999999999999999999999999999998876
Q ss_pred EEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeeh----------hhHH------HHHH--------
Q psy8410 224 IKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSH----------RKSM------CLLG-------- 279 (951)
Q Consensus 224 ~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~----------~k~l------~v~~-------- 279 (951)
... .++..++..+..+++...+. ....++|.++|.+.+.+.. .|++ .+..
T Consensus 178 ~~~----~~~~~~~~~a~ii~~~~~~~--~~~~i~~~~~~~~~v~~~~~~~~iPi~illrALG~~sD~eI~~~i~~~~~~ 251 (1131)
T 4ayb_B 178 DTG----KTGSNITHTAKIISSTAGYR--VPVTIERLKDGTFHVSFPAVPGKIPFVILMRALGILTDRDIVYAVSLDPEI 251 (1131)
T ss_dssp EEC----CTTCSEEEEEECEEECSSCE--EECCEEEETTTCCEECCSSSCCCEEHHHHHHHHTCCSHHHHHHHHCSCHHH
T ss_pred Eec----cCCCcEEEEEEEEECCCCce--eeEEEEEeCCCEEEEEEcCcCceeeHHHHHHHhCCcchhhHHHHhcccHHH
Confidence 432 23344555555556554432 3346889999988776643 3343 1111
Q ss_pred --h-HHHH-HHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCCCCC----chhhHhHHHHHHHHHHH
Q psy8410 280 --M-MQSL-HEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDD----YWDKFLCLSHMTCKLFH 351 (951)
Q Consensus 280 --~-L~~~-~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~~----~~~K~~~L~~Mi~kLl~ 351 (951)
. +... ....+.|+++||.|||++++... +..+..+.|+++|++++|||++. ...|+++|++|++||+.
T Consensus 252 ~~~l~~~~~~~~~i~~~~~al~~i~~r~~~~~----~~~~~~~~a~~il~~~~l~hl~~~~~~~~~K~~~L~~mi~~Ll~ 327 (1131)
T 4ayb_B 252 QNELFPSLEQASSIANVDDALDFIGSRVAIGQ----KRENRIEKAQQIIDKYFLPHLGTSADDRRKKAYYLAYAISKVIE 327 (1131)
T ss_dssp HTTTHHHHHHHTTTCCSSHHHHHHHHHHHCSS----CHHHHHHHHHHHHHTTSSTTSCSSTTSHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcccccHHHHHHHHhhhhhcCC----CCchhHHHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHH
Confidence 1 1111 23468999999999999998653 23356789999999999999974 34699999999999999
Q ss_pred HhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhccc-----------ccCChhhHHhhhccchHHHHHHHHHhcCCcC
Q psy8410 352 VVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTS-----------AVLKESDIYAAFRASSIESAMTNFLATGNVS 420 (951)
Q Consensus 352 ~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~-----------~~~~~~~~~~~i~~~~It~~i~~~laTGNw~ 420 (951)
+..|.+.+||+|||+||||+++|+||+++||+.|.+.. ...+...+..+++++.||++|++|||||||.
T Consensus 328 l~~g~~~~DD~Dhl~NkRvr~vGeLl~~~fr~~l~r~~r~ir~~~~~~~~~~~~~~~~~li~~~~it~~i~~~~aTGn~~ 407 (1131)
T 4ayb_B 328 LYLGRREPDDKDHYANKRLRLAGDLFASLFRVAFKAFVKDLTYQLEKSKVRGRKLALKALVRPDIVTERIRHALATGNWV 407 (1131)
T ss_dssp HHHTSSCCCCTTSGGGEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTCSCCCHHHHCCTHHHHHHHHHHHHTTBCS
T ss_pred HHcCCCCCCCCcchhcceecchhHHHHHHHHHHHHHHHHHhhhhcccchhcccccchhhhcCCchhhhhhHHHHhhcccc
Confidence 99999999999999999999999999999998665521 1122344566678999999999999999998
Q ss_pred CCccchhhhhhccceeEEecccchhhhcccccccccCccccccccCCCccccCCCCceeecccCCCCcccccccccccee
Q psy8410 421 AGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNC 500 (951)
Q Consensus 421 ~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~ 500 (951)
.+ ++||||++||+|++|+|||+||+++| ++.+++.++||+|||||||||||+|||||+||||+||||++|
T Consensus 408 ~~---------~sglSQ~mdq~NpLs~lsH~RRlsag-l~rera~~evRdlHpShyGriCPIETPEG~niGLI~sLA~~a 477 (1131)
T 4ayb_B 408 GG---------RTGVSQLLDRTNWLSMLSHLRRVISS-LARGQPNFEARDLHGTQWGRMCPFETPEGPNSGLVKNLALMA 477 (1131)
T ss_dssp SS---------CBCCEEECCCSSHHHHHHHHTEEEEC-SCSSSCCHHHHSCCGGGTTTBCSSCCCSSTTBTTEEEBBSSC
T ss_pred cC---------CCceEEEeccCCHHHHHHhhhhhcCC-cccccccccccccCHhhccccccccCCCCccccccccceeeE
Confidence 73 58999999999999999999999985 778889999999999999999999999999999999999999
Q ss_pred EEeeccCccccccHHHHHHHCCCeeccccccCC---------CCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCC
Q psy8410 501 QISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSI---------PEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEK 571 (951)
Q Consensus 501 ~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~---------~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~ 571 (951)
+|+.+.++ .++.+++.++|+.++++..... .....+||+||+|+|++.+ +..++..+|..|+.+.
T Consensus 478 ~I~~g~~e---~~i~~~l~~~g~~~~e~~~~~~~~~~~~~~~~~~~~~v~lng~~vg~~~~--~~~~~~~~~~~~~~~~- 551 (1131)
T 4ayb_B 478 QIAVGINE---KIVEKTLYEMGVVPVEEVIRRVTEGGEDQNEYLKWSKVILNGRLVGYYRD--GEELAKKIRERRRKGE- 551 (1131)
T ss_dssp EECCCCCH---HHHHHHHHHTTCEEHHHHHHTTTTC-----CCCCCCEEEETTEEEEECSC--HHHHHHHHHHHHHHTS-
T ss_pred EEecCCCC---cceeeehhhcCceeeeeeehhhcccccccchhhhhcceeecCceEEEecc--chhhhhhhhhhhccCc-
Confidence 99987665 7899999999998865211110 1124689999999999974 5789999999999988
Q ss_pred CCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeec--------------------------cccccccCCcccee
Q psy8410 572 IPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLA--------------------------AGNIEWIGTFEQVF 625 (951)
Q Consensus 572 i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~--------------------------~g~iE~I~~~Eq~~ 625 (951)
++..++|++... ...+++++++|+||++|||+.++ .|.|||+|++|+++
T Consensus 552 i~~~vsi~~~~~-----~~~~~~~i~~d~~r~~rpv~~~~~~~p~v~~~~~~~~~~g~~~~~~~~~~g~veyvd~~e~~~ 626 (1131)
T 4ayb_B 552 ISDEVNVGHIVT-----DFINEVHVNCDSGRVRRPLIIVSNGNPLVTREDIEKLDSGSITFDDLVRQGKIEYLDAEEEEN 626 (1131)
T ss_dssp SCTTCEEEEECT-----TTCCEEEEECCTTCEEEEEEEBSSSSBSCCHHHHHHHHTTTCCHHHHHHTTSEEEEEHHHHTT
T ss_pred cCceEEEeeccc-----cccceeeeecCCcccccceEEeecccccccHHHHHHHhcCChhHHHHhhCCceeeeeccccce
Confidence 889999988753 23567999999999999998754 36799999999999
Q ss_pred eeeeecccccCcceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCcee
Q psy8410 626 MDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPF 705 (951)
Q Consensus 626 ~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Pl 705 (951)
+.||+.++|+.+ .+||+||+|+.+||++|++|||++|||||||||||||+|||||++++|++.|+|++.|+|+|||+||
T Consensus 627 ~~ia~~~~~~~~-~~th~ei~p~~il~v~a~lipf~~~NqspRn~yq~~m~KQa~G~~~~~~~~r~D~~~~~l~ypQ~Pl 705 (1131)
T 4ayb_B 627 AYVALEPSDLTP-EHTHLEIWSPAILGITASIIPYPEHNQSPRNTYQSAMAKQALGLYAANYQLRTDTRAHLLHYPQRPL 705 (1131)
T ss_dssp CCEESSGGGCCT-TCSEECSCGGGGSBTTGGGCSSGGGSCHHHHHHHHHHGGGBCSCCCGGGGTCCCSEEEEESSCCCCS
T ss_pred eEEEeecccccc-cccceeeccccccccccceecccccCccchheeccccccccCCceeecceeeeccccceeecCCccc
Confidence 999999999987 7999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecccccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCcc
Q psy8410 706 FRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSM 785 (951)
Q Consensus 706 v~t~~~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~ 785 (951)
|+|+.++.++++++|+|+|++||||||+||||||||||||++++||+|++.+|+.+.++..+. +.|.|
T Consensus 706 V~t~~~~~~~~~e~p~G~N~lVA~m~w~GYN~EDAIIine~~v~rg~ftSihi~~y~~e~r~~--~~g~~---------- 773 (1131)
T 4ayb_B 706 VQTRALDIIGYTNRPAGNNAILAVISFTGYNMEDSIIMNRSSVERGMYRSTFFRLYSTEEVKY--PGGQE---------- 773 (1131)
T ss_dssp SBCHHHHHHTCTTSCCSEEEEEEECCCSSCCCTTCEEEEHHHHTTTTTCEEEEEEEEEECCCC--TTSCC----------
T ss_pred cccchhhhhccCCCCCceeEEEEEEccCCccHHHhhhhhcchhhcccceeeEEEEEEEEEEec--CCCCc----------
Confidence 999999999999999999999999999999999999999999999999999999988876441 11211
Q ss_pred ceeEEEeceeeeeeeeecccccccccccccCCCC-----ChhhhhcCCCCCceeecceecCCCCEEEEecCCC-------
Q psy8410 786 MQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-----NKALEDKLGPDGLVYVGAKLNERDPMYSYWKESE------- 853 (951)
Q Consensus 786 ~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-----~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~------- 853 (951)
..+....|+ .+..+++||+||++++|+.|++||+|+||++|..
T Consensus 774 -------------------------e~it~~~p~v~~~~~~~~~~~LDe~Gii~iGa~V~~gDilvGKvtP~~~~~~~~~ 828 (1131)
T 4ayb_B 774 -------------------------DKIVMPEPGVRGYKGKEYYRLLEDNGVVSPEVEVKGGDVLIGKVSPPRFLQEFKE 828 (1131)
T ss_dssp -------------------------CCCCCCCSSCSSCCCGGGGTTCCTTSBCCTTCEECTTCEEECCCCCCC-------
T ss_pred -------------------------eEEecCCccccccchHHHhhcCCccccccCCcEecCCCEEEEEecCCcchhhhhh
Confidence 011112222 2346889999999999999999999999998731
Q ss_pred ------CeEEEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCC
Q psy8410 854 ------NRYVTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFT 927 (951)
Q Consensus 854 ------~~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft 927 (951)
.++.+++++++|.|+||.|.++++.+ +.+.|||++|+.|+|+||||||||||||||||+|||+|||||+
T Consensus 829 ~~~~~~~~d~sl~~~~g~~g~Vd~v~~~~~~~-----~~~~vkV~i~~~R~~~vGDK~agRHGnKGvvs~i~p~eDMPf~ 903 (1131)
T 4ayb_B 829 LSPEQAKRDTSIVTRHGEMGIVDLVLITETAE-----GNKLVKVRVRDLRIPSIGDKFASRHGQKGVIGMLIPQVDMPYT 903 (1131)
T ss_dssp ----CCCCCCCEECCTTCCEEEEEEEEEECSS-----SCEEEEEEEEEEECCCTTCEEEETTSCEEEEEEEECTTTSEEE
T ss_pred cCcceeeeeeeEEccCCCceEEEEEEEeeccC-----CceEEEEEEeccccCcccccccccccccceeeeecccccCCcC
Confidence 24678899999999999999998753 2689999999999999999999999999999999999999999
Q ss_pred CCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 928 DSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 928 ~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
+||++|||||||||||||||||||
T Consensus 904 ~dG~~~DiilNP~gvPSRMniGqi 927 (1131)
T 4ayb_B 904 VKGVVPDVILNPHALPSRMTLGQI 927 (1131)
T ss_dssp TTSCCCSEECCTTSSTTTTCHHHH
T ss_pred CCCCCccEEECCCCCcccCcHHHH
Confidence 999999999999999999999995
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=3.6e-152 Score=1406.73 Aligned_cols=722 Identities=19% Similarity=0.236 Sum_probs=557.7
Q ss_pred ccCCCCCCCccchhhhhhhhHHHHHhHHHHH----------HHHHHHHHhccCCeEEee-cccEEEEEEeeEEEcCCccc
Q psy8410 50 TDKNFGKPPDKQNEFLLTLGAPHIASFDFML----------DEGLDLAVEDIAPIEFEI-YGKTLKLNIVKAAISEPKVP 118 (951)
Q Consensus 50 ~~~~fg~~~~~~~~~l~~Lv~~hIdSFN~Fi----------~~gL~~iv~~~~~i~~~~-~~~~~~l~~~~i~i~~P~~~ 118 (951)
+|.+|++.++. ..+++|+++|+||||+|+ ++||++++++++||+.+. .+.++.|+|.++++++|++
T Consensus 2 ~r~~~~~~~~~--~~~p~Lv~~QidSFn~Fl~~~~~~~~~~~~GL~~i~~~~~pI~~~~~~~~~~~l~f~~~~l~~P~~- 78 (1119)
T 2a6h_C 2 EIKRFGRIREV--IPLPPLTEIQVESYRRALQADVPPEKRENVGIQAAFRETFPIEEEDKGKGGLVLDFLEYRLGEPPF- 78 (1119)
T ss_dssp EEEECCCCCCC--SCCCCTTHHHHHHHHHHSCTTSCTTSSCCCHHHHHHHHHCSEEECCSSSCCEEEEECCCCBCCCSS-
T ss_pred cceeccccccc--ccCcCHHHHHHHHHHHHHccCCccccchhhhHHHHHHhcCCEeccCCCCCeEEEEEEEEEEcCCCC-
Confidence 36789999887 679999999999999999 999999999999998842 1467999999999999975
Q ss_pred CCCCCcccccCChHHHHhcCCccceeEEEEEEEEeCC-CcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCC
Q psy8410 119 AGPVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDG-KAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEW 197 (951)
Q Consensus 119 ~~~~~~~~~~l~P~EcRlr~lTYsa~l~v~i~~~~~~-~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~ 197 (951)
+|.|||+|++||+|||+|+++++.++ .+....++++|+||||+.
T Consensus 79 -----------~p~Ecr~r~lTYsapL~V~v~l~~~~~~~ik~~~V~iG~iPiMt~------------------------ 123 (1119)
T 2a6h_C 79 -----------PQDECREKDLTYQAPLYARLQLIHKDTGLIKEDEVFLGHIPLMTE------------------------ 123 (1119)
T ss_dssp -----------CHHHHHHTTCCCEEEBCCCEEECCSSSCCEECCCCCCCEEECCCT------------------------
T ss_pred -----------CHHHHHhcCCcccceEEEEEEEEECCCceeeeeEEEecCCCeECC------------------------
Confidence 49999999999999999999998754 333445799999999994
Q ss_pred CCeEEEcCceeEEEEEEeccCCeeEEEEeccccccC-cccceeEEEEEEecCCCcceeEEEEEe--ecCcEEEEee----
Q psy8410 198 GGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRG-LLFSDLGVYIRSVKRDESATNNVLHFV--TNGSARFMFS---- 270 (951)
Q Consensus 198 GGYFIInG~EKVIr~li~~r~N~~ia~~R~~~~~rg-~~~t~~~v~ir~v~~d~~s~~~~l~yl--~~g~~~~~~~---- 270 (951)
||||||||+||||++|+..++|..+ +..|..++ ..|+...+..| . ..++|. +++.+.+++.
T Consensus 124 gGyFIING~ERVIVsQ~~rspgv~~---~~~~~~~g~~~ysa~ii~~r-----g----s~l~~~~d~~~~i~vri~r~kI 191 (1119)
T 2a6h_C 124 DGSFIINGADRVIVSQIHRSPGVYF---TPDPARPGRYIASIIPLPKR-----G----PWIDLEVEPNGVVSMKVNKRKF 191 (1119)
T ss_dssp TSCCCSSSSCEEECEEEEECSCEEE---ECCSSCSSCCEEEECCCSSS-----S----CCEEEEEETTTEEEEESSSSEE
T ss_pred CcEEEEeCeEEEEEEEEecCCcEEE---EeeccCCCceEEEEEEEecc-----C----ceEEEEEcCCCEEEEEEeCcce
Confidence 9999999999999999988888444 45555555 34544322111 1 134554 4676766653
Q ss_pred ----hhhHH-----HHHHhH------HHHHHh---CCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccc----
Q psy8410 271 ----HRKSM-----CLLGMM------QSLHEE---GIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCI---- 328 (951)
Q Consensus 271 ----~~k~l-----~v~~~L------~~~~~~---~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~l---- 328 (951)
+.|++ .+.+++ .+..+. ++.|+++||.||++++++.. + ...+.|+.+|.+.+
T Consensus 192 Pi~ilLrALG~sD~eIl~~~~~~~~~~~tl~~d~~~~~~~~eAl~~i~~~lr~g~---~---~~~e~a~~~l~~~ff~~~ 265 (1119)
T 2a6h_C 192 PLVLLLRVLGYDQETLARELGAYGELVQGLMDESVFAMRPEEALIRLFTLLRPGD---P---PKRDKAVAYVYGLIADPR 265 (1119)
T ss_dssp CHHHHHHHHTCCHHHHHHHHHSSCTTHHHHSSCHHHHTCHHHHHHHHHHHSSSCC---C---SCCSSHHHHHTSSSSSSC
T ss_pred eHHHHHHHHCCCHHHHHHHHccCHHHHHHHHhhhcccCCHHHHHHHHHHHhcCCC---C---CcHHHHHHHHHHhhCCcc
Confidence 23444 122222 111112 26689999999999987642 1 11234555555555
Q ss_pred ---cCCCC-----------Cch-----hh-----HhHHHHHHHHHHHHhcCCc--cCCCcccccchhhhhhHHHHHHHHH
Q psy8410 329 ---LPHLD-----------DYW-----DK-----FLCLSHMTCKLFHVVQGMV--QLDSEDSIMLQEIMTGGSLYLQLLK 382 (951)
Q Consensus 329 ---lpHl~-----------~~~-----~K-----~~~L~~Mi~kLl~~~~g~~--~~Dd~D~~~nkrv~l~G~Ll~~lfk 382 (951)
|+|++ ... .+ ..+|++|+++|+.++.|.+ .+||+|||+||||+++|+||+.+||
T Consensus 266 rydl~~vGr~~ln~kl~l~~~~~~~~~~~~~~l~~~di~~mi~~Ll~l~~G~~~~~~DD~DhlgNkRv~~~GeLl~~~fr 345 (1119)
T 2a6h_C 266 RYDLGEAGRYKAEEKLGIRLSGRTLARFEDGEFKDEVFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGELMTDQFR 345 (1119)
T ss_dssp CSCTTTSSHHHHHTTSCSCCSTTTTCCCSSSCCCCTTHHHHHHHHHHHHTSCSSCCCCCTTSTTTEEEECHHHHHHHHHH
T ss_pred cccchhcchhhhhhhhccCCccccccccccccccHHHHHHHHHHHHHhhcCCCCCCCcCcchhhceEehhhhHHHHHHHH
Confidence 44543 210 12 1458899999999999999 9999999999999999999999999
Q ss_pred HHhhcccc---------cCChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccc
Q psy8410 383 KEKSGTSA---------VLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRA 453 (951)
Q Consensus 383 e~~~~~~~---------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rr 453 (951)
..|.+... ..+......+++++.||++|++||+||| |||+++|+||+|+|||+||
T Consensus 346 ~~l~r~~~~i~~~~~~~~~~~~~~~~~i~~~~It~~lk~ff~tg~----------------lSQ~Ldq~N~ls~LsH~RR 409 (1119)
T 2a6h_C 346 VGLARLARGVRERMLMGSEDSLTPAKLVNSRPLEAAIREFFSRSQ----------------LSQFKDETNPLSSLRHKRR 409 (1119)
T ss_dssp HHHHHHHHHHHHHHHHSCSSCCSSTTTCCSHHHHHHHHHHHHTCS----------------SEEECCCSSTHHHHHHHHE
T ss_pred HHHHHHHHHHHHHhhhhcccccchHHhhccchhHHHHHHHhhccC----------------ccccccccchHhhhhhhhe
Confidence 86655211 1122233445578899999999999875 5689999999999999999
Q ss_pred c---ccCccccccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccc
Q psy8410 454 V---HRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVI 530 (951)
Q Consensus 454 v---~rg~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~ 530 (951)
+ ++|++++++++++||+||||||||+||+|||||++||||||||++|+|+.. |+.+.
T Consensus 410 isslgpggl~re~k~~~vRdlHpShwGriCPiETPEG~ncGLVknLAl~a~I~~~----------------G~~e~---- 469 (1119)
T 2a6h_C 410 ISALGPGGLTRERAGFDVRDVHRTHYGRICPVETPEGANIGLITSLAAYARVDEL----------------GFIRT---- 469 (1119)
T ss_dssp EESSSSSSSCCSSCCHHHHSCCGGGTTTBCSSCSCSSSSCSSEEEBCSSCEECSS----------------SCEEE----
T ss_pred ecccCCCccccccccCcccccCHhhCcccCCCcCCCCCcccchhhhhhheeeccc----------------CcccC----
Confidence 9 578899999999999999999999999999999999999999999999743 44321
Q ss_pred cCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeee
Q psy8410 531 QSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNL 610 (951)
Q Consensus 531 ~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l 610 (951)
.+.+.+||+|.+.+.--.+ ..... .-|+ ... +.+ |.||++||++.+
T Consensus 470 ------p~~~V~nG~v~~~i~yl~a------~ee~~---------~~i~--~~~---------~~l--~~gr~~r~~i~~ 515 (1119)
T 2a6h_C 470 ------PYRRVVGGVVTDEVVYMTA------TEEDR---------YTIA--QAN---------TPL--EGNRIAAERVVA 515 (1119)
T ss_dssp ------EEEEEETTEEEEEEEEECH------HHHHH---------SCEE--CTT---------SCB--SSSBBCCSSEEE
T ss_pred ------CcEEEECCEEeeeeEEeCh------hcccc---------eEEe--cCc---------eee--cCCccccCceeE
Confidence 1344469998654431111 11100 1111 110 112 669999999887
Q ss_pred ccccccccCCccceeeeeeecccccCcceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccc-----
Q psy8410 611 AAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCL----- 685 (951)
Q Consensus 611 ~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~----- 685 (951)
+.+ .|+ +.+. +..+|||||||++|||++||+|||+||||||||||||||+|||||+...
T Consensus 516 r~~-~e~----------~~~~-----~~~~~~~ei~P~~ilsv~aslIPF~ehn~s~R~lmgsnM~kQAv~l~~~~~p~v 579 (1119)
T 2a6h_C 516 RRK-GEP----------VIVS-----PEEVEFMDVSPKQVFSVNTNLIPFLEHDDANRALMGSNMQTQAVPLIRAQAPVV 579 (1119)
T ss_dssp ESS-SSE----------EEEC-----TTTCCEEECCTTTTSCHHHHTCTTGGGBCHHHHHHHHHHHTTBCCBSSCCCCSE
T ss_pred Eec-cce----------eeec-----hhHeEEEEeccccccccccccCCCcccCCCcccccccccccccccccccCCCee
Confidence 653 222 2222 2357999999999999999999999999999999999999999987644
Q ss_pred ------------------------------cccccCC---cceEEe----------cCCCceeeecccc----c------
Q psy8410 686 ------------------------------NWRYQGV---GKLYRL----------QTPASPFFRPVHY----D------ 712 (951)
Q Consensus 686 ------------------------------n~~~R~D---~~~y~L----------~ypQ~Plv~t~~~----~------ 712 (951)
++..|.| ++.|.| .|||+|||+++.+ +
T Consensus 580 gTg~e~~~a~ds~~~~~a~~~G~v~~vd~~~i~ir~~~~~~~~y~L~~~~rsnq~t~~~QkPiV~~g~~v~~g~~ladg~ 659 (1119)
T 2a6h_C 580 MTGLEERVVRDSLAALYAEEDGEVAKVDGNRIVVRYEDGRLVEYPLRRFYRSNQGTALDQRPRVVVGQRVRKGDLLADGP 659 (1119)
T ss_dssp ECSCHHHHHHHTTCSEECSSSEEEEEECSSBEEEEETTTEEECCBCCCSEECTTSCEECCEECCCSSCCBCTTCEEEECT
T ss_pred eccccceeeeccCceeEeccCCEEEEecCceEEEEccCCcceeEEeeccccccccccccccceEeeCceeeccceecccc
Confidence 3445663 467887 5799999999964 2
Q ss_pred ccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEe
Q psy8410 713 TLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFF 792 (951)
Q Consensus 713 ~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~ 792 (951)
.++++++|+|+|++||||||+||||||||||||++++||+|++.+++.+.++..+. +.|.|
T Consensus 660 ~~~~gel~lG~N~lVA~m~~~GYN~EDAiiine~~v~rg~~tSihi~~~e~~~r~~--~~g~e----------------- 720 (1119)
T 2a6h_C 660 ASENGFLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDFYTSIHIERYEIEARDT--KLGPE----------------- 720 (1119)
T ss_dssp TBSSSSBCCSEEEEEECSCCSSTTSSSEEEEETHHHHTTCSEEEEEEEEEEEEECC--TTCCC-----------------
T ss_pred ccCCCcccCceeEEEEEecccCCcchhhhhhhhhHHhcCCceEEEEEEEEeeeeec--CCCce-----------------
Confidence 46789999999999999999999999999999999999999999998887775441 12221
Q ss_pred ceeeeeeeeecccccccccccccCCCC-ChhhhhcCCCCCceeecceecCCCCEEEEecCCC------------------
Q psy8410 793 GVVHYQRLRHMVSDKWQTKDYFGRDPA-NKALEDKLGPDGLVYVGAKLNERDPMYSYWKESE------------------ 853 (951)
Q Consensus 793 g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~------------------ 853 (951)
++....|+ ....+++||+||||++|+.|++||+|+||++|..
T Consensus 721 -------------------eit~~ip~~~~~~~~~LD~dGiv~iG~~V~~gDiLvgK~tP~~~~~~~~ee~ll~aifg~k 781 (1119)
T 2a6h_C 721 -------------------RITRDIPHLSEAALRDLDEEGVVRIGAEVKPGDILVGRTSFKGESEPTPEERLLRSIFGEK 781 (1119)
T ss_dssp -------------------BCCSCCSSSCSGGGSSCCSSSBCCTTCBCCTTSEEECCEEESSSSSCCHHHHHHHHHHHSC
T ss_pred -------------------eeeccCCCcchhhhhccCCCcccCCCCEECCCCEEEEEecCCccccCChhhhhhhhhhccc
Confidence 22222342 3346899999999999999999999999998631
Q ss_pred ---CeEEEEEeCCCccEEEEEEEEecCCC-CC--CCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCC
Q psy8410 854 ---NRYVTCRYSGKEEMCVEVVRMSSGFT-EG--GSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFT 927 (951)
Q Consensus 854 ---~~~~~~~~~~~e~g~vd~v~~~~~~~-~~--~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft 927 (951)
.++.+++++++|.|+||+|+++++++ .. +....+.|+|++|+.|+|++|||||||||||||||+|||+|||||+
T Consensus 782 ~~~~rd~Sl~~~~~e~G~V~~V~~~~~~~~g~~l~~~~~~~vkV~i~~~R~~~vGDKfasRHGqKGVis~i~p~eDMPf~ 861 (1119)
T 2a6h_C 782 ARDVKDTSLRVPPGEGGIVVRTVRLRRGDPGVELKPGVREVVRVYVAQKRKLQVGDKLANRHGNKGVVAKILPVEDMPHL 861 (1119)
T ss_dssp CCCEEECCEECCSSCCCEEEEEEEECSSCSSCCCCTTEEEEEEEEEEEEEECCTTCEEECTTSCEEEEEEEECTTTSCBC
T ss_pred ccccceeeEEccCCccEEEEEEEEEccCCCCcccCCCcceEEEEEEcccCCcccCchhhhccCCCceEEeeeccCCCccc
Confidence 14678999999999999999988753 21 0011378999999999999999999999999999999999999999
Q ss_pred CCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 928 DSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 928 ~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
+||++|||||||||||||||||||
T Consensus 862 ~dG~~pDiIlNPhgvPSRMtiGql 885 (1119)
T 2a6h_C 862 PDGTPVDVILNPLGVPSRMNLGQI 885 (1119)
T ss_dssp SSSCBCSEECCSTTTTTTTBTHHH
T ss_pred cCCCCccEEeCCCcCccccchhhh
Confidence 999999999999999999999995
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=6.1e-128 Score=1177.22 Aligned_cols=741 Identities=20% Similarity=0.289 Sum_probs=558.5
Q ss_pred CccccCCCCCCCccchhhhhhhhHHHHHhHHHHHH------HHHHHHHhccCCeEEeecccEEEEEEeeEEEcCCcccCC
Q psy8410 47 KNLTDKNFGKPPDKQNEFLLTLGAPHIASFDFMLD------EGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAG 120 (951)
Q Consensus 47 ~~l~~~~fg~~~~~~~~~l~~Lv~~hIdSFN~Fi~------~gL~~iv~~~~~i~~~~~~~~~~l~~~~i~i~~P~~~~~ 120 (951)
++..|.+||+.++. ..+++|+..|++||++|++ +||++++++++||+.. +.++.|+|.++++++|.+.
T Consensus 8 ~~~~R~~f~k~~~~--~~~P~Ll~iQ~~Sf~~Fl~~~~r~~~GL~evf~~~fPI~d~--~~~~~Lef~~y~l~~Pk~~-- 81 (1342)
T 3lu0_C 8 KKRIRKDFGKRPQV--LDVPYLLSIQLDSFQKFIEQDPEGQYGLEAAFRSVFPIQSY--SGNSELQYVSYRLGEPVFD-- 81 (1342)
T ss_dssp CCCCCCCSSCCCCS--SCCCCGGGTTHHHHHHHSCSSSCSCSTTHHHHTTTSSCEET--TTTEECCEEEECCCCCSCC--
T ss_pred CceeEeccccCCcC--CCCCCHHHHHHHHHHHHHcCCccccchHHHHHHhcCCEECC--CCCEEEEEeeEEeCCCCCC--
Confidence 46789999999987 7899999999999999997 8999999999999865 4678999999999999764
Q ss_pred CCCcccccCChHHHHhcCCccceeEEEEEEEEeCC--------CcceEEEEeecccceEecCCcccCCCCCHHHHHHcCC
Q psy8410 121 PVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDG--------KAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGE 192 (951)
Q Consensus 121 ~~~~~~~~l~P~EcRlr~lTYsa~l~v~i~~~~~~--------~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE 192 (951)
+.|||+|++||+|||+|++.++..+ ++....+|++|+||+|+.
T Consensus 82 ----------~~Ec~~r~lTYsapL~v~~rL~~~~~d~~~~~~~eikeq~Vy~GdiPLMT~------------------- 132 (1342)
T 3lu0_C 82 ----------VQECQIRGVTYSAPLRVKLRLVIYEREAPEGTVKDIKEQEVYMGEIPLMTD------------------- 132 (1342)
T ss_dssp ----------SSTTTSSCCCCCCCCBEEECCEECCCSSCCCCCCCCCBCCCBCCCCCCCCS-------------------
T ss_pred ----------HHHHHhcCCCcccceEEEEEEEEeccccccccccceEEEEEEEecCceECC-------------------
Confidence 5799999999999999999998654 234456899999999999
Q ss_pred CCCCCCCeEEEcCceeEEEEEEeccCCee-------------------EEEEeccccccCcccceeEEEEEEecCCCcce
Q psy8410 193 HPDEWGGYFIVGGHEKLVRLLINNRRNHP-------------------IAIKRNAWKNRGLLFSDLGVYIRSVKRDESAT 253 (951)
Q Consensus 193 ~~~D~GGYFIInG~EKVIr~li~~r~N~~-------------------ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~ 253 (951)
+|+|||||+||||+.|+..+++.. +...|++|......-.+ .+.+|.-+..+.+.
T Consensus 133 -----~GtFIING~ERVIVsQl~RSPGVyf~~~~~k~~~~gk~lysa~IIP~RGsWlefe~D~kd-~l~vrIdr~rKipv 206 (1342)
T 3lu0_C 133 -----NGTFVINGTERVIVSQLHRSPGVFFDSDKGKTHSSGKVLYNARIIPYRGSWLDFEFDPKD-NLFVRIDRRRKLPA 206 (1342)
T ss_dssp -----SSCEESSSSEEECCEEEECCSSCCCCSCCSCSSSCCCSCCEEEECCSSSCCEEEEEETTT-EEEEEESSCSCEET
T ss_pred -----CcEEEEcCceEEEEEeecccCceeEeccccccCCCCceEEEEEEecCCCccEEEEEcCCC-eEEEEecCCCceee
Confidence 999999999999999998775421 22357777654332222 35566654332111
Q ss_pred eEEE---E----------------Eeec------------------------CcEEEE----ee--hhhHH---------
Q psy8410 254 NNVL---H----------------FVTN------------------------GSARFM----FS--HRKSM--------- 275 (951)
Q Consensus 254 ~~~l---~----------------yl~~------------------------g~~~~~----~~--~~k~l--------- 275 (951)
+..| . .+++ |.+.+. +. ..|.+
T Consensus 207 t~lLrALG~~~~~Il~~f~~~~~~~~~~~~~~~~~~~e~~~g~~~~~di~~~g~vi~~~g~~it~~~~~~l~~~g~~~i~ 286 (1342)
T 3lu0_C 207 TIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELVPERLRGETASFDIEANGKVYVEKGRRITARHIRQLEKDDVKLIE 286 (1342)
T ss_dssp THHHHTTTCCHHHHHTTTSCEEEECEETTEEEECCCGGGGTTEECCSCEEETTEEEECSSSEECSHHHHHHHHTTCCCEE
T ss_pred ehhHhHhCCCHHHHHHHhcccceEEeccCceeeecchhhhcccccccchhccccceecccccccHHHHHHHHhccCcccc
Confidence 1100 0 0011 111000 00 00000
Q ss_pred ------------------------------HHHHhHHHHH--------------------------HhCCCCHHHHHHHH
Q psy8410 276 ------------------------------CLLGMMQSLH--------------------------EEGIHTQHDSKVFF 299 (951)
Q Consensus 276 ------------------------------~v~~~L~~~~--------------------------~~~i~t~e~aL~yI 299 (951)
.-.++|..+. .....|+++||.+|
T Consensus 287 v~~~~l~g~~la~divd~~tge~~~~~~~~i~~~~l~~l~~~~i~~~~~l~~~~~~~~~~i~~tl~~d~~~~~~eAl~~i 366 (1342)
T 3lu0_C 287 VPVEYIAGKVVAKDYIDESTGELICAANMELSLDLLAKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSALVEI 366 (1342)
T ss_dssp CCSHHHHTSEECSCEECTTTCCEEECSSCBCCTTHHHHHHHHTCSCEEEECCCSSSSCCSGGGTTTTCCCCSSHHHHHHH
T ss_pred cCHHHhhcchhhheeeecCCCeEEecCCcccCHHHHHHHHHcCCcEEEEEecccccccHHHHHHHhhccCCCHHHHHHHH
Confidence 0001111111 22356889999999
Q ss_pred Hhhhcccc--------------cccccCCcHHHHHHHHhhccccCC-CCC-chhhHhHHHHHHHHHHHHhcCCccCCCcc
Q psy8410 300 GQIFKEKL--------------QYDLRHLNEVEICDYMLTNCILPH-LDD-YWDKFLCLSHMTCKLFHVVQGMVQLDSED 363 (951)
Q Consensus 300 G~~fr~~~--------------~~~~~~~~~~~~~~~iL~~~llpH-l~~-~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D 363 (951)
++++|++. ++.|++|+..++||+-||+.|-.. .+. ..-+..+|+.++++|+.+..|....||+|
T Consensus 367 yr~lrpgep~t~e~a~~l~~~lFf~~~rYdL~~VGR~k~N~kL~l~~~~~~~~Lt~~DIi~~i~~Li~l~~g~~~~DDiD 446 (1342)
T 3lu0_C 367 YRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGRMKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDID 446 (1342)
T ss_dssp HHHHSCSSCCCTTHHHHHHHHHHSCTTTCCCTTTHHHHHHTTTTCSCCCCCSSCCTTHHHHHHHHHHHHHHTSSCCCCSS
T ss_pred HHhcCCCCCCCHHHHHHHHHHhhcCcccccchhhhhHHHhhhcCCCcCccccEecHHHHHHHHHHHHHHhhCCCCCcchh
Confidence 99998752 113455666666777776666443 222 23367899999999999999999999999
Q ss_pred cccchhhhhhHHHHHHHHHHHhhccc---------ccCChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccc
Q psy8410 364 SIMLQEIMTGGSLYLQLLKKEKSGTS---------AVLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASG 434 (951)
Q Consensus 364 ~~~nkrv~l~G~Ll~~lfke~~~~~~---------~~~~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sG 434 (951)
||+||||+++|+|++.+|+-.|.+.. ..........++++..+|.++++||. + +|
T Consensus 447 HLgNrRvr~vGeLl~~qfr~~l~r~~r~i~~~~~~~~~~~~~~~~lin~~~i~~~~k~ffg-----~-----------s~ 510 (1342)
T 3lu0_C 447 HLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLGDLDTLMPQDMINAKPISAAVKEFFG-----S-----------SQ 510 (1342)
T ss_dssp STTTSEEECHHHHHHHTHHHHHHHHHHHHTTHHHHCCSSCCSSTTTCCSSTTHHHHTTTTT-----T-----------CS
T ss_pred hhhcchhchHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCHHHHhccchHHHHHHHHhC-----c-----------cc
Confidence 99999999999999999997544411 11122223446688999999988863 2 79
Q ss_pred eeEEecccchhhhcccccccc---cCccccccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCcccc
Q psy8410 435 FVIMAENINRMRYMSHFRAVH---RGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVL 511 (951)
Q Consensus 435 vsqvl~rlN~l~~lSh~Rrv~---rg~~f~~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~ 511 (951)
|||++||+|+++.|||+||++ .|+...+.+.+++|++||||||+|||+|||||++||||+|||++|+|+..
T Consensus 511 lSQ~lDqtNpLseltHkRRlsalGPGGLsr~~a~fevRdvH~thyGRiCPiETPEG~niGLI~sLA~~a~in~~------ 584 (1342)
T 3lu0_C 511 LSQFMVQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLSVYAQTNEY------ 584 (1342)
T ss_dssp SCEECCCSSHHHHHHHHSBEESCCSTTSCCSSCCTTTSSCCTTCSSSSCTTCCCSSSCSSSCCBCCSSCCBCSS------
T ss_pred cceeecCCCHHHHHhhhhcccccCCCCccccccCceecccCcccccccccccCCCCCceeeecchhheEEeccC------
Confidence 999999999999999999997 36677788889999999999999999999999999999999999998643
Q ss_pred ccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCC
Q psy8410 512 AQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLY 591 (951)
Q Consensus 512 ~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~ 591 (951)
|+.+ ..|.+..||++-..+.- + .+....+ .-|. ..++
T Consensus 585 ----------Gfie----------tPyr~V~~g~v~~~i~y-----L-sA~eE~~---~~IA-qan~------------- 621 (1342)
T 3lu0_C 585 ----------GFLE----------TPYRKVTDGVVTDEIHY-----L-SAIEEGN---YVIA-QANS------------- 621 (1342)
T ss_dssp ----------SCBC----------EEEEEEETTEEEEEEEE-----E-CTTTGGG---SCBC-CSSS-------------
T ss_pred ----------Cccc----------CCcEEEECCEEcCceee-----C-ChHHhcC---ceEE-ecCc-------------
Confidence 4432 23778899997432210 0 0000100 0010 0000
Q ss_pred CeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccCcceeeeecccCCccccceeeeecCCCCCCCccchh
Q psy8410 592 PGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMY 671 (951)
Q Consensus 592 ~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~y 671 (951)
-.++.|++.++++..+. ++++..++ +...+|+|++|.+|+||+||||||++||||+|++|
T Consensus 622 ----~l~~~g~~~~~~v~~R~---------~~e~~~~~-------~~~v~~~dvsP~qivSvaaslIPFLEhdDAnRaLM 681 (1342)
T 3lu0_C 622 ----NLDEEGHFVEDLVTCRS---------KGESSLFS-------RDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALM 681 (1342)
T ss_dssp ----CCSSSSCCSCSSEEEEC---------SSCEEEEC-------TTTCCEEESCTTTTSCHHHHSCTTSTTBCHHHHHH
T ss_pred ----ccCCCCcccCCeEEEEe---------cCceEEeC-------hHHCeeEecCHHHhcchhhccCCCcccCCccccch
Confidence 01467888888877653 22333322 23579999999999999999999999999999999
Q ss_pred hccccccccccc-----------------------------------cccccccCCc----------ceEEec-------
Q psy8410 672 QCQMGKQTMGTP-----------------------------------CLNWRYQGVG----------KLYRLQ------- 699 (951)
Q Consensus 672 qc~M~KQamG~~-----------------------------------~~n~~~R~D~----------~~y~L~------- 699 (951)
+++|++||+++. +.++..|.|. ..|.|.
T Consensus 682 GsNMQRQAVPLl~~e~p~VgTG~E~~~a~dsg~~i~a~~~G~v~~vda~~I~Ir~~~~~~~~~~~~~~~y~L~kf~RSNq 761 (1342)
T 3lu0_C 682 GANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKRGGVVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQ 761 (1342)
T ss_dssp HHHTTTTBCCCSSCCCCSSBCSCHHHHHHHTTTSCBCSSCBEECCCCSSBCCEEECSSSSSSSCCEEECCBCCCSCBCSS
T ss_pred hhhccccccccccCCCCeEecccchheeecCCceEEecCCCEEEEecCCeEEEEeCCCccccccCcceEEEecccccccc
Confidence 999999999887 4566677664 345443
Q ss_pred ---CCCceeeecccc----ccc------ccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEe
Q psy8410 700 ---TPASPFFRPVHY----DTL------DMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELE 766 (951)
Q Consensus 700 ---ypQ~Plv~t~~~----~~~------~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~ 766 (951)
|+|+|+|+++.. +.+ ..+++|+|+|++||+|+|.|||+|||||||+++++++.|.+.+...+.++..
T Consensus 762 ~Tc~~QrPiV~~G~~V~~GdilADG~st~~GElaLG~N~lVAfMpW~GYNfEDAIlISErlV~eD~fTSIHIee~e~~aR 841 (1342)
T 3lu0_C 762 NTCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRVAFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSR 841 (1342)
T ss_dssp SCBCCCCBCCCSSCCBCTTCBCBCCSSCSSSSCCCSEECCEECCCCSSTTSSSEEEECTHHHHTTTSCEEEEEEEEEECC
T ss_pred cccccccceeecCCEEecCcEecccccccCCeeecccccEEEEecccCcccccchhhhhhhhhcCCceeEEEEEEeeeee
Confidence 799999999964 544 8899999999999999999999999999999999999987776666665543
Q ss_pred ccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccccccccccCCCC-ChhhhhcCCCCCceeecceecCCCCE
Q psy8410 767 SGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPA-NKALEDKLGPDGLVYVGAKLNERDPM 845 (951)
Q Consensus 767 ~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~~~~~~~~~~p~-~~~~~~~Ld~DGl~~~G~~v~~gd~l 845 (951)
+ . |.|+.++....|+ .+..+++||++|++++|+.|++||||
T Consensus 842 d--t------------------------------------klG~EeiTrdIPnv~e~al~~LDe~GIv~iGa~V~~GDIL 883 (1342)
T 3lu0_C 842 D--T------------------------------------KLGPEEITADIPNVGEAALSKLDESGIVYIGAEVTGGDIL 883 (1342)
T ss_dssp E--E------------------------------------TTEECCCCSCCSSCCHHHHHSBCSSSCBCTTCCCCTTCEE
T ss_pred e--c------------------------------------CCCCceecccCCCCChHHHhcCCCCCCeecCcEECCCCEE
Confidence 2 1 2233344444564 45678999999999999999999999
Q ss_pred EEEecCCCC---------------------eEEEEEeCCCccEEEEEEEEecCCC-------------------------
Q psy8410 846 YSYWKESEN---------------------RYVTCRYSGKEEMCVEVVRMSSGFT------------------------- 879 (951)
Q Consensus 846 ~~~~~~~~~---------------------~~~~~~~~~~e~g~vd~v~~~~~~~------------------------- 879 (951)
+||++|... ++.|+++++++.|+|..|++++..+
T Consensus 884 VGKvtPkge~~~tpEekLLraIFGeka~~vkDtSL~vp~g~~G~Vidv~~f~r~~~~k~~~~~~~~~~~~~~~~~~~~~~ 963 (1342)
T 3lu0_C 884 VGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNGVSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEE 963 (1342)
T ss_dssp ECCCCBCCTTTCCHHHHHGGGTSCSSSSSBCCCCEECCTTCCCEEEECCCCCCGGGCCCTHHHHHHHHHHHHHHHHHHHH
T ss_pred EeccCCCCCCcCChHHHHHHHHhcCcccccccCcEecCCCCcEEEEEEEEEecccccchhhhhHHHHHHHHHHHHhHHHH
Confidence 999987421 3678999999999999998775420
Q ss_pred ----------------------------------------------------------------------------C-CC
Q psy8410 880 ----------------------------------------------------------------------------E-GG 882 (951)
Q Consensus 880 ----------------------------------------------------------------------------~-~~ 882 (951)
+ -+
T Consensus 964 ~~~l~~~~~~~l~~~l~~~g~t~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~gd~l~ 1043 (1342)
T 3lu0_C 964 LQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLA 1043 (1342)
T ss_dssp HHHHHHHHHHHHHHHHHTTSCCHHHHTTSCGGGTTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCCC
T ss_pred HHHHHHHHHHHHHHHHhhcCCCHHHHhhCCHHHhhccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccC
Confidence 0 01
Q ss_pred CCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 883 SVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 883 ~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
....+.|||++|+.|+|++|||||||||||||||+|||+|||||++||++||||+||||||||||||||
T Consensus 1044 ~gv~k~VkV~ia~kRk~qvGDK~AgRHGnKGVis~I~p~EDMPf~~dG~~pDIIlNP~gvPSRMnIGqi 1112 (1342)
T 3lu0_C 1044 PGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMNIGQI 1112 (1342)
T ss_dssp SSSSCEEEEEEEEEECCCTTCEEECSSSCCEEECCCCCTTTSCEETTEEECSEECCGGGTTSSCBTHHH
T ss_pred cCCceEEEEEEEEeccCCCCCCcccccCCCceEEEEecccCCCCCCCCCCCcEEeCCCCCCCccchhhh
Confidence 123678999999999999999999999999999999999999999999999999999999999999995
No 6
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus}
Probab=99.95 E-value=4e-28 Score=247.08 Aligned_cols=117 Identities=20% Similarity=0.298 Sum_probs=102.7
Q ss_pred hhhHHHHHhHHHHH----------HHHHHHHHhccCCeEEeec-ccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHH
Q psy8410 67 TLGAPHIASFDFML----------DEGLDLAVEDIAPIEFEIY-GKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEAR 135 (951)
Q Consensus 67 ~Lv~~hIdSFN~Fi----------~~gL~~iv~~~~~i~~~~~-~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcR 135 (951)
+|+++|+||||+|+ ++||++++++++||+...+ +.++.|+|.++++++|. ++|.|||
T Consensus 2 ~Lv~~Q~~SF~~Flq~~~~~~~r~~~GL~ei~~~~~pI~~~~~~~~~~~L~f~~~~l~~P~------------~~p~Ecr 69 (188)
T 3mlq_A 2 PLTEIQVESYKKALQADVPPEKRENVGIQAAFKETFPIEEGDKGKGGLVLDFLEYRIGDPP------------FSQDECR 69 (188)
T ss_dssp CCHHHHHHHHHHHHCTTSCGGGCCSCHHHHHHHHHCCEEECCSSSCCEEEEEEEEEECCCS------------SCHHHHH
T ss_pred CHHHHHHHHHHHHHhCCcccccchhhcHHHHHHhcCCeeeccCCCCeEEEEEEEEEecCCC------------CCHHHHH
Confidence 68999999999999 8999999999999997642 26899999999999995 3599999
Q ss_pred hcCCccceeEEEEEEEEeCCC-cceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEE
Q psy8410 136 QTRSVYSGPFNVTVAWSWDGK-AGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLI 214 (951)
Q Consensus 136 lr~lTYsa~l~v~i~~~~~~~-~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li 214 (951)
+|++||+|||+|+++++.++. +....++++|+||||+ +||||||||+||||+.|+
T Consensus 70 ~r~lTYsapl~v~v~l~~~~~~~i~~~~v~iG~iPlMt------------------------~gGyFIING~ERVIVsQe 125 (188)
T 3mlq_A 70 EKDLTYQAPLYARLQLIHKDTGLIKEDEVFLGHLPLMT------------------------EDGSFIINGADRVIVSQG 125 (188)
T ss_dssp HTTCCCEEEEEEEEEEEETTTCCEEEEEEEEEEEECCC------------------------TTSCEEETTEEEECCCCS
T ss_pred hcCCCcceeEEEEEEEEECCCceEEEEEEEEcccCEEC------------------------CCCEEEECCEEEEEEEee
Confidence 999999999999999987542 3456789999999999 599999999999998887
Q ss_pred eccCC
Q psy8410 215 NNRRN 219 (951)
Q Consensus 215 ~~r~N 219 (951)
....|
T Consensus 126 ~r~~g 130 (188)
T 3mlq_A 126 GRTVG 130 (188)
T ss_dssp SSCHH
T ss_pred cccCC
Confidence 65543
No 7
>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=98.95 E-value=7.2e-11 Score=150.09 Aligned_cols=130 Identities=29% Similarity=0.460 Sum_probs=90.0
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEec-------------------cccccCc-eeeeEEEeEEEEE------ecc
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNK-------------------SSYERGF-AHGCIFKSMFIEL------ESG 768 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNk-------------------ss~dRG~-~~~~~yks~~~~~------~~~ 768 (951)
.||..||+. |+|+--.+--.||||. ++.-.|. ++++.|....++. +.+
T Consensus 984 HGqKGvis~i~p~eDMPf~~dG~~pDiIiNPhg~PSRMtiGqllE~~lgka~~~~G~~~datpF~~~~~~~i~~~L~~~g 1063 (1224)
T 1twf_B 984 HGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFTDITVEGISKLLREHG 1063 (1224)
T ss_dssp TSCEEEEEEEECTTTSCEETTSCCCSEEECGGGSTTTTCHHHHHHHHHHHHHHHHCSCEECCSSSSCCHHHHHHHHHTTT
T ss_pred ccCcceeeeecccccCCcCCCCCCccEEeCCCcCccccccchhHHHHhhHHHHhcCceeecCCCCCccHHHHHHHHHHcC
Confidence 399999999 5777555666899994 3444554 4577776533321 227
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
++++|+|.+|+|+||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ .+..++.|+|++.|+
T Consensus 1064 ~~~~G~e~ly~G~TG~~~~~~i~vG~~YyqkL~HmV~DKihaRs~GP~~~lT~QP~~Gr~r~GG~RfGEMErd~L~a~Ga 1143 (1224)
T 1twf_B 1064 YQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHGA 1143 (1224)
T ss_dssp SCTTSEECEECTTTCCBCSSCEEEEEEEEEEBSSCGGGTCEEECCCC----------------CCCCCHHHHHHHHHHTC
T ss_pred CCCCCCEEeecCCCCCCccceEEEehhHhhcchhhcccCceEEeeCCCcccccCCCcccccCCceecchhhhhhHHhccH
Confidence 8999999999999999999999999999999999999999 57789999998765 456788899999998
Q ss_pred e-------ecCCCCEEEEec
Q psy8410 838 K-------LNERDPMYSYWK 850 (951)
Q Consensus 838 ~-------v~~gd~l~~~~~ 850 (951)
- ..+.|.....+.
T Consensus 1144 a~~L~ErL~~~SD~~~~~vC 1163 (1224)
T 1twf_B 1144 ASFLKERLMEASDAFRVHIC 1163 (1224)
T ss_dssp HHHHHHHHCCSSCCCEEEEE
T ss_pred HHHHHHHHhcCCccceeEee
Confidence 3 335565444443
No 8
>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=98.67 E-value=1.7e-09 Score=137.87 Aligned_cols=134 Identities=29% Similarity=0.442 Sum_probs=101.1
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEec-------------------cccccC-ceeeeEEEeEEEE------Eecc
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNK-------------------SSYERG-FAHGCIFKSMFIE------LESG 768 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNk-------------------ss~dRG-~~~~~~yks~~~~------~~~~ 768 (951)
.||..||+. |+|+--.+=-.||||. ++...| +..++.|.....+ ++.+
T Consensus 885 HGnKGvvs~i~p~eDMPf~~dG~~~DiilNP~gvPSRMniGqilE~~~gk~~~~~g~~~~atpf~~~~~e~~~~~l~~~g 964 (1131)
T 4ayb_B 885 HGQKGVIGMLIPQVDMPYTVKGVVPDVILNPHALPSRMTLGQIMEGIAGKYAALSGNIVDATPFYKTPIEQLQNEILKYG 964 (1131)
T ss_dssp TSCEEEEEEEECTTTSEEETTSCCCSEECCTTSSTTTTCHHHHHHHHHHHHHHHHCCCCBCCTTSSCCTHHHHHHHHHTT
T ss_pred ccccceeeeecccccCCcCCCCCCccEEECCCCCcccCcHHHHHHHHHHHHHHhCCCceecCccCCCcHHHHHHHHHHcC
Confidence 399999999 6776555555889994 333344 4556766432222 1237
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
++++|+|.+|+|.||+++++.||+|++|||||+|||+||+ ||.+.+++||.+++ ++..++.|.|.+.|+
T Consensus 965 ~~~~g~~~lydG~TGe~~~~~i~vG~~Yy~kL~HmV~DKihaRs~GP~s~~TqQPl~Gra~~GG~RfGEME~~aL~a~Ga 1044 (1131)
T 4ayb_B 965 YLPDATEVTYDGRTGQKIKSRIYFGVVYYQKLHHMVADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGFGT 1044 (1131)
T ss_dssp SCTTSEECEEETTTCCBCSSCEEEEEEEEEEBSCCHHHHCEEESSCCBCTTTCCBCSSGGGTCCCEECHHHHHHHHHHTC
T ss_pred CCCCCCEEEeCCCCCCEecCcEEEEhhhhhccchhhccCCEeeccCCCCCcccCCCCCcccCCCcceeHHHHHHHHHHhH
Confidence 8899999999999999999999999999999999999999 57788999998765 356788899999998
Q ss_pred e-------ecCCCCEEEEecCCCC
Q psy8410 838 K-------LNERDPMYSYWKESEN 854 (951)
Q Consensus 838 ~-------v~~gd~l~~~~~~~~~ 854 (951)
- ..+.|....++....+
T Consensus 1045 a~~LqE~L~~~SD~~~~~vc~~cG 1068 (1131)
T 4ayb_B 1045 AMLLKDRLLDNSDRTTIYVCDQCG 1068 (1131)
T ss_dssp HHHHHHHTTTTTCEEEEEECSSSC
T ss_pred HHHHHHHhhccCCccceeeccCCC
Confidence 3 3467766555554444
No 9
>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=98.67 E-value=1.9e-09 Score=135.88 Aligned_cols=117 Identities=27% Similarity=0.493 Sum_probs=91.1
Q ss_pred CCceEEEEE------EeccCCCCCCcEEEecc-------------------ccccCc-eeeeEEEeEEEE-----E-ecc
Q psy8410 721 MGTNAIVAV------ISYTGYDMEDAMILNKS-------------------SYERGF-AHGCIFKSMFIE-----L-ESG 768 (951)
Q Consensus 721 ~G~NaiVAv------~sytGYn~EDAiIiNks-------------------s~dRG~-~~~~~yks~~~~-----~-~~~ 768 (951)
.||..+|+. |+|+--.+-..||||.- +.-.|. .+++.|.....+ + +.+
T Consensus 973 hGqKGvi~~i~~~edmPf~~~G~~pDii~NP~~~PSRMtigq~~E~~~g~~~~~~g~~~~~tpF~~~~~~~~~~~l~~~g 1052 (1210)
T 3h0g_B 973 HGQKGTIGMTYRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHLVECQLSKVSALSGFEGDATPFTDVTVEAVSKLLRSHG 1052 (1210)
T ss_dssp TCCCEEEEEEECTTTSCCBTTTBCCSEECCGGGSTTSCCHHHHHHHHHHHHSSSSCCCCBCCSSCSCCHHHHHHHHHTTT
T ss_pred cCCCceeeEEeccccCCcCCCCCCCeEEECCCcCCCCccchhhhHhHHHHHHHhcCCceeeccCCCCcHHHHHHHHHHcC
Confidence 399999998 56765556668999953 333444 356777643322 1 227
Q ss_pred ccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 769 YNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 769 ~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
++++|+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ .+..++.|.|++.|+
T Consensus 1053 ~~~~G~~~l~~g~tg~~~~~~i~~G~~yy~kL~Hmv~dK~h~r~~gp~~~~t~QP~~gr~~~GG~r~GEME~~~l~a~Ga 1132 (1210)
T 3h0g_B 1053 FQSRGFEVMYHGHTGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEMERDCQISHGC 1132 (1210)
T ss_dssp SCTTSCBCCBCSSSCCBCSSCBEECCEECEECSCCSTTTCEECSSCCBCSSSCSBCCSSTTCCCCCCCHHHHHHHHHHTB
T ss_pred cCCCCCEEEEcCCCCCCccccEEEEehHhhcchhhcccCcEEeccCCCchhccCCcccccccCCeeeehhhhhhhhhccH
Confidence 8899999999999999999999999999999999999998 57778899998764 345677788888887
No 10
>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=98.64 E-value=2.7e-09 Score=133.53 Aligned_cols=68 Identities=24% Similarity=0.310 Sum_probs=60.6
Q ss_pred cCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeecc
Q psy8410 770 NYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVGA 837 (951)
Q Consensus 770 ~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G~ 837 (951)
+++|+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ .+..++.|.|.+.|+
T Consensus 967 ~~~Gk~~lydG~TGe~~~~~I~vG~~Yy~kL~HmVdDKihaRs~GP~s~lTqQP~~Gra~~GGqRfGEME~~aL~a~GA 1045 (1119)
T 2a6h_C 967 FLQGKVVLYDGRTGEPIEGPIVVGQMFIMKLYHMVEDKMHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGA 1045 (1119)
T ss_dssp HHTTEECCBCSSSCCBCSSCEEEEEEEEEEBCCCTTTSCEEESSCCBCSSSCSBCCCSSSCCCEEECHHHHHHHHHTTC
T ss_pred CCCCceEeecCCCCCCccceEEEEhHHhhcchhhcccCcEEeeccccceeecCCCcccccCCCeeeehhehhhhhhccH
Confidence 778999999999999999999999999999999999998 57789999998764 356778888888887
No 11
>3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_C*
Probab=98.21 E-value=1.7e-07 Score=116.97 Aligned_cols=70 Identities=20% Similarity=0.277 Sum_probs=61.4
Q ss_pred cccCcceeeeeeCCCCccceeEEEeceeeeeeeeecccccc-----cccccccCCCCChh------hhhcCCCCCceeec
Q psy8410 768 GYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKW-----QTKDYFGRDPANKA------LEDKLGPDGLVYVG 836 (951)
Q Consensus 768 ~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v~dk~-----~~~~~~~~~p~~~~------~~~~Ld~DGl~~~G 836 (951)
+++++|+|.+|+|.||+++++.||+|++|||||+|||.||+ |+.+.+++||.+++ .+..++.|.|.+.|
T Consensus 1203 G~~~~Gk~~LydGrTGe~f~~~V~vG~~YylKL~HmVdDKiHaRs~GPysllTqQPl~Gkaq~GGqRfGEMEvwaL~a~G 1282 (1342)
T 3lu0_C 1203 DLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYG 1282 (1342)
T ss_dssp SSCSSSCBCCBCSSSCSBCSSCBCEECCEEEEBCCCGGGSCCCBSSCCBCSSSCCBCCCSSSCCCCCCCHHHHHHHHHSS
T ss_pred CCCCCCCEEEEcCCCCCCcccceeeeehhHhhhhhccccceEEeccCCCcccccCCCCccccCCCeeeehHHHHHHHhcc
Confidence 67789999999999999999999999999999999999998 46678889998654 35567778888888
Q ss_pred c
Q psy8410 837 A 837 (951)
Q Consensus 837 ~ 837 (951)
+
T Consensus 1283 A 1283 (1342)
T 3lu0_C 1283 A 1283 (1342)
T ss_dssp C
T ss_pred H
Confidence 7
No 12
>3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory protein, transcription; 3.00A {Escherichia coli}
Probab=98.19 E-value=1.2e-06 Score=90.54 Aligned_cols=70 Identities=19% Similarity=0.174 Sum_probs=56.8
Q ss_pred cccccccCCCC-ChhhhhcCCCCCceeecceecCCCCEEEEecCCC---------------------CeEEEEEeCCCcc
Q psy8410 809 QTKDYFGRDPA-NKALEDKLGPDGLVYVGAKLNERDPMYSYWKESE---------------------NRYVTCRYSGKEE 866 (951)
Q Consensus 809 ~~~~~~~~~p~-~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~---------------------~~~~~~~~~~~e~ 866 (951)
|+..+....|+ .+..+++||+||++++|++|.+||+|+||++|.. -++.|++.++++.
T Consensus 17 G~EeIT~dIPnv~e~~l~~LDe~GIV~iGs~V~~GDILVGKvTPk~~~~~tpEekLL~aIfg~k~~~vkDtSL~vp~G~~ 96 (228)
T 3tbi_B 17 GPEEITADIPNVGEAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNGVS 96 (228)
T ss_dssp EECEESSCCSSCCHHHHHTBCTTSBBCTTCCCBTTCEEECEEEECCGGGCCHHHHHHHHHHCTTSSCEEECCEECCSSCB
T ss_pred CCeEEecCCCCccHHHHhcCCCCCCeecCCEECCCCEEEeccCCCCCCCCChHHHHHHHHhCCccccceeCcEecCCCCc
Confidence 33334444565 4567899999999999999999999999998742 1467899999999
Q ss_pred EEEEEEEEecCC
Q psy8410 867 MCVEVVRMSSGF 878 (951)
Q Consensus 867 g~vd~v~~~~~~ 878 (951)
|+|+.|.+++..
T Consensus 97 G~VidV~if~r~ 108 (228)
T 3tbi_B 97 GTVIDVQVFTRD 108 (228)
T ss_dssp EEEEEEEEEEBT
T ss_pred EEEEEEEEEecC
Confidence 999999998764
No 13
>3lti_A DNA-directed RNA polymerase subunit beta; BBM2, nucleotidyltransferase, transcription, transferase; HET: MLY MSE; 1.60A {Escherichia coli} PDB: 3e7h_A
Probab=85.08 E-value=1.8 Score=46.90 Aligned_cols=78 Identities=8% Similarity=0.035 Sum_probs=59.8
Q ss_pred HHHHhCCCCHHHHHHHHHhhhcccc--------------cccccCCcHHHHHHHHhhccccCCCCCch--hhHhHHHHHH
Q psy8410 283 SLHEEGIHTQHDSKVFFGQIFKEKL--------------QYDLRHLNEVEICDYMLTNCILPHLDDYW--DKFLCLSHMT 346 (951)
Q Consensus 283 ~~~~~~i~t~e~aL~yIG~~fr~~~--------------~~~~~~~~~~~~~~~iL~~~llpHl~~~~--~K~~~L~~Mi 346 (951)
.+..+...++++|+..|++++|++. ++.|++|+..++||.-||+.|-..++... --...+...+
T Consensus 203 tL~~D~~~s~~eAl~eIYr~lRpgep~t~e~a~~l~~~lFF~~~RYDLg~VGR~KlNkKL~l~~~~~~~~Lt~eDIl~~i 282 (296)
T 3lti_A 203 TLRVDPTNDRLSALVEIYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGRMXFNRSLLREEIEGSGILSXDDIIDVM 282 (296)
T ss_dssp HHHHCCCCSHHHHHHHHHHHHSTTSCCCHHHHHHHHHHHHSCTTTCBCHHHHHHHHHHHTTCSCSCCCSSCCHHHHHHHH
T ss_pred HHHhcCCCCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhhcCcCeechhhhchhHhhhhhCcCCCCCccEecHHHHHHHH
Confidence 3445678899999999999998631 22478889999999999999876655332 2346888899
Q ss_pred HHHHHHhcCCccCC
Q psy8410 347 CKLFHVVQGMVQLD 360 (951)
Q Consensus 347 ~kLl~~~~g~~~~D 360 (951)
+.|+.+..|....|
T Consensus 283 kyLI~L~~g~~~vD 296 (296)
T 3lti_A 283 XXLIDIRNGXGEVD 296 (296)
T ss_dssp HHHHHHHHTSSCCC
T ss_pred HHHHHhhcCCCCCC
Confidence 99999999977654
No 14
>3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus}
Probab=53.52 E-value=8.1 Score=39.13 Aligned_cols=58 Identities=16% Similarity=0.140 Sum_probs=42.5
Q ss_pred cccchhhhhhHHHHHHHHHHHhhcccc---------cCChhhHHhhhccchHHHHHHHHHhcCCcCC
Q psy8410 364 SIMLQEIMTGGSLYLQLLKKEKSGTSA---------VLKESDIYAAFRASSIESAMTNFLATGNVSA 421 (951)
Q Consensus 364 ~~~nkrv~l~G~Ll~~lfke~~~~~~~---------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~ 421 (951)
-+-+|+.+++|+||+..++..|.+..+ .........+++...++.+|+.||.|.+++.
T Consensus 120 VIVsQe~r~~gell~~q~r~gl~r~ek~~~e~~~~~~~~~~~~~~l~n~kp~~~~ik~ff~ss~Lsq 186 (188)
T 3mlq_A 120 VIVSQGGRTVGELMADQFRVGLARLARGVRERMVMGSPDTLTPAKLVNSRPLEAALREFFSRSQLSQ 186 (188)
T ss_dssp ECCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHCCCHHHHHHHHHHHHTCEECC
T ss_pred EEEEeecccCCeeeEEehhhHHHHHHHHHHhhhccccccccCcccchhhHHHHHHHHHhhccccccc
Confidence 357899999999999999875544211 1122234555688999999999999987765
Done!