Query         psy3022
Match_columns 258
No_of_seqs    174 out of 1095
Neff          5.4 
Searched_HMMs 29240
Date          Fri Aug 16 23:33:38 2013
Command       hhsearch -i /work/01045/syshi/Psyhhblits/psy3022.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/3022hhsearch_pdb -cpu 12 -v 0 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3h0g_A DNA-directed RNA polyme 100.0 9.5E-71 3.3E-75  593.2  13.2  233    2-234   714-1164(1752)
  2 1twf_A B220, DNA-directed RNA  100.0 1.5E-69 5.1E-74  584.0  15.1  231    2-232   708-1159(1733)
  3 3lu0_D DNA-directed RNA polyme 100.0 2.9E-52   1E-56  436.6   5.3  220    7-247   677-1040(1407)
  4 1hqm_D DNA-directed RNA polyme 100.0 1.6E-51 5.3E-56  433.5   6.0  173    5-199   726-1021(1265)
  5 2a6h_D DNA-directed RNA polyme 100.0 2.2E-48 7.6E-53  411.5   8.4  163    6-189   986-1271(1524)
  6 4ayb_A DNA-directed RNA polyme 100.0 1.1E-39 3.8E-44  335.9  10.8  130    2-131   690-819 (880)
  7 4ayb_C DNA-directed RNA polyme 100.0 4.9E-31 1.7E-35  249.5   4.3  109  133-241    63-172 (395)
  8 2auk_A DNA-directed RNA polyme  95.4  0.0011 3.7E-08   57.0  -2.5   78  171-248    15-102 (190)
  9 1gvn_A Epsilon; postsegregatio  18.4 2.2E+02  0.0077   21.3   5.2   34    2-35      3-38  (90)
 10 2xha_A NUSG, transcription ant  17.0      11 0.00037   32.3  -2.6   37  201-242    10-51  (193)

No 1  
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00  E-value=9.5e-71  Score=593.22  Aligned_cols=233  Identities=67%  Similarity=0.989  Sum_probs=222.9

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCChhhHHhhcCCCcChhhHHHHHhhhcccccCCcccCCCCCCCCCCCC
Q psy3022           2 LALKQTFENQVNRILNDARDKTGGSAKKSLTEYNNLKAMVVAGSKGSNINISQVIACVGQQNVEGKRIPFGFRKRTLPHF   81 (258)
Q Consensus         2 ~~~~~~~E~~v~~~l~~~~~~~~~~~~~~~~~~N~l~~M~~SGsKGs~~nl~Q~~g~lGqQ~~~G~ri~~~~~~r~lp~f   81 (258)
                      ||++|++|.+|+++|+++++++++.++++++++|++++|+.||||||+.|++||+||||||.++|+|||++|.+|+||||
T Consensus       714 ~~~~e~~e~~v~~~l~~~~~~~~~~~~~~l~~~N~~~~M~~SGakGs~~ni~Q~~~~~Gqq~~~GkrIp~g~~~rtLP~f  793 (1752)
T 3h0g_A          714 MTLRESFEAKVSRILNQARDNAGRSAEHSLKDSNNVKQMVAAGSKGSFINISQMSACVGQQIVEGKRIPFGFKYRTLPHF  793 (1752)
T ss_dssp             CCTTHHHHHHHHHHHHHHHHHHHHHHHTTSCSSCTTTHHHHHCSSCCHHHHHHHHTCCCCCCSTTSSSCCCSTTSSSTTS
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHhhhccccCHHHHHHHHhccCCCccCCccCCCCCCCccCCCC
Confidence            67889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCcccccccccCcCCCChhHHHHhhcccchhhhhhhhhccccC--------------------------------
Q psy3022          82 IKDDYGPESRGFVENSYLAGLTPSEFFFHAMGGREGLIDTAVKTAETA--------------------------------  129 (258)
Q Consensus        82 ~~~~~~~~~~GfI~~sf~~GL~p~EfFfHa~~gRegliDtavkTa~sG--------------------------------  129 (258)
                      .++|.+++++|||.|||++||+|.|||||||||||||+|||||||+||                                
T Consensus       794 ~k~d~~~~a~GfV~~sF~~GL~p~EfFfhtmggReGLiDTAvKTA~SGYLqRRLVk~leDv~V~YDgTVRns~g~ivQF~  873 (1752)
T 3h0g_A          794 PKDDDSPESRGFIENSYLRGLTPQEFFFHAMAGREGLIDTAVKTAETGYIQRRLVKAMEDVMVRYDGTVRNAMGDIIQFA  873 (1752)
T ss_dssp             CSSCCSTTTSSCCSSCTTTCCCHHHHHHHHHHHTTTTTHHHHTTTHHHHHHHHHHHHHTTCEEETTTEEECTTSCEEESS
T ss_pred             CCCCCCcccCcchhhcccCCCCHHHHHHHhhhhhhhhhHhhhhcCcCchhHHHHHHHHhheEEeeCCeeEcCCCcEEEEe
Confidence            999999999999999999999999999999999999999999999999                                


Q ss_pred             ---------------C----------------C------------------------------------------C----
Q psy3022         130 ---------------C----------------N------------------------------------------A----  132 (258)
Q Consensus       130 ---------------~----------------~------------------------------------------~----  132 (258)
                                     +                .                                          +    
T Consensus       874 YGeDGlD~~~~e~q~~~~~~~s~~~f~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~E~~~l~~dr~~lr~~i~~~~  953 (1752)
T 3h0g_A          874 YGEDGLDATLVEYQVFDSLRLSTKQFEKKYRIDLMEDRSLSLYMENSIENDSSVQDLLDEEYTQLVADRELLCKFIFPKG  953 (1752)
T ss_dssp             SSSSCBCGGGEEEEECTTTSCCHHHHTTTSCCCTTTTCCGGGTSCSCCTTSCSSTHHHHHHHHHHHHHHTTSSSSSSSCS
T ss_pred             cCCCCcChHHhhccccccccCCHHHHHHHhcccccccccccHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence                           0                0                                          0    


Q ss_pred             --------------------------------------------------------------------------------
Q psy3022         133 --------------------------------------------------------------------------------  132 (258)
Q Consensus       133 --------------------------------------------------------------------------------  132 (258)
                                                                                                      
T Consensus       954 ~~~~~lP~N~~R~i~~~~~~f~~~~~~~s~l~p~~~~~~v~~~~~~l~~~~g~d~l~~~~~~na~~l~~~~lr~~l~~k~ 1033 (1752)
T 3h0g_A          954 DARWPLPVNVQRIIQNALQIFHLEAKKPTDLLPSDIINGLNELIAKLTIFRGSDRITRDVQNNATLLFQILLRSKFAVKR 1033 (1752)
T ss_dssp             CCEEEEESCHHHHTTTTTTTSCCCTTSCCCCCHHHHHHHHHHHHTTCCCSCCCSTTTTHHHHTSSHHHHHHHTTSSSHHH
T ss_pred             cccccCCccHHHHHHHHHHhcCCCcCccCCCCHHHHHHHHHHHHHhhhcccCCcchhhhhhhchHHHHHHHHHhhhhhhh
Confidence                                                                                            


Q ss_pred             --------------------------ccCCCchhhhhhhhccCChhhhhhhhccccCCccccccccCccccchhhhhccC
Q psy3022         133 --------------------------KCAPGEMVGALAAQSLGEPATQMTLNTFHFAGVSSKNVTLGVPRLKEIINISKK  186 (258)
Q Consensus       133 --------------------------~v~~Ge~VG~iaAqsigEp~TQ~tl~tFH~aG~~~~~v~~g~~rl~eil~~~~~  186 (258)
                                                .|+|||+||+|||||||||+|||||||||+||++++|||+|||||+||||++|+
T Consensus      1034 ~~~~~~l~~~~~~~~~~~~~~~y~~a~v~pGe~VG~iaAQSIgEp~TQMTLnTFHfAGvas~NVTlGVPRLkEIInask~ 1113 (1752)
T 3h0g_A         1034 VIMEYRLNKVAFEWIMGEVEARFQQAVVSPGEMVGTLAAQSIGEPATQMTLNTFHYAGVSSKNVTLGVPRLKEILNVAKN 1113 (1752)
T ss_dssp             HHHSSCCCHHHHHHHHHHHHHHHHTTBCCSSCCHHHHHHHHHHHHHHHHHHHTTSSCCCCCSSCCCSGGGHHHHHTTCSC
T ss_pred             hhhhcCcCHHHHHHHHHHHHHHHHHhccCcccchhhhhhcccCCchhhhhHHhhhhccccccccccCcccHHHHHhhhcC
Confidence                                      169999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEecCcchhcHHHHHHHhccccceeccceeE---EEEcCCCcee
Q psy3022         187 PKAPSLTVFLTGQAARDAEKAKNVLCRLEHTTLRKVLY---IILRPATHYQ  234 (258)
Q Consensus       187 ~~t~~~~v~L~~~~~~~~~~a~~v~~~L~~~~l~~v~~---I~ydp~~~~~  234 (258)
                      +|||+|+++|.+++..++++|+.|+++|++++|++|++   |.|||+...+
T Consensus      1114 ikTP~mtv~L~~~~~~d~e~A~~v~~~ie~t~L~~v~~~~~i~~~p~~~~~ 1164 (1752)
T 3h0g_A         1114 IKTPSLTIYLMPWIAANMDLAKNVQTQIEHTTLSTVTSATEIHYDPDPQDT 1164 (1752)
T ss_dssp             CSCCCCEECCCSSSCSSSTTTHHHHTTSSCCSSCSCCSCEEEECCCSTTCC
T ss_pred             CCCCeEEEEecCccccCHHHHHHHHHhhccEEHHHheeEEEEEEecCccce
Confidence            99999999999887778899999999999999999976   8999987654


No 2  
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Probab=100.00  E-value=1.5e-69  Score=584.02  Aligned_cols=231  Identities=67%  Similarity=0.999  Sum_probs=211.5

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCChhhHHhhcCCCcChhhHHHHHhhhcccccCCcccCCCCCCCCCCCC
Q psy3022           2 LALKQTFENQVNRILNDARDKTGGSAKKSLTEYNNLKAMVVAGSKGSNINISQVIACVGQQNVEGKRIPFGFRKRTLPHF   81 (258)
Q Consensus         2 ~~~~~~~E~~v~~~l~~~~~~~~~~~~~~~~~~N~l~~M~~SGsKGs~~nl~Q~~g~lGqQ~~~G~ri~~~~~~r~lp~f   81 (258)
                      ||.+|++|.+|+++|+++++++++.++++++++|++++|+.||||||+.|++||+||||||.++|+|||++|.+|+||||
T Consensus       708 ~~~~e~~e~~v~~il~~~~d~~~~~~~~~l~~~N~i~~Ma~SGAKGs~~Ni~Q~~~~~Gqq~~~Gkrip~g~~~RtLPhf  787 (1733)
T 1twf_A          708 MTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKRIAFGFVDRTLPHF  787 (1733)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHTSSCCHHHHHHHHSCCEECCBTTBSCCCCBTTBSSTTS
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCeEEEeeccCcccHHhHHHHHhCcCCcccCCccCCCCCCCCCCCCC
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCcccccccccCcCCCChhHHHHhhcccchhhhhhhhhccccC--------------------------------
Q psy3022          82 IKDDYGPESRGFVENSYLAGLTPSEFFFHAMGGREGLIDTAVKTAETA--------------------------------  129 (258)
Q Consensus        82 ~~~~~~~~~~GfI~~sf~~GL~p~EfFfHa~~gRegliDtavkTa~sG--------------------------------  129 (258)
                      .++|.+++++|||+|||++||+|.|||||||||||||+|||||||+||                                
T Consensus       788 ~k~d~~p~s~GfI~ssF~~GLtp~EyFfh~mggReGLiDTAvKTA~SGYLqRRLVk~ledv~V~yDgTVR~s~g~IvQF~  867 (1733)
T 1twf_A          788 SKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFI  867 (1733)
T ss_dssp             CTTCCSTTTTTEECSCTTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCEECTTSCEECTTCCEEESS
T ss_pred             CCCCCCccccchhhhhhhcccchHHHhhhhhccccchhhhceecccCCcceeehhhhhcceEEEecCcEecCCCCEEEEE
Confidence            999999999999999999999999999999999999999999999999                                


Q ss_pred             ---------------C----------------C-----------------------------------------------
Q psy3022         130 ---------------C----------------N-----------------------------------------------  131 (258)
Q Consensus       130 ---------------~----------------~-----------------------------------------------  131 (258)
                                     +                .                                               
T Consensus       868 YGeDGlD~~~~e~~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~e~~~l~~~r~~lr~i~  947 (1733)
T 1twf_A          868 YGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVF  947 (1733)
T ss_dssp             GGGTTBCGGGEEEEECGGGSSCHHHHHHHHCCCTTCTTTSCCTTTBTTHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             eccccCCcceeecccccccccCHHHHHHHhccccccccccCCHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence                           0                0                                               


Q ss_pred             ---------------------------------C----------------------------------------------
Q psy3022         132 ---------------------------------A----------------------------------------------  132 (258)
Q Consensus       132 ---------------------------------~----------------------------------------------  132 (258)
                                                       .                                              
T Consensus       948 ~~~~~~~~~P~ni~r~i~~~~~~f~~~~~~~s~l~p~~~~~~v~~~~~~~~~~~g~d~l~~~~~~n~~~l~~~~~rs~L~ 1027 (1733)
T 1twf_A          948 VDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLA 1027 (1733)
T ss_dssp             TTCCCEEEEESCHHHHHHHHHHHTTCCTTSCBCCCHHHHHHHHHHHHTTCCSCCCCSHHHHHHHHHTTHHHHHHHHHHSC
T ss_pred             ccccccccCChhHHHHHHHHHHHhcccccccccCCHHHHHHHHHHHHHhhhcccCCcchhhhhhhchHHHHHHHhhhhhh
Confidence                                             0                                              


Q ss_pred             -----------------------------ccCCCchhhhhhhhccCChhhhhhhhccccCCccccccccCccccchhhhh
Q psy3022         133 -----------------------------KCAPGEMVGALAAQSLGEPATQMTLNTFHFAGVSSKNVTLGVPRLKEIINI  183 (258)
Q Consensus       133 -----------------------------~v~~Ge~VG~iaAqsigEp~TQ~tl~tFH~aG~~~~~v~~g~~rl~eil~~  183 (258)
                                                   .|+|||+||+|||||||||+|||||||||+||++++|||+|||||+|||++
T Consensus      1028 ~k~~~~~~~l~~~~~~~~l~~i~~ky~~a~v~pGe~VG~iaAQSigEp~TQMTLnTFHfAGva~~NVTLGVPRLkEIina 1107 (1733)
T 1twf_A         1028 TRRVLQEYRLTKQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNV 1107 (1733)
T ss_dssp             HHHHHHTSCCCHHHHHHHHHHHHHHHHHHBCCTTCCHHHHHHHHHHHHHTTCCC----------CCSCCHHHHHHHHTTT
T ss_pred             hhhhhhhcCCCHHHHHHHHHHHHHHHHhccCCCCchhhhHhhhhcCCccccccccccccccccccCcccCcHHHHHHHHh
Confidence                                         167899999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCCeEEEEecCcchhcHHHHHHHhccccceeccceeE---EEEcCCCc
Q psy3022         184 SKKPKAPSLTVFLTGQAARDAEKAKNVLCRLEHTTLRKVLY---IILRPATH  232 (258)
Q Consensus       184 ~~~~~t~~~~v~L~~~~~~~~~~a~~v~~~L~~~~l~~v~~---I~ydp~~~  232 (258)
                      ++++|||+|+|+|.+++..++++|+.++++|++++|++|++   |.|||+..
T Consensus      1108 sk~ikTP~mtv~L~~~~~~~~e~A~~v~~~ie~ttL~dv~~~i~i~~dp~~~ 1159 (1733)
T 1twf_A         1108 AKNMKTPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPR 1159 (1733)
T ss_dssp             CSSCSSCEEEEEBCSSSSSCHHHHHHHHHHHSCEEGGGTEEEEEEEECCCSS
T ss_pred             ccCCCCCeEEEEeCCcccccHHHHHHHHHhhceeEHHHhhheEEEEEccCcc
Confidence            99999999999999887678999999999999999999987   88999854


No 3  
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D*
Probab=100.00  E-value=2.9e-52  Score=436.56  Aligned_cols=220  Identities=28%  Similarity=0.409  Sum_probs=185.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcC---------------CCChhhHHhhcCCCcChhhHHHHHhhhccccc-CCcccC
Q psy3022           7 TFENQVNRILNDARDKTGGSAKKSLT---------------EYNNLKAMVVAGSKGSNINISQVIACVGQQNV-EGKRIP   70 (258)
Q Consensus         7 ~~E~~v~~~l~~~~~~~~~~~~~~~~---------------~~N~l~~M~~SGsKGs~~nl~Q~~g~lGqQ~~-~G~ri~   70 (258)
                      +++.+|.++|+++++++++.++++++               +.|++++|++||||||+.|++||+||+|||.. +|+.+ 
T Consensus       677 er~~kVi~iw~~a~e~v~~~m~~~l~~~~~~d~~G~~~~l~~~N~i~mMa~SGARGS~~qI~QLaGmrGlmakpdG~ii-  755 (1407)
T 3lu0_D          677 ERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSII-  755 (1407)
T ss_dssp             TTTTTHHHHHHTHHHHHHHHHHTTHHHH------------CSCCHHHHHHHSSSSCCTTHHHHHSSCCCCCBCSSSCBC-
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhccccccccccccccccCCCCChheeeeccccCCHHHHHHHHHhcCCccCCCCCCc-
Confidence            45678999999999999999999875               47999999999999999999999999999953 44322 


Q ss_pred             CCCCCCCCCCCcCCCCCCcccccccccCcCCCChhHHHHhhcccchhhhhhhhhccccC-------------------CC
Q psy3022          71 FGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFFFHAMGGREGLIDTAVKTAETA-------------------CN  131 (258)
Q Consensus        71 ~~~~~r~lp~f~~~~~~~~~~GfI~~sf~~GL~p~EfFfHa~~gRegliDtavkTa~sG-------------------~~  131 (258)
                                          ..+|.|||++||+|.|||||||+|||||+|||||||+||                   |+
T Consensus       756 --------------------e~PI~ssFreGLtp~EyFfst~GaRKGL~DTALKTAdSGYLTRRLVdv~QDviV~e~DCG  815 (1407)
T 3lu0_D          756 --------------------ETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCG  815 (1407)
T ss_dssp             --------------------SSCCCCCSSSCCCHHHHHHHHHHHHHHHHHTTTTTTCTTTTTHHHHTTSTTCCBCCCSCC
T ss_pred             --------------------chhhhcccccCCCHHHhhhhcccchhhhhhhhhhcccchhHHHHHHHhhcceEEEecCCC
Confidence                                346899999999999999999999999999999999999                   21


Q ss_pred             C-------------------------------------------------------------------------------
Q psy3022         132 A-------------------------------------------------------------------------------  132 (258)
Q Consensus       132 ~-------------------------------------------------------------------------------  132 (258)
                      +                                                                               
T Consensus       816 T~~Gi~v~~~~~~~~vi~~L~~ri~GRv~a~di~~p~tgevi~~~n~~I~e~~a~~i~~~gi~~V~IRS~LTC~s~~GVC  895 (1407)
T 3lu0_D          816 THEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSVVSCDTDFGVC  895 (1407)
T ss_dssp             CCSSCEEEESSCCCSSSSCCCCCCSSCBBSSCBCCSSSCCBCSSCBCCHHHHHHHHHTTTTCSEEEECCSSSCSCSSSBC
T ss_pred             CCCCEEEEEeecCCeEEeehhhheeeeeeHhHeecCCCCcEEEeCCCcCCHHHHHHHHHcCCCEEEEcCceeecCCCccc
Confidence            1                                                                               


Q ss_pred             ------------ccCCCchhhhhhhhccCChhhhhhhhccccCCcccc-c-------cccCccccchhhhhccCCC----
Q psy3022         133 ------------KCAPGEMVGALAAQSLGEPATQMTLNTFHFAGVSSK-N-------VTLGVPRLKEIINISKKPK----  188 (258)
Q Consensus       133 ------------~v~~Ge~VG~iaAqsigEp~TQ~tl~tFH~aG~~~~-~-------v~~g~~rl~eil~~~~~~~----  188 (258)
                                  .|+.||||||||||||||||||+||||||++|+++. .       -..|..++.++....+..+    
T Consensus       896 ~~CYGrdLa~g~~V~iGEAVGiIAAQSIGEPGTQLTMRTFHtGGvas~~~~~~~i~a~~~G~v~~~~~~~v~~~~g~~vv  975 (1407)
T 3lu0_D          896 AHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAESSIQVKNKGSIKLSNVKSVVNSSGKLVI  975 (1407)
T ss_dssp             STTTCSCSSSSSCCCSSCCTTHHHHHHHHSGGGSSCCSCTTCCCCCCCCCCCSCEECCSCEEEECCSCCCEECTTSCEEC
T ss_pred             HHHhCccccCCCCcccCceeeeeeeeccCCCcceeeeeeeeeccccccccccceeEeccCcEEEEeccEEEEcCCCCEEE
Confidence                        289999999999999999999999999999999973 1       2458888887654443333    


Q ss_pred             -CCeEEEEecCcchhcHHHHHHHh-ccccceeccceeE----EEEcCCCceeEEEeccceeeeee
Q psy3022         189 -APSLTVFLTGQAARDAEKAKNVL-CRLEHTTLRKVLY----IILRPATHYQVELISGARRVASL  247 (258)
Q Consensus       189 -t~~~~v~L~~~~~~~~~~a~~v~-~~L~~~~l~~v~~----I~ydp~~~~~i~~~~G~~~~~~~  247 (258)
                       ++...+.+.++.+...++++.++ ..|..-+.+.|..    .+|||++.|++++++|.++|.-+
T Consensus       976 ~~r~~~i~i~d~~g~~~~~~~ip~gs~l~v~~g~~V~~g~~ia~wDp~~~piise~~G~v~f~d~ 1040 (1407)
T 3lu0_D          976 TSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANWDPHTMPVITEVSGFVRFTDM 1040 (1407)
T ss_dssp             CCSSEEEEEECSSCCBCCCEEECTTCEESSCSSCEECTTCEEEECCSSCCCEECSSCEEEEEESC
T ss_pred             EecCeEEEEEcCCCcEEEEEEcCCCCEEEEcCCCEecCCCEEEEEecCceeEEeccceEEEEeee
Confidence             46778888777666666677777 7787778888766    89999999999999999999754


No 4  
>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D
Probab=100.00  E-value=1.6e-51  Score=433.45  Aligned_cols=173  Identities=32%  Similarity=0.539  Sum_probs=150.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhcC---CCChhhHHhhcCCCcChhhHHHHHhhhcccc-cCCcccCCCCCCCCCCC
Q psy3022           5 KQTFENQVNRILNDARDKTGGSAKKSLT---EYNNLKAMVVAGSKGSNINISQVIACVGQQN-VEGKRIPFGFRKRTLPH   80 (258)
Q Consensus         5 ~~~~E~~v~~~l~~~~~~~~~~~~~~~~---~~N~l~~M~~SGsKGs~~nl~Q~~g~lGqQ~-~~G~ri~~~~~~r~lp~   80 (258)
                      .+++|.+|.++|+++++++++.++++++   ++|++++|+.||||||+.|++||+||+|||. ++|++++          
T Consensus       726 ~~e~~~~v~~~~~~~~d~~~~~~~~~l~~~~~~N~i~~Ma~SGAKGS~~ni~Ql~g~~G~ma~~~G~~i~----------  795 (1265)
T 1hqm_D          726 DRERYDQVIQLWTETTEKVTQAVFNNFEENYPFNPLYVMAQSGARGNPQQIRQLCGMRGLMQKPSGETFE----------  795 (1265)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCSSSCTTTTTTTSSSCCHHHHHHHSSCCCCCCCTTSCCCS----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCcHHHHHHhcCCcCHHHHHHHHhhccccccCCCCccC----------
Confidence            4568999999999999999999999998   8999999999999999999999999999994 6777552          


Q ss_pred             CcCCCCCCcccccccccCcCCCChhHHHHhhcccchhhhhhhhhccccC-------------------CC----------
Q psy3022          81 FIKDDYGPESRGFVENSYLAGLTPSEFFFHAMGGREGLIDTAVKTAETA-------------------CN----------  131 (258)
Q Consensus        81 f~~~~~~~~~~GfI~~sf~~GL~p~EfFfHa~~gRegliDtavkTa~sG-------------------~~----------  131 (258)
                                 ++|.|||++||+|.|||||||||||||+|||||||+||                   |+          
T Consensus       796 -----------~pI~ssF~eGLtp~EyFfhtmggReGLiDTAvKTA~SGYLqRRLVkv~qDv~V~~ddc~t~dGi~v~~~  864 (1265)
T 1hqm_D          796 -----------VPVRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVDVAHEIVVREADCGTTKYISVPLF  864 (1265)
T ss_dssp             -----------CCCCCCBTTBCTTCTHHHHHHHHTTHHHHHTHHHHTSSSTHHHHHHHSCSCCCCSCCCCCCCCEECCSE
T ss_pred             -----------cccccccccCCChHHhheecccccccchhhhhhcccCCcceeeeeeecceEEEEECCCCCCCCEEEEEe
Confidence                       46999999999999999999999999999999999999                   10          


Q ss_pred             --------------------------------------------------------------------------------
Q psy3022         132 --------------------------------------------------------------------------------  131 (258)
Q Consensus       132 --------------------------------------------------------------------------------  131 (258)
                                                                                                      
T Consensus       865 ~~~~~i~~~~~~~~~~L~~ri~gr~~~~~i~~~~~~p~~~~~i~~~~~~i~~~~i~~~gi~~v~iRs~ltc~s~~gvc~~  944 (1265)
T 1hqm_D          865 QMDEVTRTLRLRKRSDIESGLYGRVLAREVEALGRRLEEGRYLSLEDVHFLIKAAEAGEVREVPVRSPLTCQTRYGVCQK  944 (1265)
T ss_dssp             ECCSTTCCCEECCTTTTHHHHTTCEESSCEEETTEEECSSCBCCTTHHHHHHHHHHTTSCSSCEEECGGGCSCTTSCCSS
T ss_pred             ecCceeechhhhhhhHHHHHHHhhhhhhcccccccCCCCccEEecCcchhhHHHHHHcCCCEEEeecCcCHHHHHHHHHH
Confidence                                                                                            


Q ss_pred             ---------CccCCCchhhhhhhhccCChhhhhhhhccccCCcc-ccccccCccccchhhhhccCCCCCeEEEEecCc
Q psy3022         132 ---------AKCAPGEMVGALAAQSLGEPATQMTLNTFHFAGVS-SKNVTLGVPRLKEIINISKKPKAPSLTVFLTGQ  199 (258)
Q Consensus       132 ---------~~v~~Ge~VG~iaAqsigEp~TQ~tl~tFH~aG~~-~~~v~~g~~rl~eil~~~~~~~t~~~~v~L~~~  199 (258)
                               ..|+|||+||+|||||||||+|||||||||+||++ +.|||+|+||++||+++++ +++|.++.++...
T Consensus       945 CYgr~La~~~lV~~GEaVGiIAAQSIGEPGTQlTLrTFH~gGvas~~dIT~GLPRv~El~eArk-pk~p~i~a~~~g~ 1021 (1265)
T 1hqm_D          945 CYGYDLSMARPVSIGEAVGVVAAESIGEPGTQLTMRTFHTGGVAVGTDITQGLPRVIELFEARR-PKAKAVISEIDGV 1021 (1265)
T ss_dssp             SSCSCSSSSSCCCTTCCHHHHHHHHHHGGGTTSCCCC--------CCTTSSHHHHHHHHHHCCC-CSSCBCCCSSSCB
T ss_pred             HhhhhhccCCEeccCceeeeeeccccCCCCceeeeEEEEEcceecccccccCchhHHHHHhhcC-CCCceEEEeccce
Confidence                     02789999999999999999999999999999999 5999999999999999865 9999888777543


No 5  
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Probab=100.00  E-value=2.2e-48  Score=411.50  Aligned_cols=163  Identities=32%  Similarity=0.543  Sum_probs=140.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhcC---CCChhhHHhhcCCCcChhhHHHHHhhhccc-ccCCcccCCCCCCCCCCCC
Q psy3022           6 QTFENQVNRILNDARDKTGGSAKKSLT---EYNNLKAMVVAGSKGSNINISQVIACVGQQ-NVEGKRIPFGFRKRTLPHF   81 (258)
Q Consensus         6 ~~~E~~v~~~l~~~~~~~~~~~~~~~~---~~N~l~~M~~SGsKGs~~nl~Q~~g~lGqQ-~~~G~ri~~~~~~r~lp~f   81 (258)
                      +++|.+|.++|+++++++++.+++++.   ++|++++|+.||||||+.|++||+||+||| .++|+++|.          
T Consensus       986 ~Er~~~Vi~iw~~a~d~v~~~~~~~L~~~~~~N~i~~Ma~SGAKGS~~NI~Ql~gmrGqma~p~GkiIp~---------- 1055 (1524)
T 2a6h_D          986 RERYDQILQLWTETTEKVTQAVFKNFEENYPFNPLYVMAQSGARGNPQQIRQLCGLRGLMQKPSGETFEV---------- 1055 (1524)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHSSSSCCHHHHHHHTSCCCCCBCSSSCBCSS----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCHHHHHHhcCCcCHHHHHHHHhhccccccCCCCCccc----------
Confidence            457889999999999999999999998   899999999999999999999999999997 578887752          


Q ss_pred             cCCCCCCcccccccccCcCCCChhHHHHhhcccchhhhhhhhhccccC-------------------C------------
Q psy3022          82 IKDDYGPESRGFVENSYLAGLTPSEFFFHAMGGREGLIDTAVKTAETA-------------------C------------  130 (258)
Q Consensus        82 ~~~~~~~~~~GfI~~sf~~GL~p~EfFfHa~~gRegliDtavkTa~sG-------------------~------------  130 (258)
                                 +|.|||++||+|.|||||||||||||+|||||||+||                   |            
T Consensus      1056 -----------PI~ssF~eGLtp~EyFfhtmGgReGLvDTAvKTAdSGYLqRRLVkv~qDviVr~dDcgt~dGi~v~~~~ 1124 (1524)
T 2a6h_D         1056 -----------PVRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPLFQ 1124 (1524)
T ss_dssp             -----------CCCCCSSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCBCCSCCCCCCCEEEESBC
T ss_pred             -----------ccccccccCCChHHhheecccccCCccccceeeccCCcceeeeeeecceeEEEeCCCCCCCCeEEEEee
Confidence                       3999999999999999999999999999999999999                   1            


Q ss_pred             --C------------------------------C----------------------------------------------
Q psy3022         131 --N------------------------------A----------------------------------------------  132 (258)
Q Consensus       131 --~------------------------------~----------------------------------------------  132 (258)
                        +                              .                                              
T Consensus      1125 ~g~~~~~~~~~~i~~l~~ri~gR~~~~di~~~~~~p~~~e~i~~~~~~I~~~~i~~~gi~~v~iRS~ltC~s~~gvc~~C 1204 (1524)
T 2a6h_D         1125 PDEVTRSLRLRKRADIEAGLYGRVLAREVEVLGVRLEEGRYLSMDDVHLLIKAAEAGEIQEVPVRSPLTCQTRYGVCQKC 1204 (1524)
T ss_dssp             SCSSSSCCCBCCHHHHHHHHTTCBBSSCEECSSCEECTTCBCCTTTTTHHHHHHHHTSCSEEEECCGGGCCCSSCBCHHH
T ss_pred             cCCccccchhHHHHHHHHHHhcccchhhhhhhccCCCcCcEEeCCCCeehHHHHHHcCCCcccccccccHHHHHHHHHHH
Confidence              1                              0                                              


Q ss_pred             ---------ccCCCchhhhhhhhccCChhhhhhhhccccCCcc-ccccccCccccchhhhhccCCCC
Q psy3022         133 ---------KCAPGEMVGALAAQSLGEPATQMTLNTFHFAGVS-SKNVTLGVPRLKEIINISKKPKA  189 (258)
Q Consensus       133 ---------~v~~Ge~VG~iaAqsigEp~TQ~tl~tFH~aG~~-~~~v~~g~~rl~eil~~~~~~~t  189 (258)
                               .|+|||+||++||||||||+|||||||||+||++ +.+||+|+||++|+++|++..++
T Consensus      1205 Ygr~La~~~~v~~GeaVGiiaAQSIGEPgTQlTlrTFH~gGv~~~~dIt~GlPRv~El~eARkpk~~ 1271 (1524)
T 2a6h_D         1205 YGYDLSMARPVSIGEAVGIVAAQSIGEPGTQLTMRTFHTGGVAGAADITQGLPRVIELFEARRPKAK 1271 (1524)
T ss_dssp             HCSCSSSSSSCCTTCCHHHHHHHHHHSGGGTCCCC-----------CCCCSHHHHHHHHTTCCCSSB
T ss_pred             hccccccCCccccccceeehhhhccCCCcccccceeeeeccccccccccccCcchhhheecccCCCc
Confidence                     2789999999999999999999999999999999 68999999999999999875543


No 6  
>4ayb_A DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_A 2y0s_A 2waq_A 4b1o_A 4b1p_W 2pmz_A 3hkz_A
Probab=100.00  E-value=1.1e-39  Score=335.93  Aligned_cols=130  Identities=45%  Similarity=0.742  Sum_probs=127.1

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCChhhHHhhcCCCcChhhHHHHHhhhcccccCCcccCCCCCCCCCCCC
Q psy3022           2 LALKQTFENQVNRILNDARDKTGGSAKKSLTEYNNLKAMVVAGSKGSNINISQVIACVGQQNVEGKRIPFGFRKRTLPHF   81 (258)
Q Consensus         2 ~~~~~~~E~~v~~~l~~~~~~~~~~~~~~~~~~N~l~~M~~SGsKGs~~nl~Q~~g~lGqQ~~~G~ri~~~~~~r~lp~f   81 (258)
                      ++.+|++|.++.++|++++++++++++++++++|++++|++||||||+.|++||+||+|||.++|+|||+||.+|+||||
T Consensus       690 ~~~~e~~e~~v~~~l~~~~~~~~~~~~~~l~~~N~i~mMa~SGARGS~~ni~Qlagm~Gqq~~~G~RIprg~~~rtLP~f  769 (880)
T 4ayb_A          690 RTLEESLENYILDTLDKLRSTAGDIASKYLDPFNFAYVMARTGARGSVLNITQMAAMLGQQSVRGERIKRGYMTRTLPHF  769 (880)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTSSCCSTTHHHHHTCCEECBSSSSBSCCSBTTBSSTTS
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHhhcCccCCHHHHHHHHhcccccccCCccCcCCCccCCCCCC
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCcccccccccCcCCCChhHHHHhhcccchhhhhhhhhccccCCC
Q psy3022          82 IKDDYGPESRGFVENSYLAGLTPSEFFFHAMGGREGLIDTAVKTAETACN  131 (258)
Q Consensus        82 ~~~~~~~~~~GfI~~sf~~GL~p~EfFfHa~~gRegliDtavkTa~sG~~  131 (258)
                      .+.+.+|+++|||.|||++||+|.|||||||||||||+|||||||+|||-
T Consensus       770 ~~~d~~p~a~GfI~ssF~eGLtp~EyF~ht~ggRkGL~DTAlKTA~SGYL  819 (880)
T 4ayb_A          770 KPYDISPEARGFIYSSFRTGLKPTELFFHAAGGREGLVDTAVRTSQSGYM  819 (880)
T ss_dssp             CTTCCSTTTTSEECSCTTTCCCHHHHHHHHHHHHHHHHHHHHTHHHHHHH
T ss_pred             CCCCCCcccCCeEhhcccCCCCHHHHHHhhhhhhhhHHhcchhhchhhHH
Confidence            99999999999999999999999999999999999999999999999953


No 7  
>4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C 4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C
Probab=99.96  E-value=4.9e-31  Score=249.46  Aligned_cols=109  Identities=45%  Similarity=0.670  Sum_probs=87.7

Q ss_pred             ccCCCchhhhhhhhccCChhhhhhhhccccCCccccccccCccccchhhhhccCCCCCeEEEEecCcchhcHHHHHHHhc
Q psy3022         133 KCAPGEMVGALAAQSLGEPATQMTLNTFHFAGVSSKNVTLGVPRLKEIINISKKPKAPSLTVFLTGQAARDAEKAKNVLC  212 (258)
Q Consensus       133 ~v~~Ge~VG~iaAqsigEp~TQ~tl~tFH~aG~~~~~v~~g~~rl~eil~~~~~~~t~~~~v~L~~~~~~~~~~a~~v~~  212 (258)
                      .|+||||||+|||||||||+|||||||||+||+++.|+|+|+||++||+++++++++|.++++|.++...+.++++.+..
T Consensus        63 lv~pGEAVGiIAAQSIGEPgTQlTLrTFH~gGva~~nvT~GlPRl~Ei~~a~k~~~tp~~~i~l~~~~~~~~e~~~~~~~  142 (395)
T 4ayb_C           63 LIAPGEAIGIVAAQSVGEPGTQMTLRTFHFAGIRELNVTLGLPRLIEIVDAKKVPSTPMMTIYLTDEYKHDKEKALEVAR  142 (395)
T ss_dssp             BCCTTCCHHHHHHHHHHHHHHTCC-------------CCCSHHHHHHHHTCCSSCSSCEEEECCTTTGGGCHHHHHHHHH
T ss_pred             cCCCCchHhHHHHhhcCCchhhhccccceeeeecceeeecCccceEEecccccCCCCCceEEEecccccccHHHHHhhcc
Confidence            58999999999999999999999999999999999999999999999999999999999999999998889999999999


Q ss_pred             cccceeccceeE-EEEcCCCceeEEEeccc
Q psy3022         213 RLEHTTLRKVLY-IILRPATHYQVELISGA  241 (258)
Q Consensus       213 ~L~~~~l~~v~~-I~ydp~~~~~i~~~~G~  241 (258)
                      ++++++++++.. ..+++.....+...+..
T Consensus       143 ~ie~~~~~~~~~~~~i~~~~~~~~~~~d~~  172 (395)
T 4ayb_C          143 KLEYTKIENVVSSTSIDIASMSIILQLDNE  172 (395)
T ss_dssp             HHHCCCHHHHEEEEEEETTTTEEEEEECGG
T ss_pred             ceeEEEccceeeeeEEeecccceeeehhhh
Confidence            999999999888 77777777666665543


No 8  
>2auk_A DNA-directed RNA polymerase beta' chain; sandwich-barrel hybrid motif, transferase; 2.30A {Escherichia coli}
Probab=95.37  E-value=0.0011  Score=56.97  Aligned_cols=78  Identities=17%  Similarity=0.132  Sum_probs=56.1

Q ss_pred             ccCccccchhhhhccCCC-----CCeEEEEecCcchhcHHHHHHHh-ccccceeccceeE----EEEcCCCceeEEEecc
Q psy3022         171 TLGVPRLKEIINISKKPK-----APSLTVFLTGQAARDAEKAKNVL-CRLEHTTLRKVLY----IILRPATHYQVELISG  240 (258)
Q Consensus       171 ~~g~~rl~eil~~~~~~~-----t~~~~v~L~~~~~~~~~~a~~v~-~~L~~~~l~~v~~----I~ydp~~~~~i~~~~G  240 (258)
                      ..|..++.++....+..+     ++...+.+.+..++..++++.++ +.|..-+.+.|.+    ++|||++.|+++++.|
T Consensus        15 ~~G~V~f~nl~~v~~~~G~~vv~~r~g~i~I~d~~g~e~~~~~ipyGa~L~V~dG~~V~~G~~laewDp~t~pIisE~~G   94 (190)
T 2auk_A           15 NKGSIKLSNVKSVVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANWDPHTMPVITEVSG   94 (190)
T ss_dssp             SSEEEEEESCCEEECTTSCEEECCSSCEEEEECTTSCEEEEEECCTTCEESSCTTCEECTTCEEEECCSSEEEEECSSCE
T ss_pred             cCeEEEEcccEEEECCCCCEEEEccccEEEEEcCCCcEEEEEEcCCCCEEEecCCCEEcCCCEEEEEcCcCCcEEecccc
Confidence            457777766543332222     35566677665455556677777 7787778888876    8999999999999999


Q ss_pred             ceeeeeee
Q psy3022         241 ARRVASLR  248 (258)
Q Consensus       241 ~~~~~~~~  248 (258)
                      .++|+-+-
T Consensus        95 ~V~f~dii  102 (190)
T 2auk_A           95 FVRFTDMI  102 (190)
T ss_dssp             EEEEESCC
T ss_pred             EEEEEecc
Confidence            99998763


No 9  
>1gvn_A Epsilon; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: a.8.2.1 PDB: 3q8x_A*
Probab=18.39  E-value=2.2e+02  Score=21.30  Aligned_cols=34  Identities=15%  Similarity=0.217  Sum_probs=25.4

Q ss_pred             CChHHHHHHHHHHHHHH-HHHHHHHHHHhh-cCCCC
Q psy3022           2 LALKQTFENQVNRILND-ARDKTGGSAKKS-LTEYN   35 (258)
Q Consensus         2 ~~~~~~~E~~v~~~l~~-~~~~~~~~~~~~-~~~~N   35 (258)
                      ++.++|||.+|.+.++. +-+++-+.++++ +++.|
T Consensus         3 ldYekTfkiEilnEfs~~vy~rvln~Vlnheldk~d   38 (90)
T 1gvn_A            3 VTYEKTFEIEIINELSASVYNRVLNYVLNHELNKND   38 (90)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCTTC
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccch
Confidence            68899999998887754 567777877776 45443


No 10 
>2xha_A NUSG, transcription antitermination protein NUSG; 1.91A {Thermotoga maritima}
Probab=17.04  E-value=11  Score=32.33  Aligned_cols=37  Identities=14%  Similarity=-0.090  Sum_probs=28.1

Q ss_pred             hhcHHHHHHHh-ccccceeccceeE----EEEcCCCceeEEEeccce
Q psy3022         201 ARDAEKAKNVL-CRLEHTTLRKVLY----IILRPATHYQVELISGAR  242 (258)
Q Consensus       201 ~~~~~~a~~v~-~~L~~~~l~~v~~----I~ydp~~~~~i~~~~G~~  242 (258)
                      ++. ++++..+ ++|..-+.+.|..    ++||    |++++.+|.+
T Consensus        10 gre-er~~IpyGA~L~V~dG~~VkkG~~laeWD----PIitE~~G~V   51 (193)
T 2xha_A           10 SPS-ERLILSPKAKLHVNNGKDVNKGDLIAEEP----PIYARRSGVI   51 (193)
T ss_dssp             CCS-EEEEECTTCEESCCTTCEECTTCEEEEEC----CEECSSCEEE
T ss_pred             CCE-EEEECCCCCEEEECCCCEEcCCCEEEEeC----cEEEccCEEE
Confidence            344 5555566 7787778888876    8899    8999999988


Done!