Query         003548
Match_columns 811
No_of_seqs    1390 out of 3086
Neff          10.7
Searched_HMMs 29240
Date          Tue Mar 26 18:26:49 2013
Command       hhsearch -i /local_scratch/syshi/lefta3m/003548.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1595-1599//hhsearch_pdb/003548hhsearch_pdb 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2xpi_A Anaphase-promoting comp   1.0       1       1  313.3  37.2  367   33-421    83-468 (597)
  2 1w3b_A UDP-N-acetylglucosamine   1.0       1       1  311.1  41.8  369   38-426     3-371 (388)
  3 2xpi_A Anaphase-promoting comp   1.0       1       1  306.7  32.3  489   66-794    82-596 (597)
  4 1w3b_A UDP-N-acetylglucosamine   1.0       1       1  300.6  39.1  353   36-408    35-387 (388)
  5 2gw1_A Mitochondrial precursor   1.0       1       1  284.5  34.3  375   32-424     4-402 (514)
  6 3fp2_A TPR repeat-containing p   1.0       1       1  277.7  33.1  367   33-424    24-408 (537)
  7 2y4t_A DNAJ homolog subfamily    1.0       1       1  268.9  41.1  330   27-363    19-378 (450)
  8 2y4t_A DNAJ homolog subfamily    1.0       1       1  264.7  35.4  339   48-406     6-375 (450)
  9 3fp2_A TPR repeat-containing p   1.0       1       1  263.1  36.6  335   67-423    24-373 (537)
 10 2gw1_A Mitochondrial precursor   1.0       1       1  261.3  32.0  333   67-421     5-365 (514)

No 1  
>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}
Probab=1.00  E-value=1  Score=313.30  Aligned_cols=367  Identities=12%  Similarity=0.024  Sum_probs=166.7

Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             89999999999998299999999999999619998589999999999859939999999998710999989999999999
Q 003548           33 GVTKMLGEASLQYAYGNFEQAISLLKEVVRLSPNLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFA  112 (811)
Q Consensus        33 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~  112 (811)
                      .+..+...+..+...|++++|+..+++++...|+ ...+..+|.++...|++++|+..+.+++.. |.++.++..++.++
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~  160 (597)
T 2xpi_A           83 REDYLRLWRHDALMQQQYKCAAFVGEKVLDITGN-PNDAFWLAQVYCCTGDYARAKCLLTKEDLY-NRSSACRYLAAFCL  160 (597)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHTTCHHHHHHHHHHTCGG-GTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHCCCHHHHHHHHHHHHCC-CCCHHHHHHHHHHH
T ss_conf             9999999999998745834799999999960899-357999999999747699999999987335-45650899999999


Q ss_pred             HHCCCHHHHHHHHHHHHHCC----------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             96499899999999999719----------------99988999999999981999999999999998599988999999
Q 003548          113 VQKGDTAQAMYYIRQAIRAE----------------PKDISLRIHLASFYVEIGDYEKAAESYEQIQKLFPDNVDATKTG  176 (811)
Q Consensus       113 ~~~g~~~~A~~~~~~al~~~----------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l  176 (811)
                      ...|++++|+..|++.....                |.+..++..++.+|...|++++|+..|+++++..|.+..++..+
T Consensus       161 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  240 (597)
T 2xpi_A          161 VKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQL  240 (597)
T ss_dssp             HHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHH
T ss_conf             98866999999984248863223234334321123512589999988999983998999999999997293256999999


Q ss_pred             HHHHHHCCCHHHHHHH---HHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             9999982997899999---9999861999999899999999999714599999999999997405998758999999999
Q 003548          177 AQLFLKCGQTARSIGI---LEEYLKVHPSDADLSVIDLLVAILMENNAYEKTLQHIEHAQIVRFSGKELPLKLKVKAGIC  253 (811)
Q Consensus       177 a~~~~~~g~~~~A~~~---~~~~~~~~p~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  253 (811)
                      +.++...+....+...   +......++... ...+..++..+...|++++|+..+++++..     +.+..++..++.+
T Consensus       241 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~l~~~  314 (597)
T 2xpi_A          241 VSNHLLTADEEWDLVLKLNYSTYSKEDAAFL-RSLYMLKLNKTSHEDELRRAEDYLSSINGL-----EKSSDLLLCKADT  314 (597)
T ss_dssp             HHTTCSCHHHHHHHHHHSCTHHHHGGGHHHH-HHHHHTTSCTTTTHHHHHHHHHHHHTSTTG-----GGCHHHHHHHHHH
T ss_pred             HHHHCCCCHHHHHHHHHCCCCCCCCCHHHHH-HHHHHHHHHHHCCCCHHHHHHHHHHHHHCC-----CCHHHHHHHHHHH
T ss_conf             9850346156789998657742344308899-999999999980731399999999876438-----8309999999999


Q ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCHHHH
Q ss_conf             99829989999999983200631188899999999997699399999999976126999889999999999980069999
Q 003548          254 YLRLGNMEKAEILFADLQWKNAIDHADLITEVADTLMSLGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSLKERAHA  333 (811)
Q Consensus       254 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  333 (811)
                      +...|++++|+..|++++...|. +...+..++.++...|++++|+..+++++.. .|.+..++..+|.+|...|++++|
T Consensus       315 ~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A  392 (597)
T 2xpi_A          315 LFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNKISEA  392 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHCCHHHH
T ss_conf             99846899999999999972955-3799999999999827777999999999851-835479999999999983569999


Q ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             99999999862789999999999999819998898613999877865578788981344489999998999846994568
Q 003548          334 IMFFYKALDRFEDNIDARLTLASLLLEEAKEEEAITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAKGMPEDF  413 (811)
Q Consensus       334 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  413 (811)
                      +..|+++++..|.+..++..++.++...|++++|++.|++++...|.+..            ++..++.+|...|++++|
T Consensus       393 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~------------~~~~l~~~~~~~g~~~~A  460 (597)
T 2xpi_A          393 RRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHL------------PYLFLGMQHMQLGNILLA  460 (597)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSH------------HHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH------------HHHHHHHHHHHCCCHHHH
T ss_conf             99999998729777899999999999757779999999999986813438------------999999999985799999


Q ss_pred             HHHHHHHH
Q ss_conf             87446765
Q 003548          414 VDAIFPLV  421 (811)
Q Consensus       414 ~~~~~~~l  421 (811)
                      .+.+..++
T Consensus       461 ~~~~~~~~  468 (597)
T 2xpi_A          461 NEYLQSSY  468 (597)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
T ss_conf             99999999


No 2  
>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1
Probab=1.00  E-value=1  Score=311.11  Aligned_cols=369  Identities=18%  Similarity=0.144  Sum_probs=353.2

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf             99999999829999999999999961999858999999999985993999999999871099998999999999996499
Q 003548           38 LGEASLQYAYGNFEQAISLLKEVVRLSPNLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFAVQKGD  117 (811)
Q Consensus        38 ~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~~~~g~  117 (811)
                      +..|..++..|++++|+..+.++++.+|+++.++..+|.++...|++++|...+++++..+|.++.+|..+|.++...|+
T Consensus         3 ~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            3 MELAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             CTHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCC
T ss_conf             55799998779999999999999984978899999999999986899999999999976197866999999999987799


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf             89999999999971999988999999999981999999999999998599988999999999998299789999999998
Q 003548          118 TAQAMYYIRQAIRAEPKDISLRIHLASFYVEIGDYEKAAESYEQIQKLFPDNVDATKTGAQLFLKCGQTARSIGILEEYL  197 (811)
Q Consensus       118 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  197 (811)
                      +++|+..|++++..+|++..++..+|.++...|++++|+..|++++...|+...++..+|.++...|++++|+..+++++
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf             99999999999874965399999999999985899999999999997598968999999999998468999999999998


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCC
Q ss_conf             61999999899999999999714599999999999997405998758999999999998299899999999832006311
Q 003548          198 KVHPSDADLSVIDLLVAILMENNAYEKTLQHIEHAQIVRFSGKELPLKLKVKAGICYLRLGNMEKAEILFADLQWKNAID  277 (811)
Q Consensus       198 ~~~p~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~  277 (811)
                      ...|.+..  ++..+|.++...|++++|+..+++++..    .|.....+..+|.++...|++++|+..+++++...| +
T Consensus       163 ~~~p~~~~--~~~~l~~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~  235 (388)
T 1w3b_A          163 ETQPNFAV--AWSNLGCVFNAQGEIWLAIHHFEKAVTL----DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-N  235 (388)
T ss_dssp             HHCTTCHH--HHHHHHHHHHTTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-T
T ss_pred             HHCCCCHH--HHHHHHHHHHHCCCHHHHHHHHHHHHHC----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-C
T ss_conf             72989789--9999999999859999999999999855----988679999999999985789999999999985296-8


Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             88899999999997699399999999976126999889999999999980069999999999998627899999999999
Q 003548          278 HADLITEVADTLMSLGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSLKERAHAIMFFYKALDRFEDNIDARLTLASL  357 (811)
Q Consensus       278 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~  357 (811)
                      ++.++..+|.++...|++++|+..+++++.. .|..+.++..+|.++...|++++|+..|+++++..|.++.++..++.+
T Consensus       236 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  314 (388)
T 1w3b_A          236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIEL-QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANI  314 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             7899999999999868899999999999864-999889999999999986997999999999986494449999999999


Q ss_pred             HHHCCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf             998199988986139998778655787889813444899999989998469945688744676565665
Q 003548          358 LLEEAKEEEAITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAKGMPEDFVDAIFPLVCESLC  426 (811)
Q Consensus       358 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  426 (811)
                      +...|++++|+..++++++..|.+.            .++..+|.++...|++++|+..++++++..+.
T Consensus       315 ~~~~g~~~~A~~~~~~al~~~p~~~------------~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~  371 (388)
T 1w3b_A          315 KREQGNIEEAVRLYRKALEVFPEFA------------AAHSNLASVLQQQGKLQEALMHYKEAIRISPT  371 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTTSCTTCH------------HHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT
T ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCH------------HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC
T ss_conf             9984899999999999986098739------------99977999999868889999999999861999


No 3  
>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}
Probab=1.00  E-value=1  Score=306.68  Aligned_cols=489  Identities=16%  Similarity=0.044  Sum_probs=333.8

Q ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             98589999999999859939999999998710999989999999999964998999999999997199998899999999
Q 003548           66 NLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFAVQKGDTAQAMYYIRQAIRAEPKDISLRIHLASF  145 (811)
Q Consensus        66 ~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~  145 (811)
                      .+...+..++..+...|++++|+..|.+++...|+ ...+..++.++...|++++|+..+++++.. |.++.++..++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDITGN-PNDAFWLAQVYCCTGDYARAKCLLTKEDLY-NRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHTTCHHHHHHHHHHTCGG-GTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHCCCHHHHHHHHHHHHCC-CCCHHHHHHHHHH
T ss_conf             89999999999998745834799999999960899-357999999999747699999999987335-4565089999999


Q ss_pred             HHHCCCHHHHHHHHHHHHHHC----------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             998199999999999999859----------------9988999999999998299789999999998619999998999
Q 003548          146 YVEIGDYEKAAESYEQIQKLF----------------PDNVDATKTGAQLFLKCGQTARSIGILEEYLKVHPSDADLSVI  209 (811)
Q Consensus       146 ~~~~g~~~~A~~~~~~~l~~~----------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  209 (811)
                      |...|++++|+..|++.....                +.+..++..++.+|...|++++|+..|+++++.+|.+..  ++
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~--~~  237 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYE--AF  237 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH--HH
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCHHHH--HH
T ss_conf             9988669999999842488632232343343211235125899999889999839989999999999972932569--99


Q ss_pred             HHHHHHHHHCCCHHHHHHH---HHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             9999999971459999999---9999997405998758999999999998299899999999832006311888999999
Q 003548          210 DLLVAILMENNAYEKTLQH---IEHAQIVRFSGKELPLKLKVKAGICYLRLGNMEKAEILFADLQWKNAIDHADLITEVA  286 (811)
Q Consensus       210 ~~la~~~~~~g~~~~A~~~---~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la  286 (811)
                      ..++.++...+....+...   +......   +......++..++..+...|++++|...|+++... + .+...+..++
T Consensus       238 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~~~l~  312 (597)
T 2xpi_A          238 DQLVSNHLLTADEEWDLVLKLNYSTYSKE---DAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL-E-KSSDLLLCKA  312 (597)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHSCTHHHHGG---GHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG-G-GCHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHHHCCCCCCCCC---HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCC-C-CHHHHHHHHH
T ss_conf             99998503461567899986577423443---08899999999999980731399999999876438-8-3099999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHH
Q ss_conf             99997699399999999976126999889999999999980069999999999998627899999999999998199988
Q 003548          287 DTLMSLGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSLKERAHAIMFFYKALDRFEDNIDARLTLASLLLEEAKEEE  366 (811)
Q Consensus       287 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~  366 (811)
                      ..+...|++++|+..|++++.. .|.+..++..++.++...|++++|...+++++...|++..++..++.+|...|++++
T Consensus       313 ~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  391 (597)
T 2xpi_A          313 DTLFVRSRFIDVLAITTKILEI-DPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISE  391 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-CTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHH
T ss_conf             9999846899999999999972-955379999999999982777799999999985183547999999999998356999


Q ss_pred             HHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             98613999877865578788981344489999998999846994568874467656566589988777754210044789
Q 003548          367 AITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAKGMPEDFVDAIFPLVCESLCVEALRQKVKVKRRLTKGILQ  446 (811)
Q Consensus       367 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  446 (811)
                      |.+.|++++...|.+.            .++..++.+|...|++++|++.+.++++..+                     
T Consensus       392 A~~~~~~~~~~~~~~~------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---------------------  438 (597)
T 2xpi_A          392 ARRYFSKSSTMDPQFG------------PAWIGFAHSFAIEGEHDQAISAYTTAARLFQ---------------------  438 (597)
T ss_dssp             HHHHHHHHHHHCTTCH------------HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT---------------------
T ss_pred             HHHHHHHHHHHCCCCH------------HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC---------------------
T ss_conf             9999999987297778------------9999999999975777999999999998681---------------------


Q ss_pred             HHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCC
Q ss_conf             99866307998742137888887058999999989998889889999999874066568899970564310279988877
Q 003548          447 QRTKIYNNLPTDSILCGIRPAAPKSELLVAARARKKIQKKEALKEEKKALAKAAGVEWHSDDTDDESQQEAFREPPLPNL  526 (811)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  526 (811)
                                                                                                      
T Consensus       439 --------------------------------------------------------------------------------  438 (597)
T 2xpi_A          439 --------------------------------------------------------------------------------  438 (597)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCC
Q ss_conf             78503579999999999962109999999999997421268966899999974355102567620689999999868897
Q 003548          527 LKNEENQCLIIDLCKALASLQRYEEASEIINLSMRLAYNILPLEKKEELRSLGAKMAYDSTDPNHGFDCAKYILQLHPYS  606 (811)
Q Consensus       527 l~~~~~~~~~~~~~~~l~~~~~~~eA~~~l~~al~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~r~~~~~~p~~  606 (811)
                          ++...+..++.++...|++++|.++++.++                                        ...|.+
T Consensus       439 ----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------------------------------------~~~~~~  474 (597)
T 2xpi_A          439 ----GTHLPYLFLGMQHMQLGNILLANEYLQSSY----------------------------------------ALFQYD  474 (597)
T ss_dssp             ----TCSHHHHHHHHHHHHHTCHHHHHHHHHHHH----------------------------------------HHCCCC
T ss_pred             ----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH----------------------------------------HHCCCC
T ss_conf             ----343899999999998579999999999999----------------------------------------848887


Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCHHHHCCHHHCCCCHHHHHHHHHHHHHH------CCCC-H
Q ss_conf             56779999999830365656512359999999756999974232020110005569999999999962------9998-4
Q 003548          607 LSAWNCYYKVLSRMGKINSKHSKHSKFIRYLRAKYKDCVPPIIISGHQFTMASHHQDAARCYLEAYKL------LPEN-P  679 (811)
Q Consensus       607 ~~~~~~~~~~~~~~~~~~~~~~~~~k~~~r~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~y~~a~~~------~p~~-p  679 (811)
                      +..|+.+                                      |.++...|.+..|+..|.++.+.      +|++ +
T Consensus       475 ~~~~~~l--------------------------------------~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~  516 (597)
T 2xpi_A          475 PLLLNEL--------------------------------------GVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWA  516 (597)
T ss_dssp             HHHHHHH--------------------------------------HHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGH
T ss_pred             HHHHHHH--------------------------------------HHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf             6799999--------------------------------------99999818999999999999985323454535499


Q ss_pred             HHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHCCHHCCCCC
Q ss_conf             88999999999998185666057899999999998582158981456759999897363689999999997031026999
Q 003548          680 LINLCVGSALINLALGFRLQNKHQCLAQGFAFLYNNLRLCEHSQEALYNIARACHHVGLVSLAASYYEKVLAIKEKDYPI  759 (811)
Q Consensus       680 ~~~l~la~a~~~~~~~r~~~~r~~~~~qa~~~l~~y~~~~~~~~e~~yn~gr~~~~~g~~~~Av~~Y~~~L~~~~~~~~~  759 (811)
                      .+..++|.++...          +...+|+..+.+..++.|.+.++++++|.+|...|.+..|+.+|++++++.|++   
T Consensus       517 ~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~---  583 (597)
T 2xpi_A          517 ATWANLGHAYRKL----------KMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNE---  583 (597)
T ss_dssp             HHHHHHHHHHHHT----------TCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---
T ss_pred             HHHHHHHHHHHHH----------CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCC---
T ss_conf             9999999999980----------479999999999997389973899999999998178999999999997208887---


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             98999998632478988777307799999999982
Q 003548          760 PKHNDKRPDLMESGESGYCDLQREAAYNLHLIYKN  794 (811)
Q Consensus       760 ~~~~~~~~~~~~~~~~~~~~l~~eaa~Nl~~iy~~  794 (811)
                                            .++.++|+.+|..
T Consensus       584 ----------------------~~~~~~l~~~~~~  596 (597)
T 2xpi_A          584 ----------------------IMASDLLKRALEE  596 (597)
T ss_dssp             ----------------------HHHHHHHHHTTC-
T ss_pred             ----------------------HHHHHHHHHHHHC
T ss_conf             ----------------------4899999998743


No 4  
>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1
Probab=1.00  E-value=1  Score=300.58  Aligned_cols=353  Identities=18%  Similarity=0.181  Sum_probs=174.2

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHC
Q ss_conf             99999999998299999999999999619998589999999999859939999999998710999989999999999964
Q 003548           36 KMLGEASLQYAYGNFEQAISLLKEVVRLSPNLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFAVQK  115 (811)
Q Consensus        36 ~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~~~~  115 (811)
                      .++..+..++..|++++|...++.++..+|.++.++..+|.++...|++++|+..|++++..+|++..++..+|.++...
T Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  114 (388)
T 1w3b_A           35 VLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAA  114 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHC
T ss_conf             99999999998689999999999997619786699999999998779999999999999874965399999999999985


Q ss_pred             CCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             99899999999999719999889999999999819999999999999985999889999999999982997899999999
Q 003548          116 GDTAQAMYYIRQAIRAEPKDISLRIHLASFYVEIGDYEKAAESYEQIQKLFPDNVDATKTGAQLFLKCGQTARSIGILEE  195 (811)
Q Consensus       116 g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~  195 (811)
                      |++++|+..+++++..+|+...++..+|.++...|++++|+..|++++...|.+..++..+|.++...|++++|+..+++
T Consensus       115 g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  194 (388)
T 1w3b_A          115 GDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEK  194 (388)
T ss_dssp             SCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             89999999999999759896899999999999846899999999999872989789999999999985999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             98619999998999999999997145999999999999974059987589999999999982998999999998320063
Q 003548          196 YLKVHPSDADLSVIDLLVAILMENNAYEKTLQHIEHAQIVRFSGKELPLKLKVKAGICYLRLGNMEKAEILFADLQWKNA  275 (811)
Q Consensus       196 ~~~~~p~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~  275 (811)
                      +++.+|+...  ++..+|.++...|++++|+..+.+++..    .|....++..+|.++...|++++|+..+++++...|
T Consensus       195 al~~~p~~~~--~~~~lg~~~~~~~~~~~A~~~~~~al~~----~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  268 (388)
T 1w3b_A          195 AVTLDPNFLD--AYINLGNVLKEARIFDRAVAAYLRALSL----SPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP  268 (388)
T ss_dssp             HHHHCTTCHH--HHHHHHHHHHTTTCTTHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS
T ss_pred             HHHCCCCCHH--HHHHHHHHHHHCCCHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC
T ss_conf             9855988679--9999999999857899999999999852----968789999999999986889999999999986499


Q ss_pred             CCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             11888999999999976993999999999761269998899999999999800699999999999986278999999999
Q 003548          276 IDHADLITEVADTLMSLGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSLKERAHAIMFFYKALDRFEDNIDARLTLA  355 (811)
Q Consensus       276 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la  355 (811)
                      . .+..+..+|.++...|++++|+..+++++.. .|.++.++..+|.++...|++++|+..++++++..|++..++..++
T Consensus       269 ~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  346 (388)
T 1w3b_A          269 H-FPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLA  346 (388)
T ss_dssp             S-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             9-8899999999999869979999999999864-9444999999999999848999999999999860987399997799


Q ss_pred             HHHHHCCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99998199988986139998778655787889813444899999989998469
Q 003548          356 SLLLEEAKEEEAITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAKG  408 (811)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  408 (811)
                      .++...|++++|+..+++++...|....            +++.+|.++..+|
T Consensus       347 ~~~~~~g~~~~A~~~~~~a~~~~p~~~~------------a~~~lg~~~~~~~  387 (388)
T 1w3b_A          347 SVLQQQGKLQEALMHYKEAIRISPTFAD------------AYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHTTCTTCHH------------HHHHHHHHHHHTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCCHH------------HHHHHHHHHHHCC
T ss_conf             9999868889999999999861999789------------9985999998745


No 5  
>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=284.49  Aligned_cols=375  Identities=14%  Similarity=0.047  Sum_probs=255.3

Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             98999999999999829999999999999961999858999999999985993999999999871099998999999999
Q 003548           32 PGVTKMLGEASLQYAYGNFEQAISLLKEVVRLSPNLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTF  111 (811)
Q Consensus        32 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~  111 (811)
                      ..+..++..|..++..|++++|+..|++++..+| ++.++..+|.++...|++++|+..+++++..+|++..++..+|.+
T Consensus         4 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~   82 (514)
T 2gw1_A            4 KYALALKDKGNQFFRNKKYDDAIKYYNWALELKE-DPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             4579999987899986027899999999985592-278998688999988549999999987760693789999988899


Q ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHH---HHHHHHCCCCHHHHHHHHHH--HHHCCCH
Q ss_conf             996499899999999999719999889999999999819999999999---99998599988999999999--9982997
Q 003548          112 AVQKGDTAQAMYYIRQAIRAEPKDISLRIHLASFYVEIGDYEKAAESY---EQIQKLFPDNVDATKTGAQL--FLKCGQT  186 (811)
Q Consensus       112 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~---~~~l~~~p~~~~~~~~la~~--~~~~g~~  186 (811)
                      +...|++++|+..|++++...|.+...................+...+   +.+... |.........+..  .......
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATAT-PTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC----------------------------CCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCHHHHHHHHCCCCCHH
T ss_conf             998766888999999999559875113789999999999999999999989999876-6512677246788634478615


Q ss_pred             HHHHHHHHHHHHHCCC------CCCHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHHH-------CCC---CCCHHHHH
Q ss_conf             8999999999861999------9998999999999997---145999999999999974-------059---98758999
Q 003548          187 ARSIGILEEYLKVHPS------DADLSVIDLLVAILME---NNAYEKTLQHIEHAQIVR-------FSG---KELPLKLK  247 (811)
Q Consensus       187 ~~A~~~~~~~~~~~p~------~~~~~~~~~la~~~~~---~g~~~~A~~~~~~a~~~~-------~~~---~~~~~~~~  247 (811)
                      ... ..+.......+.      ......+..++..+..   .|++++|+..+++++..+       +.+   .+....++
T Consensus       162 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          162 TSM-ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHH-HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             HHH-HHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHH
T ss_conf             899-9998625878888872599588899998999987623322999999999999886654223810011482789999


Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             99999999829989999999983200631188899999999997699399999999976126999889999999999980
Q 003548          248 VKAGICYLRLGNMEKAEILFADLQWKNAIDHADLITEVADTLMSLGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSL  327 (811)
Q Consensus       248 ~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~  327 (811)
                      ..+|.++...|++++|+..+++++...|.  ...+..+|.++...|++++|+..+++++.. .|.++.++..+|.++...
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~  317 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKL-DSNNSSVYYHRGQMNFIL  317 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTT-CTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHH
T ss_conf             99999999878999999999999863864--899999999999888899999999998613-867789999999999980


Q ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             06999999999999862789999999999999819998898613999877865578788981344489999998999846
Q 003548          328 KERAHAIMFFYKALDRFEDNIDARLTLASLLLEEAKEEEAITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAK  407 (811)
Q Consensus       328 g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  407 (811)
                      |++++|+..+++++...|.+..++..++.++...|++++|+..+++++...|.+..            ++..+|.++...
T Consensus       318 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~------------~~~~la~~~~~~  385 (514)
T 2gw1_A          318 QNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPE------------VPNFFAEILTDK  385 (514)
T ss_dssp             TCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSH------------HHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH------------HHHHHHHHHHHC
T ss_conf             77999999999998738502899999999999868999999999999987546778------------999999999878


Q ss_pred             CCCHHHHHHHHHHHHHH
Q ss_conf             99456887446765656
Q 003548          408 GMPEDFVDAIFPLVCES  424 (811)
Q Consensus       408 g~~~~A~~~~~~~l~~~  424 (811)
                      |++++|+..+..+++..
T Consensus       386 ~~~~~A~~~~~~a~~~~  402 (514)
T 2gw1_A          386 NDFDKALKQYDLAIELE  402 (514)
T ss_dssp             TCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHH
T ss_conf             89999999999999761


No 6  
>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A
Probab=1.00  E-value=1  Score=277.65  Aligned_cols=367  Identities=15%  Similarity=0.119  Sum_probs=298.9

Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             89999999999998299999999999999619998589999999999859939999999998710999989999999999
Q 003548           33 GVTKMLGEASLQYAYGNFEQAISLLKEVVRLSPNLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFA  112 (811)
Q Consensus        33 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~  112 (811)
                      .+..++..|..++..|++++|+..|++++..+|+++.++..+|.++...|++++|+..+++++..+|++..++..+|.++
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~  103 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             89999999999998642999999999998638998489999999999868999999999999860986289999999999


Q ss_pred             HHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH---HHHHHHHHHHHCCCHHHH
Q ss_conf             96499899999999999719999889999999999819999999999999985999889---999999999982997899
Q 003548          113 VQKGDTAQAMYYIRQAIRAEPKDISLRIHLASFYVEIGDYEKAAESYEQIQKLFPDNVD---ATKTGAQLFLKCGQTARS  189 (811)
Q Consensus       113 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~---~~~~la~~~~~~g~~~~A  189 (811)
                      ...|++++|+..++ ++...|+....+   ...+...+...+|+..+++++...|....   ........+....+...+
T Consensus       104 ~~~g~~~~A~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (537)
T 3fp2_A          104 ESLGNFTDAMFDLS-VLSLNGDFDGAS---IEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLE  179 (537)
T ss_dssp             HHHTCHHHHHHHHH-HHC--------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHH
T ss_pred             HHCCCHHHHHHHHH-HHHCCCCCCHHH---HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCHHHH
T ss_conf             98389999999999-986487878588---99999877898899999999974745454345067579999974474999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHH--------HHHCCCHHHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHH
Q ss_conf             99999998619999998999999999--------9971459999999999999740599875-------89999999999
Q 003548          190 IGILEEYLKVHPSDADLSVIDLLVAI--------LMENNAYEKTLQHIEHAQIVRFSGKELP-------LKLKVKAGICY  254 (811)
Q Consensus       190 ~~~~~~~~~~~p~~~~~~~~~~la~~--------~~~~g~~~~A~~~~~~a~~~~~~~~~~~-------~~~~~~la~~~  254 (811)
                      ...+.+.....+...  .....++.+        ....+++++|+..+++++..    .|..       ..++..+|.++
T Consensus       180 ~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~----~p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          180 VSSVNTSSNYDTAYA--LLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA----NTVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             HHTSCCCCSSCSSHH--HHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCCHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----CCCCCHHHHHHHHHHHHHHHHH
T ss_conf             998763256461789--9999998788764020688887999999999999987----8774044599999999999998


Q ss_pred             HHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             98299899999999832006311888999999999976993999999999761269998899999999999800699999
Q 003548          255 LRLGNMEKAEILFADLQWKNAIDHADLITEVADTLMSLGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSLKERAHAI  334 (811)
Q Consensus       255 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  334 (811)
                      ...|++++|+..+++++...|.  ...+..+|.++...|++++|+..+++++.. .|.++.++..+|.++...|++++|+
T Consensus       254 ~~~~~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~  330 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINLHPT--PNSYIFLALTLADKENSQEFFKFFQKAVDL-NPEYPPTYYHRGQMYFILQDYKNAK  330 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCC--HHHHHHHHHHTCCSSCCHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHCCCC--CHHHHHHHHHHHHHCCHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHCCCHHHHH
T ss_conf             7545578999999999866987--469999999999803799999999997545-9998799999999998668999999


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHH
Q ss_conf             99999998627899999999999998199988986139998778655787889813444899999989998469945688
Q 003548          335 MFFYKALDRFEDNIDARLTLASLLLEEAKEEEAITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAKGMPEDFV  414 (811)
Q Consensus       335 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  414 (811)
                      ..+++++...|++..++..+|.++...|++++|+..+++++...|.+..            ++..+|.++...|++++|+
T Consensus       331 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~------------~~~~l~~~~~~~g~~~~A~  398 (537)
T 3fp2_A          331 EDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPE------------VPTFFAEILTDRGDFDTAI  398 (537)
T ss_dssp             HHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTH------------HHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH------------HHHHHHHHHHHHCCHHHHH
T ss_conf             9999999859997799999999999847799999999999873999859------------9999999998837889999


Q ss_pred             HHHHHHHHHH
Q ss_conf             7446765656
Q 003548          415 DAIFPLVCES  424 (811)
Q Consensus       415 ~~~~~~l~~~  424 (811)
                      ..+..+++..
T Consensus       399 ~~~~~a~~~~  408 (537)
T 3fp2_A          399 KQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHCC
T ss_conf             9999998709


No 7  
>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A
Probab=1.00  E-value=1  Score=268.90  Aligned_cols=330  Identities=16%  Similarity=0.119  Sum_probs=265.2

Q ss_pred             CCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHH
Q ss_conf             99999989999999999998299999999999999619998589999999999859939999999998710999989999
Q 003548           27 KNKLSPGVTKMLGEASLQYAYGNFEQAISLLKEVVRLSPNLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWK  106 (811)
Q Consensus        27 ~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~  106 (811)
                      -...|.++..++..|..++..|++++|+..|++++..+|.++.++..+|.++...|++++|+..|.+++..+|.+..++.
T Consensus        19 ~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~   98 (450)
T 2y4t_A           19 YFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARL   98 (450)
T ss_dssp             ----CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf             66537899999999999998799999999999999849716899999999999879979999999999844987489999


Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCCCH---HHHHHH------------HHHHHHCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             999999964998999999999997199998---899999------------99999819999999999999985999889
Q 003548          107 QLLTFAVQKGDTAQAMYYIRQAIRAEPKDI---SLRIHL------------ASFYVEIGDYEKAAESYEQIQKLFPDNVD  171 (811)
Q Consensus       107 ~la~~~~~~g~~~~A~~~~~~al~~~p~~~---~~~~~l------------a~~~~~~g~~~~A~~~~~~~l~~~p~~~~  171 (811)
                      .+|.++...|++++|+..+++++..+|.+.   .++..+            |.++...|++++|+..+++++...|.++.
T Consensus        99 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~  178 (450)
T 2y4t_A           99 QRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAE  178 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH
T ss_conf             99999998699999999999997249997016889999999999999999999999868999999999999986889769


Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHH-
Q ss_conf             9999999999829978999999999861999999899999999999714599999999999997405998758999999-
Q 003548          172 ATKTGAQLFLKCGQTARSIGILEEYLKVHPSDADLSVIDLLVAILMENNAYEKTLQHIEHAQIVRFSGKELPLKLKVKA-  250 (811)
Q Consensus       172 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~l-  250 (811)
                      ++..+|.++...|++++|+..+++++...|.+..  ++..++.++...|++++|+..+++++..    .|.....+..+ 
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~~~~~~~~~~  252 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLKNDNTE--AFYKISTLYYQLGDHELSLSEVRECLKL----DQDHKRCFAHYK  252 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHH--HHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH--HHHHHHHHHHHCCCHHHHHHHHHHHHHH----CCCHHHHHHHHH
T ss_conf             9999999998779999999999999986889879--9999999999759999999999999875----998089999999


Q ss_pred             -----------HHHHHHCCCHHHHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHH
Q ss_conf             -----------9999982998999999998320063118---88999999999976993999999999761269998899
Q 003548          251 -----------GICYLRLGNMEKAEILFADLQWKNAIDH---ADLITEVADTLMSLGHSNSALKYYHFLETNAGTDNGYL  316 (811)
Q Consensus       251 -----------a~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  316 (811)
                                 |.++...|++++|+..|++++...|...   ...+..+|.++...|++++|+..+++++.. .|+++.+
T Consensus       253 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~-~p~~~~~  331 (450)
T 2y4t_A          253 QVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM-EPDNVNA  331 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCCCHHH
T ss_conf             999999999999999871799999999999985087336899999999999999878899999999999884-8454899


Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC
Q ss_conf             99999999980069999999999998627899999999999998199
Q 003548          317 YLKLAECYLSLKERAHAIMFFYKALDRFEDNIDARLTLASLLLEEAK  363 (811)
Q Consensus       317 ~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~  363 (811)
                      +..+|.++...|++++|+..++++++..|++..++..++.+....++
T Consensus       332 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~  378 (450)
T 2y4t_A          332 LKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQ  378 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHC
T ss_conf             99999999870379999999999988593529999999999998643


No 8  
>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A
Probab=1.00  E-value=1  Score=264.67  Aligned_cols=339  Identities=17%  Similarity=0.158  Sum_probs=304.7

Q ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             99999999999999619998589999999999859939999999998710999989999999999964998999999999
Q 003548           48 GNFEQAISLLKEVVRLSPNLPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFAVQKGDTAQAMYYIRQ  127 (811)
Q Consensus        48 g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~  127 (811)
                      .....+...+.+++..+|.++..+..+|..+...|++++|+..|++++..+|.+..++..+|.++...|++++|+..+++
T Consensus         6 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~   85 (450)
T 2y4t_A            6 HHSSGVDLGTENLYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTK   85 (450)
T ss_dssp             -----------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             45544465642356653789999999999999879999999999999984971689999999999987997999999999


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCH---HHHHHH------------HHHHHHCCCHHHHHHH
Q ss_conf             9971999988999999999981999999999999998599988---999999------------9999982997899999
Q 003548          128 AIRAEPKDISLRIHLASFYVEIGDYEKAAESYEQIQKLFPDNV---DATKTG------------AQLFLKCGQTARSIGI  192 (811)
Q Consensus       128 al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~---~~~~~l------------a~~~~~~g~~~~A~~~  192 (811)
                      +++.+|.+..++..+|.++...|++++|+..|++++...|.+.   .++..+            |.++...|++++|+..
T Consensus        86 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~  165 (450)
T 2y4t_A           86 VIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAF  165 (450)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf             98449874899999999999869999999999999724999701688999999999999999999999986899999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99998619999998999999999997145999999999999974059987589999999999982998999999998320
Q 003548          193 LEEYLKVHPSDADLSVIDLLVAILMENNAYEKTLQHIEHAQIVRFSGKELPLKLKVKAGICYLRLGNMEKAEILFADLQW  272 (811)
Q Consensus       193 ~~~~~~~~p~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  272 (811)
                      +++++...|.+..  ++..++.++...|++++|+..+++++..    .|....++..+|.++...|++++|+..+++++.
T Consensus       166 ~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          166 LDKILEVCVWDAE--LRELRAECFIKEGEPRKAISDLKAASKL----KNDNTEAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             HHHHHHHCTTCHH--HHHHHHHHHHHTTCGGGGHHHHHHHHHH----HCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCHH--HHHHHHHHHHHCCCHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             9999986889769--9999999998779999999999999986----889879999999999975999999999999987


Q ss_pred             CCCCCHHHHHHHH------------HHHHHHCCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHHCCHHHHHHH
Q ss_conf             0631188899999------------99999769939999999997612699988----9999999999980069999999
Q 003548          273 KNAIDHADLITEV------------ADTLMSLGHSNSALKYYHFLETNAGTDNG----YLYLKLAECYLSLKERAHAIMF  336 (811)
Q Consensus       273 ~~~~~~~~~~~~l------------a~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~la~~~~~~g~~~~A~~~  336 (811)
                      ..|. ....+..+            |.++...|++++|+..+++++.. .|.++    ..+..+|.++...|++++|+..
T Consensus       240 ~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  317 (450)
T 2y4t_A          240 LDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT-EPSIAEYTVRSKERICHCFSKDEKPVEAIRV  317 (450)
T ss_dssp             HCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf             5998-0899999999999999999999998717999999999999850-8733689999999999999987889999999


Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             9999986278999999999999981999889861399987786557878898134448999999899984
Q 003548          337 FYKALDRFEDNIDARLTLASLLLEEAKEEEAITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRA  406 (811)
Q Consensus       337 ~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  406 (811)
                      +++++...|+++.++..+|.++...|++++|+..++++++..|.+..            ++..++.+...
T Consensus       318 ~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~------------~~~~l~~~~~~  375 (450)
T 2y4t_A          318 CSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQ------------IREGLEKAQRL  375 (450)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHH------------HHHHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCHHH------------HHHHHHHHHHH
T ss_conf             99998848454899999999998703799999999999885935299------------99999999998


No 9  
>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A
Probab=1.00  E-value=1  Score=263.06  Aligned_cols=335  Identities=13%  Similarity=0.095  Sum_probs=270.8

Q ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             85899999999998599399999999987109999899999999999649989999999999971999988999999999
Q 003548           67 LPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFAVQKGDTAQAMYYIRQAIRAEPKDISLRIHLASFY  146 (811)
Q Consensus        67 ~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~  146 (811)
                      .+..+..+|..+...|++++|+..|++++..+|+++.++..+|.++...|++++|+..+++++..+|++..++..+|.++
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~  103 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             89999999999998642999999999998638998489999999999868999999999999860986289999999999


Q ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHCCCHHHH
Q ss_conf             9819999999999999985999889999999999982997899999999986199999989-999999999971459999
Q 003548          147 VEIGDYEKAAESYEQIQKLFPDNVDATKTGAQLFLKCGQTARSIGILEEYLKVHPSDADLS-VIDLLVAILMENNAYEKT  225 (811)
Q Consensus       147 ~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~-~~~~la~~~~~~g~~~~A  225 (811)
                      ...|++++|+..|+ .+...|+....+   ...+...+...+|+..+++++...|...... ........+....+...+
T Consensus       104 ~~~g~~~~A~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (537)
T 3fp2_A          104 ESLGNFTDAMFDLS-VLSLNGDFDGAS---IEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLE  179 (537)
T ss_dssp             HHHTCHHHHHHHHH-HHC--------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHH
T ss_pred             HHCCCHHHHHHHHH-HHHCCCCCCHHH---HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCHHHH
T ss_conf             98389999999999-986487878588---99999877898899999999974745454345067579999974474999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH--------HHHHCCCHHHHHHHHHHHHHCCCCCH------HHHHHHHHHHHHH
Q ss_conf             999999999740599875899999999--------99982998999999998320063118------8899999999997
Q 003548          226 LQHIEHAQIVRFSGKELPLKLKVKAGI--------CYLRLGNMEKAEILFADLQWKNAIDH------ADLITEVADTLMS  291 (811)
Q Consensus       226 ~~~~~~a~~~~~~~~~~~~~~~~~la~--------~~~~~g~~~~A~~~~~~~~~~~~~~~------~~~~~~la~~~~~  291 (811)
                      ...+.+....    .+........++.        .....+++++|+..+++++...|...      ..++..+|.++..
T Consensus       180 ~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~  255 (537)
T 3fp2_A          180 VSSVNTSSNY----DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFL  255 (537)
T ss_dssp             HHTSCCCCSS----CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             9987632564----617899999998788764020688887999999999999987877404459999999999999875


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHC
Q ss_conf             69939999999997612699988999999999998006999999999999862789999999999999819998898613
Q 003548          292 LGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSLKERAHAIMFFYKALDRFEDNIDARLTLASLLLEEAKEEEAITLL  371 (811)
Q Consensus       292 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~  371 (811)
                      .|++++|+..+++++.. .|. ..++..+|.++...|++++|+..++++++..|+++.++..+|.++...|++++|+..+
T Consensus       256 ~~~~~~A~~~~~~~~~~-~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  333 (537)
T 3fp2_A          256 KNNLLDAQVLLQESINL-HPT-PNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDF  333 (537)
T ss_dssp             TTCHHHHHHHHHHHHHH-CCC-HHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHC-CCC-CHHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             45578999999999866-987-4699999999998037999999999975459998799999999998668999999999


Q ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             9998778655787889813444899999989998469945688744676565
Q 003548          372 SPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAKGMPEDFVDAIFPLVCE  423 (811)
Q Consensus       372 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  423 (811)
                      ++++...|.+..            ++..+|.++...|++++|+..+..+++.
T Consensus       334 ~~a~~~~~~~~~------------~~~~la~~~~~~g~~~~A~~~~~~~~~~  373 (537)
T 3fp2_A          334 QKAQSLNPENVY------------PYIQLACLLYKQGKFTESEAFFNETKLK  373 (537)
T ss_dssp             HHHHHHCTTCSH------------HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCHH------------HHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             999985999779------------9999999999847799999999999873


No 10 
>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=261.28  Aligned_cols=333  Identities=12%  Similarity=0.028  Sum_probs=172.9

Q ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             85899999999998599399999999987109999899999999999649989999999999971999988999999999
Q 003548           67 LPETYNTLGLAHSALGNHKSAFDFYVIAAHLSPKDSALWKQLLTFAVQKGDTAQAMYYIRQAIRAEPKDISLRIHLASFY  146 (811)
Q Consensus        67 ~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~  146 (811)
                      .+..+..+|..+...|++++|+..|++++..+| ++.++..+|.++...|++++|+..++++++.+|.+..++..+|.++
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELKE-DPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             579999987899986027899999999985592-2789986889999885499999999877606937899999888999


Q ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHH---HHHHHHHHHHHCCCCCCHHHHHHHH--HHHHHCCC
Q ss_conf             981999999999999998599988999999999998299789---9999999986199999989999999--99997145
Q 003548          147 VEIGDYEKAAESYEQIQKLFPDNVDATKTGAQLFLKCGQTAR---SIGILEEYLKVHPSDADLSVIDLLV--AILMENNA  221 (811)
Q Consensus       147 ~~~g~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~---A~~~~~~~~~~~p~~~~~~~~~~la--~~~~~~g~  221 (811)
                      ...|++++|+..|++++...|.+...................   ++..++.+... |....  .....+  ........
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATAT-PTELS--TQPAKERKDKQENLPS  160 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC------------------------------CCCC
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCC--CCHHHHHHHHCCCCCH
T ss_conf             98766888999999999559875113789999999999999999999989999876-65126--7724678863447861


Q ss_pred             HHHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHH-----C--CC------CCH
Q ss_conf             9999999999999740-------5998758999999999998---2998999999998320-----0--63------118
Q 003548          222 YEKTLQHIEHAQIVRF-------SGKELPLKLKVKAGICYLR---LGNMEKAEILFADLQW-----K--NA------IDH  278 (811)
Q Consensus       222 ~~~A~~~~~~a~~~~~-------~~~~~~~~~~~~la~~~~~---~g~~~~A~~~~~~~~~-----~--~~------~~~  278 (811)
                      .....    .....+.       -..+.....+...|.++..   .|++++|+..+++++.     .  .|      +..
T Consensus       161 ~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (514)
T 2gw1_A          161 VTSMA----SFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKL  236 (514)
T ss_dssp             HHHHH----HHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHH
T ss_pred             HHHHH----HHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHH
T ss_conf             58999----99862587888887259958889999899998762332299999999999988665422381001148278


Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             88999999999976993999999999761269998899999999999800699999999999986278999999999999
Q 003548          279 ADLITEVADTLMSLGHSNSALKYYHFLETNAGTDNGYLYLKLAECYLSLKERAHAIMFFYKALDRFEDNIDARLTLASLL  358 (811)
Q Consensus       279 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~  358 (811)
                      ...+..+|.++...|++++|+..+++++.. .|. ..++..+|.++...|++++|+..+++++...|.+..++..++.++
T Consensus       237 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~-~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  314 (514)
T 2gw1_A          237 AISLEHTGIFKFLKNDPLGAHEDIKKAIEL-FPR-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMN  314 (514)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHH-CCC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             999999999999878999999999999863-864-899999999999888899999999998613867789999999999


Q ss_pred             HHCCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             981999889861399987786557878898134448999999899984699456887446765
Q 003548          359 LEEAKEEEAITLLSPPKDLDSLDMNSDKSNPWWLNEKIIMKLCHIYRAKGMPEDFVDAIFPLV  421 (811)
Q Consensus       359 ~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l  421 (811)
                      ...|++++|+..+++++...|.+..            ++..+|.++...|++++|+..+..++
T Consensus       315 ~~~~~~~~A~~~~~~~~~~~~~~~~------------~~~~l~~~~~~~~~~~~A~~~~~~~~  365 (514)
T 2gw1_A          315 FILQNYDQAGKDFDKAKELDPENIF------------PYIQLACLAYRENKFDDCETLFSEAK  365 (514)
T ss_dssp             HHTTCTTHHHHHHHHHHHTCSSCSH------------HHHHHHHHTTTTTCHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHCHHHHH------------HHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf             9807799999999999873850289------------99999999998689999999999999


Done!