Query         gi|254780440|ref|YP_003064853.1| transcription elongation factor GreA [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 158
No_of_seqs    135 out of 2199
Neff          6.5 
Searched_HMMs 23785
Date          Mon May 30 10:56:16 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780440.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1grj_A GREA protein; transcrip 100.0       0       0  331.9  16.1  157    2-158     1-158 (158)
  2 2f23_A Anti-cleavage anti-GREA 100.0       0       0  322.3  19.2  153    1-156     1-155 (156)
  3 2p4v_A Transcription elongatio 100.0       0       0  323.5  18.1  156    2-158     1-156 (158)
  4 3bmb_A Regulator of nucleoside 100.0 2.3E-29 9.6E-34  206.5  12.9  124    1-157     1-126 (136)
  5 2pn0_A Prokaryotic transcripti 100.0 8.2E-30 3.5E-34  209.3   5.0  114   36-157    15-129 (141)
  6 3gty_X Trigger factor, TF; cha  94.1    0.21 8.9E-06   28.5   7.5   92   56-156   131-226 (433)
  7 1w26_A Trigger factor, TF; cha  82.0     2.6 0.00011   21.5   5.5   78   58-143   136-215 (432)
  8 1wle_A Seryl-tRNA synthetase;   81.8     2.9 0.00012   21.3   7.5   79   10-90     77-165 (501)
  9 1ses_A Seryl-tRNA synthetase;   68.4     6.2 0.00026   19.1   4.4   74   10-90     35-113 (421)
 10 2dq0_A Seryl-tRNA synthetase;   67.7     6.7 0.00028   18.9   8.6   92   10-105    38-135 (455)
 11 3cgm_A SLYD, peptidyl-prolyl C  65.8     7.2  0.0003   18.7   4.3   25  122-146    36-60  (158)
 12 1t11_A Trigger factor, TF; hel  62.6     8.3 0.00035   18.3   5.4   92   57-157   138-245 (392)
 13 2yxy_A Hypothetical conserved   57.9      10 0.00042   17.8   8.4   64    2-96      7-72  (115)
 14 1o9g_A RRNA methyltransferase;  56.3     3.6 0.00015   20.6   1.4   85    6-105    99-184 (250)
 15 1hxv_A Trigger factor; FKBP fo  45.7     5.5 0.00023   19.5   1.0   23  122-144    66-88  (113)
 16 1cz4_A VCP-like ATPase; double  44.6      16 0.00068   16.5   5.8   71   85-155    78-155 (185)
 17 3lss_A Seryl-tRNA synthetase;   43.1      17 0.00072   16.3   9.4   79   10-90     44-153 (484)
 18 2kw8_A LPXTG-SITE transpeptida  42.7      17 0.00073   16.3   4.1   28  131-158    87-114 (158)
 19 2dq3_A Seryl-tRNA synthetase;   41.5      18 0.00076   16.2   6.9   79   10-90     37-117 (425)
 20 2kfw_A FKBP-type peptidyl-prol  41.3      18 0.00076   16.2   5.3   26  121-146    40-65  (196)
 21 2w1j_A Putative sortase, sorta  39.7      19 0.00081   16.0   4.4   29  130-158   127-155 (212)
 22 2gpj_A Siderophore-interacting  39.6      19 0.00081   16.0   3.8   64   85-148    38-106 (252)
 23 2k8i_A SLYD, peptidyl-prolyl C  39.1      20 0.00083   15.9   4.4   22  124-145    43-64  (171)
 24 1tvc_A Methane monooxygenase c  37.8      15 0.00064   16.6   2.2   62   87-148    45-110 (250)
 25 1t2w_A Sortase; transpeptidase  34.8      23 0.00097   15.5   3.9   27  131-157    73-99  (145)
 26 3fn5_A Sortase A; sortase-fold  32.5      25  0.0011   15.3   4.1   28  130-157    96-123 (187)
 27 2rkh_A Putative APHA-like tran  31.1      26  0.0011   15.1   3.2   65    4-74     77-142 (180)
 28 2w1k_A Putative sortase; pilus  30.5      27  0.0011   15.1   4.1   31  128-158   123-153 (252)
 29 1nul_A XPRT, xanthine-guanine   30.0      27  0.0011   15.0   2.5   22    1-22      1-22  (152)
 30 1hmj_A RPB5, protein (subunit   29.1      28  0.0012   14.9   3.2   27  118-145    35-61  (78)
 31 2qcp_X Cation efflux system pr  25.4      28  0.0012   14.9   1.9   29  128-156    49-77  (80)
 32 1eik_A RNA polymerase subunit   25.3      29  0.0012   14.8   2.0   27  119-146    38-64  (77)
 33 3hu3_A Transitional endoplasmi  25.0      34  0.0014   14.4   4.1   62   77-143    42-104 (489)
 34 1ix5_A FKBP; ppiase, isomerase  24.5      30  0.0013   14.8   1.9   25  122-146    54-78  (151)
 35 3nja_A Probable ggdef family p  24.3      29  0.0012   14.8   1.8   27   88-115    80-106 (125)
 36 2vb2_X Copper protein, cation   24.3      30  0.0013   14.7   1.9   38  119-156    48-85  (88)
 37 2rcz_A Tight junction protein   24.1      35  0.0015   14.3   3.7   46   89-140     1-47  (81)
 38 1dm9_A Hypothetical 15.5 KD pr  23.6      36  0.0015   14.3   3.2   28   82-111    45-72  (133)
 39 2k6p_A Uncharacterized protein  22.0      37  0.0016   14.2   2.0   25   82-108    37-61  (92)
 40 2jv2_A Putative uncharacterize  21.8      39  0.0016   14.0   4.8   34  123-156    30-65  (83)
 41 3g66_A Sortase C; pilus, trans  21.7      39  0.0016   14.0   4.1   29  130-158   126-154 (212)
 42 3i0u_A Phosphothreonine lyase   21.4      40  0.0017   14.0   3.1   51   44-97    140-192 (218)
 43 3enu_A Nitrollin, putative unc  21.1      40  0.0017   14.0   2.3   41   84-130    17-57  (114)
 44 1uit_A Human discs large 5 pro  20.8      41  0.0017   13.9   4.1   48   90-141    21-68  (117)
 45 2waq_H DNA-directed RNA polyme  20.6      40  0.0017   14.0   1.9   28  118-146    43-70  (84)
 46 2pia_A Phthalate dioxygenase r  20.5      41  0.0017   13.9   1.9   61   86-148    39-105 (321)

No 1  
>1grj_A GREA protein; transcript elongation factor, transcript cleavage factor, transcription regulation; 2.20A {Escherichia coli} SCOP: a.2.1.1 d.26.1.2
Probab=100.00  E-value=0  Score=331.89  Aligned_cols=157  Identities=45%  Similarity=0.815  Sum_probs=153.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             98431488999999999999987248999999999975176222430489998876879999999974444210472101
Q gi|254780440|r    2 VDKIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTM   81 (158)
Q Consensus         2 ~~k~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~   81 (158)
                      |+++|||++||++|++||++|++++||++++.+++|+++|||||||+|++||++|+++++||++|+.+|++|+|++++..
T Consensus         1 m~~i~lT~~g~~~L~~EL~~L~~~~r~e~~~~i~~A~~~GDl~Enaey~aAk~~~~~~e~ri~~l~~~l~~a~ivd~~~~   80 (158)
T 1grj_A            1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKM   80 (158)
T ss_dssp             -CCEEEEHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHTTCCGGGCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECGGGS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHCCEEEECCCCC
T ss_conf             98527799999999999999986301778988999886578222646899999999999999999976413499757668


Q ss_pred             CC-CCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEEEC
Q ss_conf             33-211136579995347652359999631013345881501317899872888887899982897199999998979
Q gi|254780440|r   82 SG-DRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVLWI  158 (158)
Q Consensus        82 ~~-~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~yi  158 (158)
                      +. ++|.|||+|++.|.+++++.+|+||||+|+||+.++||+.||||+||||+++||+|+|.+|+|...|+|++|+||
T Consensus        81 ~~~~~V~~Gs~V~l~d~~~~~~~~~~ivg~~ead~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~I~~I~y~  158 (158)
T 1grj_A           81 PNNGRVIFGATVTVLNLDSDEEQTYRIVGDDEADFKQNLISVNSPIARGLIGKEEDDVVVIKTPGGEVEFEVIKVEYL  158 (158)
T ss_dssp             CCCSBCCTTCEEEEEETTTTEEEEEEEECTTTCBGGGTEEESSSHHHHHHTTCBTTCEECC------CCEEEEEEECC
T ss_pred             CCCCEEEEEEEEEEEECCCCEEEEEEEECCHHHHCCCCEECCCCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEEEC
T ss_conf             999979951399999868854899998680553176883347787899983898999899983997489999999989


No 2  
>2f23_A Anti-cleavage anti-GREA transcription factor GFH1; anti-GREA GFH1 thermus thermophilus; 1.60A {Thermus thermophilus HB27} SCOP: a.2.1.1 d.26.1.2 PDB: 2eul_A 2etn_A
Probab=100.00  E-value=0  Score=322.33  Aligned_cols=153  Identities=27%  Similarity=0.520  Sum_probs=148.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             99843148899999999999998724899999999997517622243048999887687999999997444421047210
Q gi|254780440|r    1 MVDKIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDIST   80 (158)
Q Consensus         1 M~~k~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~   80 (158)
                      |++++|||++||++|++||++|+. +||++++.+++||++||+||||+|||||++|+++++||++|++.|++|+|+++. 
T Consensus         1 M~~~i~lT~~g~~~L~~EL~~l~~-~~~e~~~~i~~a~~~gDl~ENaeY~aAke~q~~~e~rI~~Le~~L~~A~iie~~-   78 (156)
T 2f23_A            1 MAREVKLTKAGYERLMQQLERERE-RLQEATKILQELMESSDDYDDSGLEAAKQEKARIEARIDSLEDILSRAVILEEG-   78 (156)
T ss_dssp             --CCEEECHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHTCSCCSCSHHHHHHHHHHHHHHHHHHHHHHHHHHEEECCTT-
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-
T ss_conf             997520299999999999999887-778899999999973786421769999999999999999999999861305678-


Q ss_pred             CCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCC--EECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEE
Q ss_conf             13321113657999534765235999963101334588--15013178998728888878999828971999999989
Q gi|254780440|r   81 MSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSG--LVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVL  156 (158)
Q Consensus        81 ~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~--~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~  156 (158)
                       +.++|+|||+|+++|.++|++.+|+||||+|+||..+  +||+.||||+||||+++||+|+|.+|+|.+.|+|++|+
T Consensus        79 -~~d~V~~Gs~V~l~d~~~g~~~~~~lVg~~ead~~~~~~~IS~~SPlG~ALlG~k~Gd~v~v~~P~G~~~~~I~~Ie  155 (156)
T 2f23_A           79 -SGEVIGLGSVVELEDPLSGERLSVQVVSPAEANVLDTPMKISDASPMGKALLGHRVGDVLSLDTPKGKREFRVVAIH  155 (156)
T ss_dssp             -CSCCCCTTCEEEEECTTTCCEEEEEEECGGGCBTTSSSEEEETTSHHHHHHTTCCTTCEEEEEETTEEEEEEEEEEE
T ss_pred             -CCCEEEECCEEEEEECCCCCEEEEEEECCHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEE
T ss_conf             -76589966689998758998899999781342802498775678989999708999999999839987899999987


No 3  
>2p4v_A Transcription elongation factor GREB; transcript cleavage, GRE-factors, RNA polymerase; 2.60A {Escherichia coli}
Probab=100.00  E-value=0  Score=323.53  Aligned_cols=156  Identities=33%  Similarity=0.542  Sum_probs=152.4

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             98431488999999999999987248999999999975176222430489998876879999999974444210472101
Q gi|254780440|r    2 VDKIPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTM   81 (158)
Q Consensus         2 ~~k~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~   81 (158)
                      |.++|||++||++|++||++|++++||+++++|++|+++|||+|||+|++||++|+++++||++|+.+|++|+|++++..
T Consensus         1 M~~~~lT~~g~~~L~~eL~~L~~~~r~~~~~~i~~A~~~gDl~ENaey~~ake~q~~~~~ri~~L~~~L~~a~ii~~~~~   80 (158)
T 2p4v_A            1 MKTPLVTREGYEKLKQELNYLWREERPEVTKKVTWAASLGDRSENADYQYNKKRLREIDRRVRYLTKCMENLKIVDYSPQ   80 (158)
T ss_dssp             CCCCEECHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHSCTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCEECCCCSS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             99764589999999999999987022889999999986699000666799999999899999999999986314787546


Q ss_pred             CCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEEEC
Q ss_conf             33211136579995347652359999631013345881501317899872888887899982897199999998979
Q gi|254780440|r   82 SGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVLWI  158 (158)
Q Consensus        82 ~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~yi  158 (158)
                      +.+.|.|||+|++.+ +++++.+|+||||+|+|+..|+||+.||||+||||+++||+|+|++|+|...|+|++|+||
T Consensus        81 ~~~~v~~gs~V~~~~-~~~~~~~~~iVg~~ead~~~~~IS~~SPlG~ALlGkk~Gd~V~v~~p~G~~~~~I~~I~y~  156 (158)
T 2p4v_A           81 QEGKVFFGAWVEIEN-DDGVTHRFRIVGYDEIFGRKDYISIDSPMARALLKKEVGDLAVVNTPAGEASWYVNAIEYV  156 (158)
T ss_dssp             SCSSCSSSCEEEEEC-TTCCCEEEEBCCSTTCCSSSCCBCTTSHHHHHSTTCCTTCEEEEECSSCEEEEEEEEEECC
T ss_pred             CCCCCCCCEEEEEEE-CCCCEEEEEEECHHHHHCCCCEECCCCHHHHHHHCCCCCCEEEEEECCCCEEEEEEEEEEC
T ss_conf             666435865999972-5886489998550654156885757898999970899999899980898789999999924


No 4  
>3bmb_A Regulator of nucleoside diphosphate kinase; RNA polymerase, elongation factor, anti-GRE factor, RNA binding protein; 1.91A {Escherichia coli}
Probab=99.96  E-value=2.3e-29  Score=206.49  Aligned_cols=124  Identities=22%  Similarity=0.348  Sum_probs=109.5

Q ss_pred             CCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             9984-314889999999999999872489999999999751762224304899988768799999999744442104721
Q gi|254780440|r    1 MVDK-IPVTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDIS   79 (158)
Q Consensus         1 M~~k-~~lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~   79 (158)
                      |+.+ |++|...+++|+                         ||.||++|++++.        +.+|+..|++|+|++++
T Consensus         1 m~rP~i~~~~~D~~rL~-------------------------~l~e~~~~~~~~~--------~~~L~~~L~~A~Iv~~~   47 (136)
T 3bmb_A            1 MSRPTIIINDLDAERID-------------------------ILLEQPAYAGLPI--------ADALNAELDRAQMCSPE   47 (136)
T ss_dssp             -CCCCCEEEHHHHHHHH-------------------------HHHHSGGGTTCHH--------HHHHHHHHHTCEEECGG
T ss_pred             CCCCCEEEEHHHHHHHH-------------------------HHHHCHHCCCCHH--------HHHHHHHHCCCEEECCC
T ss_conf             99997763288999999-------------------------9985422247578--------99999987678998964


Q ss_pred             CCCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEEECCCCE-EEEEEEEEEE
Q ss_conf             01332111365799953476523599996310133458815013178998728888878999828971-9999999897
Q gi|254780440|r   80 TMSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISVNAPGGE-KTYEILQVLW  157 (158)
Q Consensus        80 ~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~-~~~~Il~I~y  157 (158)
                      .++.++|+|||+|+++|.+++++++|+||||+|+|+..++||+.||||+||||+++||+|.|++|+|. ..|+|++|+|
T Consensus        48 ~~~~~~V~~Gs~V~~~~~~~~~~~~~~lV~~~ead~~~~~IS~~SPlG~ALlG~~~Gd~v~~~~p~G~~~~~~I~~I~y  126 (136)
T 3bmb_A           48 EMPHDVVTMNSRVKFRNLSDGEVRVRTLVYPAKMTDSNTQLSVMAPVGAALLGLRVGDSIHWELPGGVATHLEVLELEY  126 (136)
T ss_dssp             GCCTTBCCTTCEEEEEETTTCCEEEEEEECGGGCCCTTTEEETTSHHHHHHTTCBTTCEEEEEETTTEEEEEEEEEEEE
T ss_pred             CCCCCEEEECCEEEEEECCCCCEEEEEEECHHHHCCCCCEEEECCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEEEE
T ss_conf             4899989848799999888997799999895781466626886199999972998899999998999889999999986


No 5  
>2pn0_A Prokaryotic transcription elongation factor GREA/GREB; structural genomics, APC6349, PSI-2, protein structure initiative; HET: MSE; 1.70A {Nitrosomonas europaea}
Probab=99.96  E-value=8.2e-30  Score=209.33  Aligned_cols=114  Identities=26%  Similarity=0.360  Sum_probs=103.2

Q ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCC
Q ss_conf             99751762224304899988768799999999744442104721013321113657999534765235999963101334
Q gi|254780440|r   36 EARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADV  115 (158)
Q Consensus        36 ~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~  115 (158)
                      +++-++||.||+.|+++++        +.+|+.+|++|+||++++.+.++|.|||+|+++|.+++++.+|+||||+|+|+
T Consensus        15 D~~rL~~l~e~~~~~~~~~--------~~eLe~~L~~A~Iv~~~~~~~~~V~~Gs~V~~~~~~~~~~~~~~iV~~~ead~   86 (141)
T 2pn0_A           15 DAERLEILLETLSQNAFPG--------RDDLEAELARAEVVDPEEIPPTVVTMNSTVRFRVESSAEEFCLTLVYPKDVDT   86 (141)
T ss_dssp             HHHHHHHHHHHTTTCCCTT--------HHHHHHHHHTCEEECGGGSCTTBCCTTCEEEEEETTTCCEEEEEEECGGGCCS
T ss_pred             HHHHHHHHHHCCCCCCCHH--------HHHHHHHHCCCEEECCCCCCCCEEEECCEEEEEECCCCCEEEEEEECHHHCCC
T ss_conf             9999999985412127577--------99999987587998975589998985879999976883389999969257067


Q ss_pred             CCCEECCCCHHHHHHCCCCCCCEEEEECCCC-EEEEEEEEEEE
Q ss_conf             5881501317899872888887899982897-19999999897
Q gi|254780440|r  116 QSGLVSISSPIARALIGKELGDIISVNAPGG-EKTYEILQVLW  157 (158)
Q Consensus       116 ~~~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G-~~~~~Il~I~y  157 (158)
                      ..++||+.||||+||||+++||+|+|++|+| .+.|+|++|.|
T Consensus        87 ~~~~IS~~SPlG~ALlG~~~Gd~v~v~~P~G~~~~~~I~~I~y  129 (141)
T 2pn0_A           87 SGEKISILAPVGSALLGLAQGDEIEWPKPGGGVLRVRIVEVTY  129 (141)
T ss_dssp             SSCEEETTSTTHHHHTTCBTTCEEEEECTTSSEEEEEEEEEEC
T ss_pred             CCCEEECCCHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEEEE
T ss_conf             6885632799999972899999999987999889999999986


No 6  
>3gty_X Trigger factor, TF; chaperone-client complex, cell cycle, cell division, chaperone, isomerase, rotamase, ribonucleoprotein; 3.40A {Thermotoga maritima} PDB: 3gu0_A
Probab=94.13  E-value=0.21  Score=28.46  Aligned_cols=92  Identities=21%  Similarity=0.307  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCC
Q ss_conf             76879999999974444210472101332111365799953476523599996310133458815013178998728888
Q gi|254780440|r   56 QNLNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKEL  135 (158)
Q Consensus        56 q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~  135 (158)
                      -..++..|..|....+....++.....+|.|.+.-.+.-.+.+.+....+.++.        |.-+ .-|+-.+|+|+++
T Consensus       131 de~vd~~i~~l~~~~a~~~~~e~~a~~gD~v~id~~~~~~~~~~~~~~~~~~~l--------~~~~-~~~f~e~liG~k~  201 (433)
T 3gty_X          131 EKYVERRIEDLRESHALLEPKEGPAEAGDLVRVNMEVYNEEGKKLTSREYEYVI--------SEDE-DRPFVKDLVGKKK  201 (433)
T ss_dssp             HHHHHHHHHHHHHHTCCEEECCSCCCTTSEEEEEEEEECTTSCEEEEEEEEEEC--------CSSC-CCTTHHHHTTCCT
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCHHHHCCCEEEEEEECCCCCCCCCCCCCEEEEC--------CCHH-HHHHHHHHCCCCC
T ss_conf             899999999988750323554223324884788641145656666654304541--------4302-3313666326667


Q ss_pred             CCEEEEEC--CCCE--EEEEEEEEE
Q ss_conf             87899982--8971--999999989
Q gi|254780440|r  136 GDIISVNA--PGGE--KTYEILQVL  156 (158)
Q Consensus       136 Gd~V~v~~--p~G~--~~~~Il~I~  156 (158)
                      ||.+++..  ++.+  ..++|.+|.
T Consensus       202 Ge~~~~~~~~agk~~~f~v~I~~Ik  226 (433)
T 3gty_X          202 GDVVEIEREYEGKKYTYKLEVEEVY  226 (433)
T ss_dssp             TCEEEEEEEETTEEEEEEEEEEEEE
T ss_pred             CCEEECCCCCCCCEEEEEEEEEEEE
T ss_conf             8423213346897368999998643


No 7  
>1w26_A Trigger factor, TF; chaperone, protein folding, ribosome associated protein, nascent chain, cell division, isomerase; 2.7A {Escherichia coli} SCOP: a.223.1.1 d.241.2.1 d.26.1.1 PDB: 2vrh_A 1w2b_5
Probab=81.99  E-value=2.6  Score=21.51  Aligned_cols=78  Identities=10%  Similarity=0.103  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEC--CCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCC
Q ss_conf             8799999999744442104721013321113657999534--76523599996310133458815013178998728888
Q gi|254780440|r   58 LNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVEK--NSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKEL  135 (158)
Q Consensus        58 ~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d~--~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~  135 (158)
                      .++..|..|..+-+....++      ..+..|..|++...  .+|....  -....+.....|.-++.-.+-.+|+|+++
T Consensus       136 ~vd~~i~~l~~~~~~~~~~~------~~~~~gD~v~id~~~~~dg~~~~--~~~~~~~~~~lg~~~~~~~f~~~l~G~k~  207 (432)
T 1w26_A          136 DVDGMLDTLRKQQATWKEKD------GAVEAEDRVTIDFTGSVDGEEFE--GGKASDFVLAMGQGRMIPGFEDGIKGHKA  207 (432)
T ss_dssp             HHHHHHHHHHHHTCEECCCS------SCCCTTCEEEECEEEESSSCBCS--SCCCSSEEEETTSCCSCTTHHHHSSSCCS
T ss_pred             HHHHHHHHHHHHHCCCCCCC------CCCCCCCEEEEEEEEEECCCCCC--CCCCCCEEEEECCCCCCCCHHHHHHHCCC
T ss_conf             99999999976412213333------45678998999999976686466--77766559994798766306888753247


Q ss_pred             CCEEEEEC
Q ss_conf             87899982
Q gi|254780440|r  136 GDIISVNA  143 (158)
Q Consensus       136 Gd~V~v~~  143 (158)
                      ||++++.+
T Consensus       208 Gd~~~~~~  215 (432)
T 1w26_A          208 GEEFTIDV  215 (432)
T ss_dssp             SCEEEEEE
T ss_pred             CCEEEEEE
T ss_conf             87699987


No 8  
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Probab=81.82  E-value=2.9  Score=21.26  Aligned_cols=79  Identities=13%  Similarity=0.268  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---CCCCHHHHHHHHHHHHHHHH-------HHHHHHHHHHCCCCC
Q ss_conf             99999999999998724899999999997517622---24304899988768799999-------999744442104721
Q gi|254780440|r   10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLS---ENAEYQAAKELQNLNEGRMA-------ELENIITRAEVIDIS   79 (158)
Q Consensus        10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~---ENaeY~aAke~q~~~~~ri~-------~L~~~L~~A~iv~~~   79 (158)
                      +-+..|+.+++.|+. +|..+.++|+.....|+-.   ++++-..-+++-..+..+|.       +++..|... ...-.
T Consensus        77 ~e~r~l~~e~e~Lr~-erN~~sk~I~~l~~~~~~~~~~~~~e~e~L~~~~k~lk~~i~~le~~~~~l~~~l~~~-ll~iP  154 (501)
T 1wle_A           77 QELRQLREQIRSLEE-EKEAVTEAVRALVVNQDNSQVQQDPQYQSLRARGREIRKQLTLLYPKEAQLEEQFYLR-ALRLP  154 (501)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCTTGGGCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HTTSC
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCC
T ss_conf             999999999999999-9999999999998567751000368999999999999999999999999999999999-97489


Q ss_pred             CCCCCCCCCCC
Q ss_conf             01332111365
Q gi|254780440|r   80 TMSGDRIAFGA   90 (158)
Q Consensus        80 ~~~~~~V~~Gs   90 (158)
                      .++.+.|.+|.
T Consensus       155 Ni~~~~VP~G~  165 (501)
T 1wle_A          155 NQTHPDVPVGD  165 (501)
T ss_dssp             CCCCTTCCCSS
T ss_pred             CCCCCCCCCCC
T ss_conf             98885579898


No 9  
>1ses_A Seryl-tRNA synthetase; ligase(synthetase); HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A
Probab=68.39  E-value=6.2  Score=19.12  Aligned_cols=74  Identities=19%  Similarity=0.213  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-----HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             999999999999987248999999999975176222430-----489998876879999999974444210472101332
Q gi|254780440|r   10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAE-----YQAAKELQNLNEGRMAELENIITRAEVIDISTMSGD   84 (158)
Q Consensus        10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENae-----Y~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~   84 (158)
                      +-+.+++.+++.|+. +|-.++++|+.+..     ++++     -..-+++...++....+++..|.. ....-..++.+
T Consensus        35 ~~~r~l~~~~e~l~~-~rN~lSK~I~k~k~-----~~~~~l~~~~~~lk~~i~~le~~~~~~~~~l~~-~ll~IPNlp~~  107 (421)
T 1ses_A           35 REVQELKKRLQEVQT-ERNQVAKRVPKAPP-----EEKEALIARGKALGEEAKRLEEALREKEARLEA-LLLQVPLPPWP  107 (421)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHHSSSSCH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHTTCCCCCCT
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHCC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCC
T ss_conf             999999999999999-99999999753251-----548999999999999999988679999887766-53022212322


Q ss_pred             CCCCCC
Q ss_conf             111365
Q gi|254780440|r   85 RIAFGA   90 (158)
Q Consensus        85 ~V~~Gs   90 (158)
                      .|..|.
T Consensus       108 ~VP~G~  113 (421)
T 1ses_A          108 GAPVGG  113 (421)
T ss_dssp             TSCSSS
T ss_pred             CCCCCC
T ss_conf             111245


No 10 
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Probab=67.70  E-value=6.7  Score=18.93  Aligned_cols=92  Identities=16%  Similarity=0.236  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             9999999999999872489999999999751762224--30489998876879999999974444210472101332111
Q gi|254780440|r   10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSEN--AEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIA   87 (158)
Q Consensus        10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~EN--aeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~   87 (158)
                      +-+.+++.+++.|+. +|-.+.++|..+...|+-.+.  ++-..-+++...++..+.+++..+... ...-..++.+.|.
T Consensus        38 ~~~r~l~~e~e~Lr~-~rN~lSK~Ig~~kk~~~~~~~l~~~~~~lk~~ik~le~~l~~l~~~l~~l-ll~iPNl~~~~VP  115 (455)
T 2dq0_A           38 TEWRTKLKEINRLRH-ERNKIAVEIGKRRKKGEPVDELLAKSREIVKRIGELENEVEELKKKIDYY-LWRLPNITHPSVP  115 (455)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHTSCCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HTTSCCCCCTTSC
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCCC
T ss_conf             999999999999999-99999999999986799789999999999999999999999999999999-9727677786668


Q ss_pred             CCCE----EEEEECCCCCEEEE
Q ss_conf             3657----99953476523599
Q gi|254780440|r   88 FGAT----VSLVEKNSGDKKNY  105 (158)
Q Consensus        88 ~Gs~----V~l~d~~~~~~~~~  105 (158)
                      .|..    |.++  ..|+...|
T Consensus       116 ~G~de~dN~~ir--~~G~~~~f  135 (455)
T 2dq0_A          116 VGKDENDNVPIR--FWGKARVW  135 (455)
T ss_dssp             CCSSGGGCEEEE--EESCEEEE
T ss_pred             CCCCCCCCEEEE--EECCCCCC
T ss_conf             788866664678--50575565


No 11 
>3cgm_A SLYD, peptidyl-prolyl CIS-trans isomerase; chaperone function, two domain P rotamase; 2.41A {Thermus thermophilus} PDB: 3cgn_A 3luo_A*
Probab=65.84  E-value=7.2  Score=18.72  Aligned_cols=25  Identities=24%  Similarity=0.470  Sum_probs=20.0

Q ss_pred             CCCHHHHHHCCCCCCCEEEEECCCC
Q ss_conf             1317899872888887899982897
Q gi|254780440|r  122 ISSPIARALIGKELGDIISVNAPGG  146 (158)
Q Consensus       122 ~~SPlG~ALlG~~~Gd~V~v~~p~G  146 (158)
                      +.--|=.||+|.++||..++.+|..
T Consensus        36 ~~pglE~aL~Gm~~Ge~~~v~l~pe   60 (158)
T 3cgm_A           36 LIPGLEEALEGREEGEAFQAHVPAE   60 (158)
T ss_dssp             SCHHHHHHHTTCBTTCEEEEEECGG
T ss_pred             CCHHHHHHHCCCCCCCCCEEEECHH
T ss_conf             1088999755785885323874767


No 12 
>1t11_A Trigger factor, TF; helix-turn-helix, four-helix-bundle, ppiase, chaperone; 2.50A {Vibrio cholerae} SCOP: a.223.1.1 d.241.2.1 d.26.1.1 PDB: 1l1p_A
Probab=62.58  E-value=8.3  Score=18.32  Aligned_cols=92  Identities=17%  Similarity=0.237  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEE--CCCCCEEEEEE-ECHHHCCCCCCEECCCCHHHHHHCCC
Q ss_conf             6879999999974444210472101332111365799953--47652359999-63101334588150131789987288
Q gi|254780440|r   57 NLNEGRMAELENIITRAEVIDISTMSGDRIAFGATVSLVE--KNSGDKKNYQI-VGDQEADVQSGLVSISSPIARALIGK  133 (158)
Q Consensus        57 ~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~V~l~d--~~~~~~~~~~l-Vg~~e~d~~~~~IS~~SPlG~ALlG~  133 (158)
                      ..++..|..|..+.+....++.....+|.|.+.-..++.+  ...+....+.+ +|..         ++.-.+-.+|+|+
T Consensus       138 e~id~~i~~l~~~~a~~~~~~~~~~~gd~v~vd~~~~~dg~~~~~~~~~~~~~~lg~~---------~~~~~~~~~l~G~  208 (392)
T 1t11_A          138 ADVAEMLETLRKQQATWKEVDEAAENGKRVSIDFVGSIDGVEFEGGKAENFPLEMGAG---------RMIPGFEDGIVGK  208 (392)
T ss_dssp             THHHHHHHHHHHHHCEEEECSCCCCTTCEEEEEEEEESSSSCCTTCEEEEEEEETTSC---------CBSTTSGGGTTTC
T ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHCCCCEEEEEEEEEECCEECCCCCCCCEEEEECCC---------CCCCCHHHHHCCC
T ss_conf             7999999999875136633654432588899988997888654587656638995688---------6662045552177


Q ss_pred             CCCCE--EEEECCC--------C-E--EEEEEEEEEE
Q ss_conf             88878--9998289--------7-1--9999999897
Q gi|254780440|r  134 ELGDI--ISVNAPG--------G-E--KTYEILQVLW  157 (158)
Q Consensus       134 ~~Gd~--V~v~~p~--------G-~--~~~~Il~I~y  157 (158)
                      ++||+  +.+..|.        | .  ..++|.+|..
T Consensus       209 k~ge~~~~~~~~p~d~~~~~~agk~~~f~v~V~~I~~  245 (392)
T 1t11_A          209 TKGMEFVIDVTFPEDYHAENLKGKAAKFAIKVNKVEA  245 (392)
T ss_dssp             CSSCCCCEEEECCTTCSCTTTSSCEEEECCCEEEEEE
T ss_pred             CCCCCEEEEEECCCCCCCCCCCCCCHHHEEHHHEEEC
T ss_conf             6787416888657632332103530211000000101


No 13 
>2yxy_A Hypothetical conserved protein, GK0453; alpha and beta proteins (A+B) class, structural genomics, unknown function, NPPSFA; 2.20A {Geobacillus kaustophilus HTA426}
Probab=57.95  E-value=10  Score=17.81  Aligned_cols=64  Identities=20%  Similarity=0.299  Sum_probs=41.1

Q ss_pred             CCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             98431--4889999999999999872489999999999751762224304899988768799999999744442104721
Q gi|254780440|r    2 VDKIP--VTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDIS   79 (158)
Q Consensus         2 ~~k~~--lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~   79 (158)
                      .+|-|  ||+   ..|+.|+..|+...|        .|..+|..+|          .+.+++|+.     ++.|-.+|++
T Consensus         7 ~ekrySeMs~---~EL~~EI~~L~eKar--------KAEq~G~~nE----------~~V~erK~~-----mA~sYLvD~~   60 (115)
T 2yxy_A            7 EQKRYSEMTK---EELQQEIAMLTEKAR--------KAEQMGMVNE----------YAVYERKIA-----MAKAYMLNPA   60 (115)
T ss_dssp             CCCCGGGCCH---HHHHHHHHHHHHHHH--------HHHHHTCHHH----------HHHHHHHHH-----HHHHTTSCGG
T ss_pred             CCCHHHHCCH---HHHHHHHHHHHHHHH--------HHHHCCCHHH----------HHHHHHHHH-----HHHHHCCCHH
T ss_conf             6220756499---999999999999999--------9998067159----------999999999-----9999726763


Q ss_pred             CCCCCCCCCCCEEEEEE
Q ss_conf             01332111365799953
Q gi|254780440|r   80 TMSGDRIAFGATVSLVE   96 (158)
Q Consensus        80 ~~~~~~V~~Gs~V~l~d   96 (158)
                           .+.+|.+-.+.+
T Consensus        61 -----~f~~G~~Y~l~~   72 (115)
T 2yxy_A           61 -----DFHPGEIYEIEG   72 (115)
T ss_dssp             -----GCCTTCEEEETT
T ss_pred             -----HCCCCCEEEECC
T ss_conf             -----354686788458


No 14 
>1o9g_A RRNA methyltransferase; antibiotic resistance, Se-MAD; 1.5A {Streptomyces viridochromogenes} SCOP: c.66.1.29 PDB: 1o9h_A
Probab=56.31  E-value=3.6  Score=20.64  Aligned_cols=85  Identities=20%  Similarity=0.259  Sum_probs=49.5

Q ss_pred             CCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             1488999999999999987-248999999999975176222430489998876879999999974444210472101332
Q gi|254780440|r    6 PVTSKGFDKIQQELRWRQQ-EERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGD   84 (158)
Q Consensus         6 ~lT~~g~~~L~~El~~l~~-~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~   84 (158)
                      .+|++|+++-++||..+-. -.+|.-++...               +|.+-.+.+.+.-..+-..+++|-|.+|.....-
T Consensus        99 LLt~~GL~~R~~eL~e~~~~f~kps~~~a~~---------------sA~Rl~~~l~a~gg~~p~~~~~ADvfdp~~l~~~  163 (250)
T 1o9g_A           99 LLSPAGLTARELERREQSERFGKPSYLEAAQ---------------AARRLRERLTAEGGALPCAIRTADVFDPRALSAV  163 (250)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHHCCHHHHHHHH---------------HHHHHHHHHHHTTSSCCEEEEECCTTCGGGHHHH
T ss_pred             HCCHHHHHHHHHHHHHHHHHHCCCHHHHHHH---------------HHHHHHHHHHCCCCCCCCHHHEECCCCCCHHHHH
T ss_conf             1131016788999999999848824789998---------------8899999986037998612100113586136676


Q ss_pred             CCCCCCEEEEEECCCCCEEEE
Q ss_conf             111365799953476523599
Q gi|254780440|r   85 RIAFGATVSLVEKNSGDKKNY  105 (158)
Q Consensus        85 ~V~~Gs~V~l~d~~~~~~~~~  105 (158)
                      ..+++.-|.+.|+.-|+..++
T Consensus       164 ~~g~~pDiVvTDlPYGe~t~W  184 (250)
T 1o9g_A          164 LAGSAPDVVLTDLPYGERTHW  184 (250)
T ss_dssp             HTTCCCSEEEEECCGGGSSSS
T ss_pred             HCCCCCCEEEECCCCCCEEEE
T ss_conf             426888878843787740121


No 15 
>1hxv_A Trigger factor; FKBP fold, ppiase, chaperone; NMR {Mycoplasma genitalium} SCOP: d.26.1.1
Probab=45.68  E-value=5.5  Score=19.47  Aligned_cols=23  Identities=9%  Similarity=0.120  Sum_probs=19.0

Q ss_pred             CCCHHHHHHCCCCCCCEEEEECC
Q ss_conf             13178998728888878999828
Q gi|254780440|r  122 ISSPIARALIGKELGDIISVNAP  144 (158)
Q Consensus       122 ~~SPlG~ALlG~~~Gd~V~v~~p  144 (158)
                      +..-+-.+|+|.++||+.++.+.
T Consensus        66 ~~~gf~e~LiG~k~Ge~k~~~v~   88 (113)
T 1hxv_A           66 FIKGFETGLIAMKVNQKKTLALT   88 (113)
T ss_dssp             SCTTHHHHHHTSCSSEEEEECCC
T ss_pred             CCCCHHHHHCCCCCCCEEEEEEE
T ss_conf             65117888488878998999987


No 16 
>1cz4_A VCP-like ATPase; double-PSI beta-barrel, beta-CLAM, substrate recognition DOM hydrolase; NMR {Thermoplasma acidophilum} SCOP: b.52.2.3 d.31.1.1 PDB: 1cz5_A
Probab=44.60  E-value=16  Score=16.47  Aligned_cols=71  Identities=18%  Similarity=0.138  Sum_probs=32.6

Q ss_pred             CCCCCCEEEEEECCCCCEEEEEEECHHHCCCCC-CEECCCCHHHHHHCCCC--CCCEEEEEC----CCCEEEEEEEEE
Q ss_conf             111365799953476523599996310133458-81501317899872888--887899982----897199999998
Q gi|254780440|r   85 RIAFGATVSLVEKNSGDKKNYQIVGDQEADVQS-GLVSISSPIARALIGKE--LGDIISVNA----PGGEKTYEILQV  155 (158)
Q Consensus        85 ~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~-~~IS~~SPlG~ALlG~~--~Gd~V~v~~----p~G~~~~~Il~I  155 (158)
                      .|++|-.|++.-.+-......+|......+... ..-....-|...|.|+-  .||.|.+..    +.+...|+|++.
T Consensus        78 gv~igd~V~V~k~~~~~A~~V~laP~~~~~~~~~~~~~~~~~l~~~l~~rpv~~Gd~v~v~~~~~~g~~~v~f~Vv~t  155 (185)
T 1cz4_A           78 GASIGDKVKVRKVRTEIAKKVTLAPIIRKDQRLKFGEGIEEYVQRALIRRPMLEQDNISVPGLTLAGQTGLLFKVVKT  155 (185)
T ss_dssp             TCCTTCEEEEEEECCCBCSEEEEEEECSTTCCSCCCSSHHHHHHHHHTTCEECTTCEECCSSCCCSSCCCCEEEEEEE
T ss_pred             CCCCCCEEEEEECCCCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCEEEECCCCCCCCCEEEEEEEEE
T ss_conf             867998799998567765489990245445522344117999999867996207999997123678885178999998


No 17 
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A*
Probab=43.09  E-value=17  Score=16.33  Aligned_cols=79  Identities=14%  Similarity=0.129  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC----C----------C----------CCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999998724899999999997517622----2----------4----------3048999887687999999
Q gi|254780440|r   10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLS----E----------N----------AEYQAAKELQNLNEGRMAE   65 (158)
Q Consensus        10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~----E----------N----------aeY~aAke~q~~~~~ri~~   65 (158)
                      +-+.+++.+++.|+. +|-.+.++|..+...|+-.    +          +          .+-..-+++-..+..+|..
T Consensus        44 ~~rR~l~~e~e~Lr~-erN~iSK~Ig~~kk~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~~~k~Lk~~i~~  122 (484)
T 3lss_A           44 KKWRRTQFLTEASKK-LINICSKAVGAKKKAKEADGDTSEIPPQVKEAYENGTLKGEQVEQLCVLQLKQLSKDLSDQVAG  122 (484)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHTTCC----------------------------CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999-9869999999998468754104454444433221000000012244699999999999999999


Q ss_pred             H-------HHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             9-------974444210472101332111365
Q gi|254780440|r   66 L-------ENIITRAEVIDISTMSGDRIAFGA   90 (158)
Q Consensus        66 L-------~~~L~~A~iv~~~~~~~~~V~~Gs   90 (158)
                      |       +..+... ...-..++.+.|.+|.
T Consensus       123 le~~l~ele~~l~~l-ll~IPNiph~~VP~G~  153 (484)
T 3lss_A          123 LAKEAQQLEEERDKL-MLNVGNILHESVPIAQ  153 (484)
T ss_dssp             HHHHHHHHHHHHHHH-HTTCCCCCCTTSCCCS
T ss_pred             HHHHHHHHHHHHHHH-HHHCCCCCCCCCCCCC
T ss_conf             999999999999999-9728997786578887


No 18 
>2kw8_A LPXTG-SITE transpeptidase family protein; sortase, SRTA, protein binding; NMR {Bacillus anthracis}
Probab=42.74  E-value=17  Score=16.29  Aligned_cols=28  Identities=21%  Similarity=0.202  Sum_probs=23.7

Q ss_pred             CCCCCCCEEEEECCCCEEEEEEEEEEEC
Q ss_conf             2888887899982897199999998979
Q gi|254780440|r  131 IGKELGDIISVNAPGGEKTYEILQVLWI  158 (158)
Q Consensus       131 lG~~~Gd~V~v~~p~G~~~~~Il~I~yi  158 (158)
                      --.+.||.|.+..+++.+.|+|.++..+
T Consensus        87 ~~l~~gd~i~l~~~~~~~~Y~V~~~~~v  114 (158)
T 2kw8_A           87 ASLKKGDKIYLYDNENEYEYAVTGVSEV  114 (158)
T ss_dssp             GGCCTTCEEEEECSSEEEEEEEEEEEEE
T ss_pred             HHCCCCCEEEEEECCEEEEEEEEEEEEE
T ss_conf             6576999899997997999999999999


No 19 
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus VF5}
Probab=41.49  E-value=18  Score=16.17  Aligned_cols=79  Identities=18%  Similarity=0.236  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             9999999999999872489999999999751762224--30489998876879999999974444210472101332111
Q gi|254780440|r   10 KGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSEN--AEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIA   87 (158)
Q Consensus        10 ~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~EN--aeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~   87 (158)
                      +-+.+|+.+++.|+. +|-.++++|..+...|.-.+.  .+-..-+++...++.....++..+... ...-..++.+.|.
T Consensus        37 ~~~r~l~~e~e~Lr~-erN~iSKeIg~~kk~~~~~~~l~~~~~~lk~~i~~le~~~~~i~~~l~~~-ll~IPNi~~~~VP  114 (425)
T 2dq3_A           37 KRRREIIKRLEALRS-ERNKLSKEIGKLKREGKDTTEIQNRVKELKEEIDRLEEELRKVEEELKNT-LLWIPNLPHPSVP  114 (425)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHHTTGGGSSCSCTTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHH-HHTSCCCCCTTSC
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCCC
T ss_conf             999999999999999-99999999999986798899999999999999999999999999999999-9727898788889


Q ss_pred             CCC
Q ss_conf             365
Q gi|254780440|r   88 FGA   90 (158)
Q Consensus        88 ~Gs   90 (158)
                      .|.
T Consensus       115 ~G~  117 (425)
T 2dq3_A          115 VGE  117 (425)
T ss_dssp             CCS
T ss_pred             CCC
T ss_conf             998


No 20 
>2kfw_A FKBP-type peptidyl-prolyl CIS-trans isomerase SLYD; protein, cobalt, copper, cytoplasm, metal- binding, nickel, rotamase, zinc; NMR {Escherichia coli}
Probab=41.34  E-value=18  Score=16.15  Aligned_cols=26  Identities=35%  Similarity=0.461  Sum_probs=19.9

Q ss_pred             CCCCHHHHHHCCCCCCCEEEEECCCC
Q ss_conf             01317899872888887899982897
Q gi|254780440|r  121 SISSPIARALIGKELGDIISVNAPGG  146 (158)
Q Consensus       121 S~~SPlG~ALlG~~~Gd~V~v~~p~G  146 (158)
                      .+..-|=.||+|+++||.+++.+|..
T Consensus        40 ~lipglE~aL~Gm~~Ge~~~v~l~pe   65 (196)
T 2kfw_A           40 SLISGLETALEGHEVGDKFDVAVGAN   65 (196)
T ss_dssp             SSCHHHHHHHSSSCTTCEEEEECSTT
T ss_pred             CCCHHHHHHHCCCCCCCCEEEEECHH
T ss_conf             83678999751564896169997768


No 21 
>2w1j_A Putative sortase, sortase C-1; pilus, pneumococcus, pathogenicity, transferase; 1.24A {Streptococcus pneumoniae}
Probab=39.72  E-value=19  Score=16.00  Aligned_cols=29  Identities=28%  Similarity=0.261  Sum_probs=24.1

Q ss_pred             HCCCCCCCEEEEECCCCEEEEEEEEEEEC
Q ss_conf             72888887899982897199999998979
Q gi|254780440|r  130 LIGKELGDIISVNAPGGEKTYEILQVLWI  158 (158)
Q Consensus       130 LlG~~~Gd~V~v~~p~G~~~~~Il~I~yi  158 (158)
                      |-..+.||.|.+.+.++...|+|.++..+
T Consensus       127 L~~l~~GD~i~i~~~~~~~~Y~V~~~~vV  155 (212)
T 2w1j_A          127 LTKLKVGDKFYVHNIKEVMAYQVDQVKVI  155 (212)
T ss_dssp             GGGCCTTCEEEEECSSCEEEEEEEEEEEE
T ss_pred             HHHCCCCCEEEEEECCEEEEEEEEEEEEE
T ss_conf             76676799899998578999999689995


No 22 
>2gpj_A Siderophore-interacting protein; structural genomics, joint for structural genomics, JCSG; HET: FAD; 2.20A {Shewanella putrefaciens cn-32}
Probab=39.57  E-value=19  Score=15.98  Aligned_cols=64  Identities=17%  Similarity=0.352  Sum_probs=40.3

Q ss_pred             CCCCCCEEEEEECCCCC---EEEEEEECHHHCCCCCCE--ECCCCHHHHHHCCCCCCCEEEEECCCCEE
Q ss_conf             11136579995347652---359999631013345881--50131789987288888789998289719
Q gi|254780440|r   85 RIAFGATVSLVEKNSGD---KKNYQIVGDQEADVQSGL--VSISSPIARALIGKELGDIISVNAPGGEK  148 (158)
Q Consensus        85 ~V~~Gs~V~l~d~~~~~---~~~~~lVg~~e~d~~~~~--IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~  148 (158)
                      ....|-.|.|...+.+.   ...|+|.........-..  .....|...-+-..++||.|.+.-|.|..
T Consensus        38 ~~~pGq~v~l~~p~~g~~~~~R~YTi~~~~~~~~~~~~~~~~~~G~~s~w~~~l~~GD~v~v~gP~G~f  106 (252)
T 2gpj_A           38 ADQESAYIKLLFPQAGERPLMRTYTIRQQRDDEIDVDFVLHDTDGPASSWAKTAQVGELIQIGGPGLKK  106 (252)
T ss_dssp             SCCTTCEEEEEECCTTSCCEEEEEECCEEETTEEEEEEECCSSCCHHHHHHHHCCTTCEEEEEEEECCC
T ss_pred             CCCCCCEEEEEECCCCCCEEEEEEEECCCCCCCEEEEEEEECCCCCHHHHHHHCCCCCEEEEECCCCCC
T ss_conf             999896699995689985233464323788876189999971798369999867999836885477776


No 23 
>2k8i_A SLYD, peptidyl-prolyl CIS-trans isomerase; ppiase, chaperone, rotamase; NMR {Escherichia coli}
Probab=39.07  E-value=20  Score=15.93  Aligned_cols=22  Identities=36%  Similarity=0.490  Sum_probs=11.6

Q ss_pred             CHHHHHHCCCCCCCEEEEECCC
Q ss_conf             1789987288888789998289
Q gi|254780440|r  124 SPIARALIGKELGDIISVNAPG  145 (158)
Q Consensus       124 SPlG~ALlG~~~Gd~V~v~~p~  145 (158)
                      --|=.||+|+++|+..++.+|.
T Consensus        43 pglE~aL~Gm~~Ge~~~v~l~p   64 (171)
T 2k8i_A           43 SGLETALEGHEVGDKFDVAVGA   64 (171)
T ss_dssp             SHHHHHHTTCCTTCEEEEEEET
T ss_pred             HHHHHHHCCCCCCCEEEEEECH
T ss_conf             6899962657699506999774


No 24 
>1tvc_A Methane monooxygenase component C, methane monooxygenase; FAD-binding, NADH-binding, oxidoreductase; HET: FDA; NMR {Methylococcus capsulatus} SCOP: b.43.4.2 c.25.1.2
Probab=37.79  E-value=15  Score=16.62  Aligned_cols=62  Identities=16%  Similarity=0.199  Sum_probs=39.7

Q ss_pred             CCCCEEEEEECCCCCEEEEEEECHH-HCCCCCCEECC--CCHHHHHHCC-CCCCCEEEEECCCCEE
Q ss_conf             1365799953476523599996310-13345881501--3178998728-8888789998289719
Q gi|254780440|r   87 AFGATVSLVEKNSGDKKNYQIVGDQ-EADVQSGLVSI--SSPIARALIG-KELGDIISVNAPGGEK  148 (158)
Q Consensus        87 ~~Gs~V~l~d~~~~~~~~~~lVg~~-e~d~~~~~IS~--~SPlG~ALlG-~~~Gd~V~v~~p~G~~  148 (158)
                      ..|-.|.+.-.+.+..+.|+|+... +.+.-.=.|..  ..+....|.. .++||.|.+.-|.|..
T Consensus        45 ~pGQ~v~l~~~g~~~~R~YSias~p~~~~~i~l~Ik~~~~G~~S~~l~~~l~~G~~v~i~gP~G~~  110 (250)
T 1tvc_A           45 EPGQFMDLTIPGTDVSRSYSPANLPNPEGRLEFLIRVLPEGRFSDYLRNDARVGQVLSVKGPLGVF  110 (250)
T ss_dssp             CSCCEEEECTTSCSSSEEECCBCCSSSSCCEEEEECCCTTSSSHHHHHHHSSSSSEEEEEEEECCC
T ss_pred             CCCCEEEEEECCCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCHHHHHCCCCCCEEEEECCCCCC
T ss_conf             999159999899570377674688899988999999779997321265467899889995378875


No 25 
>1t2w_A Sortase; transpeptidase, beta barrel, hydrolase; 1.80A {Staphylococcus aureus} SCOP: b.100.1.1 PDB: 1t2o_A 1ija_A 2kid_A* 1t2p_A
Probab=34.78  E-value=23  Score=15.50  Aligned_cols=27  Identities=7%  Similarity=0.196  Sum_probs=20.8

Q ss_pred             CCCCCCCEEEEECCCCEEEEEEEEEEE
Q ss_conf             288888789998289719999999897
Q gi|254780440|r  131 IGKELGDIISVNAPGGEKTYEILQVLW  157 (158)
Q Consensus       131 lG~~~Gd~V~v~~p~G~~~~~Il~I~y  157 (158)
                      --.+.||.|.+...++.+.|+|.++..
T Consensus        73 ~~l~~gd~i~~~~~~~~~~Y~V~~~~i   99 (145)
T 1t2w_A           73 KAAKKGSMVYFKVGNETRKYKMTSIRD   99 (145)
T ss_dssp             GGCCTTCEEEEEETTEEEEEEEEEEEE
T ss_pred             HHCCCCCEEEEECCCEEEEEEEEEEEE
T ss_conf             335589899997699399999999999


No 26 
>3fn5_A Sortase A; sortase-fold, hydrolase; HET: EPE; 1.50A {Streptococcus pyogenes serotype M1} PDB: 3fn6_A 3fn7_A
Probab=32.51  E-value=25  Score=15.27  Aligned_cols=28  Identities=21%  Similarity=0.084  Sum_probs=23.5

Q ss_pred             HCCCCCCCEEEEECCCCEEEEEEEEEEE
Q ss_conf             7288888789998289719999999897
Q gi|254780440|r  130 LIGKELGDIISVNAPGGEKTYEILQVLW  157 (158)
Q Consensus       130 LlG~~~Gd~V~v~~p~G~~~~~Il~I~y  157 (158)
                      |-..+.||.|.+..+++.+.|+|.++..
T Consensus        96 L~~l~~Gd~i~l~~~~~~y~Y~V~~~~i  123 (187)
T 3fn5_A           96 LERAQNGMSIYLTDKEKIYEYIIKDVFT  123 (187)
T ss_dssp             GGGCCTTCEEEEECSSEEEEEEEEEEEE
T ss_pred             HHHCCCCCEEEEEECCEEEEEEEEEEEE
T ss_conf             8776468889999699499999999999


No 27 
>2rkh_A Putative APHA-like transcription factor; ZP_00208345.1, structural genomics, joint center for structural genomics, JCSG; 2.00A {Magnetospirillum magnetotacticum ms-1}
Probab=31.11  E-value=26  Score=15.12  Aligned_cols=65  Identities=12%  Similarity=0.105  Sum_probs=33.4

Q ss_pred             CCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             431-48899999999999998724899999999997517622243048999887687999999997444421
Q gi|254780440|r    4 KIP-VTSKGFDKIQQELRWRQQEERPRIIKAISEARAYGDLSENAEYQAAKELQNLNEGRMAELENIITRAE   74 (158)
Q Consensus         4 k~~-lT~~g~~~L~~El~~l~~~~r~~~~~~i~~A~~~GDl~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~   74 (158)
                      |+| ||++|.+.|.+=|..-.....+-........-.+.++-.      ..+....++.++..++..+++..
T Consensus        77 kvY~IT~~Gr~~l~~wl~~~~~~~~~~~~~~~~lkl~f~~~l~------~~~~~~~L~~~~~~~~~~l~~~~  142 (180)
T 2rkh_A           77 AMLAISAAGRRELHSLLTARLRPGSDLSKLVVALKMRFLGLME------AEERAHQIDLLIEGVDSELARLA  142 (180)
T ss_dssp             CEEEECHHHHHHHHHHHSCCCCSSSCTHHHHHHHHHHTGGGSC------HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCC------HHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             5888566899999999874255653220478999888874099------99999999999999998899999


No 28 
>2w1k_A Putative sortase; pilus, pneumococcus, pathogenicity, transferase; HET: MES; 2.14A {Streptococcus pneumoniae}
Probab=30.52  E-value=27  Score=15.06  Aligned_cols=31  Identities=19%  Similarity=0.253  Sum_probs=25.1

Q ss_pred             HHHCCCCCCCEEEEECCCCEEEEEEEEEEEC
Q ss_conf             9872888887899982897199999998979
Q gi|254780440|r  128 RALIGKELGDIISVNAPGGEKTYEILQVLWI  158 (158)
Q Consensus       128 ~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~yi  158 (158)
                      .-|--.+.||.|.+...++...|+|.++..+
T Consensus       123 ~~L~~l~~GD~i~i~~~~~~~~Y~V~~~~vV  153 (252)
T 2w1k_A          123 RHLDQLKVGDALYYDNGQEIVEYQMMDTEII  153 (252)
T ss_dssp             TTGGGCCTTCEEEEECSSEEEEEEEEEEEEE
T ss_pred             CCHHHCCCCCEEEEEECCEEEEEEEEEEEEE
T ss_conf             2265576798899997998999999689998


No 29 
>1nul_A XPRT, xanthine-guanine phosphoribosyltransferase; purine salvage enzyme; 1.80A {Escherichia coli} SCOP: c.61.1.1 PDB: 1a96_A* 1a95_A 1a98_A 1a97_A*
Probab=29.97  E-value=27  Score=15.03  Aligned_cols=22  Identities=27%  Similarity=0.175  Sum_probs=18.9

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             9984314889999999999999
Q gi|254780440|r    1 MVDKIPVTSKGFDKIQQELRWR   22 (158)
Q Consensus         1 M~~k~~lT~~g~~~L~~El~~l   22 (158)
                      |++|+|+|-+-+++.-.+|.+-
T Consensus         1 M~eK~~~sw~~i~~~~~~La~~   22 (152)
T 1nul_A            1 MSEKYIVTWDMLQIHARKLASR   22 (152)
T ss_dssp             --CEEECCHHHHHHHHHHHHHH
T ss_pred             CCCCEEECHHHHHHHHHHHHHH
T ss_conf             9976881799999999999999


No 30 
>1hmj_A RPB5, protein (subunit H); RNA polymerase, archaea; NMR {Methanocaldococcus jannaschii} SCOP: d.78.1.1
Probab=29.15  E-value=28  Score=14.91  Aligned_cols=27  Identities=19%  Similarity=0.393  Sum_probs=23.0

Q ss_pred             CEECCCCHHHHHHCCCCCCCEEEEECCC
Q ss_conf             8150131789987288888789998289
Q gi|254780440|r  118 GLVSISSPIARALIGKELGDIISVNAPG  145 (158)
Q Consensus       118 ~~IS~~SPlG~ALlG~~~Gd~V~v~~p~  145 (158)
                      =+|+..-|+++.+ |.+.||.+.+.-++
T Consensus        35 P~I~~~DPva~~~-g~~~GdiikI~R~S   61 (78)
T 1hmj_A           35 PKIYEDDPVIQEI-GAKEGDVVRVIRKS   61 (78)
T ss_pred             CEECCCCHHHHHH-CCCCCCEEEEEECC
T ss_conf             9213619978973-89999489999748


No 31 
>2qcp_X Cation efflux system protein CUSF; silver-binding, copper-binding, beta barrel, OB-fold, metalloprotein, metal resistance, metal-binding; 1.00A {Escherichia coli str} PDB: 1zeq_X 3e6z_X
Probab=25.37  E-value=28  Score=14.95  Aligned_cols=29  Identities=10%  Similarity=0.068  Sum_probs=21.4

Q ss_pred             HHHCCCCCCCEEEEECCCCEEEEEEEEEE
Q ss_conf             98728888878999828971999999989
Q gi|254780440|r  128 RALIGKELGDIISVNAPGGEKTYEILQVL  156 (158)
Q Consensus       128 ~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~  156 (158)
                      ..|-+.++||.|.+.+-...-.|.|.+|+
T Consensus        49 ~~l~~l~~Gd~V~F~~~~~~~~~~i~~i~   77 (80)
T 2qcp_X           49 TKMSEIKTGDKVAFNFVQQGNLSLLQDIK   77 (80)
T ss_dssp             CEECCCCTTCEEEEEEEEETTEEEEEEEE
T ss_pred             HHHHCCCCCCEEEEEEEECCCEEEEEEEE
T ss_conf             78736999999999999809939999999


No 32 
>1eik_A RNA polymerase subunit RPB5; RPBH, OCSP, NESG, protein structure initiative, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.78.1.1
Probab=25.26  E-value=29  Score=14.81  Aligned_cols=27  Identities=26%  Similarity=0.557  Sum_probs=22.7

Q ss_pred             EECCCCHHHHHHCCCCCCCEEEEECCCC
Q ss_conf             1501317899872888887899982897
Q gi|254780440|r  119 LVSISSPIARALIGKELGDIISVNAPGG  146 (158)
Q Consensus       119 ~IS~~SPlG~ALlG~~~Gd~V~v~~p~G  146 (158)
                      +|+..-|+++.+ |.+.||.|.+.-++.
T Consensus        38 ~I~~~DPva~~~-g~k~GdvikI~R~s~   64 (77)
T 1eik_A           38 KIKTTDPVAKAI-GAKRGDIVKIIRKSP   64 (77)
T ss_dssp             CCBTTSHHHHGG-GCCTTCEEEEEEEET
T ss_pred             EECCCCHHHHHH-CCCCCCEEEEEECCC
T ss_conf             414629725400-787885899996589


No 33 
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: ATG; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B
Probab=24.97  E-value=34  Score=14.44  Aligned_cols=62  Identities=19%  Similarity=0.242  Sum_probs=31.1

Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCCCEEEEEEECH-HHCCCCCCEECCCCHHHHHHCCCCCCCEEEEEC
Q ss_conf             7210133211136579995347652359999631-013345881501317899872888887899982
Q gi|254780440|r   77 DISTMSGDRIAFGATVSLVEKNSGDKKNYQIVGD-QEADVQSGLVSISSPIARALIGKELGDIISVNA  143 (158)
Q Consensus        77 ~~~~~~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~-~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v~~  143 (158)
                      .+..+..=.+..|..|.|..    ...+..++.+ ...+...+.|. .+.+-+..+|-+.||.|.+.-
T Consensus        42 ~~~~m~~L~l~~gd~V~i~g----~~~~~a~~~~~~~~~~~~~~i~-l~~~~r~n~gv~~gd~V~v~~  104 (489)
T 3hu3_A           42 SQPKMDELQLFRGDTVLLKG----KKRREAVCIVLSDDTCSDEKIR-MNRVVRNNLRVRLGDVISIQP  104 (489)
T ss_dssp             CHHHHHHHTCCTTCEEEEEC----STTCEEEEEEEECTTSCTTEEE-CCHHHHHHTTCCTTCEEEEEE
T ss_pred             CHHHHHHCCCCCCCEEEEEC----CCCCEEEEEECCCCCCCCCEEE-ECHHHHHHCCCCCCCEEEEEE
T ss_conf             99999874999999999982----7885499997576778899799-778999535878999799998


No 34 
>1ix5_A FKBP; ppiase, isomerase; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.26.1.1
Probab=24.49  E-value=30  Score=14.78  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=21.2

Q ss_pred             CCCHHHHHHCCCCCCCEEEEECCCC
Q ss_conf             1317899872888887899982897
Q gi|254780440|r  122 ISSPIARALIGKELGDIISVNAPGG  146 (158)
Q Consensus       122 ~~SPlG~ALlG~~~Gd~V~v~~p~G  146 (158)
                      ...-+-.||+|.++|+..++.+|..
T Consensus        54 ~~pglE~al~gm~~Ge~~~v~l~p~   78 (151)
T 1ix5_A           54 LIQGFEEAVLDMEVGDEKTVKIPAE   78 (151)
T ss_dssp             SCHHHHHHHHTCCTTCCCEEEECTT
T ss_pred             CCHHHHHHHCCCCCCCEEEEEECHH
T ss_conf             6655999847746996799976989


No 35 
>3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 2.37A {Chromobacterium violaceum}
Probab=24.29  E-value=29  Score=14.84  Aligned_cols=27  Identities=11%  Similarity=0.201  Sum_probs=12.3

Q ss_pred             CCCEEEEEECCCCCEEEEEEECHHHCCC
Q ss_conf             3657999534765235999963101334
Q gi|254780440|r   88 FGATVSLVEKNSGDKKNYQIVGDQEADV  115 (158)
Q Consensus        88 ~Gs~V~l~d~~~~~~~~~~lVg~~e~d~  115 (158)
                      +-....+.. .+|+...+...|....|.
T Consensus        80 ~~~e~Ri~~-~dG~~~wv~~~~~~~~d~  106 (125)
T 3nja_A           80 FDVEYRIVR-PDGQVRELLERNHIQRQA  106 (125)
T ss_dssp             EEEEEEEEC-TTSCEEEEEEEEEEEECT
T ss_pred             EEEEEEEEC-CCCCEEEEEEEEEEEECC
T ss_conf             049999975-898789999999999999


No 36 
>2vb2_X Copper protein, cation efflux system protein CUSF; cation PI, periplasm, metal-binding, metal transport, copper tolerance, copper transport; 1.70A {Escherichia coli} PDB: 2vb3_X
Probab=24.29  E-value=30  Score=14.74  Aligned_cols=38  Identities=8%  Similarity=0.036  Sum_probs=24.6

Q ss_pred             EECCCCHHHHHHCCCCCCCEEEEECCCCEEEEEEEEEE
Q ss_conf             15013178998728888878999828971999999989
Q gi|254780440|r  119 LVSISSPIARALIGKELGDIISVNAPGGEKTYEILQVL  156 (158)
Q Consensus       119 ~IS~~SPlG~ALlG~~~Gd~V~v~~p~G~~~~~Il~I~  156 (158)
                      ...+.-.=..-|-+.++||.|.+.+-...-.|.|.+|+
T Consensus        48 TM~F~v~~~~~l~~l~~Gd~V~f~~~~~~~~~~I~~i~   85 (88)
T 2vb2_X           48 TMRFTITPQTKMSEIKTGDKVAFNFVQQGNLSLLQDIK   85 (88)
T ss_dssp             EEEEECCTTCEECCCCTTCEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEECCCHHHHHCCCCCCEEEEEEEECCCEEEEEEEE
T ss_conf             88878789547634999999999999819919999999


No 37 
>2rcz_A Tight junction protein ZO-1; PDZ, domain-swapping, cell junction, membrane, phosphorylation, SH3 domain, protein bindin; 1.70A {Homo sapiens} PDB: 2jwe_A 2osg_A
Probab=24.13  E-value=35  Score=14.34  Aligned_cols=46  Identities=24%  Similarity=0.366  Sum_probs=29.5

Q ss_pred             CCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCC-CCCCCEEE
Q ss_conf             65799953476523599996310133458815013178998728-88887899
Q gi|254780440|r   89 GATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIG-KELGDIIS  140 (158)
Q Consensus        89 Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG-~~~Gd~V~  140 (158)
                      |++|++.-.+.++..-|++-++    ..-..|...||-.+  .| -++||.+.
T Consensus         1 G~~V~l~~~~~~~~~G~~~~~~----i~I~~v~~~g~A~~--~G~L~~GD~Il   47 (81)
T 2rcz_A            1 GSKVTLVKSRKNEEYGLRLASH----IFVKEISQDSLAAR--DGNIQEGDVVL   47 (81)
T ss_dssp             CEEEEEECCSTTCCCCEEEEEE----EEEEEECTTSHHHH--HSSCCTTCEEE
T ss_pred             CCEEEEEECCCCCCCCEEECCC----EEEEEECCCCHHHH--CCCCCCCCEEE
T ss_conf             9189999899899873896898----89999899997998--69998999999


No 38 
>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A
Probab=23.59  E-value=36  Score=14.27  Aligned_cols=28  Identities=14%  Similarity=0.255  Sum_probs=18.1

Q ss_pred             CCCCCCCCCEEEEEECCCCCEEEEEEECHH
Q ss_conf             332111365799953476523599996310
Q gi|254780440|r   82 SGDRIAFGATVSLVEKNSGDKKNYQIVGDQ  111 (158)
Q Consensus        82 ~~~~V~~Gs~V~l~d~~~~~~~~~~lVg~~  111 (158)
                      |.-.|..|..|++.. . +...++.+++-.
T Consensus        45 ~s~~v~~gD~i~i~~-~-~~~~~i~V~~l~   72 (133)
T 1dm9_A           45 PSKIVELNATLTLRQ-G-NDERTVIVKAIT   72 (133)
T ss_dssp             TTCBCCTTCEEEEEE-T-TEEEEEEECEEE
T ss_pred             CCCCCCCCCEEEEEE-C-CCEEEEEEEECC
T ss_conf             666688999899986-8-926799999767


No 39 
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori}
Probab=22.01  E-value=37  Score=14.17  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=16.7

Q ss_pred             CCCCCCCCCEEEEEECCCCCEEEEEEE
Q ss_conf             332111365799953476523599996
Q gi|254780440|r   82 SGDRIAFGATVSLVEKNSGDKKNYQIV  108 (158)
Q Consensus        82 ~~~~V~~Gs~V~l~d~~~~~~~~~~lV  108 (158)
                      |...|..|..|++...  .+...+.++
T Consensus        37 ~s~~V~~Gd~i~i~~~--~~~~~~~v~   61 (92)
T 2k6p_A           37 ASKEVKAGDTISLHYL--KGIEEYTIL   61 (92)
T ss_dssp             TTCBCCTTCEEEECCS--SCCEEEEEC
T ss_pred             ECCEECCCCEEEEEEC--CCCEEEEEE
T ss_conf             2368279999999838--970799999


No 40 
>2jv2_A Putative uncharacterized protein PH1500; AAA ATPase NC-domain-like, unknown function; NMR {Pyrococcus horikoshii}
Probab=21.79  E-value=39  Score=14.05  Aligned_cols=34  Identities=29%  Similarity=0.491  Sum_probs=27.5

Q ss_pred             CCHHHHHHCCCC--CCCEEEEECCCCEEEEEEEEEE
Q ss_conf             317899872888--8878999828971999999989
Q gi|254780440|r  123 SSPIARALIGKE--LGDIISVNAPGGEKTYEILQVL  156 (158)
Q Consensus       123 ~SPlG~ALlG~~--~Gd~V~v~~p~G~~~~~Il~I~  156 (158)
                      ..-+.+.|.|+-  .||.|.+.+-++...|.|.+.+
T Consensus        30 ~eyvk~~L~grpv~~GD~I~V~~lg~~l~F~Vv~t~   65 (83)
T 2jv2_A           30 VDVIRIKLQGKTVRTGDVIGISILGKEVKFKVVQAY   65 (83)
T ss_dssp             HHHHHHHHTTSEECTTCEEEEEETTEEEEEEEEEEE
T ss_pred             HHHHHHHHCCCCCCCCCEEEEEECCCEEEEEEEEEE
T ss_conf             999999867997447999999856966889999863


No 41 
>3g66_A Sortase C; pilus, transferase; HET: MES; 1.70A {Streptococcus pneumoniae} PDB: 3g69_A*
Probab=21.71  E-value=39  Score=14.04  Aligned_cols=29  Identities=21%  Similarity=0.272  Sum_probs=24.2

Q ss_pred             HCCCCCCCEEEEECCCCEEEEEEEEEEEC
Q ss_conf             72888887899982897199999998979
Q gi|254780440|r  130 LIGKELGDIISVNAPGGEKTYEILQVLWI  158 (158)
Q Consensus       130 LlG~~~Gd~V~v~~p~G~~~~~Il~I~yi  158 (158)
                      |--.+.||.|.+...++.+.|+|.+++.+
T Consensus       126 L~~l~~Gd~i~i~~~~~~~~Y~V~~~~iV  154 (212)
T 3g66_A          126 LDKMKKGDIFYLHVLDQVLAYQVDQIVTV  154 (212)
T ss_dssp             GGGCCTTCEEEEEETTEEEEEEEEEEEEE
T ss_pred             HHCCCCCCEEEEEECCCEEEEEEEEEEEE
T ss_conf             54388898899983993999999999998


No 42 
>3i0u_A Phosphothreonine lyase OSPF; APO-structure, type III effector, plasmid, secreted, virulence, structural genomics; 2.70A {Shigella flexneri}
Probab=21.42  E-value=40  Score=14.00  Aligned_cols=51  Identities=18%  Similarity=0.150  Sum_probs=30.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCE--EEEEEC
Q ss_conf             224304899988768799999999744442104721013321113657--999534
Q gi|254780440|r   44 SENAEYQAAKELQNLNEGRMAELENIITRAEVIDISTMSGDRIAFGAT--VSLVEK   97 (158)
Q Consensus        44 ~ENaeY~aAke~q~~~~~ri~~L~~~L~~A~iv~~~~~~~~~V~~Gs~--V~l~d~   97 (158)
                      +||..|-+.  .+...-.=|..|+.+|..+-|. |+..|.+-|..+.|  +.++|.
T Consensus       140 ~~ds~Ysa~--~l~k~r~fi~~lE~~L~~aGi~-pg~~P~SDV~p~~W~yaSYRNE  192 (218)
T 3i0u_A          140 QECSQYSAL--LLHKIRQFIMCLESNLLRSKIA-PGEYPASDVRPEDWKYVSYRNE  192 (218)
T ss_dssp             SSTTCCCHH--HHHHHHHHHHHHHHHHHHTTCC-BCCCCTTCBCCTTCSSEEEEES
T ss_pred             CCCCCCCHH--HHHHHHHHHHHHHHHHHHCCCC-CCCCCCCCCCCCCCCEEEEHHH
T ss_conf             555645799--9987999999999999973788-8989855468244541231102


No 43 
>3enu_A Nitrollin, putative uncharacterized protein; betagamma crystallin, structural protein; 1.86A {Nitrosospira multiformis} PDB: 3ent_A
Probab=21.09  E-value=40  Score=13.96  Aligned_cols=41  Identities=12%  Similarity=0.144  Sum_probs=27.2

Q ss_pred             CCCCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHH
Q ss_conf             21113657999534765235999963101334588150131789987
Q gi|254780440|r   84 DRIAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARAL  130 (158)
Q Consensus        84 ~~V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~AL  130 (158)
                      ..-.-|+||.+.+..+=+-...+|+||.+.-      |..-|.|+.+
T Consensus        17 ~~~~~GCW~~F~~~rNFQGD~L~L~GPA~~~------~m~~~~~~~~   57 (114)
T 3enu_A           17 ELENRGCWVKFFDKKNFQGDSLFLSGPATLP------RLIGPFGYDW   57 (114)
T ss_dssp             HHHHHCCEEEEESSGGGCSCEEEEESSEEES------SSEETTTEEC
T ss_pred             HHHHCCCEEEEECCCCCCCCEEEEECCHHHH------HCCCCHHHHH
T ss_conf             5660872577631676567468987746632------2026024565


No 44 
>1uit_A Human discs large 5 protein; PDZ domain, HDLG5, maguk family, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1
Probab=20.78  E-value=41  Score=13.92  Aligned_cols=48  Identities=21%  Similarity=0.290  Sum_probs=31.4

Q ss_pred             CEEEEEECCCCCEEEEEEECHHHCCCCCCEECCCCHHHHHHCCCCCCCEEEE
Q ss_conf             5799953476523599996310133458815013178998728888878999
Q gi|254780440|r   90 ATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSISSPIARALIGKELGDIISV  141 (158)
Q Consensus        90 s~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~SPlG~ALlG~~~Gd~V~v  141 (158)
                      -.|++..  .+...=|+|+|..+.-..-..|...||-.++  |-++||.+.-
T Consensus        21 ~~v~l~k--~~~~lG~~i~gg~~~gi~V~~v~~gs~A~~~--gL~~GD~Il~   68 (117)
T 1uit_A           21 RHVKVQK--GSEPLGISIVSGEKGGIYVSKVTVGSIAHQA--GLEYGDQLLE   68 (117)
T ss_dssp             EEEEEEC--SSCCCCEEEEECTTSCEEEEEECTTSHHHHH--TCCTTCEECE
T ss_pred             EEEEEEE--CCCEECEEEECCCCCCEEEEEECCCCHHHHC--CCCCCCEEEE
T ss_conf             8999985--9971167998469899999998999968987--9999999999


No 45 
>2waq_H DNA-directed RNA polymerase RPO5 subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_H 2pmz_H 3hkz_H
Probab=20.62  E-value=40  Score=13.99  Aligned_cols=28  Identities=29%  Similarity=0.485  Sum_probs=22.6

Q ss_pred             CEECCCCHHHHHHCCCCCCCEEEEECCCC
Q ss_conf             81501317899872888887899982897
Q gi|254780440|r  118 GLVSISSPIARALIGKELGDIISVNAPGG  146 (158)
Q Consensus       118 ~~IS~~SPlG~ALlG~~~Gd~V~v~~p~G  146 (158)
                      =+|+..-|+++.+ |.+.||.|.+.-++.
T Consensus        43 P~I~~~DPva~~~-g~k~GdvvkI~R~s~   70 (84)
T 2waq_H           43 PWIRASDPVARSI-NAKPGDIIRIIRKSQ   70 (84)
T ss_dssp             CCCCSSSHHHHHH-TCCTTSCEEEEEEET
T ss_pred             CEECCCCHHHHHH-CCCCCCEEEEEECCC
T ss_conf             8004619867862-898897899997588


No 46 
>2pia_A Phthalate dioxygenase reductase; HET: FMN; 2.00A {Burkholderia cepacia} SCOP: b.43.4.2 c.25.1.2 d.15.4.2
Probab=20.50  E-value=41  Score=13.91  Aligned_cols=61  Identities=18%  Similarity=0.382  Sum_probs=37.6

Q ss_pred             CCCCCEEEEEECCCCCEEEEEEECHHHCCCCCCEECCC----CHHH-HHHC-CCCCCCEEEEECCCCEE
Q ss_conf             11365799953476523599996310133458815013----1789-9872-88888789998289719
Q gi|254780440|r   86 IAFGATVSLVEKNSGDKKNYQIVGDQEADVQSGLVSIS----SPIA-RALI-GKELGDIISVNAPGGEK  148 (158)
Q Consensus        86 V~~Gs~V~l~d~~~~~~~~~~lVg~~e~d~~~~~IS~~----SPlG-~ALl-G~~~Gd~V~v~~p~G~~  148 (158)
                      -..|-.|+|.- ..+..+.|+|.++...+ ..-.|++-    .... .+|+ ..++||.|.+.-|.|..
T Consensus        39 ~~pGQ~v~l~~-~~~~~R~YSi~s~p~~~-~~~~i~Vk~~~~G~~~~~~l~~~l~~Gd~v~v~~P~G~f  105 (321)
T 2pia_A           39 FEAGANLTVAV-PNGSRRTYSLCNDSQER-NRYVIAVKRDSNGRGGSISFIDDTSEGDAVEVSLPRNEF  105 (321)
T ss_dssp             CCTTCEEEEEC-TTSCEEEEECCSCTTCC-SEEEEEEECCTTSCSHHHHHHHSCCTTCEEEECCCBCCS
T ss_pred             CCCCCEEEEEE-CCCCEEEEEECCCCCCC-CEEEEEEEEECCCCCCHHHHHHHCCCCCEEEEECCCCCC
T ss_conf             89995599991-89988998837579999-989999999749983227777526799838981265477


Done!