Query         gi|254780778|ref|YP_003065191.1| elongation factor Ts [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 296
No_of_seqs    132 out of 2145
Neff          6.2 
Searched_HMMs 39220
Date          Sun May 29 20:53:50 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780778.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK09377 tsf elongation factor 100.0       0       0  682.2  21.1  270    1-291     1-271 (288)
  2 COG0264 Tsf Translation elonga 100.0       0       0  660.7  21.4  275    1-291     1-277 (296)
  3 TIGR00116 tsf translation elon 100.0       0       0  649.2  15.5  284    1-291     1-345 (364)
  4 PRK12332 tsf elongation factor 100.0       0       0  533.4  20.6  196    1-291     1-197 (216)
  5 CHL00098 tsf elongation factor 100.0       0       0  521.5  20.2  193    5-291     1-195 (207)
  6 KOG1071 consensus              100.0       0       0  417.7  10.3  252    3-291    44-332 (340)
  7 pfam00889 EF_TS Elongation fac 100.0       0       0  380.5  10.7  176   57-291     1-177 (177)
  8 LOAD_efts_N consensus           99.5   3E-14 7.6E-19  115.6   5.1   40    3-42      2-41  (41)
  9 KOG1071 consensus               98.5 5.1E-07 1.3E-11   67.5   7.4  116  148-291   102-220 (340)
 10 pfam00627 UBA UBA/TS-N domain.  97.7 6.6E-05 1.7E-09   53.4   4.5   36    5-41      2-37  (37)
 11 pfam00889 EF_TS Elongation fac  97.2 0.00061 1.6E-08   47.0   5.1   46  149-201     2-50  (177)
 12 COG0264 Tsf Translation elonga  97.0   0.002 5.1E-08   43.5   5.8   92  148-291    57-151 (296)
 13 PRK09377 tsf elongation factor  96.7  0.0048 1.2E-07   41.0   6.0   86  148-288    57-145 (288)
 14 COG1308 EGD2 Transcription fac  96.0   0.019 4.8E-07   37.1   5.5   40    3-42     82-121 (122)
 15 TIGR00264 TIGR00264 alpha-NAC   95.8   0.014 3.5E-07   38.0   4.1   40    3-42     85-124 (125)
 16 cd00194 UBA Ubiquitin Associat  95.4   0.032 8.2E-07   35.5   4.9   35    7-42      3-37  (38)
 17 smart00165 UBA Ubiquitin assoc  95.2    0.04   1E-06   34.9   4.7   34    7-41      3-36  (37)
 18 PRK06369 nac nascent polypepti  94.4    0.11 2.8E-06   32.0   5.5   40    3-42     76-115 (116)
 19 PRK12332 tsf elongation factor  88.0    0.28 7.1E-06   29.3   1.7   57  148-211    56-112 (216)
 20 CHL00098 tsf elongation factor  86.7    0.37 9.4E-06   28.5   1.7   43  148-196    53-95  (207)
 21 smart00804 TAP_C C-terminal do  86.2     2.3 5.8E-05   23.2   5.5   38    6-43     13-50  (63)
 22 KOG0944 consensus               78.1     2.7   7E-05   22.7   3.4   26   17-42    582-608 (763)
 23 KOG2561 consensus               77.7     4.7 0.00012   21.1   4.5   44   17-60    314-357 (568)
 24 pfam02845 CUE CUE domain. CUE   77.0     6.3 0.00016   20.3   5.0   37    7-43      3-40  (42)
 25 pfam00542 Ribosomal_L12 Riboso  75.2     4.1  0.0001   21.5   3.7   29    5-33     13-41  (68)
 26 pfam03943 TAP_C TAP C-terminal  72.8     8.3 0.00021   19.5   5.5   37    7-43      2-38  (51)
 27 KOG1364 consensus               58.7      15 0.00039   17.7   5.3   45    4-48      5-50  (356)
 28 cd01788 ElonginB Elongin B is   52.4     8.7 0.00022   19.4   1.7   35  234-268    27-61  (119)
 29 pfam08285 DPM3 Dolichol-phosph  46.4     6.8 0.00017   20.0   0.4   24   22-45     65-88  (91)
 30 pfam07442 Ponericin Ponericin.  45.0      20  0.0005   17.0   2.6   20   34-53      6-27  (29)
 31 pfam06972 DUF1296 Protein of u  43.6      26 0.00067   16.2   4.9   37    6-42      6-43  (60)
 32 TIGR00977 LeuA_rel 2-isopropyl  40.5      29 0.00074   15.9   2.9  113  117-237   175-348 (543)
 33 PRK11478 hypothetical protein;  39.2      13 0.00033   18.2   0.9   10   33-42     16-25  (129)
 34 TIGR02124 hypE hydrogenase exp  38.7      20  0.0005   17.0   1.8   26  257-282   225-251 (345)
 35 PRK00157 rplL 50S ribosomal pr  36.6      13 0.00034   18.1   0.7   14  128-141    21-34  (124)
 36 TIGR03081 metmalonyl_epim meth  36.2      16  0.0004   17.7   1.0   16   32-47     10-26  (128)
 37 TIGR00855 L12 ribosomal protei  34.4      14 0.00036   18.0   0.5   25    7-31     77-102 (131)
 38 cd02636 R3H_sperm-antigen R3H   30.1      43  0.0011   14.8   2.6   48  238-295     4-53  (61)
 39 pfam03474 DMA DMRTA motif. Thi  29.6      38 0.00096   15.1   2.0   17   25-41     22-38  (39)
 40 TIGR02194 GlrX_NrdH Glutaredox  27.3      37 0.00094   15.2   1.7   23   24-46     16-46  (72)
 41 COG3473 Maleate cis-trans isom  26.2      48  0.0012   14.4   2.1   37  250-292   121-157 (238)
 42 PRK04101 fosfomycin resistance  26.1      42  0.0011   14.8   1.8   12   32-43     13-24  (139)
 43 PRK12570 N-acetylmuramic acid-  25.7      51  0.0013   14.3   6.2   18  181-198   227-244 (296)
 44 smart00685 DM14 Repeats in fly  25.7      51  0.0013   14.2   3.3   26   21-46      9-37  (59)
 45 PHA01735 hypothetical protein   25.5      23  0.0006   16.5   0.4   19   28-46     29-47  (76)
 46 TIGR02448 TIGR02448 conserverd  25.0      49  0.0013   14.3   2.0   12  121-132    54-65  (107)
 47 TIGR00979 fumC_II fumarate hyd  24.8      29 0.00074   15.8   0.8   18  191-210   144-161 (459)
 48 TIGR02928 TIGR02928 orc1/cdc6   23.7      55  0.0014   14.0   3.1   55   70-135    76-131 (383)
 49 TIGR02544 III_secr_YscJ type I  23.0      29 0.00075   15.8   0.5   15  165-179   152-166 (203)
 50 pfam03738 GSP_synth Glutathion  22.9      57  0.0015   13.9   5.0   77    3-83     31-114 (372)
 51 KOG1715 consensus               22.3      59  0.0015   13.8   3.2   21   84-104    54-74  (187)
 52 TIGR02749 prenyl_cyano solanes  21.7      60  0.0015   13.8   2.8   65  123-193   137-211 (325)
 53 pfam08549 SWI-SNF_Ssr4 Fungal   21.1      62  0.0016   13.7   5.5  108  181-291   359-478 (669)
 54 PRK10291 glyoxalase I; Provisi  20.8      44  0.0011   14.7   1.0   12   32-43      5-16  (129)
 55 KOG1161 consensus               20.0      65  0.0017   13.5   3.7   55    7-62     73-138 (310)

No 1  
>PRK09377 tsf elongation factor Ts; Provisional
Probab=100.00  E-value=0  Score=682.23  Aligned_cols=270  Identities=47%  Similarity=0.719  Sum_probs=257.0

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCEEEEEEEEE
Q ss_conf             97355899999998719998999999996299989999999982388998651033642200004407885369999840
Q gi|254780778|r    1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIARDGYKKASIVEVNVE   80 (296)
Q Consensus         1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~~~~~~a~liEincE   80 (296)
                      |+.||+++||+||++||||||||||||+||+||+|+|++|||++|+++|+||++|.|+||+|+++.++ +.|+|+|||||
T Consensus         1 M~~isa~~vK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~LRkkG~akA~Kk~~R~a~EG~i~~~~~~-~~~~~vElncE   79 (288)
T PRK09377          1 MAAITAALVKELRERTGAGMMDCKKALTEANGDIEKAIEWLRKKGLAKAAKKAGRVAAEGLVAVKVDG-NKAALVEVNSE   79 (288)
T ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECC-CEEEEEEEECC
T ss_conf             97468999999998869869999999998599899999999997389888733842227169999759-86999999446


Q ss_pred             CCHHHCCHHHHHHHHHHHHHHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCC
Q ss_conf             3101022679999998887531033-565778640041000014677899998543431024443102222100000135
Q gi|254780778|r   81 TDSLAKNTDFQSLVSNIAGIALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHA  159 (296)
Q Consensus        81 TDFVAkn~~F~~l~~~i~~~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~  159 (296)
                      |||||||+.|++|++++++.++.++ .++++++..++  +|.||+|.+.+++++|||||+|||+.++ .+++++++|+|+
T Consensus        80 TDFVArne~F~~l~~~ia~~~l~~~~~~~e~l~~~~~--~~~tv~d~~~~~i~~iGEnI~lrR~~~~-~~~~~i~~Y~H~  156 (288)
T PRK09377         80 TDFVAKNEDFQALANEVAEAALANKPADVEALLALKL--DGGTVEEARKELIAKIGENISLRRFAVL-VEGGVVGSYLHG  156 (288)
T ss_pred             CCCHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHCCC--CCCCHHHHHHHHHHHHCCEEEEEEEEEE-CCCCEEEEEECC
T ss_conf             6311068889999999999998659433999971656--8981999999999863441675458998-159737888748


Q ss_pred             CCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             32346034434443035432157899988565566765433204587836277776656667763125786789977740
Q gi|254780778|r  160 SPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVN  239 (296)
Q Consensus       160 ~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~  239 (296)
                      +     |||||||.++++.      .+++|+||||||||+|.||++++||++++++|++|+++|++++|||++|++||++
T Consensus       157 ~-----gkigvlV~~~~~~------~e~ak~iAMHIaA~~P~~l~~~~vp~~~i~~E~~i~~~q~~~~gKP~~i~eKIv~  225 (288)
T PRK09377        157 G-----GRIGVLVALEGDD------EELAKDIAMHIAAMNPEYLSRDDVPAEVVEKEREIFEEQAKEEGKPEEIVEKIVE  225 (288)
T ss_pred             C-----CCEEEEEEECCCH------HHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             9-----9569999952877------9999999888873188014624388678899999999998737991889999986


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             1676664233302560002777439999987764207982899889876224
Q gi|254780778|r  240 GKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       240 Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                      |||+|||+|+|||+||||+||++||++||++.      +++|++|+||+|||
T Consensus       226 Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~~~------~~~v~~F~R~evGE  271 (288)
T PRK09377        226 GRLKKFLKEVVLLEQPFVKDPKKTVEQLLKEA------GAEVTGFVRFEVGE  271 (288)
T ss_pred             HHHHHHHHHHEECCCCCCCCCCCCHHHHHHHC------CCEEEEEEEEECCC
T ss_conf             56877876621057873068973499999976------99796899995068


No 2  
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=100.00  E-value=0  Score=660.74  Aligned_cols=275  Identities=46%  Similarity=0.655  Sum_probs=261.0

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECC-CCCEEEEEEEE
Q ss_conf             97355899999998719998999999996299989999999982388998651033642200004407-88536999984
Q gi|254780778|r    1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIARDG-YKKASIVEVNV   79 (296)
Q Consensus         1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~~~-~~~a~liEinc   79 (296)
                      |+.||+++||+||++||||||||||||+|++||+|+|++|||++|+++|.||++|.|+||+|+++.++ ++.|+|+||||
T Consensus         1 m~~ita~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG~akA~KKa~R~AaEGli~~~~~~~~~~av~vEvN~   80 (296)
T COG0264           1 MAEITAALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKGIAKAAKKAGRIAAEGLIAAKVDGDGKKAVLVEVNC   80 (296)
T ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHCHHHHHHHCCCCHHCCEEEEEECCCCCEEEEEEEEC
T ss_conf             97545999999998859868999999998479899999999984557666644862102169999718886789999854


Q ss_pred             ECCHHHCCHHHHHHHHHHHHHHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECC
Q ss_conf             03101022679999998887531033-56577864004100001467789999854343102444310222210000013
Q gi|254780778|r   80 ETDSLAKNTDFQSLVSNIAGIALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLH  158 (296)
Q Consensus        80 ETDFVAkn~~F~~l~~~i~~~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H  158 (296)
                      ||||||||+.|+.|++++++.++... .+++++....+. +|+||++.+..++++|||||.+||+..++..++++++|+|
T Consensus        81 ETDFVAkN~~F~~la~~ia~~~l~~~~~~ve~l~~~~~~-~~~tvee~~~~~~AkIGENi~lRR~~~~~~~~~~v~~Y~H  159 (296)
T COG0264          81 ETDFVAKNAEFQELANKIAKAALEKKPADVEELKAAFEP-GGKTVEEEIAALIAKIGENISLRRFAVLEAGDGVVGSYLH  159 (296)
T ss_pred             CCCCEECCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC-CCCCHHHHHHHHHHHHCCCEEEEEEEEEECCCCCEEEEEE
T ss_conf             642045774689999999999998385658999864403-6862999999999875234168888876157630788980


Q ss_pred             CCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             53234603443444303543215789998856556676543320458783627777665666776312578678997774
Q gi|254780778|r  159 ASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIV  238 (296)
Q Consensus       159 ~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv  238 (296)
                      ++     |||||||.++++.    ...+++|+|||||||++|.||+.++||++++++||+|+..|+..+|||++|++|||
T Consensus       160 ~~-----griGVlv~~~~~~----~~~~~ak~iAMHiAA~~P~~ls~~dV~~e~v~~Er~i~~~~~~~~gKP~~i~eKiV  230 (296)
T COG0264         160 GN-----GRIGVLVALKGGA----ADEELAKDIAMHIAAMNPQYLSREDVPAEVVEKEREIFLAQLKAEGKPENIVEKIV  230 (296)
T ss_pred             CC-----CCEEEEEEEECCC----HHHHHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             79-----7079999972463----27899998888998638732782128999999899999998774399699999998


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             01676664233302560002777439999987764207982899889876224
Q gi|254780778|r  239 NGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       239 ~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                      +|||+|||+|+|||+||||+||++||++||++.      +++|.+|+||++||
T Consensus       231 eGr~~Kf~~E~~Ll~Q~fV~d~~~TV~~~lke~------~~~v~~FvR~evGe  277 (296)
T COG0264         231 EGRMNKFLAEVCLLEQPFVKDPKKTVEQLLKEA------NAKVTEFVRFEVGE  277 (296)
T ss_pred             HHHHHHHHHHHHHCCCCEECCCCHHHHHHHHHC------CCEEEEEEEEECCC
T ss_conf             689998888872006840038610099999745------83361464431057


No 3  
>TIGR00116 tsf translation elongation factor Ts; InterPro: IPR001816   Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome , , . EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution.   Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) .   This entry represents EF-Tu (EF1A) proteins found primarily in bacteria, mitochondria and chloroplasts.    More information about these proteins can be found at Protein of the Month: Elongation Factors .; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005622 intracellular.
Probab=100.00  E-value=0  Score=649.23  Aligned_cols=284  Identities=39%  Similarity=0.579  Sum_probs=266.5

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCC--CEEEEEEE
Q ss_conf             9735589999999871999899999999629998999999998238899865103364220000440788--53699998
Q gi|254780778|r    1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIARDGYK--KASIVEVN   78 (296)
Q Consensus         1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~~~~~--~a~liEin   78 (296)
                      |+.||+++||+||++||||||||||||.++|||||+||+|||++|+++|+||+||+|+||+|.+.+++ .  +|+|||||
T Consensus         1 M~~i~a~lVKeLR~~T~AGmMDCKKAL~~~~GD~ekAi~~LRe~G~~KAaKKadrvAaEG~i~~~~~~-~fk~a~~vEvN   79 (364)
T TIGR00116         1 MMAITAQLVKELRERTGAGMMDCKKALVEANGDLEKAIDNLREKGIAKAAKKADRVAAEGVILLKSDN-NFKKAVIVEVN   79 (364)
T ss_pred             CCCCCHHHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHCCCEECCCEEEEEECC-CCCEEEEEEEC
T ss_conf             97777999998874058883136787521268388999997131733576520780004768887718-74157899972


Q ss_pred             EECCHHHCCHHHHHHHHHHHH--HHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CEE
Q ss_conf             403101022679999998887--531033-5657786400410000146778999985434310244431022221-000
Q gi|254780778|r   79 VETDSLAKNTDFQSLVSNIAG--IALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEG-VIS  154 (296)
Q Consensus        79 cETDFVAkn~~F~~l~~~i~~--~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~-~v~  154 (296)
                      |||||||||..|..|++.+.+  ....++ .+++++...++. +..+|+|++..++|+|||||.|||+..++.+++ +++
T Consensus        80 seTDFVAkn~gf~~f~~~~~~~~~~~a~~~~~~e~~~~~~l~-n~~~v~E~l~~~~AkigEnI~~Rr~~~l~~~~n~~i~  158 (364)
T TIGR00116        80 SETDFVAKNEGFKEFANKLLDKVFLKANKITTVEELQKQELE-NKEKVEEYLASLVAKIGENIVLRRVAVLEGQSNEVIG  158 (364)
T ss_pred             CCCCHHHHCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCEEEEEEEEEECCCHHHHH
T ss_conf             766555623358999999999999871786066787775520-5762787787665542352278999997167568887


Q ss_pred             EECCC-CCCCCHHHHHHHHHHCCC--C-CHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHH-----HHHHHH---
Q ss_conf             00135-323460344344430354--3-21578999885655667654332045878362777766-----566677---
Q gi|254780778|r  155 SYLHA-SPSEGLGSIGVLVALQSS--A-EDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANK-----RAHYMT---  222 (296)
Q Consensus       155 ~Y~H~-~~~~~~GkigvlV~l~~~--~-~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~E-----k~i~~~---  222 (296)
                      +|+|. +     +||||||.+++.  . ++...+.+++|+|||||||++|.||+.+||+++++++|     ++|+..   
T Consensus       159 ~YlH~e~-----~rIGVL~~~~g~df~~~~~~~~~e~~k~~AmHvAA~~P~fi~~~dV~~~~~~~Etlali~~I~~~nee  233 (364)
T TIGR00116       159 SYLHAEN-----ARIGVLVELKGKDFSDEEDKIVKELAKDLAMHVAASKPQFIDQDDVSQEVVKKETLALIREIITDNEE  233 (364)
T ss_pred             HHHCCCC-----CEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCEECCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             5312378-----72689988711231101012577766458888886188056724578778888999999999741145


Q ss_pred             --------------------------------HHHCCCC--HH--HHHHHHHHHHHHHHHHH-------HHHCCCCCCCC
Q ss_conf             --------------------------------6312578--67--89977740167666423-------33025600027
Q gi|254780778|r  223 --------------------------------EALDSGK--SG--NIVEKIVNGKMQSFCKE-------CVLLHQGFVVD  259 (296)
Q Consensus       223 --------------------------------~~~~~gK--p~--~i~ekIv~Gkl~Kf~~E-------~~LleQ~fv~D  259 (296)
                                                      |+..+||  |+  +|++|||+|||+||+.|       +||++|+||+|
T Consensus       234 akrlGkPlkniPtfGsrielsdevlahqkkaf~a~~~gk~~P~ka~i~~K~V~Gr~~Kf~~entlidqr~~L~~Q~fv~d  313 (364)
T TIGR00116       234 AKRLGKPLKNIPTFGSRIELSDEVLAHQKKAFQAELEGKENPKKAEILEKIVEGRMKKFLAENTLIDQRISLLGQAFVMD  313 (364)
T ss_pred             HHHHCCCHHHCCCCCCEEEHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHHHCEEEECCCEEEEC
T ss_conf             57515620213664531101367887668889999863178504457413334336666642123200121017614317


Q ss_pred             CCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             77439999987764207982899889876224
Q gi|254780778|r  260 PSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       260 ~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                      |++||+|+|++.+|..+.+.+|..|+||+|||
T Consensus       314 ~~~tv~q~l~e~SK~~~~~~~v~~F~R~EvGE  345 (364)
T TIGR00116       314 DKKTVGQFLKEISKAISKNAKVTEFVRFEVGE  345 (364)
T ss_pred             CCCCHHHHHHHHHHHHHCCCEEEEEEEEEECC
T ss_conf             86538999999987752485288889887537


No 4  
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=100.00  E-value=0  Score=533.38  Aligned_cols=196  Identities=43%  Similarity=0.646  Sum_probs=188.3

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE-CCCCCEEEEEEEE
Q ss_conf             973558999999987199989999999962999899999999823889986510336422000044-0788536999984
Q gi|254780778|r    1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIAR-DGYKKASIVEVNV   79 (296)
Q Consensus         1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~-~~~~~a~liEinc   79 (296)
                      |+ ||+++||+||++||||||||||||.|++||+|+|++|||++|+++|+||++|.|+||+|+++. .+.+.|+|+||||
T Consensus         1 M~-Isa~~VK~LR~~TgagmmdCKkAL~e~~gD~ekAi~~LR~kG~a~A~Kk~~R~a~eG~v~~~i~~~~~~~~ivEln~   79 (216)
T PRK12332          1 MA-ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREKGLAKAAKKAGRVAAEGIVGSYIHTGGRIGVLVELNC   79 (216)
T ss_pred             CC-CCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCHHHCCCEEEEEEECCCCEEEEEEEEE
T ss_conf             96-78999999998869879999999998599999999999997277778751433315705889807997899999971


Q ss_pred             ECCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCC
Q ss_conf             03101022679999998887531033565778640041000014677899998543431024443102222100000135
Q gi|254780778|r   80 ETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHA  159 (296)
Q Consensus        80 ETDFVAkn~~F~~l~~~i~~~~l~~~~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~  159 (296)
                      ||||||||++|+.                                                                   
T Consensus        80 ETDFVAkne~F~~-------------------------------------------------------------------   92 (216)
T PRK12332         80 ETDFVARNDEFQE-------------------------------------------------------------------   92 (216)
T ss_pred             CCCHHHCCHHHHH-------------------------------------------------------------------
T ss_conf             3521215727999-------------------------------------------------------------------


Q ss_pred             CCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             32346034434443035432157899988565566765433204587836277776656667763125786789977740
Q gi|254780778|r  160 SPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVN  239 (296)
Q Consensus       160 ~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~  239 (296)
                                                 |+++||||||||+|.||++++||++++++|++|+++|++.+|||++|++||++
T Consensus        93 ---------------------------lak~IAMhIAA~~P~~l~~~~vp~~viekE~~i~~~q~~~~gKP~~I~eKIv~  145 (216)
T PRK12332         93 ---------------------------LVKDIAMQIAAMNPEYVSREDIPAEVIEKEKEIERAQADLEGKPENIVEKIVE  145 (216)
T ss_pred             ---------------------------HHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             ---------------------------99999999970498763467689788999999999888605896999999987


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             1676664233302560002777439999987764207982899889876224
Q gi|254780778|r  240 GKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       240 Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                      |||+|||+|+|||+|+||+||++||++||+++++++|.+++|.+|+||+|||
T Consensus       146 Gkl~Kf~~E~~Ll~Q~fV~D~~~tV~~~l~~~~k~~G~~i~I~~FvRfevGE  197 (216)
T PRK12332        146 GRIEKFLKELCLLEQPFIKDPSKTVEDLVKEAIAKIGENIRVRRFTRFELGE  197 (216)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEEEEEECC
T ss_conf             8999888772011678431798279999999888508983899999998048


No 5  
>CHL00098 tsf elongation factor Ts
Probab=100.00  E-value=0  Score=521.50  Aligned_cols=193  Identities=36%  Similarity=0.528  Sum_probs=184.4

Q ss_pred             CHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE-CCCCCEEEEEEEEECCH
Q ss_conf             58999999987199989999999962999899999999823889986510336422000044-07885369999840310
Q gi|254780778|r    5 SAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIAR-DGYKKASIVEVNVETDS   83 (296)
Q Consensus         5 t~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~-~~~~~a~liEincETDF   83 (296)
                      ||++||+||++||||||||||||+|++||+|+|++|||++|+++|+||++|.|+||+|+.+. .+++.|+|+||||||||
T Consensus         1 tA~~VKeLR~~TgagmmdCKkAL~e~~gD~e~Ai~~LR~kG~a~a~Kk~~R~a~eG~v~~~i~~~~~~~~ivEln~ETDF   80 (207)
T CHL00098          1 SAKLVKELRDKTGAGMMDCKKALQENNGDFEKALESLRQKGLASANKKSTRTATEGRIESYIHTGGRLGVLVEVNCETDF   80 (207)
T ss_pred             CHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCEEEEEEEECCCCH
T ss_conf             97899999988698799999999985999999999999963778899875654278558999469968999998437717


Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCC
Q ss_conf             10226799999988875310335657786400410000146778999985434310244431022221000001353234
Q gi|254780778|r   84 LAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSE  163 (296)
Q Consensus        84 VAkn~~F~~l~~~i~~~~l~~~~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~~~~~  163 (296)
                      ||||+.|+                                                                        
T Consensus        81 VAkn~~F~------------------------------------------------------------------------   88 (207)
T CHL00098         81 VARREEFQ------------------------------------------------------------------------   88 (207)
T ss_pred             HHHHHHHH------------------------------------------------------------------------
T ss_conf             76513589------------------------------------------------------------------------


Q ss_pred             CHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH-HHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             603443444303543215789998856556676543-3204587836277776656667763125786789977740167
Q gi|254780778|r  164 GLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLAS-PSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKM  242 (296)
Q Consensus       164 ~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~-P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~Gkl  242 (296)
                                            +++++|||||||++ |.||++++||++++++|++|+..|+..+|||++|++||++|||
T Consensus        89 ----------------------~lak~IAMhIAA~~~~~~v~~~~Vp~~~iekEk~I~~~q~~~~GKP~~iieKIveGkl  146 (207)
T CHL00098         89 ----------------------KLAKNIAMQIAACPNVEYVSTEDIPQEIIDREKRIEAGKDDLQNKPAEIKEKIVEGRI  146 (207)
T ss_pred             ----------------------HHHHHHHHHHHCCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             ----------------------9999999998643981308754488689999999999888667996999999986699


Q ss_pred             HHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             6664233302560002777439999987764207982899889876224
Q gi|254780778|r  243 QSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       243 ~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                      +|||+|+|||+|+||+||++||++||+++++++|.+|+|++|+||+|||
T Consensus       147 ~Kf~~E~~LleQ~fVkD~~~tV~~~l~e~~k~lG~~i~V~~FvRfevGE  195 (207)
T CHL00098        147 KKRLKELSLLDQPFIKDQDITVEELIKQNIAKLGENIKIRRFARFVLGE  195 (207)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEEEEEECC
T ss_conf             9999875551687022898359999999887508982899999998258


No 6  
>KOG1071 consensus
Probab=100.00  E-value=0  Score=417.74  Aligned_cols=252  Identities=35%  Similarity=0.519  Sum_probs=209.6

Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHEECCCCCEEEEEEE
Q ss_conf             355899999998719998999999996299989999999982----3889986510336422000044078853699998
Q gi|254780778|r    3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTK----GAMAASKREGRKVSEGLIGIARDGYKKASIVEVN   78 (296)
Q Consensus         3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkk----G~~~A~Kk~~R~a~eG~v~~~~~~~~~a~liEin   78 (296)
                      .+++++||+||++|||||++||+||+||+||+..|.+||+|+    ||.+|+|+++|.|+||+|+++.++ ++++|+|||
T Consensus        44 ~~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k~aqk~g~~~A~K~~sR~t~eGlIgv~~~~-~r~vlvElN  122 (340)
T KOG1071          44 ASSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHKKAQKEGWSKAAKKASRTTKEGLIGVLQED-GRTVLVELN  122 (340)
T ss_pred             CCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEC-CEEEEEEEE
T ss_conf             1469999999987098588899999981786899999999999986566776641431124436899708-868999960


Q ss_pred             EECCHHHCCHHHHHHHHHHHHHHHHCC-------CCHH------------------HHHHCCCCCCCH-HHHHHHHHHHH
Q ss_conf             403101022679999998887531033-------5657------------------786400410000-14677899998
Q gi|254780778|r   79 VETDSLAKNTDFQSLVSNIAGIALSTD-------GSLD------------------NVLAMPFDHSGI-TVGDGIKQQIA  132 (296)
Q Consensus        79 cETDFVAkn~~F~~l~~~i~~~~l~~~-------~~~~------------------~~~~~~~~~~~~-tv~d~i~~~ia  132 (296)
                      |||||||||+.|+.|++.|+...+...       .+..                  ..+....+.+|+ +++|.+..+|+
T Consensus       123 CETDFVARn~~Fq~Lv~~iA~~~l~~~~~~~~~~s~~s~e~~l~~~~~g~kl~~~~~~l~~~~d~~gkvsl~d~l~~~i~  202 (340)
T KOG1071         123 CETDFVARNDIFQDLVDQIALSVLAHCQTLKTKHSSYSKEKELEMDGRGFKLSESLSLLPNLPDVEGKVSLKDQLALAIG  202 (340)
T ss_pred             CCCCHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCCEEHHHHHHHHHH
T ss_conf             44223334636999999999999876510246766643223302364377766777524377776664339999999998


Q ss_pred             HHHHHHHHHHHHHCCCCCC-CEEEECCCCCCC------CHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             5434310244431022221-000001353234------603443444303543215789998856556676543320458
Q gi|254780778|r  133 ITGECIKLRRSALLCVSEG-VISSYLHASPSE------GLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISV  205 (296)
Q Consensus       133 ~iGEnI~l~R~~~~~~~~~-~v~~Y~H~~~~~------~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~  205 (296)
                      ++||||++||+.+++.+++ .+++|.|....+      ..|++|++|+++......-....++++||.||++|.|..+. 
T Consensus       203 ~~GENvkvrR~~~~ka~~g~~l~~y~H~A~q~agt~~l~~g~~~alvAi~~~~s~~~~~~~~~~~i~q~ivgm~p~s~~-  281 (340)
T KOG1071         203 KLGENVKVRRAACMKAPSGTYLGSYSHGAPQSAGTHKLPLGEYGALVAINSVSSQLTSLEDVAKQICQHIVGMSPESVG-  281 (340)
T ss_pred             HHCCCEEEEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHC-
T ss_conf             7356617867777864887367764137888864100334664014443402612421999977888876246806531-


Q ss_pred             HHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEE
Q ss_conf             78362777766566677631257867899777401676664233302560002777439999987764207982899889
Q gi|254780778|r  206 QMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVS  285 (296)
Q Consensus       206 ~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~  285 (296)
                      +.+     +.|             |..           +...|++||.|+|+.||.+||++|+..      .+.+|++|+
T Consensus       282 e~~-----k~e-------------~~~-----------~~e~et~ll~q~~lld~~itv~~~l~~------~~~~V~Dfv  326 (340)
T KOG1071         282 ESL-----KDE-------------PGQ-----------GAEAETALLSQPSLLDPSITVKEYLDP------HNVSVVDFV  326 (340)
T ss_pred             CCC-----CCC-------------CCC-----------CCCCHHHHEECHHHCCCHHHHHHHHCC------CCCCHHHHH
T ss_conf             233-----555-------------323-----------531022212107452723448777366------774068889


Q ss_pred             EEEECC
Q ss_conf             876224
Q gi|254780778|r  286 HFVVGK  291 (296)
Q Consensus       286 R~~lGE  291 (296)
                      ||++||
T Consensus       327 R~E~Ge  332 (340)
T KOG1071         327 RFEVGE  332 (340)
T ss_pred             HHHHCC
T ss_conf             988513


No 7  
>pfam00889 EF_TS Elongation factor TS.
Probab=100.00  E-value=0  Score=380.47  Aligned_cols=176  Identities=43%  Similarity=0.672  Sum_probs=162.6

Q ss_pred             HHHHHHHHEECCCCCEEEEEEEEECCHHHCCHHHHHHHHHHHHHHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             6422000044078853699998403101022679999998887531033-565778640041000014677899998543
Q gi|254780778|r   57 VSEGLIGIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITG  135 (296)
Q Consensus        57 a~eG~v~~~~~~~~~a~liEincETDFVAkn~~F~~l~~~i~~~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iG  135 (296)
                      |+||+|+++.++ +.|+|+||||||||||||++|++|++++++.++.++ .++++++..++  +|.|++|.+.+++++||
T Consensus         1 A~EGlI~~~~~~-~~~~~vElncETDFVAkne~F~~l~~~ia~~~l~~~~~~~e~l~~~~~--~~~tv~d~~~~~i~~iG   77 (177)
T pfam00889         1 AAEGLVAVYIDG-NKGVLVEVNCETDFVAKNEKFQALVNKVAEAALAAKPADVEALLALPL--GGETVEDALAELIAKIG   77 (177)
T ss_pred             CCCCEEEEEECC-CEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHCCC--CCCCHHHHHHHHHHHHC
T ss_conf             987379999739-969999997056545788789999999999998739644888850534--79709999999986413


Q ss_pred             HHHHHHHHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHH
Q ss_conf             43102444310222210000013532346034434443035432157899988565566765433204587836277776
Q gi|254780778|r  136 ECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVAN  215 (296)
Q Consensus       136 EnI~l~R~~~~~~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~  215 (296)
                      |||+|||+.+++.+++++++|+|++     ||||+||.++++.+.     +++|+||||||||+|.||++++||      
T Consensus        78 EnI~lrR~~~~~~~~~~i~~Y~H~~-----gkigvlv~~~~~~~~-----elak~iAMhIaA~~P~~l~~~~v~------  141 (177)
T pfam00889        78 ENISLRRFATVEAPGGVVGSYVHGG-----GRIGVLVALEGDNDE-----ELAKDIAMHIAAMNPQYVSRDDVP------  141 (177)
T ss_pred             CCEEEEEEEEEECCCCEEEEEEECC-----CCEEEEEEEECCCHH-----HHHHHHHHHHHHCCCCCCCHHHCC------
T ss_conf             2045401689833786466787158-----966999997179989-----999999889985097415835580------


Q ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             6566677631257867899777401676664233302560002777439999987764207982899889876224
Q gi|254780778|r  216 KRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       216 Ek~i~~~~~~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                                                        |||+||||+||++||++||++.      +.+|++|+||+|||
T Consensus       142 ----------------------------------~Ll~Q~fv~D~~~tV~~~l~~~------~~~v~~F~R~evGE  177 (177)
T pfam00889       142 ----------------------------------CLLEQPFVKDPKKTVEQYLKEA------GAKVVRFVRFEVGE  177 (177)
T ss_pred             ----------------------------------HHCCCCCEECCCEEHHHHHHHC------CCEEEEEEEEECCC
T ss_conf             ----------------------------------2308972607961599999876------98787899983179


No 8  
>LOAD_efts_N consensus
Probab=99.49  E-value=3e-14  Score=115.64  Aligned_cols=40  Identities=48%  Similarity=0.606  Sum_probs=39.0

Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             3558999999987199989999999962999899999999
Q gi|254780778|r    3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR   42 (296)
Q Consensus         3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR   42 (296)
                      .||+++||+||++||+|||||||||.|++||+++||+|||
T Consensus         2 ~i~a~~vk~lre~tgagmmdckkAL~e~~GD~~~Ai~~Lr   41 (41)
T LOAD_efts_N       2 GISAEDIKLLREQTGVSMMDAKKALKENNGDVVKAIEELR   41 (41)
T ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHC
T ss_conf             5689999999988297198899999885898999999869


No 9  
>KOG1071 consensus
Probab=98.50  E-value=5.1e-07  Score=67.49  Aligned_cols=116  Identities=17%  Similarity=0.228  Sum_probs=95.2

Q ss_pred             CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHH
Q ss_conf             222100000135323460344344430354321---57899988565566765433204587836277776656667763
Q gi|254780778|r  148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEA  224 (296)
Q Consensus       148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~  224 (296)
                      +.+|.++.|+|++      |+ |+|++++.++-   .+.++.+..+|||.+.+ -|.++.   ..+..+.+|..+..   
T Consensus       102 t~eGlIgv~~~~~------r~-vlvElNCETDFVARn~~Fq~Lv~~iA~~~l~-~~~~~~---~~~s~~s~e~~l~~---  167 (340)
T KOG1071         102 TKEGLIGVLQEDG------RT-VLVELNCETDFVARNDIFQDLVDQIALSVLA-HCQTLK---TKHSSYSKEKELEM---  167 (340)
T ss_pred             CCCCEEEEEEECC------EE-EEEEEECCCCHHHCCCHHHHHHHHHHHHHHH-HHHHCC---CCHHHHHHHHHCCC---
T ss_conf             1244368997088------68-9999604422333463699999999999987-651024---67666432233023---


Q ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             1257867899777401676664233302560002777439999987764207982899889876224
Q gi|254780778|r  225 LDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       225 ~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                                    +|+..|.+.+--|+.|++..|++.|+++.|...-...|.|++|.+|.+|..++
T Consensus       168 --------------~~~g~kl~~~~~~l~~~~d~~gkvsl~d~l~~~i~~~GENvkvrR~~~~ka~~  220 (340)
T KOG1071         168 --------------DGRGFKLSESLSLLPNLPDVEGKVSLKDQLALAIGKLGENVKVRRAACMKAPS  220 (340)
T ss_pred             --------------CCHHHHHHHHHHHCCCCCCCCCCEEHHHHHHHHHHHHCCCEEEEEEEEEECCC
T ss_conf             --------------64377766777524377776664339999999998735661786777786488


No 10 
>pfam00627 UBA UBA/TS-N domain. This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin and the ubiquitination pathway. The structure of the UBA domain consists of a compact three helix bundle. This domain is found at the N terminus of EF-TS hence the name TS-N. The structure of EF-TS is known and this domain is implicated in its interaction with EF-TU. The domain has been found in non EF-TS proteins such as alpha-NAC and MJ0280.
Probab=97.66  E-value=6.6e-05  Score=53.45  Aligned_cols=36  Identities=31%  Similarity=0.424  Sum_probs=34.2

Q ss_pred             CHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             5899999998719998999999996299989999999
Q gi|254780778|r    5 SAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDIL   41 (296)
Q Consensus         5 t~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~L   41 (296)
                      ..+.|+.|+++ |.+..+|++||..|+||++.|++||
T Consensus         2 ~~~~i~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T pfam00627         2 DEELIKQLREM-GFSREEAKKALRATNGNVERAVEYL   37 (37)
T ss_pred             CHHHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHC
T ss_conf             88999999990-9999999999998279999997549


No 11 
>pfam00889 EF_TS Elongation factor TS.
Probab=97.24  E-value=0.00061  Score=47.01  Aligned_cols=46  Identities=28%  Similarity=0.521  Sum_probs=25.0

Q ss_pred             CCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             22100000135323460344344430354321---578999885655667654332
Q gi|254780778|r  149 SEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPS  201 (296)
Q Consensus       149 ~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~  201 (296)
                      .+|.++.|+|++       .|++|++.+.++-   .+.+..|+++|++++++.+|.
T Consensus         2 ~EGlI~~~~~~~-------~~~~vElncETDFVAkne~F~~l~~~ia~~~l~~~~~   50 (177)
T pfam00889         2 AEGLVAVYIDGN-------KGVLVEVNCETDFVAKNEKFQALVNKVAEAALAAKPA   50 (177)
T ss_pred             CCCEEEEEECCC-------EEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCC
T ss_conf             873799997399-------6999999705654578878999999999999873964


No 12 
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=96.99  E-value=0.002  Score=43.55  Aligned_cols=92  Identities=21%  Similarity=0.291  Sum_probs=73.2

Q ss_pred             CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHH
Q ss_conf             222100000135323460344344430354321---57899988565566765433204587836277776656667763
Q gi|254780778|r  148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEA  224 (296)
Q Consensus       148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~  224 (296)
                      +.+|.+..|++++     |+.|++|++++.++-   ++.++.|+++|+-+++..+|..+.  .                 
T Consensus        57 AaEGli~~~~~~~-----~~~av~vEvN~ETDFVAkN~~F~~la~~ia~~~l~~~~~~ve--~-----------------  112 (296)
T COG0264          57 AAEGLIAAKVDGD-----GKKAVLVEVNCETDFVAKNAEFQELANKIAKAALEKKPADVE--E-----------------  112 (296)
T ss_pred             HHCCEEEEEECCC-----CCEEEEEEEECCCCCEECCHHHHHHHHHHHHHHHHHCCCCHH--H-----------------
T ss_conf             1021699997188-----867899998546420457746899999999999983856589--9-----------------


Q ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC
Q ss_conf             1257867899777401676664233302560002777439999987764207982899889876224
Q gi|254780778|r  225 LDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK  291 (296)
Q Consensus       225 ~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE  291 (296)
                                                |+.+  ..++.+||.+++.+...+.|.+|.+.+|.+|+.+.
T Consensus       113 --------------------------l~~~--~~~~~~tvee~~~~~~AkIGENi~lRR~~~~~~~~  151 (296)
T COG0264         113 --------------------------LKAA--FEPGGKTVEEEIAALIAKIGENISLRRFAVLEAGD  151 (296)
T ss_pred             --------------------------HHHH--HCCCCCCHHHHHHHHHHHHCCCEEEEEEEEEECCC
T ss_conf             --------------------------9864--40368629999999998752341688888761576


No 13 
>PRK09377 tsf elongation factor Ts; Provisional
Probab=96.72  E-value=0.0048  Score=41.02  Aligned_cols=86  Identities=23%  Similarity=0.341  Sum_probs=67.2

Q ss_pred             CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHH
Q ss_conf             222100000135323460344344430354321---57899988565566765433204587836277776656667763
Q gi|254780778|r  148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEA  224 (296)
Q Consensus       148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~  224 (296)
                      +.+|.++.|++       |+.|++|++.+.++-   ++.+..|+.+++.++...+|..+.                    
T Consensus        57 a~EG~i~~~~~-------~~~~~~vElncETDFVArne~F~~l~~~ia~~~l~~~~~~~e--------------------  109 (288)
T PRK09377         57 AAEGLVAVKVD-------GNKAALVEVNSETDFVAKNEDFQALANEVAEAALANKPADVE--------------------  109 (288)
T ss_pred             CCCCEEEEEEC-------CCEEEEEEEECCCCCHHCCHHHHHHHHHHHHHHHHCCCCCHH--------------------
T ss_conf             22716999975-------986999999446631106888999999999999865943399--------------------


Q ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEE
Q ss_conf             1257867899777401676664233302560002777439999987764207982899889876
Q gi|254780778|r  225 LDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFV  288 (296)
Q Consensus       225 ~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~  288 (296)
                                               -|+.+++   +..||.+++.+.-..+|.+|.|.+|.++.
T Consensus       110 -------------------------~l~~~~~---~~~tv~d~~~~~i~~iGEnI~lrR~~~~~  145 (288)
T PRK09377        110 -------------------------ALLALKL---DGGTVEEARKELIAKIGENISLRRFAVLV  145 (288)
T ss_pred             -------------------------HHHHCCC---CCCCHHHHHHHHHHHHCCEEEEEEEEEEC
T ss_conf             -------------------------9971656---89819999999998634416754589981


No 14 
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=95.96  E-value=0.019  Score=37.11  Aligned_cols=40  Identities=30%  Similarity=0.277  Sum_probs=37.3

Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             3558999999987199989999999962999899999999
Q gi|254780778|r    3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR   42 (296)
Q Consensus         3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR   42 (296)
                      .||..+||-.-+.||++.-+.+|||.|++||+-.||--|-
T Consensus        82 ~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~  121 (122)
T COG1308          82 DISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLT  121 (122)
T ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHC
T ss_conf             8988999999998189999999999983886999998741


No 15 
>TIGR00264 TIGR00264 alpha-NAC homolog; InterPro: IPR005231   Eukaryotic NAC, an abundant heterodimer composed of two homologous subunits, reversibly binds eukaryotic ribosomes and is located in direct proximity to nascent polypeptides as they emerge from the ribosome . Despite being implicated in diverse cellular functions, its role in vivo is still not completely understood. It is thought that NAC may function as a shield protecting the nascent chain from inappropriate interactions with cytosolic factors, and could regulate further translation of the polypeptide through its interaction with the ribosome.   Archaeal NAC is a homodimer which appears to be functionally analogous to the eukaryotic form, associating with ribosomes and contacting the nascent polypeptide chain emerging on the ribosome . It has two domains; the NAC domain, which it shares with eukaryotic NAC, and a C-terminal UBA domain also found on the alpha, but not beta, subunit of eukaryotic NAC. The NAC domain forms a six-stranded beta-barrel structure which shows some similarities to the OB fold. This domain appears to be responsible for dimerisation, nucleic acid binding, and nascent polypeptide binding. The UBA domain is typical of ubiquitin or polyubquitin-binding proteins; its physiological role is unclear but it was suggested that it may compete with the proteosome for ubiquitin, thus inhibiting ubiquitin-mediated protein degradation. .
Probab=95.76  E-value=0.014  Score=37.97  Aligned_cols=40  Identities=25%  Similarity=0.250  Sum_probs=37.1

Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             3558999999987199989999999962999899999999
Q gi|254780778|r    3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR   42 (296)
Q Consensus         3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR   42 (296)
                      +||=.+|+-.-+.||++==+.++||+||+||+..||--|.
T Consensus        85 eI~EdDieLvm~Q~nvs~E~ArrALeE~gGDlAEAimkL~  124 (125)
T TIGR00264        85 EISEDDIELVMEQANVSKEEARRALEEAGGDLAEAIMKLE  124 (125)
T ss_pred             ECCHHHHHHHHHHCCCCHHHHHHHHHHCCCHHHHHHHHHC
T ss_conf             4075579999976599988989998631851888987505


No 16 
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=95.39  E-value=0.032  Score=35.55  Aligned_cols=35  Identities=20%  Similarity=0.255  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             999999987199989999999962999899999999
Q gi|254780778|r    7 VAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR   42 (296)
Q Consensus         7 ~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR   42 (296)
                      +.|.+|.+ -|-+--+|++||..++||++.|++||.
T Consensus         3 ~~v~~L~~-MGF~~~~~~~AL~~~~~n~e~A~~~Ll   37 (38)
T cd00194           3 EKLEQLLE-MGFSREEARKALRATNNNVERAVEWLL   37 (38)
T ss_pred             HHHHHHHH-CCCCHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             98999998-599999999999985899999999873


No 17 
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=95.15  E-value=0.04  Score=34.94  Aligned_cols=34  Identities=26%  Similarity=0.286  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             99999998719998999999996299989999999
Q gi|254780778|r    7 VAVKELRGKTGAGIMDCKNALLEAKGDSELAIDIL   41 (296)
Q Consensus         7 ~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~L   41 (296)
                      +.|.+|..+ |-+-..|++||..|+||++.|.+||
T Consensus         3 e~i~~L~~M-GF~~~~~~~AL~~~~~n~e~A~~~L   36 (37)
T smart00165        3 EKIDQLLEM-GFSREEALKALRAANGNVERAAEYL   36 (37)
T ss_pred             HHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             889999985-9999999999998159999999876


No 18 
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=94.45  E-value=0.11  Score=31.96  Aligned_cols=40  Identities=28%  Similarity=0.312  Sum_probs=37.0

Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             3558999999987199989999999962999899999999
Q gi|254780778|r    3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR   42 (296)
Q Consensus         3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR   42 (296)
                      .|+-.+|.-.-++||++--..++||.+++||+-.||--|.
T Consensus        76 ~iseeDi~lv~~q~gvs~~~A~~AL~~~~gDia~AI~~L~  115 (116)
T PRK06369         76 EIPEEDIELVMEQTGVSEEEARKALEEANGDLAEAILKLT  115 (116)
T ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             8888999999988099999999999983896999999861


No 19 
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=88.03  E-value=0.28  Score=29.29  Aligned_cols=57  Identities=21%  Similarity=0.432  Sum_probs=37.6

Q ss_pred             CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHH
Q ss_conf             2221000001353234603443444303543215789998856556676543320458783627
Q gi|254780778|r  148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPS  211 (296)
Q Consensus       148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~  211 (296)
                      +.+|.+++|+|++     ++.|++|++++.++-......| .+++-+|| |.-.+.++.-++++
T Consensus        56 a~eG~v~~~i~~~-----~~~~~ivEln~ETDFVAkne~F-~~lak~IA-MhIAA~~P~~l~~~  112 (216)
T PRK12332         56 AAEGIVGSYIHTG-----GRIGVLVELNCETDFVARNDEF-QELVKDIA-MQIAAMNPEYVSRE  112 (216)
T ss_pred             HCCCEEEEEEECC-----CCEEEEEEEEECCCHHHCCHHH-HHHHHHHH-HHHHCCCCCCCCHH
T ss_conf             3157058898079-----9789999997135212157279-99999999-99970498763467


No 20 
>CHL00098 tsf elongation factor Ts
Probab=86.74  E-value=0.37  Score=28.50  Aligned_cols=43  Identities=30%  Similarity=0.536  Sum_probs=34.6

Q ss_pred             CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             2221000001353234603443444303543215789998856556676
Q gi|254780778|r  148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVM  196 (296)
Q Consensus       148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhia  196 (296)
                      +.+|.+++|+|.+     |++|++|++++.++-......| .++|-|||
T Consensus        53 a~eG~v~~~i~~~-----~~~~~ivEln~ETDFVAkn~~F-~~lak~IA   95 (207)
T CHL00098         53 ATEGRIESYIHTG-----GRLGVLVEVNCETDFVARREEF-QKLAKNIA   95 (207)
T ss_pred             HCCCCEEEEEECC-----CCEEEEEEEECCCCHHHHHHHH-HHHHHHHH
T ss_conf             4278558999469-----9689999984377177651358-99999999


No 21 
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=86.20  E-value=2.3  Score=23.21  Aligned_cols=38  Identities=18%  Similarity=0.162  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             89999999871999899999999629998999999998
Q gi|254780778|r    6 AVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRT   43 (296)
Q Consensus         6 ~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRk   43 (296)
                      -++|.+|-..||--.-=|.+.|+++++|+++|+....+
T Consensus        13 q~mv~~~s~~T~mn~~~s~~cLe~~~Wdy~~A~~~F~~   50 (63)
T smart00804       13 QEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTE   50 (63)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             99999999996999999999999859899999999999


No 22 
>KOG0944 consensus
Probab=78.11  E-value=2.7  Score=22.71  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=12.3

Q ss_pred             CCCHHHHHHHHHHC-CCCHHHHHHHHH
Q ss_conf             99989999999962-999899999999
Q gi|254780778|r   17 GAGIMDCKNALLEA-KGDSELAIDILR   42 (296)
Q Consensus        17 gag~~dCKkAL~e~-~gD~e~Ai~~LR   42 (296)
                      |.|+-.|++||--+ |+|.|.|..||-
T Consensus       582 GFp~eac~rAly~tgN~~aEaA~NWl~  608 (763)
T KOG0944         582 GFPEEACRRALYYTGNSGAEAASNWLM  608 (763)
T ss_pred             CCCHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             899899999884416862788988999


No 23 
>KOG2561 consensus
Probab=77.69  E-value=4.7  Score=21.12  Aligned_cols=44  Identities=27%  Similarity=0.311  Sum_probs=34.5

Q ss_pred             CCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99989999999962999899999999823889986510336422
Q gi|254780778|r   17 GAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEG   60 (296)
Q Consensus        17 gag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG   60 (296)
                      |.-=.|.|-||-.|+||+|.|++++.++-...|.+|.-..+.|-
T Consensus       314 GfeesdaRlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Er  357 (568)
T KOG2561         314 GFEESDARLALRSCNGDVDSAVQFIIERREKLAQKREKDLARER  357 (568)
T ss_pred             CCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             77816778988754445889999999999999998776578889


No 24 
>pfam02845 CUE CUE domain. CUE domains have been shown to bind ubiquitin. It has been suggested that CUE domains are related to pfam00627 and this has been confirmed by the structure of the domain. CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2.
Probab=76.97  E-value=6.3  Score=20.27  Aligned_cols=37  Identities=19%  Similarity=0.177  Sum_probs=32.1

Q ss_pred             HHHHHHHHHH-CCCHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             9999999871-999899999999629998999999998
Q gi|254780778|r    7 VAVKELRGKT-GAGIMDCKNALLEAKGDSELAIDILRT   43 (296)
Q Consensus         7 ~~iK~LR~~T-gag~~dCKkAL~e~~gD~e~Ai~~LRk   43 (296)
                      +.|..|++.= +.+.-.-+..|.+++||+|.|++.|-+
T Consensus         3 ~~v~~L~emFP~~~~~~I~~~L~~~~g~ve~ai~~LLe   40 (42)
T pfam02845         3 EMLETLKEMFPDLDEEVIRAVLQASNGNVEAAINALLE   40 (42)
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHC
T ss_conf             78999999867688899999999919988999999876


No 25 
>pfam00542 Ribosomal_L12 Ribosomal protein L7/L12 C-terminal domain.
Probab=75.16  E-value=4.1  Score=21.53  Aligned_cols=29  Identities=24%  Similarity=0.310  Sum_probs=23.9

Q ss_pred             CHHHHHHHHHHHCCCHHHHHHHHHHCCCC
Q ss_conf             58999999987199989999999962999
Q gi|254780778|r    5 SAVAVKELRGKTGAGIMDCKNALLEAKGD   33 (296)
Q Consensus         5 t~~~iK~LR~~Tgag~~dCKkAL~e~~gD   33 (296)
                      ..+.||.+|+.||.|+++.|+..+.....
T Consensus        13 Ki~vIK~VR~itglgLkeAK~lVe~~P~~   41 (68)
T pfam00542        13 KIAVIKVVREITGLGLKEAKDLVEGAPKV   41 (68)
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHCCCHH
T ss_conf             44999999997699889999998728899


No 26 
>pfam03943 TAP_C TAP C-terminal domain. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for nuclear export of mRNA. Tap has a modular structure, and its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling. The structure of the C-terminal domain is composed of four helices. The structure is related to the UBA domain.
Probab=72.78  E-value=8.3  Score=19.49  Aligned_cols=37  Identities=14%  Similarity=0.162  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             9999999871999899999999629998999999998
Q gi|254780778|r    7 VAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRT   43 (296)
Q Consensus         7 ~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRk   43 (296)
                      ++|.++-..||--.-=-++.|+++++|.++|+....+
T Consensus         2 qmv~~~s~qTgmn~e~S~kcL~~n~Wdy~~A~~~F~~   38 (51)
T pfam03943         2 EMVQAFSAQSGMNLEWSQKCLEDNNWDYNRAAQAFTE   38 (51)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             7899999997989999999998859889999999999


No 27 
>KOG1364 consensus
Probab=58.67  E-value=15  Score=17.71  Aligned_cols=45  Identities=20%  Similarity=0.162  Sum_probs=39.1

Q ss_pred             CCHHHHHHHHHHHC-CCHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf             55899999998719-9989999999962999899999999823889
Q gi|254780778|r    4 VSAVAVKELRGKTG-AGIMDCKNALLEAKGDSELAIDILRTKGAMA   48 (296)
Q Consensus         4 it~~~iK~LR~~Tg-ag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~   48 (296)
                      --.++|++.+..|+ ..+-..++-|..++||++.||.+.++.|...
T Consensus         5 ~~~~lv~~fl~It~~~t~e~A~q~L~~~~~~le~ai~Lffe~~~~~   50 (356)
T KOG1364           5 AQRALVSKFLAITVQQTVEIATQYLSAADWDLEAAINLFFEHGGFT   50 (356)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCC
T ss_conf             2789999999873112289999998732774899999999855554


No 28 
>cd01788 ElonginB Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5.  VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A.  The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex.  Elongin B has a ubiquitin-llike domain.
Probab=52.40  E-value=8.7  Score=19.35  Aligned_cols=35  Identities=23%  Similarity=0.321  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHH
Q ss_conf             97774016766642333025600027774399999
Q gi|254780778|r  234 VEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFL  268 (296)
Q Consensus       234 ~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l  268 (296)
                      +.+|++|=+++--.+..|+...-++|+.+|.+++=
T Consensus        27 LK~iieGIlK~pp~dQ~L~Kd~qlldd~kTL~dcG   61 (119)
T cd01788          27 LKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCG   61 (119)
T ss_pred             HHHHHHHHHCCCHHHHHHCCCCCCCCCCCCHHHCC
T ss_conf             99999888539827751002776035667797748


No 29 
>pfam08285 DPM3 Dolichol-phosphate mannosyltransferase subunit 3 (DPM3). This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex.
Probab=46.41  E-value=6.8  Score=20.04  Aligned_cols=24  Identities=38%  Similarity=0.472  Sum_probs=10.8

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             999999962999899999999823
Q gi|254780778|r   22 DCKNALLEAKGDSELAIDILRTKG   45 (296)
Q Consensus        22 dCKkAL~e~~gD~e~Ai~~LRkkG   45 (296)
                      ||.+|-.|=..+|+.|.+-||+||
T Consensus        65 dcpea~~eL~~eI~eAk~dL~~kG   88 (91)
T pfam08285        65 DCPEAAKELQKEIKEAKADLRSKG   88 (91)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             888999999999999999999838


No 30 
>pfam07442 Ponericin Ponericin. This family contains a number of ponericin peptides (approximately 30 residues long) from the venom of the predatory ant Pachycondyla goeldii. These peptides exhibit antibacterial and insecticidal properties, and may adopt an amphipathic alpha-helical structure in polar environments such as cell membranes.
Probab=45.01  E-value=20  Score=17.02  Aligned_cols=20  Identities=25%  Similarity=0.315  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHH--HHHHHHHH
Q ss_conf             899999999823--88998651
Q gi|254780778|r   34 SELAIDILRTKG--AMAASKRE   53 (296)
Q Consensus        34 ~e~Ai~~LRkkG--~~~A~Kk~   53 (296)
                      +.+|-+||+++|  +.+|+-++
T Consensus         6 ~kkagewlkkkgpgi~kaalka   27 (29)
T pfam07442         6 MKKAGEWLKKKGPGILKAALKA   27 (29)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHH
T ss_conf             9998899983085699999872


No 31 
>pfam06972 DUF1296 Protein of unknown function (DUF1296). This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=43.59  E-value=26  Score=16.15  Aligned_cols=37  Identities=16%  Similarity=0.178  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHCC-CHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             8999999987199-989999999962999899999999
Q gi|254780778|r    6 AVAVKELRGKTGA-GIMDCKNALLEAKGDSELAIDILR   42 (296)
Q Consensus         6 ~~~iK~LR~~Tga-g~~dCKkAL~e~~gD~e~Ai~~LR   42 (296)
                      -..|..+|+.||- +=.|...+|.+|+-|-+.|.+-|-
T Consensus         6 rk~iQ~iKEiv~~hSd~eIYa~L~ecnMDPnEtvqkLL   43 (60)
T pfam06972         6 RKTIQSIKEVVGKHSDADIYAMLKECNMDPNETVQKLL   43 (60)
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             99999999998489789999999996798679999988


No 32 
>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein; InterPro: IPR005675    This model represents largely uncharacterised proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distinct. ; GO: 0046912 transferase activity transferring acyl groups acyl groups converted into alkyl on transfer, 0019752 carboxylic acid metabolic process.
Probab=40.50  E-value=29  Score=15.86  Aligned_cols=113  Identities=24%  Similarity=0.347  Sum_probs=71.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCC----------------C--
Q ss_conf             1000014677899998543431024443102222100000135323460344344430354----------------3--
Q gi|254780778|r  117 DHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSS----------------A--  178 (296)
Q Consensus       117 ~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~----------------~--  178 (296)
                      +-+|.|+-..+.+.+..+.+.+.+..-.   .....+|.-.||+....+  .-+|.++...                +  
T Consensus       175 DTNGGTLP~~I~EI~~~Vk~~~gldg~s---dk~p~lGIHAHNDS~~AV--ANsL~AV~~GA~~V~GTING~GER~GNAN  249 (543)
T TIGR00977       175 DTNGGTLPHEIEEITKKVKKSLGLDGQS---DKDPQLGIHAHNDSETAV--ANSLLAVEAGATQVQGTINGLGERCGNAN  249 (543)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHCCCCCC---CCCCCCCEEEECCCHHHH--HHHHHHHHHCCCEECCEECCCCCCCCCCC
T ss_conf             0787998504789999999861778655---567666525555630789--99999997343154220425555657641


Q ss_pred             -------------------CHHHHHH------------------------HHHHHHHHHHHHHHHHHCCHHHCCHHHHHH
Q ss_conf             -------------------2157899------------------------988565566765433204587836277776
Q gi|254780778|r  179 -------------------EDKELLS------------------------AIGEKIAVHVMLASPSVISVQMLDPSIVAN  215 (296)
Q Consensus       179 -------------------~~~~~~~------------------------~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~  215 (296)
                                         ++-..+.                        +||+.=..|+.|..-..-+.+-|+|++|-+
T Consensus       250 LCs~IPNL~LKl~~dvI~~E~L~~L~~~a~lvaEi~n~~~~~~~PyVG~~AFAHKGGvHvSAv~r~p~TYEHI~P~LVGN  329 (543)
T TIGR00977       250 LCSVIPNLQLKLGYDVIPKENLKKLTEVARLVAEIVNLPLDENMPYVGESAFAHKGGVHVSAVKRNPKTYEHIDPELVGN  329 (543)
T ss_pred             HHHHCCCHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCC
T ss_conf             11110010210266456866678899899999998548853467823663220258657765505887423458643177


Q ss_pred             HHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             6566677631257867899777
Q gi|254780778|r  216 KRAHYMTEALDSGKSGNIVEKI  237 (296)
Q Consensus       216 Ek~i~~~~~~~~gKp~~i~ekI  237 (296)
                      +|.|...+.  +|+ .|+++|+
T Consensus       330 ~R~I~vSe~--aG~-SNvl~K~  348 (543)
T TIGR00977       330 KRKIVVSEL--AGK-SNVLEKL  348 (543)
T ss_pred             EEEEEEECC--CCC-HHHHHHH
T ss_conf             137998235--573-1489999


No 33 
>PRK11478 hypothetical protein; Provisional
Probab=39.19  E-value=13  Score=18.20  Aligned_cols=10  Identities=10%  Similarity=0.072  Sum_probs=4.5

Q ss_pred             CHHHHHHHHH
Q ss_conf             9899999999
Q gi|254780778|r   33 DSELAIDILR   42 (296)
Q Consensus        33 D~e~Ai~~LR   42 (296)
                      |+++++.|-+
T Consensus        16 Dl~~S~~FY~   25 (129)
T PRK11478         16 DYAVSKAFYC   25 (129)
T ss_pred             CHHHHHHHHH
T ss_conf             8999999999


No 34 
>TIGR02124 hypE hydrogenase expression/formation protein HypE; InterPro: IPR011854    This family contains HypE (or HupE), a protein required for expression of catalytically active hydrogenase in many systems. It appears to be an accessory protein involved in maturation rather than a regulatory protein involved in expression. HypE shows considerable homology to the thiamine-monophosphate kinase ThiL (IPR006283 from INTERPRO) and other enzymes..
Probab=38.68  E-value=20  Score=17.02  Aligned_cols=26  Identities=27%  Similarity=0.427  Sum_probs=15.8

Q ss_pred             CCCCCC-CHHHHHHHHHHHCCCCEEEE
Q ss_conf             027774-39999987764207982899
Q gi|254780778|r  257 VVDPSK-TVSDFLKESEKSIGASIEVV  282 (296)
Q Consensus       257 v~D~~~-tV~~~l~e~~k~~g~~i~I~  282 (296)
                      +.|+.. =++.+|+|++++.|..|+|.
T Consensus       225 ~RD~TRGGLA~vLNE~A~~sg~~i~l~  251 (345)
T TIGR02124       225 MRDATRGGLAAVLNEIAESSGVGIELE  251 (345)
T ss_pred             EECCCCCCHHHHHHHHHHHHCCCEEEE
T ss_conf             616785504789999999619927998


No 35 
>PRK00157 rplL 50S ribosomal protein L7/L12; Reviewed
Probab=36.58  E-value=13  Score=18.09  Aligned_cols=14  Identities=7%  Similarity=0.057  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99998543431024
Q gi|254780778|r  128 KQQIAITGECIKLR  141 (296)
Q Consensus       128 ~~~ia~iGEnI~l~  141 (296)
                      .+++..|.|...+.
T Consensus        21 ~eLv~~lee~fgv~   34 (124)
T PRK00157         21 SELVKALEEKFGVS   34 (124)
T ss_pred             HHHHHHHHHHHCCC
T ss_conf             99999999996999


No 36 
>TIGR03081 metmalonyl_epim methylmalonyl-CoA epimerase. Members of this protein family are the enzyme methylmalonyl-CoA epimerase (EC 5.1.99.1), also called methylmalonyl-CoA racemase. This enzyme converts (2R)-methylmalonyl-CoA to (2S)-methylmalonyl-CoA, which is then a substrate for methylmalonyl-CoA mutase (TIGR00642). It is known in bacteria, archaea, and as a mitochondrial protein in animals. It is closely related to lactoylglutathione lyase (TIGR00068), which is also called glyoxylase I, and is also a homodimer.
Probab=36.16  E-value=16  Score=17.65  Aligned_cols=16  Identities=31%  Similarity=0.275  Sum_probs=12.5

Q ss_pred             CCHHHHHHHHHHH-HHH
Q ss_conf             9989999999982-388
Q gi|254780778|r   32 GDSELAIDILRTK-GAM   47 (296)
Q Consensus        32 gD~e~Ai~~LRkk-G~~   47 (296)
                      .|+|+|+.|.+.. |..
T Consensus        10 ~Dld~a~~fy~~~lG~~   26 (128)
T TIGR03081        10 PDLEEAAKLYEDVLGAH   26 (128)
T ss_pred             CCHHHHHHHHHHHHCCC
T ss_conf             99999999999970995


No 37 
>TIGR00855 L12 ribosomal protein L7/L12; InterPro: IPR000206   Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits.    Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , .   This family of large subunit ribosomal proteins is called the L7/L12 family. L7/L12 is present in each 50S subunit in four copies organised as two dimers. The L8 protein complex consisting of two dimers of L7/L12 and L10 in Escherichia coli ribosomes is assembled on the conserved region of 23 S rRNA termed the GTPase-associated domain . The L7/L12 dimer probably interacts with EF-Tu. L7 and L12 only differ in a single post translational modification of the addition an acetyl group to the N terminus of L7.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome.
Probab=34.42  E-value=14  Score=17.97  Aligned_cols=25  Identities=28%  Similarity=0.448  Sum_probs=21.3

Q ss_pred             HHHHHHHH-HHCCCHHHHHHHHHHCC
Q ss_conf             99999998-71999899999999629
Q gi|254780778|r    7 VAVKELRG-KTGAGIMDCKNALLEAK   31 (296)
Q Consensus         7 ~~iK~LR~-~Tgag~~dCKkAL~e~~   31 (296)
                      +-||-.|+ .||-|+++-|..-+.+.
T Consensus        77 ~ViKvVR~~ITGLGLkEAK~LVe~aP  102 (131)
T TIGR00855        77 AVIKVVREVITGLGLKEAKDLVEKAP  102 (131)
T ss_pred             EEEEEECHHHCCCHHHHHHHHHHHCC
T ss_conf             21233200021423688999986068


No 38 
>cd02636 R3H_sperm-antigen R3H domain of a group of metazoan proteins that is related to the sperm-associated antigen 7. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=30.08  E-value=43  Score=14.75  Aligned_cols=48  Identities=21%  Similarity=0.362  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCC--CCHHHHHHHHHHHCCCCEEEEEEEEEEECCCCCC
Q ss_conf             401676664233302560002777--4399999877642079828998898762241247
Q gi|254780778|r  238 VNGKMQSFCKECVLLHQGFVVDPS--KTVSDFLKESEKSIGASIEVVGVSHFVVGKENDD  295 (296)
Q Consensus       238 v~Gkl~Kf~~E~~LleQ~fv~D~~--~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE~~~d  295 (296)
                      ++-++.+|+++..   +++.+-+.  +--+.++.+..       ++-++.-|..||+++|
T Consensus         4 ~E~~v~~F~~d~~---~~~~kf~pm~kv~RSivhdva-------EvaGl~a~SFGeee~d   53 (61)
T cd02636           4 MEKEVSKFIKDSV---RTREKFQPMDKVERSIVHDVA-------EVAGLTSFSFGEDEVD   53 (61)
T ss_pred             HHHHHHHHHCCCC---CCCCCCCCHHHHHHHHHHHHH-------HHCCCEEEEECCCCCC
T ss_conf             9999999970665---201337967899999999999-------8748256650676651


No 39 
>pfam03474 DMA DMRTA motif. This region is found to the C-terminus of the pfam00751. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=29.60  E-value=38  Score=15.12  Aligned_cols=17  Identities=35%  Similarity=0.388  Sum_probs=13.4

Q ss_pred             HHHHHCCCCHHHHHHHH
Q ss_conf             99996299989999999
Q gi|254780778|r   25 NALLEAKGDSELAIDIL   41 (296)
Q Consensus        25 kAL~e~~gD~e~Ai~~L   41 (296)
                      --|+-|+||+=.|||.+
T Consensus        22 liL~~C~GDvvqAIE~~   38 (39)
T pfam03474        22 LVLKRCKGDVLQAIELA   38 (39)
T ss_pred             HHHHHCCCCHHHHHHHH
T ss_conf             99998477299999987


No 40 
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH; InterPro: IPR011909   Glutaredoxins , , , also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system .    Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond . It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond.   Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed  that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro.    NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterised by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase .; GO: 0006118 electron transport, 0045454 cell redox homeostasis.
Probab=27.28  E-value=37  Score=15.18  Aligned_cols=23  Identities=30%  Similarity=0.222  Sum_probs=16.3

Q ss_pred             HHHHHHCCCCH--------HHHHHHHHHHHH
Q ss_conf             99999629998--------999999998238
Q gi|254780778|r   24 KNALLEAKGDS--------ELAIDILRTKGA   46 (296)
Q Consensus        24 KkAL~e~~gD~--------e~Ai~~LRkkG~   46 (296)
                      ||||++.|=++        ..|++|||..|=
T Consensus        16 Kk~L~~~~i~Fe~inid~~pea~d~vk~lGF   46 (72)
T TIGR02194        16 KKALEEHGIAFEEINIDEQPEAVDYVKALGF   46 (72)
T ss_pred             HHHHHHCCCCEEEEECCCCHHHHHHHHHCCC
T ss_conf             7667637996157635888437899987486


No 41 
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.17  E-value=48  Score=14.42  Aligned_cols=37  Identities=11%  Similarity=0.293  Sum_probs=27.6

Q ss_pred             HHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECCC
Q ss_conf             3025600027774399999877642079828998898762241
Q gi|254780778|r  250 VLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGKE  292 (296)
Q Consensus       250 ~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE~  292 (296)
                      ..+--||+..-++...+|+..+      +++|++|.-+.+-+.
T Consensus       121 i~vlTPY~~evn~~e~ef~~~~------Gfeiv~~~~Lgi~dn  157 (238)
T COG3473         121 ISVLTPYIDEVNQREIEFLEAN------GFEIVDFKGLGITDN  157 (238)
T ss_pred             EEEECCCHHHHHHHHHHHHHHC------CEEEEEEECCCCCCC
T ss_conf             8985253054415899999848------927997541577665


No 42 
>PRK04101 fosfomycin resistance protein FosB; Provisional
Probab=26.09  E-value=42  Score=14.79  Aligned_cols=12  Identities=17%  Similarity=0.252  Sum_probs=8.5

Q ss_pred             CCHHHHHHHHHH
Q ss_conf             998999999998
Q gi|254780778|r   32 GDSELAIDILRT   43 (296)
Q Consensus        32 gD~e~Ai~~LRk   43 (296)
                      .|+++++++.++
T Consensus        13 ~DL~~s~~FY~~   24 (139)
T PRK04101         13 SNLEKSIHFYEK   24 (139)
T ss_pred             CCHHHHHHHHHH
T ss_conf             798999999997


No 43 
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=25.72  E-value=51  Score=14.25  Aligned_cols=18  Identities=22%  Similarity=0.204  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             578999885655667654
Q gi|254780778|r  181 KELLSAIGEKIAVHVMLA  198 (296)
Q Consensus       181 ~~~~~~~ak~iAmhiaA~  198 (296)
                      ++.+.+=+..|-|++...
T Consensus       227 N~KL~~Ra~rIv~~~t~~  244 (296)
T PRK12570        227 NEKLVARATRIVMQATGC  244 (296)
T ss_pred             HHHHHHHHHHHHHHHHCC
T ss_conf             399999999999998792


No 44 
>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241.
Probab=25.65  E-value=51  Score=14.25  Aligned_cols=26  Identities=42%  Similarity=0.382  Sum_probs=19.0

Q ss_pred             HHHHHHHHHC--CCCHHHHHHHHHH-HHH
Q ss_conf             9999999962--9998999999998-238
Q gi|254780778|r   21 MDCKNALLEA--KGDSELAIDILRT-KGA   46 (296)
Q Consensus        21 ~dCKkAL~e~--~gD~e~Ai~~LRk-kG~   46 (296)
                      ...|.|...+  .||+++|..|+|- |++
T Consensus         9 ~~Yk~Aa~~AK~~Gd~~kAr~~~R~~K~~   37 (59)
T smart00685        9 EQYKQAALQAKRAGDEEKARRHLRIAKQF   37 (59)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             99999999999838899999999988219


No 45 
>PHA01735 hypothetical protein
Probab=25.46  E-value=23  Score=16.48  Aligned_cols=19  Identities=21%  Similarity=0.225  Sum_probs=12.0

Q ss_pred             HHCCCCHHHHHHHHHHHHH
Q ss_conf             9629998999999998238
Q gi|254780778|r   28 LEAKGDSELAIDILRTKGA   46 (296)
Q Consensus        28 ~e~~gD~e~Ai~~LRkkG~   46 (296)
                      +.+..|+..|.+||+.+|+
T Consensus        29 eAttaDL~aA~~~LKdN~I   47 (76)
T PHA01735         29 EATTADLRAACDWLKSNDI   47 (76)
T ss_pred             CCCHHHHHHHHHHHHHCCC
T ss_conf             8879999999999998796


No 46 
>TIGR02448 TIGR02448 conserverd hypothetical protein; InterPro: IPR012661   This family consists of small hypothetical proteins, about 100 amino acids in length. The family includes five members (three in tandem) in Pseudomonas aeruginosa PAO1, and also in Pseudomonas putida (strain KT2440), four in Pseudomonas syringae DC3000, and single members in several other Proteobacteria. The function is unknown..
Probab=25.00  E-value=49  Score=14.34  Aligned_cols=12  Identities=8%  Similarity=-0.141  Sum_probs=4.6

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             014677899998
Q gi|254780778|r  121 ITVGDGIKQQIA  132 (296)
Q Consensus       121 ~tv~d~i~~~ia  132 (296)
                      |-|.+...+..+
T Consensus        54 K~v~~ARDDAAs   65 (107)
T TIGR02448        54 KLVIAARDDAAS   65 (107)
T ss_pred             CEEHHHHHHHHH
T ss_conf             010413543442


No 47 
>TIGR00979 fumC_II fumarate hydratase, class II; InterPro: IPR005677    Fumarase C catalyzes the stereospecific interconversion of fumarate to L-malate as part of the metabolic citric acid or Kreb's cycle. The recent three-dimensional structure of fumarase C from Escherichia coli has identified a binding site for anions which is generated by side chains from three of the four subunits within the tetramer. These same side chains are found in the three most highly conserved regions within the class II fumarate hydratase family. Putative fumarases from several species (Mycobacterium tuberculosis, Streptomyces coelicolor, Pseudomonas aeruginosa) branch deeply, although within the same branch of a phylogenetic tree rooted by aspartate ammonia-lyase sequences.; GO: 0004333 fumarate hydratase activity, 0006106 fumarate metabolic process, 0045239 tricarboxylic acid cycle enzyme complex.
Probab=24.81  E-value=29  Score=15.85  Aligned_cols=18  Identities=22%  Similarity=0.350  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHCCHHHCCH
Q ss_conf             55667654332045878362
Q gi|254780778|r  191 IAVHVMLASPSVISVQMLDP  210 (296)
Q Consensus       191 iAmhiaA~~P~~l~~~~v~~  210 (296)
                      =||||||.  ..|...-||.
T Consensus       144 TAMHIAAv--~~~~~~LIP~  161 (459)
T TIGR00979       144 TAMHIAAV--LAIKEQLIPA  161 (459)
T ss_pred             CHHHHHHH--HHHHHHHHHH
T ss_conf             78999999--9998753167


No 48 
>TIGR02928 TIGR02928 orc1/cdc6 family replication initiation protein; InterPro: IPR014277   This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. The proteins in this entry are found exclusively in the archaea. Several members may be found in a genome and interact with each other..
Probab=23.72  E-value=55  Score=14.01  Aligned_cols=55  Identities=9%  Similarity=0.133  Sum_probs=29.0

Q ss_pred             CC-EEEEEEEEECCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             85-3699998403101022679999998887531033565778640041000014677899998543
Q gi|254780778|r   70 KK-ASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQQIAITG  135 (296)
Q Consensus        70 ~~-a~liEincETDFVAkn~~F~~l~~~i~~~~l~~~~~~~~~~~~~~~~~~~tv~d~i~~~ia~iG  135 (296)
                      .. .+.+.|||+.+= ..-..|..|++++.    ..+..      ..++..|.+-++....+...+.
T Consensus        76 ~~D~~~~~~NC~~~~-T~y~~~~~L~~~ln----~~~~~------~~vP~tG~s~~~~~~~l~~~l~  131 (383)
T TIGR02928        76 VRDVSTVYINCQILD-TSYQVLVELANQLN----RRGSG------EEVPTTGLSTSEVFRELYKELN  131 (383)
T ss_pred             CCCEEEEEECCCCCC-CHHHHHHHHHHHHC----CCCCC------CCCCCCCCCHHHHHHHHHHHHH
T ss_conf             971589997785468-46999999999851----57788------8898877878999999999983


No 49 
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family; InterPro: IPR003282 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior. There have been four secretion systems described in animal enteropathogens such as Salmonella and Yersinia, with further sequence similarities in plant pathogens like Ralstonia and Erwinia.   The type III secretion system is of great interest as it is used to transport virulence factors from the pathogen directly into the host cell  and is only triggered when the bacterium comes into close contact with the host. The protein subunits of the system are very similar to those of bacterial flagellar biosynthesis . However, while the latter forms a ring structure to allow secretion of flagellin and is an integral part of the flagellum itself, type III subunits in the outer membrane translocate secreted proteins through a channel-like structure.    One of the outer membrane protein subunit families, termed "K" here for nomenclature purposes, aids in the structural assembly of the invasion complex . It is also described as a lipoprotein. Members of this family include the Salmonella PrgK and SsaJ genes, MxiJ from Shigella, YscJ from Yersinia, and from the plant enteropathogens NolT (Rhizobium) and HrcJ Erwinia). The flagellar M-ring protein FliF also shares a low level of similarity, presumably due to evolution of the type III secretion system from the flagellar biosynthetic pathway.; GO: 0009306 protein secretion.
Probab=23.03  E-value=29  Score=15.85  Aligned_cols=15  Identities=13%  Similarity=0.224  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHCCCCC
Q ss_conf             034434443035432
Q gi|254780778|r  165 LGSIGVLVALQSSAE  179 (296)
Q Consensus       165 ~GkigvlV~l~~~~~  179 (296)
                      .-+++|++-+....+
T Consensus       152 P~sAsVfikY~~~~~  166 (203)
T TIGR02544       152 PSSASVFIKYRPGLN  166 (203)
T ss_pred             CCEEEEEEEECCCCC
T ss_conf             543889998668978


No 50 
>pfam03738 GSP_synth Glutathionylspermidine synthase. This region contains the Glutathionylspermidine synthase enzymatic activity EC:6.3.1.8. This is the C-terminal region in bienzymes. Glutathionylspermidine (GSP) synthetases of Trypanosomatidae and Escherichia coli couple hydrolysis of ATP (to ADP and Pi) with formation of an amide bond between spermidine and the glycine carboxylate of glutathione (gamma-Glu-Cys-Gly). In the pathogenic trypanosomatids, this reaction is the penultimate step in the biosynthesis of the antioxidant metabolite, trypanothione (N1,N8-bis-(glutathionyl)spermidine), and is a target for drug design.
Probab=22.93  E-value=57  Score=13.91  Aligned_cols=77  Identities=19%  Similarity=0.158  Sum_probs=48.3

Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHEECCCCCEEEE
Q ss_conf             3558999999987199989999999962999899999999823889986510336-------422000044078853699
Q gi|254780778|r    3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKV-------SEGLIGIARDGYKKASIV   75 (296)
Q Consensus         3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a-------~eG~v~~~~~~~~~a~li   75 (296)
                      .+|.+.|.+|++.|..=-.-|.+|....=.+ |   +.|+.-|+-......=|..       -=|+.=++.++.+-.=|+
T Consensus        31 ~ft~~eie~le~at~elh~m~l~a~~~v~~~-d---~~l~~lgIP~~~~~~Ir~SW~~~~~slyGRfDfa~dg~g~~KlL  106 (372)
T pfam03738        31 QFSLEEIEALEDATNELHQMCLEAVDYVIES-D---ELLARLGIPEELWPLIRESWERRHPSLYGRFDFAYDGDGPIKLL  106 (372)
T ss_pred             ECCHHHHHHHHHHHHHHHHHHHHHHHHHHCC-H---HHHHHCCCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCEEEE
T ss_conf             7589999999999999999999999999709-6---87987498999999999986067977577888997599976899


Q ss_pred             EEEEECCH
Q ss_conf             99840310
Q gi|254780778|r   76 EVNVETDS   83 (296)
Q Consensus        76 EincETDF   83 (296)
                      |.||+|=-
T Consensus       107 E~NaDTPT  114 (372)
T pfam03738       107 EYNADTPT  114 (372)
T ss_pred             EECCCCCH
T ss_conf             95279846


No 51 
>KOG1715 consensus
Probab=22.26  E-value=59  Score=13.82  Aligned_cols=21  Identities=14%  Similarity=0.332  Sum_probs=10.3

Q ss_pred             HHCCHHHHHHHHHHHHHHHHC
Q ss_conf             102267999999888753103
Q gi|254780778|r   84 LAKNTDFQSLVSNIAGIALST  104 (296)
Q Consensus        84 VAkn~~F~~l~~~i~~~~l~~  104 (296)
                      +..++.-..++++|+...|..
T Consensus        54 ~~~~~KI~~iv~eIssLtLlE   74 (187)
T KOG1715          54 VPPPPKISKIVDEISSLTLLE   74 (187)
T ss_pred             CCCCHHHHHHHHHHHHCCHHH
T ss_conf             688777999999998557999


No 52 
>TIGR02749 prenyl_cyano solanesyl diphosphate synthase; InterPro: IPR014120   This entry contains solanesyl diphosphate synthases from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterised by heterologous expression as a solanesyl diphosphate synthase..
Probab=21.71  E-value=60  Score=13.75  Aligned_cols=65  Identities=22%  Similarity=0.184  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCC---------HHHHHHHHHHHHH
Q ss_conf             467789999854343102444-310222210000013532346034434443035432---------1578999885655
Q gi|254780778|r  123 VGDGIKQQIAITGECIKLRRS-ALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAE---------DKELLSAIGEKIA  192 (296)
Q Consensus       123 v~d~i~~~ia~iGEnI~l~R~-~~~~~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~---------~~~~~~~~ak~iA  192 (296)
                      |=..+..+|.=++|= .|++. ..++ ++-.+-.|+--|+    -|.++||+-++...         --+.+=++||++.
T Consensus       137 VVKLls~VI~DFAEG-EI~Qg~~~FD-~d~~le~YleKSy----YKTASL~AaSskaAAvLS~~~~~v~n~LY~yGkhLG  210 (325)
T TIGR02749       137 VVKLLSKVITDFAEG-EIKQGLNRFD-SDLSLEDYLEKSY----YKTASLVAASSKAAAVLSDVDSKVANDLYEYGKHLG  210 (325)
T ss_pred             EEHHHHHHHHHHHHH-HHHHHHHHCC-CCCCHHHHHHHHH----HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHC
T ss_conf             001454787564117-8886555257-8878887665644----678999999989988851143899999877656616


Q ss_pred             H
Q ss_conf             6
Q gi|254780778|r  193 V  193 (296)
Q Consensus       193 m  193 (296)
                      +
T Consensus       211 L  211 (325)
T TIGR02749       211 L  211 (325)
T ss_pred             C
T ss_conf             3


No 53 
>pfam08549 SWI-SNF_Ssr4 Fungal domain of unknown function (DUF1750). This is a fungal domain of unknown function.
Probab=21.06  E-value=62  Score=13.66  Aligned_cols=108  Identities=18%  Similarity=0.204  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCH--------HHC--CHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5789998856556676543320458--------783--627777665666776312578678997774016766642333
Q gi|254780778|r  181 KELLSAIGEKIAVHVMLASPSVISV--------QML--DPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECV  250 (296)
Q Consensus       181 ~~~~~~~ak~iAmhiaA~~P~~l~~--------~~v--~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~Gkl~Kf~~E~~  250 (296)
                      .+...+|++.++-||+.++-.-=.-        +.+  ...+.+.|++.-..-...+..-.++|-  +|||+.-.-+|-.
T Consensus       359 p~kAeeF~~RV~~kva~~~aEIEkmKa~Hakrm~Kfkr~s~l~~AE~~LR~a~~dp~~~G~E~WR--lEGr~~~~~ee~~  436 (669)
T pfam08549       359 PEVADEFADRVAKKVADMTAEIEKLKKRHARRMEKFNRTSALKDAEQRLRDAAADPADTGSEIWR--LEGRLEIDTEDDS  436 (669)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCHHHCCCCCEE--ECCCCCCCCCCCC
T ss_conf             77899999999998888899999999999999998630027888999988740585433750024--2352257655677


Q ss_pred             HCCCCCCC-CCCCCHHHHHHHHHHHCCCCE-EEEEEEEEEECC
Q ss_conf             02560002-777439999987764207982-899889876224
Q gi|254780778|r  251 LLHQGFVV-DPSKTVSDFLKESEKSIGASI-EVVGVSHFVVGK  291 (296)
Q Consensus       251 LleQ~fv~-D~~~tV~~~l~e~~k~~g~~i-~I~~F~R~~lGE  291 (296)
                       ..+.++- ..+.+|.++++++.|.+|..| -+....|.+-|-
T Consensus       437 -~~~~~~~~~~k~kVddIv~~vE~~~gk~iv~~~~V~cVqkGG  478 (669)
T pfam08549       437 -SRQGPREHKAKYKVDDIVREVEKSWGKPIVPEPDVSCVEKGG  478 (669)
T ss_pred             -CCCCCCCCCCCCCHHHHHHHHHHHHCCCEEECCCEEEECCCC
T ss_conf             -765545665546699999999998688324215504862576


No 54 
>PRK10291 glyoxalase I; Provisional
Probab=20.81  E-value=44  Score=14.69  Aligned_cols=12  Identities=33%  Similarity=0.551  Sum_probs=6.7

Q ss_pred             CCHHHHHHHHHH
Q ss_conf             998999999998
Q gi|254780778|r   32 GDSELAIDILRT   43 (296)
Q Consensus        32 gD~e~Ai~~LRk   43 (296)
                      .|+++++.|-++
T Consensus         5 ~Dle~Sl~FY~~   16 (129)
T PRK10291          5 GDLQRSIDFYTN   16 (129)
T ss_pred             CCHHHHHHHHHH
T ss_conf             588998999986


No 55 
>KOG1161 consensus
Probab=20.03  E-value=65  Score=13.52  Aligned_cols=55  Identities=20%  Similarity=0.318  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHCC---------CHHHHHHHHHHCCCCHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Q ss_conf             999999987199---------98999999996299989999999982--388998651033642200
Q gi|254780778|r    7 VAVKELRGKTGA---------GIMDCKNALLEAKGDSELAIDILRTK--GAMAASKREGRKVSEGLI   62 (296)
Q Consensus         7 ~~iK~LR~~Tga---------g~~dCKkAL~e~~gD~e~Ai~~LRkk--G~~~A~Kk~~R~a~eG~v   62 (296)
                      .-+++||+++.+         .|.+-+++|.++.+|+-.=..+-|=+  |.+|.-||-|.-+. +++
T Consensus        73 ~Rl~~L~e~~~~~~~~~~~~~~~~~lr~~l~~~~~em~~L~~fs~LN~tGf~KILKK~DKrtg-~~l  138 (310)
T KOG1161          73 IRLKELEEKIDALSLEPPSAEEMKELREELVDFHGEMVLLENFSRLNYTGFAKILKKHDKRTG-YRL  138 (310)
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CCC
T ss_conf             999999987612445885466899999999999999999999998868999999998722266-433


Done!