Query         gi|254780785|ref|YP_003065198.1| 30S ribosomal protein S15 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 89
No_of_seqs    106 out of 1519
Neff          5.0 
Searched_HMMs 13730
Date          Wed Jun  1 06:56:32 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780785.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1vs5o1 a.16.1.2 (O:1-88) Ribo 100.0 1.3E-37 9.3E-42  226.3  11.7   88    2-89      1-88  (88)
  2 d1a32a_ a.16.1.2 (A:) Ribosoma 100.0 4.8E-36 3.5E-40  217.6  12.0   85    3-87      1-85  (85)
  3 d1kuqa_ a.16.1.2 (A:) Ribosoma 100.0 1.2E-35 8.4E-40  215.4  10.2   83    5-87      2-84  (84)
  4 d2nr5a1 a.25.6.1 (A:1-64) Hypo  43.0      11 0.00079   16.7   3.4   37    7-43     20-57  (64)
  5 d1vmga_ a.204.1.2 (A:) Hypothe  38.5      11 0.00077   16.8   2.7   49    1-49      1-49  (83)
  6 d1rh2a_ a.26.1.3 (A:) Interfer  13.5      41   0.003   13.5   6.6   83    6-88     53-143 (154)
  7 d2hjqa1 a.140.3.2 (A:50-103) H  11.2      49  0.0036   13.1   4.4   35    3-37     16-50  (54)
  8 d1sxjd1 a.80.1.1 (D:263-353) R  11.1      49  0.0036   13.1   2.6   36    3-38     52-90  (91)
  9 d1xmka1 a.4.5.19 (A:294-366) Z   7.1      73  0.0053   12.1   1.3   23   65-87      9-31  (73)
 10 d2d6fc2 d.74.4.1 (C:271-395) G   6.2      82   0.006   11.9   2.4   20    3-22     77-96  (125)

No 1  
>d1vs5o1 a.16.1.2 (O:1-88) Ribosomal protein S15 {Escherichia coli [TaxId: 562]}
Probab=100.00  E-value=1.3e-37  Score=226.25  Aligned_cols=88  Identities=48%  Similarity=0.728  Sum_probs=87.1

Q ss_pred             CCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
Q ss_conf             88889999999995458887888999999977999999999997784135277899999978999999984099999999
Q gi|254780785|r    2 SITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKRL   81 (89)
Q Consensus         2 ~~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d~~~Y~~~   81 (89)
                      |+++++|+++|++||+||+||||||||||+||+||.+|++||+.||||++|+|||.+||++|++||+||+++|+++|.++
T Consensus         1 ~l~~~~k~~ii~~~~~~~~DtGS~evQiA~lT~rI~~Lt~Hl~~~kKD~~s~rgL~~lv~kRkklL~YL~~~d~~~Y~~v   80 (88)
T d1vs5o1           1 SLSTEATAKIVSEFGRDANDTGSTEVQVALLTAQINHLQGHFAEHKKDHHSRRGLLRMVSQRRKLLDYLKRKDVARYTRL   80 (88)
T ss_dssp             CCCHHHHHHHHHHHCSSSSCTTCHHHHHHHHHHHHHHHHHHHHSSCCCCTTHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf             98779999999998689998788579898779999999999987665410399999999999999999986599999999


Q ss_pred             HHHHCCCC
Q ss_conf             99836899
Q gi|254780785|r   82 VQSLKLRR   89 (89)
Q Consensus        82 i~~LglRk   89 (89)
                      |++|||||
T Consensus        81 i~~LgLrk   88 (88)
T d1vs5o1          81 IERLGLRR   88 (88)
T ss_dssp             HTTTTCCC
T ss_pred             HHHHCCCC
T ss_conf             99958999


No 2  
>d1a32a_ a.16.1.2 (A:) Ribosomal protein S15 {Bacillus stearothermophilus [TaxId: 1422]}
Probab=100.00  E-value=4.8e-36  Score=217.58  Aligned_cols=85  Identities=49%  Similarity=0.800  Sum_probs=84.0

Q ss_pred             CCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
Q ss_conf             88899999999954588878889999999779999999999977841352778999999789999999840999999999
Q gi|254780785|r    3 ITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKRLV   82 (89)
Q Consensus         3 ~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d~~~Y~~~i   82 (89)
                      |++++|+++|++||+||+||||||||||+||+||++|++||+.||||++|+|||..||++|+++|+||+++|+++|.++|
T Consensus         1 ~~~~~K~~~i~~~~~~~~DtGS~evQiA~lT~rI~~L~~Hlk~~kkD~~srrgL~~lv~~RrklL~YLrk~d~~~Y~~~i   80 (85)
T d1a32a_           1 LTQERKREIIEQFKVHENDTGSPEVQIAILTEQINNLNEHLRVHKKDHHSRRGLLKMVGKRRRLLAYLRNKDVARYREIV   80 (85)
T ss_dssp             CCHHHHHHHHHHTCCSCCCCCSHHHHHHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
T ss_conf             98899999999976899987997998986189899999999877553224899999999999999999865999999999


Q ss_pred             HHHCC
Q ss_conf             98368
Q gi|254780785|r   83 QSLKL   87 (89)
Q Consensus        83 ~~Lgl   87 (89)
                      ++|||
T Consensus        81 ~~Lgl   85 (85)
T d1a32a_          81 EKLGL   85 (85)
T ss_dssp             HHHTC
T ss_pred             HHCCC
T ss_conf             88488


No 3  
>d1kuqa_ a.16.1.2 (A:) Ribosomal protein S15 {Thermus thermophilus [TaxId: 274]}
Probab=100.00  E-value=1.2e-35  Score=215.45  Aligned_cols=83  Identities=48%  Similarity=0.735  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             89999999995458887888999999977999999999997784135277899999978999999984099999999998
Q gi|254780785|r    5 LERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKRLVQS   84 (89)
Q Consensus         5 ~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD~~s~rgL~~lv~kRkklL~YLk~~d~~~Y~~~i~~   84 (89)
                      +++|+++|++||+||+||||||||||+||+||.+|++||+.||||++|+|||.+||++|++||+||+++|+++|.++|++
T Consensus         2 k~~K~~ii~~~~~~~~DtGS~evQiA~lT~rI~~L~~Hlk~~kkD~~s~rgL~~lv~kRkklL~YLrk~d~~~Y~~li~~   81 (84)
T d1kuqa_           2 KEEKQKVIQEFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMVGQRRRLLRYLQREDPERYRALIEK   81 (84)
T ss_dssp             TTHHHHHHHHHCSSTTCCSSHHHHHHHHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             CHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH
T ss_conf             17999999997689999898899999889999999999987765410399999999999999999986699999999988


Q ss_pred             HCC
Q ss_conf             368
Q gi|254780785|r   85 LKL   87 (89)
Q Consensus        85 Lgl   87 (89)
                      |||
T Consensus        82 LgL   84 (84)
T d1kuqa_          82 LGI   84 (84)
T ss_dssp             TCC
T ss_pred             CCC
T ss_conf             388


No 4  
>d2nr5a1 a.25.6.1 (A:1-64) Hypothetical protein SO2669 {Shewanella oneidensis [TaxId: 70863]}
Probab=43.04  E-value=11  Score=16.73  Aligned_cols=37  Identities=22%  Similarity=0.383  Sum_probs=25.9

Q ss_pred             HHHHHHHHHCCCCCCCCCHHHH-HHHHHHHHHHHHHHH
Q ss_conf             9999999954588878889999-999779999999999
Q gi|254780785|r    7 RKRELMKEYAVSPGDTGSPEVQ-VAVCTERIANLTEHF   43 (89)
Q Consensus         7 ~k~~~i~~f~~~~~DtGS~evQ-IA~lT~rI~~L~~Hl   43 (89)
                      -|-..|......+....|+..| +.+.|.||..|.+-+
T Consensus        20 gklkairqlcgaedssdssdmqeveiwtnrikeledwl   57 (64)
T d2nr5a1          20 GKLKAIRQLCGAEDSSDSSDMQEVEIWTNRIKELEDWL   57 (64)
T ss_dssp             HHHHHHHHTTTTTCC----HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             88999999957766775103489999998899999986


No 5  
>d1vmga_ a.204.1.2 (A:) Hypothetical protein SSo12199 (SSo3215) {Sulfolobus solfataricus [TaxId: 2287]}
Probab=38.50  E-value=11  Score=16.78  Aligned_cols=49  Identities=20%  Similarity=0.216  Sum_probs=36.4

Q ss_pred             CCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             9888899999999954588878889999999779999999999977841
Q gi|254780785|r    1 MSITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKD   49 (89)
Q Consensus         1 m~~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~~kKD   49 (89)
                      |.++-..-|+-|++|.....---+|+.+..-|++.+.-|.+++....++
T Consensus         1 ~~M~l~elQ~~v~~~~~~~d~~~~~~~~~~~l~eE~gEl~~a~~~~~~~   49 (83)
T d1vmga_           1 MDLELKELQSKMKEMYFEKDSQRGIYATFTWLVEEVGELAEALLSNNLD   49 (83)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCHH
T ss_conf             9785999999999999865153389999999999999999999818989


No 6  
>d1rh2a_ a.26.1.3 (A:) Interferon-alpha 2b {Human (Homo sapiens) [TaxId: 9606]}
Probab=13.51  E-value=41  Score=13.51  Aligned_cols=83  Identities=7%  Similarity=0.056  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH------CCCCC-CHH-HHHHHHHHHHHHHHHHHHHCCHHH
Q ss_conf             9999999995458887888999999977999999999997------78413-527-789999997899999998409999
Q gi|254780785|r    6 ERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKS------AKKDV-NSK-IGLGRLISLRSSLLKYLERKDVER   77 (89)
Q Consensus         6 ~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~~L~~Hl~~------~kKD~-~s~-rgL~~lv~kRkklL~YLk~~d~~~   77 (89)
                      +--++++.-|..+..-+|=-+-.+--+=..+..-.+|++.      ..++. ... ...+.+-.-=+++..||+.+++..
T Consensus        53 emlqqif~LF~~~~ssa~Wnet~le~fl~~L~~Ql~~Le~Cl~~~~~~~~~~~~~e~~~L~lk~YF~rI~~yLk~K~yS~  132 (154)
T d1rh2a_          53 EMIQQIFNLFSTKDSSAAWDETLLDKFYTELYQQLNDLEACVIQGVGVTETPLMNEDSILAVRKYFQRITLYLKEKKYSP  132 (154)
T ss_pred             HHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCH
T ss_conf             99999999980688601067999999999999999999999988556446776777524899999999999987189978


Q ss_pred             HHHHHHHHCCC
Q ss_conf             99999983689
Q gi|254780785|r   78 YKRLVQSLKLR   88 (89)
Q Consensus        78 Y~~~i~~LglR   88 (89)
                      +.|-+-..-|+
T Consensus       133 CAWEiVR~Ei~  143 (154)
T d1rh2a_         133 CAWEVVRAEIM  143 (154)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 7  
>d2hjqa1 a.140.3.2 (A:50-103) Hypothetical protein YqbF {Bacillus subtilis [TaxId: 1423]}
Probab=11.20  E-value=49  Score=13.10  Aligned_cols=35  Identities=11%  Similarity=0.283  Sum_probs=27.9

Q ss_pred             CCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             88899999999954588878889999999779999
Q gi|254780785|r    3 ITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIA   37 (89)
Q Consensus         3 ~~~~~k~~~i~~f~~~~~DtGS~evQIA~lT~rI~   37 (89)
                      +.+.....+|...+++|.|.-...-.||..-+.|.
T Consensus        16 m~k~~~e~ii~~lg~~ps~fkn~~eria~il~qid   50 (54)
T d2hjqa1          16 MNKAEHESIISNLGRNPSDFKNADERIAYILKQID   50 (54)
T ss_dssp             CCHHHHHHHHHHHTCCTTSCCSHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHCCCCHHHHCCHHHHHHHHHHHHH
T ss_conf             12111145787528994561276899999999861


No 8  
>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=11.13  E-value=49  Score=13.08  Aligned_cols=36  Identities=8%  Similarity=0.038  Sum_probs=21.3

Q ss_pred             CCHHHHHHHHHHHCCC---CCCCCCHHHHHHHHHHHHHH
Q ss_conf             8889999999995458---88788899999997799999
Q gi|254780785|r    3 ITLERKRELMKEYAVS---PGDTGSPEVQVAVCTERIAN   38 (89)
Q Consensus         3 ~~~~~k~~~i~~f~~~---~~DtGS~evQIA~lT~rI~~   38 (89)
                      ++...|.+++..++.-   =.|-++..+|+.-|..+|..
T Consensus        52 i~~~~k~~i~~~la~~d~rL~~G~~e~lQL~~lla~i~~   90 (91)
T d1sxjd1          52 FDTNFKNQISWLLFTTDSRLNNGTNEHIQLLNLLVKISQ   90 (91)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHC
T ss_conf             999999999999999999998489839999999999871


No 9  
>d1xmka1 a.4.5.19 (A:294-366) Z-alpha domain of dsRNA-specific adenosine deaminase, ADAR1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=7.07  E-value=73  Score=12.14  Aligned_cols=23  Identities=17%  Similarity=0.208  Sum_probs=8.0

Q ss_pred             HHHHHHHHCCHHHHHHHHHHHCC
Q ss_conf             99999984099999999998368
Q gi|254780785|r   65 SLLKYLERKDVERYKRLVQSLKL   87 (89)
Q Consensus        65 klL~YLk~~d~~~Y~~~i~~Lgl   87 (89)
                      +.+.||+......=..+.+.||+
T Consensus         9 kI~~~L~~~g~~~Al~iak~lGl   31 (73)
T d1xmka1           9 KICDYLFNVSDSSALNLAKNIGL   31 (73)
T ss_dssp             HHHHHHHHTCCEEHHHHHHHHCG
T ss_pred             HHHHHHHHCCCCHHHHHHHHHCC
T ss_conf             99999997598439999999499


No 10 
>d2d6fc2 d.74.4.1 (C:271-395) Glutamyl-tRNA(gln) amidotransferase subunit E, GatE, insert domain {Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=6.16  E-value=82  Score=11.86  Aligned_cols=20  Identities=40%  Similarity=0.436  Sum_probs=16.9

Q ss_pred             CCHHHHHHHHHHHCCCCCCC
Q ss_conf             88899999999954588878
Q gi|254780785|r    3 ITLERKRELMKEYAVSPGDT   22 (89)
Q Consensus         3 ~~~~~k~~~i~~f~~~~~Dt   22 (89)
                      ++.+..+++++.++..|+|+
T Consensus        77 l~~e~~~~i~~~~~~~~GD~   96 (125)
T d2d6fc2          77 ITEEEVRGLRDAVGASQGDA   96 (125)
T ss_dssp             CCHHHHHHHHHHTTCCSSSE
T ss_pred             CCHHHHHHHHHHHCCCCCCE
T ss_conf             33899999999948999998


Done!