Query         gi|254780265|ref|YP_003064678.1| 30S ribosomal protein S7 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 156
No_of_seqs    109 out of 1439
Neff          6.0 
Searched_HMMs 23785
Date          Tue May 24 09:09:19 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780265.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3i1m_G 30S ribosomal protein S 100.0       0       0  391.9  13.7  156    1-156     1-156 (179)
  2 1hus_A Ribosomal protein S7; R 100.0       0       0  385.9  14.9  155    2-156     1-155 (155)
  3 1rss_A Ribosomal protein S7; R 100.0       0       0  372.4  14.5  150    7-156     2-151 (151)
  4 3bbn_G Ribosomal protein S7; s 100.0       0       0  379.0   7.7  155    1-155     1-155 (155)
  5 3gty_S TF, 30S ribosomal prote 100.0       0       0  366.4  13.8  148    9-156     2-149 (149)
  6 3ofp_G 30S ribosomal protein S 100.0       0       0  358.2 -12.7  150    3-152     1-150 (150)
  7 2noq_F L10A, 40S ribosomal pro 100.0       0       0  303.1  12.1  140    6-149     2-150 (150)
  8 2zkq_g 40S ribosomal protein S 100.0 1.4E-45       0  293.4  12.6  135   15-149    61-204 (204)
  9 1iqv_A Ribosomal protein S7; R 100.0 4.2E-45       0  290.8  14.3  131   19-149    63-218 (218)
 10 1yxb_A PRA-PH, phosphoribosyl-  14.0      60  0.0025   12.9   2.6   39   28-66     28-66  (98)

No 1  
>3i1m_G 30S ribosomal protein S7; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_G* 3e1a_U 3e1c_U 1vs5_G 3i1o_G 3i1q_G 3i1s_G 3i1z_G 3i21_G 3kc4_G 2qal_G* 1p6g_G 1p87_G 2aw7_G 2avy_G 2i2u_G 2i2p_G* 2qan_G* 2qb9_G* 2qbb_G* ...
Probab=100.00  E-value=0  Score=391.86  Aligned_cols=156  Identities=51%  Similarity=0.855  Sum_probs=155.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEE
Q ss_conf             98989997555799974378799999999976695999999999999866742488638999999984275404778752
Q gi|254780265|r    1 MSRRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRV   80 (156)
Q Consensus         1 m~Rr~~~~kr~~~pD~~y~~~lv~kliN~lMk~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~   80 (156)
                      ||||+.++||.++|||+|+|++|++|||+||++|||++|++|++++|++|+++|++||+++|++||+|++|.+||+++++
T Consensus         1 m~R~~~~~kr~~~pD~~y~~~lV~kliN~lMk~GKK~~A~kIv~~a~~~I~~~t~~npi~vl~~AI~N~~P~~evk~~r~   80 (179)
T 3i1m_G            1 MPRRRVIGQRKILPDPKFGSELLAKFVNILMVDGKKSTAESIVYSALETLAQRSGKSELEAFEVALENVRPTVEVKSRRV   80 (179)
T ss_dssp             -CCSCCCCCCCCCCCTTTCCHHHHHHHHHHCCTTCHHHHHHHHHHHHHHHHHHHCSCSHHHHHHHHHHHCCSEEEECCCC
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCEEEEEEEE
T ss_conf             96999998787999977587899999999876645999999999999888874367425899999993799627887750


Q ss_pred             CCCCEECEEECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHHCCCC
Q ss_conf             4630000010485799999999999999857999989999999999973888726307889999999888532569
Q gi|254780265|r   81 GGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAANNRGVAVRKREETHKVAEANRAFSHYRW  156 (156)
Q Consensus        81 gG~~yqvP~~i~~~r~~~lAirWii~~a~~r~~~~~~~~La~Eii~A~~~~g~aikkK~elhk~A~aNRa~ah~Rw  156 (156)
                      ||++||||+||++.|+++||||||+++|+++++++|+++||+||++|++|+|.|++||+|+||+|++|||||||||
T Consensus        81 GG~~~qvPv~i~~~rr~~lAirWil~aar~r~~k~~~~~La~EIi~A~~~~g~aikKK~elhK~A~aNRa~ahyRW  156 (179)
T 3i1m_G           81 GGSTYQVPVEVRPVRRNALAMRWIVEAARKRGDKSMALRLANELSDAAENKGTAVKKREDVHRMAEANKAFAHYRW  156 (179)
T ss_dssp             SSSCCCEEEECCTTHHHHHHHHHHHHHHTTCCSSSHHHHHHHHHHHHHTSCSHHHHHHHHHHHHTTTGGGGC----
T ss_pred             CCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHH
T ss_conf             7722222022282889999999999999865999899999999999995899766519999999999899998998


No 2  
>1hus_A Ribosomal protein S7; RNA-binding protein, decoding center,; 2.50A {Geobacillus stearothermophilus} SCOP: a.75.1.1
Probab=100.00  E-value=0  Score=385.87  Aligned_cols=155  Identities=55%  Similarity=0.910  Sum_probs=154.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEEC
Q ss_conf             89899975557999743787999999999766959999999999998667424886389999999842754047787524
Q gi|254780265|r    2 SRRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRVG   81 (156)
Q Consensus         2 ~Rr~~~~kr~~~pD~~y~~~lv~kliN~lMk~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~g   81 (156)
                      |||++++||.++|||+|+|++|++|||+||++|||++|++|++++|++|+++|++||+++|++||+|++|.+||+++++|
T Consensus         1 pr~~~~~kr~~~pd~~y~~~lv~k~in~lM~~GKK~~A~kIv~~al~~i~~~~~~~pi~il~~Ai~n~~P~~ev~~~r~g   80 (155)
T 1hus_A            1 PRRGPVAKRDVLPDPIYNSKLVTRLINKIMIDGKKSKAQKILYTAFDIIRERTGKDPMEVFEQALKNVMPVLEVRARRVG   80 (155)
T ss_dssp             --------CCCCCCTTTCCHHHHHHHHHHCCTTCHHHHHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHCCSEEEECCEET
T ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCEEEEEEEC
T ss_conf             99998887889999665879999999999862219999999999999999873998689999999935885114656408


Q ss_pred             CCCEECEEECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHHCCCC
Q ss_conf             630000010485799999999999999857999989999999999973888726307889999999888532569
Q gi|254780265|r   82 GAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAANNRGVAVRKREETHKVAEANRAFSHYRW  156 (156)
Q Consensus        82 G~~yqvP~~i~~~r~~~lAirWii~~a~~r~~~~~~~~La~Eii~A~~~~g~aikkK~elhk~A~aNRa~ah~Rw  156 (156)
                      |++||||+++++.|+++||||||+++|+++++++|+++||+||+||++|+|.|++||+|+||+|++||||+||||
T Consensus        81 G~~yqvPv~v~~~rr~~lAirWil~~a~~r~~~~~~~~La~Eii~A~~~~g~avkKK~e~hk~A~aNRa~ahyRw  155 (155)
T 1hus_A           81 GANYQVPVEVRPDRRVSLGLRWLVQYARLRNEKTMEERLANEIMDAANNTGAAVKKREDTHKMAEANKAFAHYRW  155 (155)
T ss_dssp             TEECCEEEECCHHHHHHHHHHHHHHHHHHSCSSSHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHHC--------
T ss_pred             CEEEEEEEECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHCCCCC
T ss_conf             764787575186899999999999999846889899999999999994899766518999999998662502589


No 3  
>1rss_A Ribosomal protein S7; RNA-binding, translation; 1.90A {Thermus thermophilus} SCOP: a.75.1.1 PDB: 1n32_G* 1i95_G* 1i96_G* 1i97_G* 1i94_G 1j5e_G* 1n33_G* 1n34_G 1n36_G 1pns_G 1pnx_G 1voq_G 1vos_G 1vov_G 1vox_G 1voz_G 2e5l_G 2zm6_G 3fic_G* 2vqe_G* ...
Probab=100.00  E-value=0  Score=372.36  Aligned_cols=150  Identities=47%  Similarity=0.844  Sum_probs=148.9

Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCEE
Q ss_conf             97555799974378799999999976695999999999999866742488638999999984275404778752463000
Q gi|254780265|r    7 AVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRVGGAAYS   86 (156)
Q Consensus         7 ~~kr~~~pD~~y~~~lv~kliN~lMk~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~gG~~yq   86 (156)
                      |++|.++|||+|+|++|++|||+||++|||++|++|++++|++|++++++||+++|++||+|++|.+||+++++||++||
T Consensus         2 a~~r~~~pd~~y~~~lv~k~iN~lMk~GKK~~A~kI~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~ev~~~r~gG~~~~   81 (151)
T 1rss_A            2 AEVRQLQPDLVYGDVLVTAFINKIMRDGKKNLAARIFYDACKIIQEKTGQEPLKVFKQAVENVKPRMEVRSRRVGGANYQ   81 (151)
T ss_dssp             -----CCCCTTTCCHHHHHHHHHHCCTTCHHHHHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHCCSEEEEEEEETTEEEE
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCEEEEEECCEEEE
T ss_conf             98676899976588999999999874347999999999999998870589749999999996599402243555888577


Q ss_pred             CEEECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHHCCCC
Q ss_conf             0010485799999999999999857999989999999999973888726307889999999888532569
Q gi|254780265|r   87 VPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAANNRGVAVRKREETHKVAEANRAFSHYRW  156 (156)
Q Consensus        87 vP~~i~~~r~~~lAirWii~~a~~r~~~~~~~~La~Eii~A~~~~g~aikkK~elhk~A~aNRa~ah~Rw  156 (156)
                      ||+++++.||++||||||+++|++|++++|+++||+||++|++|+|.|++||+|+||+|++||||+||||
T Consensus        82 vP~~is~~rr~~lAirWil~aa~kr~~~~~~~~La~Eii~a~~~~g~aikKk~e~hk~A~aNRa~~hyRw  151 (151)
T 1rss_A           82 VPMEVSPRRQQSLALRWLVQAANQRPERRAAVRIAHELMDAAEGKGGAVKKKEDVERMAEANRAYAHYRW  151 (151)
T ss_dssp             EEEECCHHHHHHHHHHHHHHHHTTSSCSSHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHCC-----CSCC
T ss_pred             ECCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCEEEHHHHHHHHHHHHHHHCCCCC
T ss_conf             1466787899999999999999866999899999999999980888642219999999999661503689


No 4  
>3bbn_G Ribosomal protein S7; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Probab=100.00  E-value=0  Score=378.97  Aligned_cols=155  Identities=46%  Similarity=0.724  Sum_probs=154.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEE
Q ss_conf             98989997555799974378799999999976695999999999999866742488638999999984275404778752
Q gi|254780265|r    1 MSRRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRV   80 (156)
Q Consensus         1 m~Rr~~~~kr~~~pD~~y~~~lv~kliN~lMk~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~   80 (156)
                      ||||+++++|.++|||+|+|++|++|||++|++|||++|++||+++|++|+++|++||+++|++||+|++|.+||+++|+
T Consensus         1 m~rr~~~~kr~~~~Dp~~~~~lv~klin~lmk~GKK~~A~kiv~~a~~~I~~~~~~~pl~vl~~Ai~N~~P~~ev~~~r~   80 (155)
T 3bbn_G            1 MSRRGTVEEKTAKSDPIYRNRLVNMLVNRILKHGKKSLAYQILYRAVKKIQQKTETNPLSVLRQAIRGVTPDIAVKARRV   80 (155)
T ss_dssp             -CCSSCCCCCCCCCCTTTCCSSGGGHHHHSCCTTCHHHHHHHHSHHHHTTTTTCSSCTTHHHHHHGGGTCCSEEECCEEE
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCEEEEEEE
T ss_conf             96999998788999987574999999987642876999999999999999985588858999999980799625665641


Q ss_pred             CCCCEECEEECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHHCCC
Q ss_conf             463000001048579999999999999985799998999999999997388872630788999999988853256
Q gi|254780265|r   81 GGAAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAANNRGVAVRKREETHKVAEANRAFSHYR  155 (156)
Q Consensus        81 gG~~yqvP~~i~~~r~~~lAirWii~~a~~r~~~~~~~~La~Eii~A~~~~g~aikkK~elhk~A~aNRa~ah~R  155 (156)
                      ||++||||+++++.|++++|||||+++|+++++++|+++||+||++|++|+|.|++||+|+||+|++||||||||
T Consensus        81 GG~~~~vPv~i~~~r~~~lAirWil~~a~kr~~k~~~~~La~Eii~A~~~~g~aikKk~e~hk~A~aNRa~ah~R  155 (155)
T 3bbn_G           81 GGSTHQVPIEIGSTQGKALAIRWLLGAARKRPGRNMAFKLSSELVDAAKGSGDAVRKKEETHRMAEANRAFAHFR  155 (155)
T ss_dssp             TTEEECCEEECCHHHHHHHHTTHHHHHHHTCCSSCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSSSSGGGSCCC
T ss_pred             CCEEEEEEEEECHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHCCC
T ss_conf             887478611317999999999999999987699999999999999998089974450899999999977464369


No 5  
>3gty_S TF, 30S ribosomal protein S7; chaperone-client complex, cell cycle, cell division, chaperone, isomerase, rotamase, ribonucleoprotein; 3.40A {Thermotoga maritima}
Probab=100.00  E-value=0  Score=366.40  Aligned_cols=148  Identities=54%  Similarity=0.954  Sum_probs=146.8

Q ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCEECE
Q ss_conf             55579997437879999999997669599999999999986674248863899999998427540477875246300000
Q gi|254780265|r    9 VREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRVGGAAYSVP   88 (156)
Q Consensus         9 kr~~~pD~~y~~~lv~kliN~lMk~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~gG~~yqvP   88 (156)
                      +|.+.|||+|+|++|++|||+||++|||++|++|++++|++|++.+++||+++|++||+|++|.+||+++++||++||||
T Consensus         2 ~r~~~pd~~~~~~lv~k~in~lMk~GKK~kA~kiv~~al~~i~~~~~~~pi~il~~Ai~n~~P~~ev~~~r~GG~~~~vP   81 (149)
T 3gty_S            2 GRQIPPDPVFGDVLVAKLINRVMWDGKKTIAQKIVYGAFDIIREKTKKDPLEVFRQAVENVKPVLEVRPRRVGGATYQVP   81 (149)
T ss_dssp             CCCCCCCSSSCCHHHHHHHHHHCBTTBTTTHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHCCSEEEEEECSSSSCEEEE
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHCCCEEECCEEEEEC
T ss_conf             89789986658789999999998724499999999999999987457854699999999767820110342088868824


Q ss_pred             EECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHHCCCC
Q ss_conf             10485799999999999999857999989999999999973888726307889999999888532569
Q gi|254780265|r   89 GEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAANNRGVAVRKREETHKVAEANRAFSHYRW  156 (156)
Q Consensus        89 ~~i~~~r~~~lAirWii~~a~~r~~~~~~~~La~Eii~A~~~~g~aikkK~elhk~A~aNRa~ah~Rw  156 (156)
                      +++++.||++||||||+++|+++++++|+++||+||++|++|+|.|++||+|+||+|++||||+||||
T Consensus        82 v~i~~~rr~~lAirWil~~a~~k~~~~~~~~La~Eii~a~~~~g~avkkk~e~hK~A~anRa~~h~Rw  149 (149)
T 3gty_S           82 IEVQEPRRTSLALRWIVEAARAKKGRPMKEKLAEEIIAAYNNTGTAIKKKEDTHRMAEANRAFAHYRW  149 (149)
T ss_dssp             EECCTHHHHHHHHHHHHHHHHTCSSSCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHTTSGGGCTTCC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCEEEHHHHHHHHHHHHHHHCCCCC
T ss_conf             76787899999999999999875999899999999999980888631229999999999661502589


No 6  
>3ofp_G 30S ribosomal protein S7; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_G* 2wwl_G 3ofo_G 2gy9_G 2gyb_G
Probab=100.00  E-value=0  Score=358.16  Aligned_cols=150  Identities=50%  Similarity=0.806  Sum_probs=148.6

Q ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEECC
Q ss_conf             98999755579997437879999999997669599999999999986674248863899999998427540477875246
Q gi|254780265|r    3 RRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRVGG   82 (156)
Q Consensus         3 Rr~~~~kr~~~pD~~y~~~lv~kliN~lMk~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~gG   82 (156)
                      ||+++++|.++|||+|+|++|++|||+||++|||++|++|++++|++|+++|++||+++|++||+|++|.+||+++++||
T Consensus         1 R~~~~~kr~~~pD~~y~~~lv~kfin~lM~~GKK~~A~~iv~~al~~i~~~~~~~pi~vl~~Ai~n~~P~~ev~~~r~GG   80 (150)
T 3ofp_G            1 RRRVIGQRKILPDPKFGSELLAKFVNILMVDGKKSTAESIVYSALETLAQRSGKSELEAFEVALENVRPTVEVKSRRVGG   80 (150)
T ss_dssp             CCSCCCCCCCCCCSSSCCHHHHTHHHHHCCTTCTTSTTTSSSSSSTTSSSSSCCCTTTSSTTTTTSSCCCSBCCCCCSSS
T ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCEEEEEEEECC
T ss_conf             99988889899997768899999999988654299999999999999988537853378999998089851577642077


Q ss_pred             CCEECEEECCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHH
Q ss_conf             3000001048579999999999999985799998999999999997388872630788999999988853
Q gi|254780265|r   83 AAYSVPGEITSKRSQALAIRWLIMAARKRNETTMIDRLGGEIIDAANNRGVAVRKREETHKVAEANRAFS  152 (156)
Q Consensus        83 ~~yqvP~~i~~~r~~~lAirWii~~a~~r~~~~~~~~La~Eii~A~~~~g~aikkK~elhk~A~aNRa~a  152 (156)
                      ++||||+|+++.|++++|||||+++|++|++++|+++|++||++|++|+|.|++||+|+||+|++|||||
T Consensus        81 ~~y~vP~~i~~~r~~~lAirWil~~a~~r~~k~~~~~La~Eii~A~~~~g~aikKk~elhK~A~aNRa~a  150 (150)
T 3ofp_G           81 STYQVPVEVRPVRRNALAMRWIVEAARKRGDKSMALRLANELSDAAENKGTAVKKREDVHRMAEANKAFA  150 (150)
T ss_dssp             CCCCCCBCCCHHHHHHTHHHHTTTTTSSSSCSSHHHHTTTTGGGTTSCCSSSSHHHHTTTCCCCCCCCCC
T ss_pred             CCCEEEEEECHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHCCC
T ss_conf             1223423417678999999999999986699989999999999998289976650999999999887729


No 7  
>2noq_F L10A, 40S ribosomal protein S5; IRES RNA, ribosome, translation, internal initiation; 7.30A {Saccharomyces cerevisiae} PDB: 1s1h_G
Probab=100.00  E-value=0  Score=303.12  Aligned_cols=140  Identities=29%  Similarity=0.421  Sum_probs=131.0

Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHH----HCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEEC
Q ss_conf             99755579997437879999999997----66959999999999998667424886389999999842754047787524
Q gi|254780265|r    6 RAVVREVLPDPKFSDFVVAKFMNAIM----YGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRVG   81 (156)
Q Consensus         6 ~~~kr~~~pD~~y~~~lv~kliN~lM----k~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~g   81 (156)
                      .+.+++    +++++|+|++|||+||    ++|||++|++|||+||++|+++|++||++||++||+|++|.+||+++++|
T Consensus         2 ~a~~~f----~k~~~~iv~r~iN~lM~~g~k~GKK~~A~kiv~~al~~i~~~t~~nP~~vl~~Ai~N~~P~~ev~~~r~G   77 (150)
T 2noq_F            2 YANKRF----RKAQCPIIERLTNSLMMNGRNNGKKLKAVRIIKHTLDIINVLTDQNPIQVVVDAITNTGPREDTTRVGGG   77 (150)
T ss_dssp             CSCCCC----CCCCSSSCCHHHHHHHHHHCCTTCHHHHHHHHHHHHHHHHHHSSSCHHHHHHHHHHHHCCSEEEEEEECS
T ss_pred             CCCCCC----CCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEECCC
T ss_conf             530125----7545869999999977625468749999999999999999846998899999999947996588873038


Q ss_pred             CCCEECEEECCHHHHHHHHHHHHHHHHHH---CCCCCHHHHHHHHHHHHHCCCCC--CEECHHHHHHHHHHHH
Q ss_conf             63000001048579999999999999985---79999899999999999738887--2630788999999988
Q gi|254780265|r   82 GAAYSVPGEITSKRSQALAIRWLIMAARK---RNETTMIDRLGGEIIDAANNRGV--AVRKREETHKVAEANR  149 (156)
Q Consensus        82 G~~yqvP~~i~~~r~~~lAirWii~~a~~---r~~~~~~~~La~Eii~A~~~~g~--aikkK~elhk~A~aNR  149 (156)
                      |++||||+||++.|+++||||||+++|++   +++++|+++||+||++|++|+|.  ||+||+|+||||+|||
T Consensus        78 G~~yqvPv~v~~~rr~~lAirwi~~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~s~AvkKK~e~hk~A~aNR  150 (150)
T 2noq_F           78 GAARRQAVDVSPLRRVNQAIALLTIGAREAAFRNIKTIAETLAEELINAAKGSSTSYAIKKKDELERVAKSNR  150 (150)
T ss_dssp             SSEEEEEEECCHHHHHHHHHHHHHHHHHHCSCCCSSSSHHHHHHHHHHHSSTTCCSHHHHHHHHHHHHTTTTC
T ss_pred             CEEEEEEEEECCHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             7567742220816889999999999999863369998999999999999818898523126889999998568


No 8  
>2zkq_g 40S ribosomal protein S5E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 3jyv_G*
Probab=100.00  E-value=1.4e-45  Score=293.42  Aligned_cols=135  Identities=29%  Similarity=0.409  Sum_probs=129.7

Q ss_pred             CCCCCCHHHHHHHHHHHH----CCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCEECEEE
Q ss_conf             974378799999999976----6959999999999998667424886389999999842754047787524630000010
Q gi|254780265|r   15 DPKFSDFVVAKFMNAIMY----GGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTRRVGGAAYSVPGE   90 (156)
Q Consensus        15 D~~y~~~lv~kliN~lMk----~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~r~gG~~yqvP~~   90 (156)
                      ..+.+.++|++|||.||.    +|||++|++||++||++|+++|++||++||++||+|++|.+|++++++||.+||||++
T Consensus        61 f~K~~~~iverliN~LM~~g~k~GKK~~A~kIv~~Af~iI~~~T~~nPi~Vl~~AI~N~~P~~ev~rir~GG~~y~vPV~  140 (204)
T 2zkq_g           61 FRKAQCPIVERLTNSMMMHGRNNGKKLMTVRIVKHAFEIIHLLTGENPLQVLVNAIINSGPREDSTRIGRAGTVRRQAVD  140 (204)
T ss_dssp             --CCCHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHSCSCEEEEEEETTEEEEEEEC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEE
T ss_conf             26556859999999999977607488999999999999999736898899999999827996478997418746872023


Q ss_pred             CCHHHHHHHHHHHHHHHHHH---CCCCCHHHHHHHHHHHHHCCCCC--CEECHHHHHHHHHHHH
Q ss_conf             48579999999999999985---79999899999999999738887--2630788999999988
Q gi|254780265|r   91 ITSKRSQALAIRWLIMAARK---RNETTMIDRLGGEIIDAANNRGV--AVRKREETHKVAEANR  149 (156)
Q Consensus        91 i~~~r~~~lAirWii~~a~~---r~~~~~~~~La~Eii~A~~~~g~--aikkK~elhk~A~aNR  149 (156)
                      ++|.||+++|||||+++|++   |++++|+++||+||++|++|+|.  ||+||+|+||+|+|||
T Consensus       141 vsp~Rr~~lAlrwi~~~ar~~~~r~~ks~~e~LA~Eii~Aa~~~g~s~AikKKeEihr~A~aNR  204 (204)
T 2zkq_g          141 VSPLRRVNQAIWLLCTGAREAAFRNIKTIAECLADELINAAKGSSNSYAIKKKDELERVAKSNR  204 (204)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHHHHHC-CTTCCC-CHHHHHHHHHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHCC
T ss_conf             1788999999999999998642578887999999999999818899631213889999998568


No 9  
>1iqv_A Ribosomal protein S7; RNA-binding, decoding center, helix-turn- helix, ribosome; 2.10A {Pyrococcus horikoshii} SCOP: a.75.1.1
Probab=100.00  E-value=4.2e-45  Score=290.80  Aligned_cols=131  Identities=30%  Similarity=0.471  Sum_probs=126.1

Q ss_pred             CCHHHHHHHHHHHHC--------------------CHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             787999999999766--------------------959999999999998667424886389999999842754047787
Q gi|254780265|r   19 SDFVVAKFMNAIMYG--------------------GKKSVAVSIVYGAFDLVEKKEKKDPVALFRQALINVTPQFEVRTR   78 (156)
Q Consensus        19 ~~~lv~kliN~lMk~--------------------GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai~n~~P~~evk~~   78 (156)
                      +.++|++|||.||++                    |||++|++||++||++|+.+|++||++||++||+|++|.+||+++
T Consensus        63 ~~~IVERliN~lM~~G~n~~~~~~~~~~~~~~~~~GKK~~A~kIv~~A~~iI~~kT~~nPi~Vl~~AI~N~~P~~ev~si  142 (218)
T 1iqv_A           63 NVHIVERLINKVMRSGGSHYKVAGHFMRREHRSLNSKKVRAYEVVKEAFKIIEKRTGKNPIQVLVWAIENAAPREDTTSV  142 (218)
T ss_dssp             -CBHHHHHHHHHHTTCCC-----------------CHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHSCSCEEEEE
T ss_pred             CCCHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCEEEEEE
T ss_conf             58699999988642455422223310000014577729999999999999999855998799999999967983003777


Q ss_pred             EECCCCEECEEECCHHHHHHHHHHHHHHHHHH---CCCCCHHHHHHHHHHHHHCC--CCCCEECHHHHHHHHHHHH
Q ss_conf             52463000001048579999999999999985---79999899999999999738--8872630788999999988
Q gi|254780265|r   79 RVGGAAYSVPGEITSKRSQALAIRWLIMAARK---RNETTMIDRLGGEIIDAANN--RGVAVRKREETHKVAEANR  149 (156)
Q Consensus        79 r~gG~~yqvP~~i~~~r~~~lAirWii~~a~~---r~~~~~~~~La~Eii~A~~~--~g~aikkK~elhk~A~aNR  149 (156)
                      ++||++||||++++|.||+++|||||+++|++   |++++|+++||+||++|++|  +|.||+||+|+||+|+|||
T Consensus       143 r~GG~~yqvPV~vsp~Rr~~lAirwI~~~ar~~~~r~~ks~~e~LA~EIi~Aa~~~~ks~AikKKeE~hK~AeaNR  218 (218)
T 1iqv_A          143 MFGGIRYHVAVDISPLRRLDVALRNIALGASAKCYRTKMSFAEALAEEIILAANKDPKSYAYSKKLEIERIAESSR  218 (218)
T ss_dssp             EETTEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHCC
T ss_pred             ECCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEHHHHHHHHHHCC
T ss_conf             4398888617221688999999999999999864678888999999999999758788655650788999898568


No 10 
>1yxb_A PRA-PH, phosphoribosyl-ATP pyrophosphatase; structural genomics, PSI, protein structure initiative; 2.60A {Streptomyces coelicolor} SCOP: a.204.1.4
Probab=13.96  E-value=60  Score=12.91  Aligned_cols=39  Identities=13%  Similarity=0.074  Sum_probs=28.4

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             999766959999999999998667424886389999999
Q gi|254780265|r   28 NAIMYGGKKSVAVSIVYGAFDLVEKKEKKDPVALFRQAL   66 (156)
Q Consensus        28 N~lMk~GKK~~A~kIv~~al~~I~~~~~~npi~il~~Ai   66 (156)
                      +.|..+|....+.|+...|.+.+-.-.+.|+-.+..++-
T Consensus        28 ~~Ll~~G~~~i~kKvgEEa~E~i~Aa~~~~k~~vi~EaA   66 (98)
T 1yxb_A           28 AELVDKGVHAIGKKVVEEAAEVWMAAEYEGKDAAAEEIS   66 (98)
T ss_dssp             CCHHHHCHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
T ss_conf             999886489999999989999999998368787999999


Done!