Query         gi|254780242|ref|YP_003064655.1| 50S ribosomal protein L15 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 151
No_of_seqs    152 out of 2062
Neff          6.3 
Searched_HMMs 23785
Date          Tue May 24 01:04:27 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780242.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3bbo_N Ribosomal protein L15;  100.0       0       0  368.8   1.8  147    1-151    65-220 (257)
  2 2j01_P 50S ribosomal protein L 100.0       0       0  337.6   8.1  141    1-151     1-148 (150)
  3 2zjr_I 50S ribosomal protein L 100.0       0       0  337.2   6.3  142    1-151     1-143 (156)
  4 3ofq_L 50S ribosomal protein L 100.0       0       0  336.1   3.1  141    2-149     1-142 (143)
  5 1vq8_L 50S ribosomal protein L 100.0 8.7E-43       0  242.3   9.7  136   11-151     2-144 (165)
  6 2zkr_l 60S ribosomal protein L 100.0 1.5E-34 6.2E-39  199.4   9.3  137   12-151     6-147 (148)
  7 3jyw_V 60S ribosomal protein L 100.0 7.8E-34 3.3E-38  195.7   5.8  130   16-151     2-142 (142)
  8 1vq8_O 50S ribosomal protein L  99.2 2.7E-11 1.1E-15   78.2   6.1   75   55-150    25-99  (116)
  9 2zkr_o 60S ribosomal protein L  98.6 4.2E-08 1.8E-12   61.6   4.7   80   55-151    42-123 (188)
 10 2zkr_l 60S ribosomal protein L  98.5 2.1E-08 8.8E-13   63.2   1.2   67   12-84      3-78  (148)
 11 3jyw_O 60S ribosomal protein L  98.3 1.3E-08 5.4E-13   64.3  -3.1   79   55-150    23-103 (121)
 12 3jyw_V 60S ribosomal protein L  98.2 5.3E-07 2.2E-11   55.8   3.3   53   12-64      1-54  (142)
 13 1vq8_L 50S ribosomal protein L  91.4    0.12 4.9E-06   28.0   3.1   62   10-83     14-75  (165)
 14 3ofq_E 50S ribosomal protein L  61.8     6.4 0.00027   18.9   3.5  121   20-143    48-198 (201)
 15 2ftc_D Mitochondrial ribosomal  42.8     8.7 0.00036   18.3   1.6   35  109-143   139-175 (175)
 16 3bbn_P Ribosomal protein S16;   42.4      12  0.0005   17.5   2.3   44   63-109    36-79  (88)
 17 3mr8_P 30S ribosomal protein S  39.0      20 0.00084   16.4   3.0   45   63-109    36-82  (83)
 18 2j01_F 50S ribosomal protein L  37.2      15 0.00061   17.1   2.0   39  109-147   168-209 (210)
 19 1vq8_C 50S ribosomal protein L  27.3     9.5  0.0004   18.1  -0.2   35  109-143   205-245 (246)
 20 3bn0_A 30S ribosomal protein S  21.1      29  0.0012   15.5   1.2   45   63-109    37-81  (112)

No 1  
>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Pisum sativum}
Probab=100.00  E-value=0  Score=368.81  Aligned_cols=147  Identities=39%  Similarity=0.649  Sum_probs=135.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCEEEECCC-CCCCCCC---CCCEEE
Q ss_conf             97666888999876761020315789898578776676423689866-444316853011676-3554656---552147
Q gi|254780242|r    1 MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRRLPK-RGFVNIA---GSDFVT   75 (151)
Q Consensus         1 m~L~~l~~~~g~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~~~-gfEGGQ~Pl~rrlPK-rGF~~~~---~~~~~~   75 (151)
                      |+||||+|++||+++++|||||+|||+|||||||||||+||||+.++ ||||||||||||||| |||++.+   ..+|.+
T Consensus        65 mkLn~Lkp~~gs~k~kkRvGRG~gSG~GKTsGRG~KGQkaRsG~~~~~gFEGGQmPL~RRlPK~RGF~n~~~~~~~~~~~  144 (257)
T 3bbo_N           65 FRLDNLGPQPGSRKRPKRKGRGIAAGQGASCGFGMRGQKSRSGPGIMRGFEGGQMPLYRRLPKLRGIAGGMHAGLPKYVN  144 (257)
T ss_dssp             CCCSSSCCCCCCCSCCCCCSSCCCCSCSSSCSSSCCCCGGGTSSCSSTTCCSSCSSTTSCCCCCSSCCCCCSSCCSSSSC
T ss_pred             EECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCEEEEE
T ss_conf             67477889999866774532688899886688988778888899999971789976465048767767866676206899


Q ss_pred             EEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCC----CCCCCEEEECCCCCCCCEEEEEEEECHHHHHHHHHCCCEEEEC
Q ss_conf             751120454302455533223355554308625----4433204630443144148999982699999999749889989
Q gi|254780242|r   76 ISLGLLQAYIDKDRLDCSSEIDASVLVASGLVR----RSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI  151 (151)
Q Consensus        76 iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~----~~~~~vKiLg~Gel~~ki~I~v~~~S~sA~ekIE~aGG~v~ii  151 (151)
                      |||+.|+.    ..+++.++||+++|++.++|.    +..++|||||+|||+.||+|+|++||++|+|+||+|||+|++|
T Consensus       145 vNL~~L~~----~~~~~~~~It~e~L~~~glI~~~~kk~k~~VKILG~Gel~~kI~Ikv~~~SksAkekIEkAGGsV~ii  220 (257)
T 3bbo_N          145 VNLTDIEN----AGFQDGEEVSLETLKAKRVINPSGRERKLPLKILADGELSKKLTIKAGAFSTSAKEKLEYAGCSLIVL  220 (257)
T ss_dssp             SCSSCCSC----SSTTTTTTTCCSSCCSSSCSSSSCCCCSCCCCCCCSSCCCSSCCCCSSCCTGGGTTSSTTTTCCEECC
T ss_pred             EEECHHHH----HCCCCCCCCCHHHHHHCCCCCCHHHHCCCCEEEECCCCCCCCEEEEEEEECHHHHHHHHHCCCEEEEE
T ss_conf             86101133----10253233689999876763200010565769952881753669999998999999999849979997


No 2  
>2j01_P 50S ribosomal protein L15; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: c.12.1.1 PDB: 1vsp_J 2hgj_O 2hgq_O 2hgu_O 1vsa_J 2j03_P 2jl6_P 2jl8_P 2v47_P 2v49_P 2wdi_P 2wdj_P 2wdl_P 2wdn_P 2wh2_P 2wh4_P 2wrj_P 2wrl_P 2wro_P 2wrr_P ...
Probab=100.00  E-value=0  Score=337.62  Aligned_cols=141  Identities=39%  Similarity=0.626  Sum_probs=127.1

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CC-CCCCCCCCEEEECCCCCCCCCC-----CCCE
Q ss_conf             976668889998767610203157898985787766764236898-66-4443168530116763554656-----5521
Q gi|254780242|r    1 MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVS-VR-GFEGGQMPLYRRLPKRGFVNIA-----GSDF   73 (151)
Q Consensus         1 m~L~~l~~~~g~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~-~~-gfEGGQ~Pl~rrlPKrGF~~~~-----~~~~   73 (151)
                      |+||||+|++||+++++|+|||+|||+|||||||||||+||||+. .+ +|||||||||||||||||++++     ..+|
T Consensus         1 m~L~~l~~~~g~~k~~kR~GRG~gsg~Gkt~GrG~kGqk~RsG~~~~~~~fEGGq~Pl~rrlPKrGF~~~~~~~~~~~~~   80 (150)
T 2j01_P            1 MKLSDLRPNPGANKRRKRVGRGPGSGHGKTATRGHKGQKSRSGGLKDPRRFEGGRSTTLMRLPKRGMQGQVPGEIKRPRY   80 (150)
T ss_dssp             ----CCSSSCCCSSCCCCCCCCSCSSSSSCTTCSSCCSSSCSSCCCCSSSCCSSSCTTCCSCCCCCSCCCSSCSCCCCCE
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCEEEECCCCCCCEEEEEE
T ss_conf             95244889989864773665778889896689989988767788868762147876777227633120355442122342


Q ss_pred             EEEEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCCCEEEEEEEECHHHHHHHHHCCCEEEEC
Q ss_conf             477511204543024555332233555543086254433204630443144148999982699999999749889989
Q gi|254780242|r   74 VTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI  151 (151)
Q Consensus        74 ~~iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~ki~I~v~~~S~sA~ekIE~aGG~v~ii  151 (151)
                      .+|||++|+.+        +.++++++|++++++++. ++|||||+||++ ||+|+|++||++|+|+||+|||+|++|
T Consensus        81 ~~inl~~l~~~--------~~~~~~~~L~~~glik~~-~~vKiLG~Ge~k-~l~I~v~~~S~sA~ekIE~aGG~v~ii  148 (150)
T 2j01_P           81 QGVNLKDLARF--------EGEVTPELLVRAGLLKKG-YRLKILGEGEAK-PLKVVAHAFSKSALEKLKAAGGEPVLL  148 (150)
T ss_dssp             EEEETTTTTTS--------CSCCCTTTTTTSSSCSSC-CEEEEECSSCCC-SSCCCCSBCCHHHHHHHHTSCCCCCCC
T ss_pred             EHHHHHHHHCC--------CCCCCHHHHHHCCCCCCC-CCEEEEECCCEE-EEEEEEEEECHHHHHHHHHCCCEEEEE
T ss_conf             02335454113--------322569999873755578-678998079478-789998986899999999869989996


No 3  
>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.12.1.1 PDB: 1nwx_J* 1nwy_J* 1sm1_J* 1xbp_J* 2zjp_I* 2zjq_I 1nkw_J 3cf5_I* 3dll_I* 1pnu_J 1pny_J 1vor_M 1vou_M 1vow_M 1voy_M 1vp0_M
Probab=100.00  E-value=0  Score=337.24  Aligned_cols=142  Identities=47%  Similarity=0.722  Sum_probs=134.1

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCEEEECCCCCCCCCCCCCEEEEEHH
Q ss_conf             97666888999876761020315789898578776676423689866-44431685301167635546565521477511
Q gi|254780242|r    1 MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRRLPKRGFVNIAGSDFVTISLG   79 (151)
Q Consensus         1 m~L~~l~~~~g~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~~~-gfEGGQ~Pl~rrlPKrGF~~~~~~~~~~iNL~   79 (151)
                      |+||||+|+|||+++++|+|||+| |+|||||||||||+||||+..+ +|||||||||||+|||||+|+ ..+|.+|||+
T Consensus         1 m~l~~l~~~~g~~k~rkr~grG~g-g~Gkt~GrG~KGqk~RsG~~~~~~feGGq~Pl~rr~PKrGF~~~-~~~~~~vnl~   78 (156)
T 2zjr_I            1 MKLHDLKPTPGSRKDRKRVGRGPG-GTDKTAGRGHKGQKSRSGAGKGAFFEGGRSRLIARLPKRGFNNV-GTTYEVVKLS   78 (156)
T ss_dssp             ---CCCCCCSSTTTCCCCSSSCCC-CCCSCSSSCCCCSSSSSCCSCCCSCSCCSSSSTTTSCCCCCCCC-CCCCCEECHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC-CCEEEEEEHH
T ss_conf             952548889898337743668899-89977898888756577989888524686561330674588876-6416788878


Q ss_pred             HHHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCCCEEEEEEEECHHHHHHHHHCCCEEEEC
Q ss_conf             204543024555332233555543086254433204630443144148999982699999999749889989
Q gi|254780242|r   80 LLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI  151 (151)
Q Consensus        80 ~L~~~i~~~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~ki~I~v~~~S~sA~ekIE~aGG~v~ii  151 (151)
                      .|+.+++       .+||++.|.+++||+...++||||++|+|+.+++|+|++||++|+++||+|||+|+|+
T Consensus        79 ~L~~~~~-------~~i~~~~L~~~~li~~~~~~VKiLg~Gel~~ki~I~~~~~S~sA~~~IE~aGG~V~l~  143 (156)
T 2zjr_I           79 QLQDLED-------TTFDRDTLEAYRLVRRKNRPVKLLASGEISRAVTVHVDAASAAAIKAVEAAGGRVVLP  143 (156)
T ss_dssp             HHTTSCC-------CCCCTTTTHHHHHCCCCSSCCEECCCCCCCCCCCCCCSEECHHHHHHHGGGSCCCCCC
T ss_pred             HHHCCCC-------CCHHHHHHHHHCEEECCCCCEEEECCCCCCCCEEEEEEEECHHHHHHHHHCCCEEEEE
T ss_conf             8320233-------3311566655161203676446750783557678999980999999999869989996


No 4  
>3ofq_L 50S ribosomal protein L15; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 3fik_L 2wwq_L 3ofr_L* 3i1n_L 1p85_J 1p86_J 1vs8_L 1vs6_L 2aw4_L 2awb_L 1vt2_L 2i2v_L 2j28_L 2i2t_L* 2qao_L* 2qba_L* 2qbc_L* 2qbe_L 2qbg_L 2qbi_L* ...
Probab=100.00  E-value=0  Score=336.09  Aligned_cols=141  Identities=43%  Similarity=0.628  Sum_probs=134.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCEEEECCCCCCCCCCCCCEEEEEHHH
Q ss_conf             7666888999876761020315789898578776676423689866-444316853011676355465655214775112
Q gi|254780242|r    2 KLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRRLPKRGFVNIAGSDFVTISLGL   80 (151)
Q Consensus         2 ~L~~l~~~~g~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~~~-gfEGGQ~Pl~rrlPKrGF~~~~~~~~~~iNL~~   80 (151)
                      +||||+|+|||+++++|+|||+|||+|+|||||||||+||||+.++ +|||||||||||+|||||++.+...|.++||++
T Consensus         1 kl~~l~~~~g~~k~~kR~gRG~gsg~Gkt~GrG~kGq~~Rsg~~~r~gfEGGq~Pl~rr~PK~Gf~~~~~~~~~~~~l~~   80 (143)
T 3ofq_L            1 RLNTLSPAEGSKKAGKRLGRGIGSGLGKTGGRGHKGQKSRSGGGVRRGFEGGQMPLYRRLPKFGFTSRKAAITAEIRLSD   80 (143)
T ss_dssp             CCSSCCCSTTCCCCCCCCSSCTTTTCTTTTSCCSSSTTTSSSCCCCTTCCSSSCCHHHHSCCCCCCCSSSSSEEECCTTS
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCEEEEEEEEEE
T ss_conf             96557789999557615667788998966888788887677989798636885624756652155543330368898600


Q ss_pred             HHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCCCEEEEEEEECHHHHHHHHHCCCEEE
Q ss_conf             045430245553322335555430862544332046304431441489999826999999997498899
Q gi|254780242|r   81 LQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVI  149 (151)
Q Consensus        81 L~~~i~~~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~ki~I~v~~~S~sA~ekIE~aGG~v~  149 (151)
                      |+.+       +.++||+++|++.+|+......||||+.|||+.||+|+|++||++|+++||+|||+|+
T Consensus        81 l~~~-------~~~~i~~~~L~~~gli~~~~~~vKvLg~Gel~~kl~I~v~~~S~sA~~~Ie~aGG~V~  142 (143)
T 3ofq_L           81 LAKV-------EGGVVDLNTLKAANIIGIQIEFAKVILAGEVTTPVTVRGLRVTKGARAAIEAAGGKIE  142 (143)
T ss_dssp             TTCS-------SSSCBCTTTTTTSSSSCTTCCEEECCCCSCCCSCCEECSSCCCSSSSTTTSTTTCEEC
T ss_pred             HHHC-------CCCCCCHHHHHHCCCCCCCCCCEEEEECCCCCCCEEEEEEEECHHHHHHHHHHCCEEE
T ss_conf             2221-------1442038888750620244311278626834466699999819999999998298563


No 5  
>1vq8_L 50S ribosomal protein L15P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.12.1.1 PDB: 1vq4_L* 1vq5_L* 1vq6_L* 1vq7_L* 1s72_L* 1vq9_L* 1vqk_L* 1vql_L* 1vqm_L* 1vqn_L* 1vqo_L* 1vqp_L* 1yhq_L* 1yi2_L* 1yij_L* 1yit_L* 1yj9_L* 1yjn_L* 1yjw_L* 2otj_L* ...
Probab=100.00  E-value=8.7e-43  Score=242.31  Aligned_cols=136  Identities=22%  Similarity=0.244  Sum_probs=115.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCC--CCCEEEEEHHHHHHHHCC
Q ss_conf             98767610203157898985-787766764236898664443168530116763554656--552147751120454302
Q gi|254780242|r   11 GSCKVKKRVARGIGSGTGKT-AGRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIA--GSDFVTISLGLLQAYIDK   87 (151)
Q Consensus        11 g~~~~~kR~GRG~gsg~Gkt-~GrG~kGqk~Rsg~~~~gfEGGQ~Pl~rrlPKrGF~~~~--~~~~~~iNL~~L~~~i~~   87 (151)
                      .|+++++|+|||+|||+|+| ||||||||++|+|+..+     |+|+|+++|||||++++  +.+|.+|||..|+.+++.
T Consensus         2 ~sk~~k~R~gRg~G~G~~k~~~GrG~KGqk~RsG~~~~-----~~~~~~~~pkrGf~~~~~~~~~~~~inl~~L~~~~~~   76 (165)
T 1vq8_L            2 TSKKKRQRGSRTHGGGSHKNRRGAGHRGGRGDAGRDKH-----EFHNHEPLGKSGFKRPQKVQEEAATIDVREIDENVTL   76 (165)
T ss_dssp             CCHHHHCTTCSSTTCSSTTSSCSGGGGTSSTTTTTTTT-----TCTTSCCSCCCCCCCCGGGCCCEEEEEHHHHHHTTGG
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-----CCCCCCCCCCCCCCCCCCCCEEEEEECHHHHHHHHHH
T ss_conf             88746666786746799988898979998857798778-----8866766972488887665225754136778887754


Q ss_pred             CCCC----CCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCCCEEEEEEEECHHHHHHHHHCCCEEEEC
Q ss_conf             4555----332233555543086254433204630443144148999982699999999749889989
Q gi|254780242|r   88 DRLD----CSSEIDASVLVASGLVRRSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI  151 (151)
Q Consensus        88 ~~~~----~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~ki~I~v~~~S~sA~ekIE~aGG~v~ii  151 (151)
                      ...+    ....++...|.+..++.....+|||||+|+|+.||+|+|++||++|+++||+|||+|+|+
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~vKILG~Gel~~kl~I~a~~~S~sA~ekIE~aGG~v~l~  144 (165)
T 1vq8_L           77 LAADDVAEVEDGGFRVDVRDVVEEADDADYVKVLGAGQVRHELTLIADDFSEGAREKVEGAGGSVELT  144 (165)
T ss_dssp             GTTSCCCC-----CEEEGGGTCTTCTTSSEEEEECCSCCCSCCEEEESEECHHHHHHHHHTTCEEEEC
T ss_pred             HCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEECCCCCCCCEEEEEEECCHHHHHHHHHCCCEEEEE
T ss_conf             01122111123401676886401124565279963782077779998861999999999849989995


No 6  
>2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=100.00  E-value=1.5e-34  Score=199.41  Aligned_cols=137  Identities=18%  Similarity=0.164  Sum_probs=104.1

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--C-CCCCCCCCEEEECCCCCCCC-CCCCCEEEEEHHHHHHHHCC
Q ss_conf             87676102031578989857877667642368986--6-44431685301167635546-56552147751120454302
Q gi|254780242|r   12 SCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSV--R-GFEGGQMPLYRRLPKRGFVN-IAGSDFVTISLGLLQAYIDK   87 (151)
Q Consensus        12 ~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~~--~-gfEGGQ~Pl~rrlPKrGF~~-~~~~~~~~iNL~~L~~~i~~   87 (151)
                      .++++.|.+|+.|+|+.+ .+|||+||++|+|...  + +||++|||+|+++|+++|++ .++.+|.+|||++|+.+++.
T Consensus         6 kK~rk~Rg~r~~G~G~~g-~~rg~~g~~g~~gg~~~~~~~~~~~~~~~~~k~g~~~~~~~~~~~~~~~inL~~L~~~~~~   84 (148)
T 2zkr_l            6 RKTRKLRGHVSHGHGRIG-KHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMKHYHLKRNQSFCPTVNLDKPWTLVSE   84 (148)
T ss_dssp             CHHHHTTTTSCSSCCSCS-CC--CCSCSSSTTTTTTTCSSCTTTC------------------CCCCEEETHHHHHHTTT
T ss_pred             CCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECHHHHHHHHHH
T ss_conf             764757789783899998-9898899998889875887665687876326589768886776417214539999876440


Q ss_pred             CCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCC-CEEEEEEEECHHHHHHHHHCCCEEEEC
Q ss_conf             4555332233555543086254433204630443144-148999982699999999749889989
Q gi|254780242|r   88 DRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKA-KVVLRVSGASASAVEKVEKLGGQVIVI  151 (151)
Q Consensus        88 ~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~-ki~I~v~~~S~sA~ekIE~aGG~v~ii  151 (151)
                      ...+.....+.  +....+.......+|||++||++. +|+|+|++||++|+|+||+|||+|+||
T Consensus        85 ~~~~~~~~~~~--~~~~~~~~~~~g~~KlLg~G~~~kk~i~I~~~~~S~sA~ekIE~aGG~V~lv  147 (148)
T 2zkr_l           85 QTRVNAAKNKT--GVAPIIDVVRSGYYKVLGKGKLPKQPVIVKAKFFSRRAEEKIKSVGGACVLV  147 (148)
T ss_dssp             TTSSCTTTTEE--EHHHHSTTCSSSCCEEECCSCCCSSCCEEEESEECHHHHHHHHHTTCEEEEC
T ss_pred             CCEEHHHHHHC--CCCCEEEEECCCCEEEECCCCCCCCCEEEEEEECCHHHHHHHHHCCCEEEEE
T ss_conf             43102233213--5521001112422687158850462189998713989999999869889995


No 7  
>3jyw_V 60S ribosomal protein L28; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_V
Probab=100.00  E-value=7.8e-34  Score=195.67  Aligned_cols=130  Identities=23%  Similarity=0.187  Sum_probs=100.7

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCEEEECC-----CCCCCC----CCCCCEEEEEHHHHHHHH
Q ss_conf             6102031578989857877667642368986-644431685301167-----635546----565521477511204543
Q gi|254780242|r   16 KKRVARGIGSGTGKTAGRGVKGQKSRSGVSV-RGFEGGQMPLYRRLP-----KRGFVN----IAGSDFVTISLGLLQAYI   85 (151)
Q Consensus        16 ~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~~-~gfEGGQ~Pl~rrlP-----KrGF~~----~~~~~~~~iNL~~L~~~i   85 (151)
                      ++|++||     ++|||+||+||++|+|... +|||++|+|+|++.|     ++||.+    .++.+|.+|||++|+.++
T Consensus         2 K~rk~RG-----~~t~G~G~~gq~~~~gg~g~~g~~~~~~~~~~~~~~~~~~~~gfr~~~~~~~~~~~~~inl~~L~~~~   76 (142)
T 3jyw_V            2 KTRKHRG-----HVSAGKGRIGKHRKHPGGGMAGGEHHHRINMDKYHPGYFGKVGMRYFHKQQAHFWKPVLNLDKLWTLI   76 (142)
T ss_dssp             CHHHHHT-----TCCTTTCSTTCSTTTTTSSCCCSSCCSSSSCSSCSSSSSCCCSCCCSSSSTTCCCCCCCCHHHHHTTT
T ss_pred             CCCCCCC-----CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEHHHHHHHC
T ss_conf             7565538-----96847998989898976899987789887652688775477998788746533064258899998653


Q ss_pred             CCCCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCC-CEEEEEEEECHHHHHHHHHCCCEEEEC
Q ss_conf             024555332233555543086254433204630443144-148999982699999999749889989
Q gi|254780242|r   86 DKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKA-KVVLRVSGASASAVEKVEKLGGQVIVI  151 (151)
Q Consensus        86 ~~~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~-ki~I~v~~~S~sA~ekIE~aGG~v~ii  151 (151)
                      +...++....++...+.. .+.......+|||++||++. ||+|+|++||++|+|+||+|||+|++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~KlLg~Ge~~k~~i~I~a~~~S~sA~ekIE~aGG~v~~i  142 (142)
T 3jyw_V           77 PEDKRDQYLKSASKETAP-VIDTLAAGYGKILGKGRIPNVPVIVKARFVSKLAEEKIRAAGGVVELI  142 (142)
T ss_dssp             TTCCSSBTTTTBCCSTTT-CCSTTTSSCCCCCCCSCCCSCCCCEECSSCCHHHHHHHHHHTCCEECC
T ss_pred             CCCCCCHHHHHHHCCCCC-CCCCCCCCEEEEECCCCCCCCCEEEEEEECCHHHHHHHHHCCCEEEEC
T ss_conf             035431346553045542-100112434798337744667589998853989999999839989969


No 8  
>1vq8_O 50S ribosomal protein L18E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.12.1.1 PDB: 1vq4_O* 1vq5_O* 1vq6_O* 1vq7_O* 1s72_O* 1vq9_O* 1vqk_O* 1vql_O* 1vqm_O* 1vqn_O* 1vqo_O* 1vqp_O* 1yhq_O* 1yi2_O* 1yij_O* 1yit_O* 1yj9_O* 1yjn_O* 1yjw_O* 2otj_O* ...
Probab=99.18  E-value=2.7e-11  Score=78.22  Aligned_cols=75  Identities=17%  Similarity=0.341  Sum_probs=57.6

Q ss_pred             CEEEECCCCCCCCCCCCCEEEEEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCCCEEEEEEEEC
Q ss_conf             53011676355465655214775112045430245553322335555430862544332046304431441489999826
Q gi|254780242|r   55 PLYRRLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKAKVVLRVSGAS  134 (151)
Q Consensus        55 Pl~rrlPKrGF~~~~~~~~~~iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~ki~I~v~~~S  134 (151)
                      |+++.+-+|=  ..++..+.+|||++|+.+...     ++++         +     -+.||||+|+++.+++|.|+.||
T Consensus        25 ~~wk~va~rL--~~srr~r~~VnLski~~~~k~-----~~~v---------v-----vpgKVLg~G~l~~k~~V~A~~fS   83 (116)
T 1vq8_O           25 AVWGDVAERL--EKPRRTHAEVNLGRIERYAQE-----DETV---------V-----VPGKVLGSGVLQKDVTVAAVDFS   83 (116)
T ss_dssp             HHHHHHHHHH--TSCTTTSEEEEHHHHHHHCCT-----TSEE---------E-----EEEEEECCSCCCSCCEEEEEEEC
T ss_pred             HHHHHHHHHH--HCCCCCCCCCCHHHHHHHCCC-----CCEE---------E-----EEEEEECCCEECCCEEEEEECCC
T ss_conf             7999999998--345446887559999975768-----9989---------9-----97589678747678899971417


Q ss_pred             HHHHHHHHHCCCEEEE
Q ss_conf             9999999974988998
Q gi|254780242|r  135 ASAVEKVEKLGGQVIV  150 (151)
Q Consensus       135 ~sA~ekIE~aGG~v~i  150 (151)
                      ++|+++||+|||.+++
T Consensus        84 ~sA~~kIe~aGg~iti   99 (116)
T 1vq8_O           84 GTAETKIDQVGEAVSL   99 (116)
T ss_dssp             HHHHHHHHHHSEEEEH
T ss_pred             HHHHHHHHHCCCEEEH
T ss_conf             8999999981988988


No 9  
>2zkr_o 60S ribosomal protein L18; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=98.58  E-value=4.2e-08  Score=61.60  Aligned_cols=80  Identities=16%  Similarity=0.180  Sum_probs=55.1

Q ss_pred             CEEEECCCCCCCCCCCCCEEEEEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCC--CEEEEEEE
Q ss_conf             5301167635546565521477511204543024555332233555543086254433204630443144--14899998
Q gi|254780242|r   55 PLYRRLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKA--KVVLRVSG  132 (151)
Q Consensus        55 Pl~rrlPKrGF~~~~~~~~~~iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~--ki~I~v~~  132 (151)
                      |+++.+-+|=|  ..+.++.+|||+.|+.+.....- +++++         +|     .=|||++|.|..  +++|-+..
T Consensus        42 ~f~k~VakRL~--~srrnr~~vnLSrI~r~~k~~~~-e~~~v---------VV-----vGkVl~dgrl~~vPKltV~AL~  104 (188)
T 2zkr_o           42 TFNQVVLKRLF--MSRTNRPPLSLSRMIRKMKLPGR-ENKTA---------VV-----VGTVTDDVRILEVPKLKVCALR  104 (188)
T ss_dssp             HHHHHHHHHHH--SCTTTSCEEEHHHHHSCSSSCCS-TTSEE---------EE-----EEEEECSSCCCCCSSCCEEEEE
T ss_pred             HHHHHHHHHHH--CCCCCCCCCCHHHHHHHHHCCCC-CCCEE---------EE-----ECCCCCCCEEECCCCEEEEEEE
T ss_conf             88999999973--54336897549999998304576-68748---------88-----6126487102036754899997


Q ss_pred             ECHHHHHHHHHCCCEEEEC
Q ss_conf             2699999999749889989
Q gi|254780242|r  133 ASASAVEKVEKLGGQVIVI  151 (151)
Q Consensus       133 ~S~sA~ekIE~aGG~v~ii  151 (151)
                      ||++|+++|++|||+|..+
T Consensus       105 fS~~Ar~kI~~aGGk~lT~  123 (188)
T 2zkr_o          105 VSSRARSRILKAGGKILTF  123 (188)
T ss_dssp             ECHHHHHHHHHHSSCEEEH
T ss_pred             ECHHHHHHHHHCCCEEEEH
T ss_conf             1378999999759879769


No 10 
>2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=98.49  E-value=2.1e-08  Score=63.17  Aligned_cols=67  Identities=22%  Similarity=0.132  Sum_probs=46.1

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEE--------ECCCCCCCCCCCCCE-EEEEHHHHH
Q ss_conf             87676102031578989857877667642368986644431685301--------167635546565521-477511204
Q gi|254780242|r   12 SCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVRGFEGGQMPLYR--------RLPKRGFVNIAGSDF-VTISLGLLQ   82 (151)
Q Consensus        12 ~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~~~gfEGGQ~Pl~r--------rlPKrGF~~~~~~~~-~~iNL~~L~   82 (151)
                      |+.+++|++||     |.|||+|++||.++.+.. .+++|||.|.+.        .++++||.+++.... ..+++-.|+
T Consensus         3 sr~kK~rk~Rg-----~r~~G~G~~g~~rg~~g~-~g~~gg~~~~~~~~~~~~~~~~~k~g~~~~~~~~~~~~~~~inL~   76 (148)
T 2zkr_l            3 SRLRKTRKLRG-----HVSHGHGRIGKHRKHPGG-RGNAGGMHHHRINFDKYHPGYFGKVGMKHYHLKRNQSFCPTVNLD   76 (148)
T ss_dssp             ---CHHHHTTT-----TSCSSCCSCSCC--CCSC-SSSTTTTTTTCSSCTTTC------------------CCCCEEETH
T ss_pred             CCCCCCCCCCC-----CCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECHH
T ss_conf             88776475778-----978389999898988999-988898758876656878763265897688867764172145399


Q ss_pred             HH
Q ss_conf             54
Q gi|254780242|r   83 AY   84 (151)
Q Consensus        83 ~~   84 (151)
                      .+
T Consensus        77 ~L   78 (148)
T 2zkr_l           77 KP   78 (148)
T ss_dssp             HH
T ss_pred             HH
T ss_conf             99


No 11 
>3jyw_O 60S ribosomal protein L18(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_O
Probab=98.33  E-value=1.3e-08  Score=64.27  Aligned_cols=79  Identities=18%  Similarity=0.254  Sum_probs=57.1

Q ss_pred             CEEEECCCCCCCCCCCCCEEEEEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCCCEEEECCCCCCC--CEEEEEEE
Q ss_conf             5301167635546565521477511204543024555332233555543086254433204630443144--14899998
Q gi|254780242|r   55 PLYRRLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKA--KVVLRVSG  132 (151)
Q Consensus        55 Pl~rrlPKrGF~~~~~~~~~~iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~~~~~~vKiLg~Gel~~--ki~I~v~~  132 (151)
                      |+++.+-||=|.  .+.+..+|||+.|+.+.+..- .+++++         +|     .=|||++|.+..  +++|-|-.
T Consensus        23 ~f~k~VakrL~~--sr~~r~~vnLski~r~~~~~~-~e~~~v---------VV-----~GkVl~dg~l~~vpkl~V~Al~   85 (121)
T 3jyw_O           23 PFNKVVLKALFL--SKINRPPVSVSRIARALKQEG-AANKTV---------VV-----VGTVTDDARIFEFPKTTVAALR   85 (121)
T ss_dssp             HHHHHHHHTTTS--CSTTSCCBCHHHHHHHTTTTS-CSSSEE---------EE-----SSCBCCCSCCCSSSCCCEECSS
T ss_pred             HHHHHHHHHHHC--CCCCCCCCCHHHHHHHHHCCC-CCCCEE---------EE-----EEEECCCCEEECCCCEEEEEEE
T ss_conf             889999999837--544799714999999845447-779879---------99-----7237388214116762799986


Q ss_pred             ECHHHHHHHHHCCCEEEE
Q ss_conf             269999999974988998
Q gi|254780242|r  133 ASASAVEKVEKLGGQVIV  150 (151)
Q Consensus       133 ~S~sA~ekIE~aGG~v~i  150 (151)
                      ||++|+++|++|||+|..
T Consensus        86 fS~~Ar~kI~~aGG~~lt  103 (121)
T 3jyw_O           86 FTAGARAKIVKAGGECIT  103 (121)
T ss_dssp             BCTTTTTHHHHHTCCBCC
T ss_pred             CCHHHHHHHHHCCCEEEE
T ss_conf             257999999974997977


No 12 
>3jyw_V 60S ribosomal protein L28; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_V
Probab=98.22  E-value=5.3e-07  Score=55.83  Aligned_cols=53  Identities=15%  Similarity=0.092  Sum_probs=43.2

Q ss_pred             CCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCC
Q ss_conf             8767610203157898-9857877667642368986644431685301167635
Q gi|254780242|r   12 SCKVKKRVARGIGSGT-GKTAGRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRG   64 (151)
Q Consensus        12 ~~~~~kR~GRG~gsg~-Gkt~GrG~kGqk~Rsg~~~~gfEGGQ~Pl~rrlPKrG   64 (151)
                      +++++.|-+|+.|.|+ |+++++|+.|+....+...++|+++|+|+++++|+++
T Consensus         1 tK~rk~RG~~t~G~G~~gq~~~~gg~g~~g~~~~~~~~~~~~~~~~~~~~gfr~   54 (142)
T 3jyw_V            1 TKTRKHRGHVSAGKGRIGKHRKHPGGGMAGGEHHHRINMDKYHPGYFGKVGMRY   54 (142)
T ss_dssp             CCHHHHHTTCCTTTCSTTCSTTTTTSSCCCSSCCSSSSCSSCSSSSSCCCSCCC
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             975655389684799898989897689998778988765268877547799878


No 13 
>1vq8_L 50S ribosomal protein L15P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.12.1.1 PDB: 1vq4_L* 1vq5_L* 1vq6_L* 1vq7_L* 1s72_L* 1vq9_L* 1vqk_L* 1vql_L* 1vqm_L* 1vqn_L* 1vqo_L* 1vqp_L* 1yhq_L* 1yi2_L* 1yij_L* 1yit_L* 1yj9_L* 1yjn_L* 1yjw_L* 2otj_L* ...
Probab=91.40  E-value=0.12  Score=28.00  Aligned_cols=62  Identities=18%  Similarity=0.118  Sum_probs=31.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCEEEEEHHHHHH
Q ss_conf             99876761020315789898578776676423689866444316853011676355465655214775112045
Q gi|254780242|r   10 KGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIAGSDFVTISLGLLQA   83 (151)
Q Consensus        10 ~g~~~~~kR~GRG~gsg~Gkt~GrG~kGqk~Rsg~~~~gfEGGQ~Pl~rrlPKrGF~~~~~~~~~~iNL~~L~~   83 (151)
                      .|+=+..+.-|||.-.+++. +|. +++     ++.     ++|+|.+|.+|+..+.+..-..+...+|+.+..
T Consensus        14 ~G~G~~k~~~GrG~KGqk~R-sG~-~~~-----~~~-----~~~~~pkrGf~~~~~~~~~~~~inl~~L~~~~~   75 (165)
T 1vq8_L           14 HGGGSHKNRRGAGHRGGRGD-AGR-DKH-----EFH-----NHEPLGKSGFKRPQKVQEEAATIDVREIDENVT   75 (165)
T ss_dssp             TTCSSTTSSCSGGGGTSSTT-TTT-TTT-----TCT-----TSCCSCCCCCCCCGGGCCCEEEEEHHHHHHTTG
T ss_pred             CCCCCCCCCCCCCCCCCCCC-CCC-CCC-----CCC-----CCCCCCCCCCCCCCCCCEEEEEECHHHHHHHHH
T ss_conf             46799988898979998857-798-778-----886-----676697248888766522575413677888775


No 14 
>3ofq_E 50S ribosomal protein L4; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_C 1p86_C 1vs8_E 1vs6_E 2aw4_E 2awb_E 1vt2_E 2i2v_E 2j28_E 2i2t_E* 2qao_E* 2qba_E* 2qbc_E* 2qbe_E 2qbg_E 2qbi_E* 2qbk_E* 2qov_E 2qox_E 2qoz_E* ...
Probab=61.80  E-value=6.4  Score=18.93  Aligned_cols=121  Identities=21%  Similarity=0.282  Sum_probs=53.7

Q ss_pred             CCCCCCCCCCCCCCCCCCC-CCCCCCCC-CCCCCCCCCEEEECCCCCCCCCCCCCEEEEEH-HHHHHHHCCCCCCCC---
Q ss_conf             0315789898578776676-42368986-64443168530116763554656552147751-120454302455533---
Q gi|254780242|r   20 ARGIGSGTGKTAGRGVKGQ-KSRSGVSV-RGFEGGQMPLYRRLPKRGFVNIAGSDFVTISL-GLLQAYIDKDRLDCS---   93 (151)
Q Consensus        20 GRG~gsg~Gkt~GrG~kGq-k~Rsg~~~-~gfEGGQ~Pl~rrlPKrGF~~~~~~~~~~iNL-~~L~~~i~~~~~~~~---   93 (151)
                      .|+.-+|-|+---+ +||. .||.|... |-|-||-..+=-+ |+.=+...+++.+. +-| ..|...+..+.+-.-   
T Consensus        48 ~R~eV~gsgkKp~~-QKGtGrAR~Gs~rsP~~rgGG~a~gp~-pr~~~~klnkK~~~-lal~~aLs~k~~~~~l~vvd~~  124 (201)
T 3ofq_E           48 TRAEVTGSGKKPWR-QKGTGRARSGSIKSPIWRSGGVTFAAR-PQDHSQKVNKKMYR-GALKSILSELVRQDRLIVVEKF  124 (201)
T ss_dssp             CTTTCCSCCCCCCC-TTTSSSCCCCCTTCTTSSSCCCTTCCC-SCCCCCCCCTTTTH-HHHHHHHHHHHHTTCBCCCSSC
T ss_pred             CHHHCCCCCCEECC-CCCCCCCCCCCCCCCEECCCEEECCCC-CCCCHHHHHHHHHH-HHHHHHHHHHHHHCCCEEECCC
T ss_conf             11110377754236-587867875578656566980688998-55423777779999-9999999999984486761001


Q ss_pred             -----CCCCH-HHHHHC--------------CCC--CCCCCCEEEECCCCCCCC--EEEEEEEECHHHHHHHHH
Q ss_conf             -----22335-555430--------------862--544332046304431441--489999826999999997
Q gi|254780242|r   94 -----SEIDA-SVLVAS--------------GLV--RRSQRGIRILSDGDLKAK--VVLRVSGASASAVEKVEK  143 (151)
Q Consensus        94 -----~~Id~-~~L~~~--------------gli--~~~~~~vKiLg~Gel~~k--i~I~v~~~S~sA~ekIE~  143 (151)
                           .+=++ ..|...              .+.  ..+...|+++-..+++.-  +.-..-.+|++|.+.||+
T Consensus       125 ~~~~~kTK~~~~~l~~l~~~~~LiV~~~~~enl~~S~RNi~~v~v~~~~~lNvyDlLk~~~lVit~~Al~~Lee  198 (201)
T 3ofq_E          125 SVEAPKTKLLAQKLKDMALEDVLIITGELDENLFLAARNLHKVDVRDATGIDPVSLIAFDKVVMTADAVKQVEE  198 (201)
T ss_dssp             CCCSSCTTTTTTTTTTTTCCSBCCBCSSCCTTTTTSSSSCSSCCCBCSTTCCHHHHTTSSBBCCCTTHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHCCCCCEEEECCCCCHHHHHCCCCEEEEHHHHHHHHH
T ss_conf             24689749999998760656157763764277999983879965864488569999668949987899999999


No 15 
>2ftc_D Mitochondrial ribosomal protein L4 isoform A, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_D
Probab=42.84  E-value=8.7  Score=18.25  Aligned_cols=35  Identities=9%  Similarity=0.091  Sum_probs=23.7

Q ss_pred             CCCCCEEEECCCCCCCC--EEEEEEEECHHHHHHHHH
Q ss_conf             44332046304431441--489999826999999997
Q gi|254780242|r  109 RSQRGIRILSDGDLKAK--VVLRVSGASASAVEKVEK  143 (151)
Q Consensus       109 ~~~~~vKiLg~Gel~~k--i~I~v~~~S~sA~ekIE~  143 (151)
                      .+...|+++...+++.-  +.-+.--+|++|++.||.
T Consensus       139 rNi~~v~v~~~~~lNv~dlL~~~~lvit~~Al~~leE  175 (175)
T 2ftc_D          139 SRLKTFNLIPAVGLNVHSMLKHQTLVLTLPTVAFLED  175 (175)
T ss_pred             HCCCCCEEEECCCCCHHHHHCCCEEEEEHHHHHHHHC
T ss_conf             3658833643587339999669929986899888439


No 16 
>3bbn_P Ribosomal protein S16; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=42.43  E-value=12  Score=17.55  Aligned_cols=44  Identities=11%  Similarity=0.265  Sum_probs=28.6

Q ss_pred             CCCCCCCCCCEEEEEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCC
Q ss_conf             35546565521477511204543024555332233555543086254
Q gi|254780242|r   63 RGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRR  109 (151)
Q Consensus        63 rGF~~~~~~~~~~iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~~  109 (151)
                      -||.++...+ ..+|++.+..|+..+-- +++++ ...|..+|+..+
T Consensus        36 lG~ynP~~~~-~~l~~eri~~Wl~~GAq-pS~~V-~~LL~~~g~~~~   79 (88)
T 3bbn_P           36 VGFYDPIKSQ-TYLNVPAILDFLEKGAQ-PTETV-YDILKRAEVFKE   79 (88)
T ss_dssp             CCCBCTTSSC-BCCCTTTSSSSTTSSCE-ECTTT-SSSSTTTTSSSC
T ss_pred             EEEECCCCCC-CCCCHHHHHHHHHCCCC-CCHHH-HHHHHHCCCHHH
T ss_conf             5006699985-41478999999996995-58999-999998083366


No 17 
>3mr8_P 30S ribosomal protein S16; ribosome, termination, RF1, amber, STOP UAG; 3.62A {Thermus thermophilus} PDB: 1pnx_P 1voq_P 1vos_P 1vov_P 1vox_P 1voz_P 1pns_P 3ms0_P 3fic_P* 1emw_A 1fjg_P* 1hnw_P* 1hnx_P* 1hnz_P* 1hr0_P 1i94_P* 1i95_P* 1i96_P* 1i97_P* 1ibk_P* ...
Probab=39.03  E-value=20  Score=16.36  Aligned_cols=45  Identities=11%  Similarity=0.296  Sum_probs=28.9

Q ss_pred             CCCCCCCC--CCEEEEEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCC
Q ss_conf             35546565--521477511204543024555332233555543086254
Q gi|254780242|r   63 RGFVNIAG--SDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRR  109 (151)
Q Consensus        63 rGF~~~~~--~~~~~iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~~  109 (151)
                      -||.|+..  .+...+|++.+..|+..+--- ++++ ...|..+|+...
T Consensus        36 lG~YnP~~~~~~~i~i~~eRi~~WL~~GAqp-S~~V-~~Ll~~~gi~~~   82 (83)
T 3mr8_P           36 IGYYDPRKTTPDWLKVDVERARYWLSVGAQP-TDTA-RRLLRQAGVFRQ   82 (83)
T ss_dssp             CEEECTTCCSTTSEEECHHHHHHHHHTCCCC-CHHH-HHHHHHHTSSCC
T ss_pred             EEEECCCCCCCCEEEECHHHHHHHHHCCCCC-CHHH-HHHHHHCCCCCC
T ss_conf             8888999888501564699999999878906-7899-999998388567


No 18 
>2j01_F 50S ribosomal protein L4; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: c.22.1.1 PDB: 2hgq_F 2hgj_F 2hgu_F 2j03_F 2jl6_F 2jl8_F 2v47_F 2v49_F 2wdi_F 2wdj_F 2wdl_F 2wdn_F 2wh2_F 2wh4_F 2wrj_F 2wrl_F 2wro_F 2wrr_F 2x9s_F 2x9u_F ...
Probab=37.16  E-value=15  Score=17.09  Aligned_cols=39  Identities=21%  Similarity=0.176  Sum_probs=23.7

Q ss_pred             CCCCCEEEECCCCCCC--CEEEEEEEECHHHHHHHHH-CCCE
Q ss_conf             4433204630443144--1489999826999999997-4988
Q gi|254780242|r  109 RSQRGIRILSDGDLKA--KVVLRVSGASASAVEKVEK-LGGQ  147 (151)
Q Consensus       109 ~~~~~vKiLg~Gel~~--ki~I~v~~~S~sA~ekIE~-aGG~  147 (151)
                      .+...|.++...+++.  =+.-+.--+|++|.+.||+ .||+
T Consensus       168 rNi~~v~v~~~~~lnv~dlL~~~~lvit~~Al~~l~e~l~g~  209 (210)
T 2j01_F          168 RNLPWVVTLAPEGLNVYDIVRTERLVMDLDAWEVFQNRIGGE  209 (210)
T ss_dssp             TTCTTEEEECGGGCCHHHHHHSSEEEEEHHHHHHHHHTCC--
T ss_pred             HCCCCCEEEECCCCCHHHHHCCCCEEEEHHHHHHHHHHHCCC
T ss_conf             477997786338822999856996998789999999996678


No 19 
>1vq8_C 50S ribosomal protein L4E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.22.1.1 PDB: 1k73_E* 1k8a_E* 1k9m_E* 1kc8_E* 1kd1_E* 1kqs_C* 1m1k_E* 1m90_E* 1n8r_E* 1nji_E* 1q7y_E* 1q81_E* 1q82_E* 1q86_E* 1qvf_C 1qvg_C 1s72_C* 1vq4_C* 1vq5_C* 1vq6_C* ...
Probab=27.33  E-value=9.5  Score=18.05  Aligned_cols=35  Identities=17%  Similarity=0.288  Sum_probs=19.6

Q ss_pred             CCCCCEEEECCCCCCCCEE------EEEEEECHHHHHHHHH
Q ss_conf             4433204630443144148------9999826999999997
Q gi|254780242|r  109 RSQRGIRILSDGDLKAKVV------LRVSGASASAVEKVEK  143 (151)
Q Consensus       109 ~~~~~vKiLg~Gel~~ki~------I~v~~~S~sA~ekIE~  143 (151)
                      .+...|+++...+|+.-=-      -..--+|++|+++||+
T Consensus       205 rNip~v~v~~~~~lNvydLl~~~~~~r~vV~T~~Al~~l~e  245 (246)
T 1vq8_C          205 RNLAGADVATASEVNTEDLAPGGAPGRLTVFTESALAEVAE  245 (246)
T ss_dssp             TTSTTCEEEETTTCCHHHHSGGGCCCCCEEEEHHHHHHGGG
T ss_pred             CCCCCCEEEECCCCCHHHHCCCCCCCCEEEEEHHHHHHHHC
T ss_conf             18999669756884099902668668609983999999854


No 20 
>3bn0_A 30S ribosomal protein S16; ribonucleoprotein, ribosome; 2.00A {Aquifex aeolicus} SCOP: d.27.1.1
Probab=21.12  E-value=29  Score=15.54  Aligned_cols=45  Identities=11%  Similarity=0.166  Sum_probs=31.5

Q ss_pred             CCCCCCCCCCEEEEEHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCC
Q ss_conf             35546565521477511204543024555332233555543086254
Q gi|254780242|r   63 RGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRR  109 (151)
Q Consensus        63 rGF~~~~~~~~~~iNL~~L~~~i~~~~~~~~~~Id~~~L~~~gli~~  109 (151)
                      -||.|+...+...+|.+.|..|+..+-- +++++ ...|...|++..
T Consensus        37 lG~YnP~~~~~i~l~~eri~~Wl~~GAq-ps~~V-~~lL~~~Gll~~   81 (112)
T 3bn0_A           37 LGTYDPKRKVLINVYPEKVKEWVLKGVE-LSHRA-KAILWNHGILKE   81 (112)
T ss_dssp             EEEEETTTTEEEEECHHHHHHHHHTTCE-EEHHH-HHHHHHTTHHHH
T ss_pred             EEEECCCCCCCCCCCHHHHHHHHHCCCC-CCHHH-HHHHHHCCCCCC
T ss_conf             2377587642124689999999987897-47999-999998598644


Done!