Query         gi|254780246|ref|YP_003064659.1| 50S ribosomal protein L6 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 177
No_of_seqs    130 out of 2146
Neff          6.6 
Searched_HMMs 33803
Date          Tue May 24 02:57:25 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780246.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >1rl6_A Protein (ribosomal pro 100.0 1.7E-39   5E-44  249.3   9.2   96   82-177     1-96  (97)
  2 >1nkw_E 50S ribosomal protein  100.0 8.6E-39 2.5E-43  245.3  10.1   95   83-177     1-95  (103)
  3 >3i1n_G 50S ribosomal protein  100.0 2.5E-39 7.4E-44  248.3   5.8   96   82-177     1-96  (96)
  4 >2zjr_E 50S ribosomal protein  100.0 8.6E-39 2.5E-43  245.3   6.4   95   83-177     1-95  (103)
  5 >2j01_H 50S ribosomal protein  100.0 1.1E-37 3.3E-42  238.7   5.1   95   82-176     1-95  (99)
  6 >3bbo_I Ribosomal protein L6;  100.0 4.6E-37 1.4E-41  235.2   6.6   96   81-176     1-96  (100)
  7 >1nkw_E 50S ribosomal protein   99.9 4.2E-28 1.2E-32  183.1   8.7   82    1-82     28-109 (109)
  8 >2cql_A OK/SW-CL.103, 60S ribo  99.9 1.2E-27 3.6E-32  180.4   4.1   86    1-86      8-98  (100)
  9 >3i1n_G 50S ribosomal protein   99.9 1.2E-27 3.4E-32  180.5   0.9   81    1-81      1-81  (81)
 10 >2zjr_E 50S ribosomal protein   99.9 1.2E-28 3.6E-33  186.2  -4.4   82    1-82      1-82  (82)
 11 >2j01_H 50S ribosomal protein   99.9 6.3E-28 1.9E-32  182.1  -1.9   81    1-81      1-81  (81)
 12 >1rl6_A Protein (ribosomal pro  99.9 2.7E-26   8E-31  172.6   4.8   80    2-81      1-80  (80)
 13 >3bbo_I Ribosomal protein L6;   99.9 2.2E-26 6.6E-31  173.1   4.2   80    1-80     43-123 (123)
 14 >2zkr_e 60S ribosomal protein   99.9 1.5E-25 4.3E-30  168.3   3.3   81    1-81      1-86  (86)
 15 >1vq8_E 50S ribosomal protein   99.9 1.6E-23 4.8E-28  156.4   4.7   78    1-81      1-79  (79)
 16 >3jyw_H 60S ribosomal protein   99.8 4.3E-22 1.3E-26  148.2   2.9   77    5-81      1-79  (79)
 17 >1vq8_E 50S ribosomal protein   99.8 1.2E-19 3.6E-24  133.9  10.1   90   82-175     1-96  (99)
 18 >2zkr_e 60S ribosomal protein   99.8 8.2E-19 2.4E-23  129.1  10.4   89   82-173     1-99  (106)
 19 >3jyw_H 60S ribosomal protein   99.7 8.8E-19 2.6E-23  128.9   5.2   88   82-172     1-100 (100)
 20 >3kd4_A Putative protease; str  63.5     8.1 0.00024   18.6   3.5   26    9-34     65-90  (140)
 21 >3igf_A ALL4481 protein; two-d  45.9      21 0.00061   16.3   6.7   48   12-59     21-74  (77)
 22 >2wj7_A Alpha-crystallin B cha  43.1      16 0.00048   16.9   2.3   18   12-29      2-19  (44)
 23 >3d1g_A DNA polymerase III sub  37.8      28 0.00082   15.5   4.4   48    5-54     23-72  (178)
 24 >3eat_X Pyoverdine biosynthesi  36.4      25 0.00075   15.7   2.4   44  108-151    46-89  (93)
 25 >2jug_A TUBC protein; docking   28.2      31 0.00093   15.2   1.8   23   13-35     17-39  (78)
 26 >2z0s_A Probable exosome compl  25.9      44  0.0013   14.4   4.4   42  119-160    30-71  (88)
 27 >2je6_I RRP4, exosome complex   25.8      19 0.00057   16.5   0.3   45  118-162    28-72  (96)
 28 >2bol_A TSP36, small heat shoc  25.0      46  0.0014   14.3   7.5   44   12-55     31-92  (96)
 29 >3hhd_A Fatty acid synthase; t  22.3      52  0.0015   13.9   3.6   38  113-151    16-54  (78)

No 1  
>>1rl6_A Protein (ribosomal protein L6); RNA-binding protein, gentamicin resistance, alpha/beta protein; 2.00A {Geobacillus stearothermophilus} (A:81-177)
Probab=100.00  E-value=1.7e-39  Score=249.31  Aligned_cols=96  Identities=55%  Similarity=0.893  Sum_probs=95.0

Q ss_pred             EEEEEEEEECCCCEEEECCCEEEEEECCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             03777874047630122042499995156765525885038997699889999579989879998741007479857874
Q gi|254780246|r   82 GYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKG  161 (177)
Q Consensus        82 Gf~~~L~lvgvgy~v~~~g~~l~l~LG~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGKg  161 (177)
                      ||+++|+++|+||||+++++.|.|+|||||++.+.||++++++|++||.|+|+|+|||.|+||||+||++|+||||||||
T Consensus         1 Gf~~~LelvGvGYra~~~~~~L~l~LG~SH~i~~~iP~~i~v~~~k~t~i~i~g~dKq~vg~fAa~Ir~~R~pepYKGKG   80 (97)
T 1rl6_A            1 GYEKALELVGVGYRASKQGKKLVLSVGYSHPVEIEPEEGLEIEVPSQTKIIVKGADKQRVGELAANIRAVRPPEPYKGKG   80 (97)
T ss_dssp             CEEEEEEEESTTCEEEEETTEEEEESSSSSCEEECCCTTEEEEEEETTEEEEEESCHHHHHHHHHHHHTTSCCCTTTCCE
T ss_pred             CCEEEEEEECCCCEEECCCCEEEEECCCCCCCCCCCCCCEEEEECCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             50789998516522560497999971655453235899779995478500685168999999999987307998845998


Q ss_pred             EEECCEEEEEEECCCC
Q ss_conf             3453709997105669
Q gi|254780246|r  162 IRYSGEVIIRKEGKKK  177 (177)
Q Consensus       162 I~~~~e~I~~KegKkK  177 (177)
                      |||+||+|.||||||+
T Consensus        81 I~y~~E~i~~K~gKk~   96 (97)
T 1rl6_A           81 IRYEGELVRLKEGKTG   96 (97)
T ss_dssp             EEETTCCCCC------
T ss_pred             CCCCCEEEEECCCCCC
T ss_conf             6687869997375578


No 2  
>>1nkw_E 50S ribosomal protein L6; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} (E:110-212)
Probab=100.00  E-value=8.6e-39  Score=245.26  Aligned_cols=95  Identities=48%  Similarity=0.822  Sum_probs=93.5

Q ss_pred             EEEEEEEECCCCEEEECCCEEEEEECCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCE
Q ss_conf             37778740476301220424999951567655258850389976998899995799898799987410074798578743
Q gi|254780246|r   83 YERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGI  162 (177)
Q Consensus        83 f~~~L~lvgvgy~v~~~g~~l~l~LG~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGKgI  162 (177)
                      |++.|+++|+||||+++++.|.|+|||||++.+.||++++++|+++|.|+|+|+|||.|+||||+||++|+|||||||||
T Consensus         1 f~k~LelvGVGYra~~~~~~L~l~LG~SH~i~~~iP~~I~v~~~~~t~i~i~G~dKq~vg~faa~Ir~~r~pepYKGKGI   80 (103)
T 1nkw_E            1 YTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGV   80 (103)
T ss_pred             EEEEEEEEEEEEEEEECCCCCEEEECCCCCEEEECCCCCEEEECCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             18999997657745861664236631235435768977679854898999997899999999999851489989789870


Q ss_pred             EECCEEEEEEECCCC
Q ss_conf             453709997105669
Q gi|254780246|r  163 RYSGEVIIRKEGKKK  177 (177)
Q Consensus       163 ~~~~e~I~~KegKkK  177 (177)
                      ||.||+|.|||||++
T Consensus        81 ~y~~E~I~~KeGKk~   95 (103)
T 1nkw_E           81 RFVGEQIALKAGKAG   95 (103)
T ss_pred             CCCCEEEEEECCCCC
T ss_conf             698889997065335


No 3  
>>3i1n_G 50S ribosomal protein L6; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_G 3e1b_3 3e1d_3 1vs6_G 3i1p_G 3i1r_G 3i1t_G 3i20_G 3i22_G 2qam_G* 1p85_E 1p86_E 2awb_G 2aw4_G 2i2v_G 2j28_G 2i2t_G* 2qao_G* 2qba_G* 2qbc_G* ... (G:82-177)
Probab=100.00  E-value=2.5e-39  Score=248.34  Aligned_cols=96  Identities=50%  Similarity=0.831  Sum_probs=95.3

Q ss_pred             EEEEEEEEECCCCEEEECCCEEEEEECCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             03777874047630122042499995156765525885038997699889999579989879998741007479857874
Q gi|254780246|r   82 GYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKG  161 (177)
Q Consensus        82 Gf~~~L~lvgvgy~v~~~g~~l~l~LG~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGKg  161 (177)
                      ||...|+++|+||||+++|+.|.|+|||||++.+.||++++++++++|.|+++|+|||.|+||||+||++|+||||||||
T Consensus         1 Gf~~~L~l~GvGYra~~~g~~L~l~lG~SH~i~~~iP~~i~v~~~~~t~i~i~g~dKq~v~~fAa~Ir~~R~pepYKGKG   80 (96)
T 3i1n_G            1 GFTKKLQLVGVGYRAAVKGNVINLSLGFSHPVDHQLPAGITAECPTQTEIVLKGADKQVIGQVAADLRAYRRPEPYKGKG   80 (96)
T ss_dssp             CBCCCEEEESTTCCBCCCSSCBCBCCSSSSCCCBCCCSSCEEECSSSSEEEEEBSCHHHHHHHHHHHHHTTCCCTTTCCE
T ss_pred             CEEEEEEEEECCEEEEECCCCCEEEEEECCCCCEECCCCCCEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             82899998615366674043425898503342023687871355156353899748999999999985268998968988


Q ss_pred             EEECCEEEEEEECCCC
Q ss_conf             3453709997105669
Q gi|254780246|r  162 IRYSGEVIIRKEGKKK  177 (177)
Q Consensus       162 I~~~~e~I~~KegKkK  177 (177)
                      |+|+||+|.+||||||
T Consensus        81 I~y~~E~I~~K~gKkK   96 (96)
T 3i1n_G           81 VRYADEVVRTKEAKKK   96 (96)
T ss_dssp             ECCSSCCCCCCCCCCC
T ss_pred             CCCCCEEEEECCCCCC
T ss_conf             7698879993165689


No 4  
>>2zjr_E 50S ribosomal protein L6; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} (E:83-185)
Probab=100.00  E-value=8.6e-39  Score=245.26  Aligned_cols=95  Identities=48%  Similarity=0.822  Sum_probs=93.6

Q ss_pred             EEEEEEEECCCCEEEECCCEEEEEECCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCE
Q ss_conf             37778740476301220424999951567655258850389976998899995799898799987410074798578743
Q gi|254780246|r   83 YERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGI  162 (177)
Q Consensus        83 f~~~L~lvgvgy~v~~~g~~l~l~LG~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGKgI  162 (177)
                      |++.|+++|+||||+++++.|.|+|||||++.+.||++++++|+++|.|+|+|+|||.|+||||+||++|+|||||||||
T Consensus         1 f~k~LelvGVGYra~~~~~~L~l~LG~SH~i~~~iP~~I~v~~~~~t~i~i~G~dKq~vg~faa~Ir~~r~pepYKGKGI   80 (103)
T 2zjr_E            1 YTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGV   80 (103)
T ss_dssp             EEEEEECBSTTCCCCCBTTBCBCCSSCSSCCBCCCCTTEEEECSSTTEEEEEESSHHHHHHHHHHHHHHTCCCTTTCCBC
T ss_pred             CEEEEEECCCEEEEEEECCCCEEEEEEECCCCCCCCCCCEEEECCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             23466750230678970641047787421322317866067514675799996689999999999851589989789872


Q ss_pred             EECCEEEEEEECCCC
Q ss_conf             453709997105669
Q gi|254780246|r  163 RYSGEVIIRKEGKKK  177 (177)
Q Consensus       163 ~~~~e~I~~KegKkK  177 (177)
                      ||.||+|.|||||++
T Consensus        81 ~y~~E~I~~KeGKk~   95 (103)
T 2zjr_E           81 RFVGEQIALKAGKAG   95 (103)
T ss_dssp             CCSSCCCCCCCCC--
T ss_pred             CCCCEEEEEECCCCC
T ss_conf             698889997075335


No 5  
>>2j01_H 50S ribosomal protein L6; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (H:82-180)
Probab=100.00  E-value=1.1e-37  Score=238.74  Aligned_cols=95  Identities=52%  Similarity=0.833  Sum_probs=94.0

Q ss_pred             EEEEEEEEECCCCEEEECCCEEEEEECCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             03777874047630122042499995156765525885038997699889999579989879998741007479857874
Q gi|254780246|r   82 GYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKG  161 (177)
Q Consensus        82 Gf~~~L~lvgvgy~v~~~g~~l~l~LG~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGKg  161 (177)
                      ||+++|+++|+||||+++|+.|.|+|||||++.+.||++|+++++++|+|+|+|+|+|.|+||||+||++|+||||||||
T Consensus         1 Gf~~~L~lvGvGy~~~~~g~~l~l~LG~sh~i~~~ip~~v~v~~~~~~~i~l~G~dk~~V~~~Aa~Ir~~r~pe~YKgkG   80 (99)
T 2j01_H            1 GYSKELLIKGIGYRARLVGRALELTVGFSHPVVVEPPEGITFEVPEPTRVRVSGIDKQKVGQVAANIRAIRKPSAYHEKG   80 (99)
T ss_dssp             CCCCEECCCSSSCEECCBTTBEEEECSSSSCEEECCCTTEEEECSSSSCEEEEESCSTTTTHHHHHHHTTSCSCSSSSSS
T ss_pred             CEEEEEEECCCCEEEECCCCHHEEEHHCCCCCCCCCCCCCEEECCCCCEEEEECCCHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             82799985145311210441100001035555456999616731566356771378999999999987517999958998


Q ss_pred             EEECCEEEEEEECCC
Q ss_conf             345370999710566
Q gi|254780246|r  162 IRYSGEVIIRKEGKK  176 (177)
Q Consensus       162 I~~~~e~I~~KegKk  176 (177)
                      |||+||+|.+|||||
T Consensus        81 I~~~ge~I~~K~gKk   95 (99)
T 2j01_H           81 IYYAGEPVRLKPGKA   95 (99)
T ss_dssp             CCCSSCCCC------
T ss_pred             EEECCEEEEEECCCC
T ss_conf             788784999706655


No 6  
>>3bbo_I Ribosomal protein L6; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana} (I:124-223)
Probab=100.00  E-value=4.6e-37  Score=235.21  Aligned_cols=96  Identities=49%  Similarity=0.850  Sum_probs=94.8

Q ss_pred             EEEEEEEEEECCCCEEEECCCEEEEEECCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             00377787404763012204249999515676552588503899769988999957998987999874100747985787
Q gi|254780246|r   81 KGYERKLEISGVGCRAFMDGRNLKMSLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGK  160 (177)
Q Consensus        81 ~Gf~~~L~lvgvgy~v~~~g~~l~l~LG~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGK  160 (177)
                      +||+++|+++|+||||+++|+.|.|+|||||++.++||++|+++++++|+|+|+|+|+|.|+||||+||++|+|||||||
T Consensus         1 kGf~~~L~lvGvgf~~~~~g~~L~l~LG~sh~i~~~ip~~v~v~~~~~~~i~l~G~dk~~V~~~Aa~I~~~r~~~~YKgk   80 (100)
T 3bbo_I            1 KGFEKKLILVGVGYRATVDGKELVLNLGFSHPVKMQIPDSLKVKVEENTRITVSGYDKSEIGQFAATVRKWRPPEPYKGK   80 (100)
T ss_dssp             TCEEECEECCSTTCCEEECSSEEEECSSCSSCEEEECCSSEEEECSSTTBCEEEESSSHHHHHHHHHTTSSSCCCTTTCC
T ss_pred             CCEEEEEEEEECCCCEEEECCEEEEEEECCCCCEECCCCCCEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             14499999830343127604214787640234211179863687457867999975799999999998607899896887


Q ss_pred             CEEECCEEEEEEECCC
Q ss_conf             4345370999710566
Q gi|254780246|r  161 GIRYSGEVIIRKEGKK  176 (177)
Q Consensus       161 gI~~~~e~I~~KegKk  176 (177)
                      |||||||||.+|||||
T Consensus        81 Gi~~~ge~I~~K~gKk   96 (100)
T 3bbo_I           81 GVKYSDEIVRRKEGKA   96 (100)
T ss_dssp             SCEETTCCCCCCCCCC
T ss_pred             CEEECCEEEEEECCCC
T ss_conf             5648886999845765


No 7  
>>1nkw_E 50S ribosomal protein L6; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} (E:1-109)
Probab=99.95  E-value=4.2e-28  Score=183.11  Aligned_cols=82  Identities=41%  Similarity=0.650  Sum_probs=81.4

Q ss_pred             CCCCCCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCCEEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEEEEECC
Q ss_conf             97444645107997589997998999906946999826863999707589985055432201338887521125897511
Q gi|254780246|r    1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVT   80 (177)
Q Consensus         1 MSrIgk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GVt   80 (177)
                      ||||||+||.||++|+|+++++.++|+||+|+|++++++++.++++++.+.+.+++++++++|+|||+||||+|||+|||
T Consensus        28 MSrIgk~pI~IP~~V~v~i~~~~i~VkGp~G~L~~~l~~~v~i~~~~~~i~v~~~~~~kk~~a~~GT~rslI~NmI~GVt  107 (109)
T 1nkw_E           28 MSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKHRALHGLTRTLVANAVKGVS  107 (109)
T ss_pred             CCHHCCCCCCCCCCCEEEEECCEEEEECCCEEEEEECCCCEEEEECCCEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEE
T ss_conf             16304676106999789997999999828844999848872787268789995165215566766669987526699980


Q ss_pred             EE
Q ss_conf             00
Q gi|254780246|r   81 KG   82 (177)
Q Consensus        81 ~G   82 (177)
                      +|
T Consensus       108 ~G  109 (109)
T 1nkw_E          108 DG  109 (109)
T ss_pred             CC
T ss_conf             58


No 8  
>>2cql_A OK/SW-CL.103, 60S ribosomal protein L9; N-terminal domain, alpha and beta (A+B), structural genomics, NPPSFA; NMR {Homo sapiens} (A:)
Probab=99.94  E-value=1.2e-27  Score=180.44  Aligned_cols=86  Identities=24%  Similarity=0.348  Sum_probs=80.5

Q ss_pred             CCCCC-CCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCC----EEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEE
Q ss_conf             97444-64510799758999799899990694699982686----39997075899850554322013388875211258
Q gi|254780246|r    1 MSRIG-KKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDG----ISVTLQEGMLSVATINGSKKARAAWGMSRTMINNL   75 (177)
Q Consensus         1 MSrIg-k~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~----v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nm   75 (177)
                      ||||| ++||.||++|+|+++++.++|+||+|+|+++|++.    +.++.+++.+.+.++.++++++|||||+||||+||
T Consensus         8 MsrIg~k~pI~IP~gV~V~i~~~~itVkGp~G~ls~~~~~~~~~~v~~~~~~~~i~~~~~~~~kk~~a~~GT~rsli~Nm   87 (100)
T 2cql_A            8 MKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKWWGNRKELATVRTICSHVQNM   87 (100)
T ss_dssp             CCCCCCCEEECCCSSCEEEEETTEEEEEETTEEEEEECCSSCCEEEEECSSSCEEEEECCSSSTHHHHHHHHHHHHHHHH
T ss_pred             CCEECCCCCEECCCCCEEEEECCEEEEEECCCEEEEEECCCCEEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHH
T ss_conf             56461699586799979999699999992893699982368704899714656899951787588999989899999865


Q ss_pred             EEECCEEEEEE
Q ss_conf             97511003777
Q gi|254780246|r   76 FHGVTKGYERK   86 (177)
Q Consensus        76 i~GVt~Gf~~~   86 (177)
                      |+||++||+|.
T Consensus        88 I~GVt~Gf~kt   98 (100)
T 2cql_A           88 IKGVTLGSGPS   98 (100)
T ss_dssp             HHHHHTSCCSC
T ss_pred             EEEEECCEECC
T ss_conf             25322745068


No 9  
>>3i1n_G 50S ribosomal protein L6; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_G 3e1b_3 3e1d_3 1vs6_G 3i1p_G 3i1r_G 3i1t_G 3i20_G 3i22_G 2qam_G* 1p85_E 1p86_E 2awb_G 2aw4_G 2i2v_G 2j28_G 2i2t_G* 2qao_G* 2qba_G* 2qbc_G* ... (G:1-81)
Probab=99.93  E-value=1.2e-27  Score=180.53  Aligned_cols=81  Identities=32%  Similarity=0.573  Sum_probs=80.2

Q ss_pred             CCCCCCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCCEEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEEEEECC
Q ss_conf             97444645107997589997998999906946999826863999707589985055432201338887521125897511
Q gi|254780246|r    1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVT   80 (177)
Q Consensus         1 MSrIgk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GVt   80 (177)
                      ||||||+||+||+||+++++++.++|+||+|+|+++|++.+.+..+++.+.+.+++++++++|+|||+||||+|||+|||
T Consensus         1 MSrIgk~pI~IP~gV~v~i~~~~i~vkGp~G~l~~~~~~~i~~~~~~~~i~v~~~~~~kk~~a~~GT~rsli~Nmi~GVt   80 (81)
T 3i1n_G            1 MSRVAKAPVVVPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGWAQAGTARALLNSMVIGVT   80 (81)
T ss_dssp             -CCSTTSCCCCCTTCCCEEETTEEECCCSSSCCCEEECSSCEEECCTTSCEEECCTTCSSTTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCEECCCCCEEEEECCEEEEECCCEEEEEEEECCEEEEECCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             97245786206999899997999999919988999983436899658689998236442167999999999999888744


Q ss_pred             E
Q ss_conf             0
Q gi|254780246|r   81 K   81 (177)
Q Consensus        81 ~   81 (177)
                      +
T Consensus        81 e   81 (81)
T 3i1n_G           81 E   81 (81)
T ss_dssp             T
T ss_pred             C
T ss_conf             6


No 10 
>>2zjr_E 50S ribosomal protein L6; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} (E:1-82)
Probab=99.93  E-value=1.2e-28  Score=186.21  Aligned_cols=82  Identities=41%  Similarity=0.650  Sum_probs=81.3

Q ss_pred             CCCCCCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCCEEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEEEEECC
Q ss_conf             97444645107997589997998999906946999826863999707589985055432201338887521125897511
Q gi|254780246|r    1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVT   80 (177)
Q Consensus         1 MSrIgk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GVt   80 (177)
                      ||||||+||.||++|+|+++++.++|+||+|+|++.|++++.+.++++.+.+.+++++++++|+|||+||||+|||+|||
T Consensus         1 MSrIgk~pI~IP~gV~v~i~~~~i~vkGp~G~l~~~~~~~i~i~~~~~~i~v~~~~~~kk~~a~~GT~rsli~Nmi~GVt   80 (82)
T 2zjr_E            1 MSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKHRALHGLTRTLVANAVKGVS   80 (82)
T ss_dssp             ----CCCCBCCCTTCCEECCTTCCEECCSSCCCCCCCCSSSCCBCCSSSBBCCCSSCSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCEECCCCCEEEEECCEEEEEECCEEEEEECCCCEEEEECCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             97135676206999789997899999938834998669764785057621589702100134453358887543466640


Q ss_pred             EE
Q ss_conf             00
Q gi|254780246|r   81 KG   82 (177)
Q Consensus        81 ~G   82 (177)
                      +|
T Consensus        81 ~G   82 (82)
T 2zjr_E           81 DG   82 (82)
T ss_dssp             HC
T ss_pred             CC
T ss_conf             13


No 11 
>>2j01_H 50S ribosomal protein L6; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (H:1-81)
Probab=99.93  E-value=6.3e-28  Score=182.07  Aligned_cols=81  Identities=40%  Similarity=0.680  Sum_probs=80.1

Q ss_pred             CCCCCCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCCEEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEEEEECC
Q ss_conf             97444645107997589997998999906946999826863999707589985055432201338887521125897511
Q gi|254780246|r    1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVT   80 (177)
Q Consensus         1 MSrIgk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GVt   80 (177)
                      ||||||+||.||++|+++++++.++|+||+|+|++.|++.+.+.++++.+.+.+++++++++|||||+||||+|||+|||
T Consensus         1 MSrIgk~pI~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~~~~~~~~i~v~~~~~~kk~~a~~GT~rsli~Nmi~GVt   80 (81)
T 2j01_H            1 MSRIGRLPIPVPKGVSVEVAPGRVKVKGPKGELEVPVSPEMRVVVEEGVVRVERPSDERRHKSLHGLTRTLIANAVKGVS   80 (81)
T ss_dssp             -----------CTTCEEEECSSCEEEECSSCCEECCCCSSSCCCCCSSSCCCCCSCCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCCCCEEEEECCEEEEECCCEEEEEEECCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             97245787106999889997999999839988999953454321035215898415404678999999999998878750


Q ss_pred             E
Q ss_conf             0
Q gi|254780246|r   81 K   81 (177)
Q Consensus        81 ~   81 (177)
                      +
T Consensus        81 e   81 (81)
T 2j01_H           81 E   81 (81)
T ss_dssp             T
T ss_pred             C
T ss_conf             7


No 12 
>>1rl6_A Protein (ribosomal protein L6); RNA-binding protein, gentamicin resistance, alpha/beta protein; 2.00A {Geobacillus stearothermophilus} (A:1-80)
Probab=99.92  E-value=2.7e-26  Score=172.58  Aligned_cols=80  Identities=36%  Similarity=0.691  Sum_probs=79.1

Q ss_pred             CCCCCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCCEEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEEEEECCE
Q ss_conf             74446451079975899979989999069469998268639997075899850554322013388875211258975110
Q gi|254780246|r    2 SRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVTK   81 (177)
Q Consensus         2 SrIgk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GVt~   81 (177)
                      |||||+||.||++|+|+++++.++|+||+|+|+++|++.+.++++++.+.+.+++++++++|||||+||||+|||+|||+
T Consensus         1 SrIgk~pI~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~~~~~~~~i~i~~~~~~kk~~a~~GT~rsli~NmI~GVTe   80 (80)
T 1rl6_A            1 SRVGKKPIEIPAGVTVTVNGNTVTVKGPKGELTRTFHPDMTITVEGNVITVTRPSDEKHHRALHGTTRSLLANMVEGVSK   80 (80)
T ss_dssp             ------CEECCTTCEEEEETTEEEEEETTEEEEEECCTTCEEEEETTEEEEECSCCSHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCCCEEEEECCEEEEEECCEEEEEEECCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             96566670159998899979999999498689886447420011685899984276135667677899998777876314


No 13 
>>3bbo_I Ribosomal protein L6; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana} (I:1-123)
Probab=99.92  E-value=2.2e-26  Score=173.06  Aligned_cols=80  Identities=38%  Similarity=0.647  Sum_probs=76.8

Q ss_pred             CCCCCCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCCEEEEEEC-CEEEEEECCCCCCCHHHHHHHHHEEEEEEEEC
Q ss_conf             97444645107997589997998999906946999826863999707-58998505543220133888752112589751
Q gi|254780246|r    1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGISVTLQE-GMLSVATINGSKKARAAWGMSRTMINNLFHGV   79 (177)
Q Consensus         1 MSrIgk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~i~~~~-~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GV   79 (177)
                      ||||||+||+||++|+|+++++.++|+||+|+|++.+++++.+..+| +.+.+..+++++++++||||+||||+|||+||
T Consensus        43 MSrIgk~pI~IP~~V~V~i~~~~itVkGp~G~Ls~~~~~~v~~~~~e~~~i~v~~~~~~kk~~a~~GT~rslI~NmI~GV  122 (123)
T 3bbo_I           43 ESRIGKQPIAVPSNVTIALEGQDLKVKGPLGELALTYPREVELTKEESGFLRVKKTVETRRANQMHGLFRTLTDNMVVGV  122 (123)
T ss_dssp             CCCCCCCCCCCSTTSCEEESSSEEEECCSSCCEEEECCSSCEEEECSSSCEEEECSSCCTTHHHHHHHHTTTTTHHHHHT
T ss_pred             CCHHCCCCEECCCCCEEEEECCEEEEECCCEEEEEEECCCCEEEEECCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             00437776007999889997999999867989999957873178732634887133220068999999999998888874


Q ss_pred             C
Q ss_conf             1
Q gi|254780246|r   80 T   80 (177)
Q Consensus        80 t   80 (177)
                      |
T Consensus       123 T  123 (123)
T 3bbo_I          123 S  123 (123)
T ss_dssp             T
T ss_pred             C
T ss_conf             0


No 14 
>>2zkr_e 60S ribosomal protein L9; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (e:1-86)
Probab=99.91  E-value=1.5e-25  Score=168.31  Aligned_cols=81  Identities=25%  Similarity=0.356  Sum_probs=76.1

Q ss_pred             CCCCC-CCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCC----EEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEE
Q ss_conf             97444-64510799758999799899990694699982686----39997075899850554322013388875211258
Q gi|254780246|r    1 MSRIG-KKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDG----ISVTLQEGMLSVATINGSKKARAAWGMSRTMINNL   75 (177)
Q Consensus         1 MSrIg-k~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~----v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nm   75 (177)
                      ||||| ++||.||++|+++++++.++|+||+|+|+++|++.    +.++.+++.+.+.++.++++++|+|||+||||+||
T Consensus         1 MsrIg~k~pI~IP~~V~v~i~~~~i~VkGp~G~l~~~~~~~~~~~i~~~~~~~~i~~~~~~~~k~~~a~~GT~rsli~Nm   80 (86)
T 2zkr_e            1 MKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKWWGNRKELATVRTICSHVQNM   80 (86)
T ss_dssp             ---------CCCCTTCEEEEETTEEEEEETTEEEEEECCSSSCEEEEETTTTCEEEEECSCCCHHHHHHHHHHHHHHHHH
T ss_pred             CCEEECCCCEECCCCCEEEEECCEEEEECCCEEEEEEECCCCEEEEEECCCCCEEEEECCCCCHHHHHHHHHHHHHHHCE
T ss_conf             96220588587799989999899999994994999997268689999616577799942775165665788899876405


Q ss_pred             EEECCE
Q ss_conf             975110
Q gi|254780246|r   76 FHGVTK   81 (177)
Q Consensus        76 i~GVt~   81 (177)
                      |+|||.
T Consensus        81 i~GVT~   86 (86)
T 2zkr_e           81 IKGVTL   86 (86)
T ss_dssp             HHHHHT
T ss_pred             EEEEEE
T ss_conf             541101


No 15 
>>1vq8_E 50S ribosomal protein L6P; 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} (E:1-79)
Probab=99.88  E-value=1.6e-23  Score=156.41  Aligned_cols=78  Identities=26%  Similarity=0.485  Sum_probs=75.5

Q ss_pred             CCCCCCCCCCCCCCCEEEEECCEEEEEECCCEEEEEEC-CCEEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEEEEEC
Q ss_conf             97444645107997589997998999906946999826-86399970758998505543220133888752112589751
Q gi|254780246|r    1 MSRIGKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMS-DGISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGV   79 (177)
Q Consensus         1 MSrIgk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~-~~v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GV   79 (177)
                      ||||.   |.||++|+++++++.++|+||+|+|++.|+ ..+.++.+++.+.+.+++++++++|+|||+||||+|||+||
T Consensus         1 MSrip---I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~~v~i~~~~~~i~v~~~~~~k~~~a~~GT~rslI~NmI~GV   77 (79)
T 1vq8_E            1 MPRVE---LEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSVDGDTVVIESDEDNAKTMSTIGTFQSHIENMFHGV   77 (79)
T ss_dssp             -CEEE---EECCTTCEEEEETTEEEEEETTEEEEEECCCTTCEEEEETTEEEEECSCCSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCC---EECCCCCEEEEECCEEEEECCCEEEEEEECCCCEEEEECCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             98665---618999789997999999848989999914885799983988998427664236789999999887788873


Q ss_pred             CE
Q ss_conf             10
Q gi|254780246|r   80 TK   81 (177)
Q Consensus        80 t~   81 (177)
                      |+
T Consensus        78 tk   79 (79)
T 1vq8_E           78 TE   79 (79)
T ss_dssp             HT
T ss_pred             CC
T ss_conf             00


No 16 
>>3jyw_H 60S ribosomal protein L9(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_H (H:1-79)
Probab=99.84  E-value=4.3e-22  Score=148.15  Aligned_cols=77  Identities=31%  Similarity=0.534  Sum_probs=71.7

Q ss_pred             CCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECC--CEEEEEECCEEEEEECCCCCCCHHHHHHHHHEEEEEEEECCE
Q ss_conf             46451079975899979989999069469998268--639997075899850554322013388875211258975110
Q gi|254780246|r    5 GKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSD--GISVTLQEGMLSVATINGSKKARAAWGMSRTMINNLFHGVTK   81 (177)
Q Consensus         5 gk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~--~v~i~~~~~~i~i~~~~~~k~~ka~~GT~rsli~Nmi~GVt~   81 (177)
                      .|+||.||++|+|+++++.++|+||+|+|++.|++  .+.+..+++.+.+.+++++++++|||||+||||+|||+|||+
T Consensus         1 sk~pI~IP~~V~v~i~~~~i~vkGp~G~ls~~~~~~~~~~~~~~~~~i~v~~~~~~kk~~a~~GT~rslI~Nmi~GVTe   79 (79)
T 3jyw_H            1 TEQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLKHIDVTFTKVNNQLIKVAVHNGGRKHVAALRTVKSLVDNMITGVTK   79 (79)
T ss_dssp             CEEEECCCTTCEEEEETTEEEEECSSCEEEEECCCSSCBCCCEETTEEEEECSCCCHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCEECCCCCEEEEECCEEEEECCCEEEEEEECCCCEEEEECCCCEEEEEECCCCHHHHHHHHHHHHHHHHEEEEEEC
T ss_conf             9960377999899997999999868989999945885789993898799970787577898899999987412340123


No 17 
>>1vq8_E 50S ribosomal protein L6P; 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} (E:80-178)
Probab=99.81  E-value=1.2e-19  Score=133.88  Aligned_cols=90  Identities=24%  Similarity=0.312  Sum_probs=82.6

Q ss_pred             EEEEEEEEE--CCCCEEEECCCEEEE--EECCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCC
Q ss_conf             037778740--476301220424999--9515676552588503899769988999957998987999874100747985
Q gi|254780246|r   82 GYERKLEIS--GVGCRAFMDGRNLKM--SLGFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPY  157 (177)
Q Consensus        82 Gf~~~L~lv--gvgy~v~~~g~~l~l--~LG~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepY  157 (177)
                      ||+|+|+++  |||+.+.++|+.+++  +||+..++.+.+++||++++.+ ++|+|+|+|+|.|+|+||+|++.++.   
T Consensus         1 Gf~Ykmk~vYaHFPi~v~v~g~~v~I~NFlGEK~~R~~~i~~gv~v~~~k-deiii~G~d~E~VsqtAA~I~qat~v---   76 (99)
T 1vq8_E            1 GWEYGMEVFYSHFPMQVNVEGDEVVIENFLGEKAPRRTTIHGDTDVEIDG-EELTVSGPDIEAVGQTAADIEQLTRI---   76 (99)
T ss_dssp             CEEEEEEEECSSSCCEEEEETTEEEEESGGGCSSCEEEECCTTCEEEEET-TEEEEEESCHHHHHHHHHHHHHTTCC---
T ss_pred             CEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCEEEECCCCCEEEECC-CEEEEEECCHHHHHHHHHHHHCCCCC---
T ss_conf             34899999988740046427871456012564032466668985356647-65999958999998999997447999---


Q ss_pred             CCCCE--EECCEEEEEEECC
Q ss_conf             78743--4537099971056
Q gi|254780246|r  158 KGKGI--RYSGEVIIRKEGK  175 (177)
Q Consensus       158 KGKgI--~~~~e~I~~KegK  175 (177)
                      |+||+  |+||+||..|...
T Consensus        77 k~kD~R~FlDGIYv~eK~~i   96 (99)
T 1vq8_E           77 NDKDVRVFQDGVYITRKPNR   96 (99)
T ss_dssp             SSSCTTTCCCEEEEEECC--
T ss_pred             CCCCCEEEECCEEEEECCCC
T ss_conf             99971184378899986887


No 18 
>>2zkr_e 60S ribosomal protein L9; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (e:87-192)
Probab=99.79  E-value=8.2e-19  Score=129.09  Aligned_cols=89  Identities=24%  Similarity=0.256  Sum_probs=79.4

Q ss_pred             EEEEEEEEE--CCCCEEEEC--CCEEEE--EECCCCCCCCCCCCEEEEEEC--CCCEEEEEECCHHHHHHHHHHHHCCCC
Q ss_conf             037778740--476301220--424999--951567655258850389976--998899995799898799987410074
Q gi|254780246|r   82 GYERKLEIS--GVGCRAFMD--GRNLKM--SLGFSHDVLYTPLEGISIFVS--KPTEIIVSGIDKQKVGHVAAEIRSYRS  153 (177)
Q Consensus        82 Gf~~~L~lv--gvgy~v~~~--g~~l~l--~LG~sh~i~~~ip~~v~v~~~--k~~~I~i~G~dke~Vgq~AA~Ir~~r~  153 (177)
                      ||+|+|+++  |||+.+.++  |+.+.+  +||+..++.+.+++||+++..  .+++|+|+|+|+|.|||+||+|++.++
T Consensus         1 Gf~Ykmk~vYaHFPi~v~v~~~g~~veI~NFlGEK~~R~~~i~~gv~v~~~~~~kdeiii~G~d~E~VsqtAA~I~qat~   80 (106)
T 2zkr_e            1 GFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGEKYIRRVRMRPGVACSVSQAQKDELILEGNDIELVSNSAALIQQATT   80 (106)
T ss_dssp             CEEEEEEEECSSSCCEEEECTTCSEEEEESGGGCSSCEEEECCSSCEEEECSSCSSEEEEEESCHHHHHHHHHHHHHHTC
T ss_pred             EEEEEEEEEEECCHHHEEECCCCCEEEEEEEEEEEEEECCCCCCCCCEEEEECCCCEEEEEECCHHHHHHHHHHCCCCCC
T ss_conf             18999999885460627751688379998886202621002579820577606896799995689999799986489975


Q ss_pred             CCCCCCCCE--EECCEEEEEEE
Q ss_conf             798578743--45370999710
Q gi|254780246|r  154 AEPYKGKGI--RYSGEVIIRKE  173 (177)
Q Consensus       154 pepYKGKgI--~~~~e~I~~Ke  173 (177)
                      .   |+||+  |+||+||..|.
T Consensus        81 v---k~kD~R~FlDGIYv~eK~   99 (106)
T 2zkr_e           81 V---KNKDIRKFLDGIYVSEKG   99 (106)
T ss_dssp             C---SSSCTTTCCCEEEEEEC-
T ss_pred             C---CCCCCCEEECCEEEEEEE
T ss_conf             1---799842600677999973


No 19 
>>3jyw_H 60S ribosomal protein L9(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_H (H:80-179)
Probab=99.75  E-value=8.8e-19  Score=128.91  Aligned_cols=88  Identities=22%  Similarity=0.260  Sum_probs=76.5

Q ss_pred             EEEEEEEEE--CCCCEEEEC----CCEEEE--EECCCCCCCCCCCCEEEEEEC--CCCEEEEEECCHHHHHHHHHHHHCC
Q ss_conf             037778740--476301220----424999--951567655258850389976--9988999957998987999874100
Q gi|254780246|r   82 GYERKLEIS--GVGCRAFMD----GRNLKM--SLGFSHDVLYTPLEGISIFVS--KPTEIIVSGIDKQKVGHVAAEIRSY  151 (177)
Q Consensus        82 Gf~~~L~lv--gvgy~v~~~----g~~l~l--~LG~sh~i~~~ip~~v~v~~~--k~~~I~i~G~dke~Vgq~AA~Ir~~  151 (177)
                      ||+|+|+++  |||+.+.++    |+.+++  +||+.+++.+.+++||++++.  .+++|+|+|+|+|.|+|+||+|++.
T Consensus         1 Gf~Ykmk~vYaHFPi~v~v~~~e~g~~veI~NFlGEK~~R~~~i~~gv~v~v~~~~kDeiiieG~d~E~VsqtAA~I~qa   80 (100)
T 3jyw_H            1 GYKYKMRYVYAHFPINVNIVEKDGAKFIEVRNFLGDKKIRNVPVRDGVTIEFSTNVKDEIVLSGNSVEDVSQNAADLQQI   80 (100)
T ss_dssp             CCCCEEEEECSSSCCEEECTTTTCSSEEEEESSTTCSSCEEEECCSSBCCEECSSSCSEEECCBSCSHHHHHHHHHHHHT
T ss_pred             CEEEEEEEEEEEEEEEEEEECCCCCCCEEEEEECCCCCEEEECCCCCEEEEECCCCCCEEEEEECCHHHHHHHHHHCCCC
T ss_conf             58999999886367899870045776238998406663078558998199986799989999967999986999873799


Q ss_pred             CCCCCCCCCCE--EECCEEEEEE
Q ss_conf             74798578743--4537099971
Q gi|254780246|r  152 RSAEPYKGKGI--RYSGEVIIRK  172 (177)
Q Consensus       152 r~pepYKGKgI--~~~~e~I~~K  172 (177)
                      ++.   |+||+  |+||+||..|
T Consensus        81 t~v---k~kD~R~FlDGIYv~eK  100 (100)
T 3jyw_H           81 CRV---RNKDIRKFLDGIYVSHK  100 (100)
T ss_dssp             TCS---CSSCTTTCCCEEEEEEC
T ss_pred             CCC---CCCCCCEEECCEEEEEC
T ss_conf             752---79985370067899839


No 20 
>>3kd4_A Putative protease; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 2.00A {Parabacteroides distasonis atcc 8503} (A:367-506)
Probab=63.53  E-value=8.1  Score=18.64  Aligned_cols=26  Identities=15%  Similarity=0.344  Sum_probs=10.7

Q ss_pred             CCCCCCCEEEEECCEEEEEECCCEEE
Q ss_conf             10799758999799899990694699
Q gi|254780246|r    9 IQVPLGVDVAVEDHEIKVKGPKGQLS   34 (177)
Q Consensus         9 I~IP~~V~v~i~~~~i~vkGp~G~l~   34 (177)
                      |.||+|.+|+--.....++.+.|+.+
T Consensus        65 i~lP~Gy~v~~lP~~~~i~~~~g~~~   90 (140)
T 3kd4_A           65 VTPAEGXKLQTSTQEQVISKPFGKVT   90 (140)
T ss_dssp             EEECTTCEECSCCSCEEEEETTEEEE
T ss_pred             EECCCCCEEEECCCCEEEECCCEEEE
T ss_conf             99689988750799816857976899


No 21 
>>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta fold and the C-terminal all beta domain., structural genomics, PSI-2; 2.00A {Nostoc SP} (A:298-374)
Probab=45.86  E-value=21  Score=16.29  Aligned_cols=48  Identities=13%  Similarity=0.212  Sum_probs=36.9

Q ss_pred             CCCCEEEEECCEEEEEECCCEEEEEECCC-----E-EEEEECCEEEEEECCCCC
Q ss_conf             99758999799899990694699982686-----3-999707589985055432
Q gi|254780246|r   12 PLGVDVAVEDHEIKVKGPKGQLSFMMSDG-----I-SVTLQEGMLSVATINGSK   59 (177)
Q Consensus        12 P~~V~v~i~~~~i~vkGp~G~l~~~~~~~-----v-~i~~~~~~i~i~~~~~~k   59 (177)
                      ++++++++.++.++|+...-.-++.++..     + +...++|-+.+.......
T Consensus        21 ~edi~V~~~~~~L~I~~g~~~R~i~LP~~i~~~~i~~A~~~~GvL~I~~pK~~~   74 (77)
T 3igf_A           21 KKQVKLTQYGPEVTVEAGDQRRNIFLPPALSGRPITGAKFQNNYLIISFLEHHH   74 (77)
T ss_dssp             GGGCEEEEETTEEEEEETTEEEEEECCTTTTTCCEEEEEEETTEEEEEECCC--
T ss_pred             HHHCEEEEECCEEEEEECCEECCCCCCHHHCCCCCCCEEEECCEEEEEEEECCC
T ss_conf             677179998988999989998033498788278665249989989999984256


No 22 
>>2wj7_A Alpha-crystallin B chain; desmin-related myopathy, phosphoprotein, disease mutation, eye lens protein, methylation, polymorphism, glycoprotein; 2.63A {Homo sapiens} (A:22-65)
Probab=43.10  E-value=16  Score=16.87  Aligned_cols=18  Identities=33%  Similarity=0.440  Sum_probs=15.1

Q ss_pred             CCCCEEEEECCEEEEEEC
Q ss_conf             997589997998999906
Q gi|254780246|r   12 PLGVDVAVEDHEIKVKGP   29 (177)
Q Consensus        12 P~~V~v~i~~~~i~vkGp   29 (177)
                      |++++|.+.++.|.|.|.
T Consensus         2 Peei~Vkv~~~~l~V~gk   19 (44)
T 2wj7_A            2 PEELKVKVLGDVIEVHGK   19 (44)
T ss_dssp             GGGEEEEEETTEEEEEEE
T ss_pred             HHHEEEEEECCEEEEEEE
T ss_conf             799699998998999999


No 23 
>>3d1g_A DNA polymerase III subunit beta; chemical probe, DNA sliding clamp, DNA replication, rational drug design, antibiotic target, transferase; HET: DNA 322; 1.64A {Escherichia coli} (A:1-131,A:198-244)
Probab=37.76  E-value=28  Score=15.54  Aligned_cols=48  Identities=15%  Similarity=0.320  Sum_probs=35.9

Q ss_pred             CCCCCCCCCCCEEEEECCEEEEEECCCEEEEEECCCEE-EE-EECCEEEEEE
Q ss_conf             46451079975899979989999069469998268639-99-7075899850
Q gi|254780246|r    5 GKKAIQVPLGVDVAVEDHEIKVKGPKGQLSFMMSDGIS-VT-LQEGMLSVAT   54 (177)
Q Consensus         5 gk~~I~IP~~V~v~i~~~~i~vkGp~G~l~~~~~~~v~-i~-~~~~~i~i~~   54 (177)
                      .|.++.|-+++-++.+++.+++.+--+++....  .+. .+ .+++.+.+.+
T Consensus        23 ~k~~~pil~~ilie~~~~~l~l~atd~ei~i~~--~i~~~~i~e~G~i~v~a   72 (178)
T 3d1g_A           23 GRPTLPILGNLLLQVADGTLSLTGTDLEMEMVA--RVALVQPHEPGATTVPA   72 (178)
T ss_dssp             SCCCSGGGGEEEEEEETTEEEEEEECSSEEEEE--EEECCSCCBCEEEEEEH
T ss_pred             CCCCHHHHCCEEEEEECCEEEEEEECCCEEEEE--EECCCEECCCCEEEEEE
T ss_conf             898637870889999899999999888559999--98142104573699800


No 24 
>>3eat_X Pyoverdine biosynthesis protein PVCB; paerucumarin, Fe/alpha-ketoglutarate dependent hydroxylase, 2-isocyano-6,7-dihydroxycoumarin; 2.50A {Pseudomonas aeruginosa} (X:146-238)
Probab=36.37  E-value=25  Score=15.75  Aligned_cols=44  Identities=20%  Similarity=0.249  Sum_probs=32.1

Q ss_pred             CCCCCCCCCCCCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCC
Q ss_conf             15676552588503899769988999957998987999874100
Q gi|254780246|r  108 GFSHDVLYTPLEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSY  151 (177)
Q Consensus       108 G~sh~i~~~ip~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~  151 (177)
                      |+.-.|+.+.|..-+....++..+.+.|++-+....++..+++.
T Consensus        46 g~p~lRy~EP~~~~~~~flnp~~v~i~Gi~~~e~~~l~~~L~~~   89 (93)
T 3eat_X           46 EFPILRFCEPPVEGDASFINPSEFHYDGIAPEQRGELLASLRRC   89 (93)
T ss_dssp             CCEEECCCCCC----------CCEEEESSCTTTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCEEEEECCCCEEECCCCHHHHHHHHHHHHHH
T ss_conf             76148972699886256406661344488878989999999999


No 25 
>>2jug_A TUBC protein; docking domain, dimer, nonribosomal peptide synthetase, tubulysin, ligase, phosphopantetheine, biosynthetic protein; NMR {Angiococcus disciformis} (A:)
Probab=28.18  E-value=31  Score=15.22  Aligned_cols=23  Identities=30%  Similarity=0.580  Sum_probs=16.4

Q ss_pred             CCCEEEEECCEEEEEECCCEEEE
Q ss_conf             97589997998999906946999
Q gi|254780246|r   13 LGVDVAVEDHEIKVKGPKGQLSF   35 (177)
Q Consensus        13 ~~V~v~i~~~~i~vkGp~G~l~~   35 (177)
                      .||.+.+++..+.+.+|.|.++-
T Consensus        17 ~gI~L~~e~~kL~~~ap~g~lt~   39 (78)
T 2jug_A           17 LGVRLWVEGERLRFQAPPGVMTP   39 (78)
T ss_dssp             HTCEEEEETTEEEEECCTTTTCH
T ss_pred             CCCEEEEECCEEEEECCCCCCCH
T ss_conf             89889998999889678777999


No 26 
>>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein, cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum pernix} (A:148-235)
Probab=25.92  E-value=44  Score=14.35  Aligned_cols=42  Identities=14%  Similarity=0.127  Sum_probs=35.7

Q ss_pred             CEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             503899769988999957998987999874100747985787
Q gi|254780246|r  119 EGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGK  160 (177)
Q Consensus       119 ~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGK  160 (177)
                      .++++.++..+.+++.+.+.+.|-...+.|+..-....|.|.
T Consensus        30 tg~~I~i~~~~~v~i~~g~~~~v~~A~~~I~~i~~e~~~~~~   71 (88)
T 2z0s_A           30 TECKIFVARNGRIHLECPNEDLEAIAVMAIKIIDEEAYTSGL   71 (88)
T ss_dssp             HCCEEEEETTTEEEEECSCHHHHHHHHHHHHHHHHCSCCTTC
T ss_pred             CCEEEEEECCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             785999918908999748889999999999999874436518


No 27 
>>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} (I:156-251)
Probab=25.79  E-value=19  Score=16.46  Aligned_cols=45  Identities=22%  Similarity=0.203  Sum_probs=38.9

Q ss_pred             CCEEEEEECCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCE
Q ss_conf             850389976998899995799898799987410074798578743
Q gi|254780246|r  118 LEGISIFVSKPTEIIVSGIDKQKVGHVAAEIRSYRSAEPYKGKGI  162 (177)
Q Consensus       118 p~~v~v~~~k~~~I~i~G~dke~Vgq~AA~Ir~~r~pepYKGKgI  162 (177)
                      --++++.+++...+.+.+.+.+.+-...+.|+.+-...+|.|+=.
T Consensus        28 ~tg~~I~i~~~~~~~~i~g~~~~~~~A~~~I~~~~~~~~~~~~v~   72 (96)
T 2je6_I           28 KSGCSIFVANNGRIWATCPSRFSEEILIEAIRKIENESHIKGLTD   72 (96)
T ss_dssp             TC---CEECTTSEEEC-----CTTCCTHHHHTTTTTTTTCC----
T ss_pred             CCCEEEEECCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHCCHHH
T ss_conf             736899976635799714881056899999997651554235578


No 28 
>>2bol_A TSP36, small heat shock protein; A-crystallin, molecular chaperone; 2.5A {Taenia saginata} (A:95-190)
Probab=25.03  E-value=46  Score=14.26  Aligned_cols=44  Identities=14%  Similarity=0.314  Sum_probs=24.1

Q ss_pred             CCCCEEEEECCEEEEEECCC----------EE--EEEECC-----CEEEEE-ECCEEEEEEC
Q ss_conf             99758999799899990694----------69--998268-----639997-0758998505
Q gi|254780246|r   12 PLGVDVAVEDHEIKVKGPKG----------QL--SFMMSD-----GISVTL-QEGMLSVATI   55 (177)
Q Consensus        12 P~~V~v~i~~~~i~vkGp~G----------~l--~~~~~~-----~v~i~~-~~~~i~i~~~   55 (177)
                      |++++|+++++.+++.|...          +.  ++.|+.     .++... +|+.+.+...
T Consensus        31 ~edi~v~~~~~~l~i~~~~~~~~~~~~~~~~f~r~~~LP~~vd~~~i~A~~~~nGvL~I~~p   92 (96)
T 2bol_A           31 AEEITIKADKNKLVVRAQKSVACGDAAMSESVGRSIPLPPSVDRNHIQATITTDDVLVIEAP   92 (96)
T ss_dssp             TTTEEEEEETTEEEEEECCBSSTTCCCBCCCEEEEEECCTTBCGGGCEEEECSSSEEEEEEE
T ss_pred             HHHCEEEEECCEEEEEEEEEEECCCCEEEEEEEEEEECCCCCCHHHEEEEECCCCEEEEEEC
T ss_conf             56719999999999999980127898899999999989876474477999768975999967


No 29 
>>3hhd_A Fatty acid synthase; transferase, multienzyme, megasynthase, fatty acid synthesis, acetylation, cytoplasm, fatty acid biosynthesis, hydrolase; 2.15A {Homo sapiens} PDB: 2jfk_A* 2jfd_A (A:617-685,A:744-752)
Probab=22.31  E-value=52  Score=13.94  Aligned_cols=38  Identities=13%  Similarity=0.121  Sum_probs=29.7

Q ss_pred             CCCCCCCEEEEEECC-CCEEEEEECCHHHHHHHHHHHHCC
Q ss_conf             552588503899769-988999957998987999874100
Q gi|254780246|r  113 VLYTPLEGISIFVSK-PTEIIVSGIDKQKVGHVAAEIRSY  151 (177)
Q Consensus       113 i~~~ip~~v~v~~~k-~~~I~i~G~dke~Vgq~AA~Ir~~  151 (177)
                      +.-.+++++.+-+.+ |+..+|+| +.+.+.++.+.+++.
T Consensus        16 v~~~l~~~v~iA~~Nsp~q~VisG-~~~~i~~l~~~l~~~   54 (78)
T 3hhd_A           16 CKQRCPPGVVPACHNSKDTVTISG-PQAPVFEFVEQLRKE   54 (78)
T ss_dssp             HHHHCCTTCEEEEEEETTEEEEEE-EHHHHHHHHHHHHHT
T ss_pred             HHHHCCCCEEEEEECCCCEEEEEC-CHHHHHHHHHHHHHC
T ss_conf             997655881896764898699989-789999999888866


Done!