Query         gi|254780250|ref|YP_003064663.1| 50S ribosomal protein L24 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 102
No_of_seqs    104 out of 1662
Neff          5.0 
Searched_HMMs 23785
Date          Tue May 24 03:47:53 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780250.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2ftc_N Mitochondrial ribosomal 100.0 1.1E-40 4.2E-45  240.1  12.4   94    7-100     1-96  (96)
  2 2zjr_R 50S ribosomal protein L 100.0 2.7E-42       0  248.9   0.2  100    2-101    14-115 (115)
  3 3bbo_W Ribosomal protein L24;  100.0 1.5E-42       0  250.2  -5.0  100    2-101    67-169 (191)
  4 2j01_Y 50S ribosomal protein L 100.0 1.3E-42       0  250.6  -6.9  101    2-102     5-108 (110)
  5 3ofq_U 50S ribosomal protein L 100.0 1.6E-41       0  244.7  -7.1   98    2-100     2-102 (102)
  6 1vq8_T 50S ribosomal protein L  99.9 2.3E-24 9.8E-29  151.4   6.3   72    2-83     41-113 (120)
  7 2wwb_L 60S ribosomal protein L  99.9 2.5E-22 1.1E-26  140.4   5.1   64    2-75     48-111 (127)
  8 2zkr_t 60S ribosomal protein L  99.3   1E-11 4.3E-16   82.8   7.6   63    2-74     47-110 (145)
  9 1nz9_A Transcription antitermi  96.7  0.0019   8E-08   37.8   4.8   34    4-37      5-38  (58)
 10 2ckk_A KIN17; beta barrel, rib  96.3  0.0044 1.9E-07   35.9   4.6   33    5-37     72-104 (127)
 11 2jvv_A Transcription antitermi  96.0  0.0073 3.1E-07   34.7   4.6   35    3-37    127-161 (181)
 12 2do3_A Transcription elongatio  95.9  0.0071   3E-07   34.7   4.4   32    2-35     16-47  (69)
 13 2joy_A 50S ribosomal protein L  94.0    0.04 1.7E-06   30.7   3.6   37    1-38      1-37  (96)
 14 1m1h_A Transcription antitermi  93.9  0.0081 3.4E-07   34.4   0.0   35    3-37    194-228 (248)
 15 2e6z_A Transcription elongatio  88.1    0.19 8.1E-06   27.0   2.0   31    4-36      8-38  (59)
 16 3kbg_A 30S ribosomal protein S  68.2     4.6 0.00019   19.5   3.7   29    3-31    138-166 (213)
 17 2e70_A Transcription elongatio  66.8     5.5 0.00023   19.0   3.9   33    6-38     20-52  (71)
 18 2zkr_q 60S ribosomal protein L  63.2     2.9 0.00012   20.6   1.9   54    1-54     31-104 (160)
 19 2zzd_A Thiocyanate hydrolase s  52.1      12 0.00052   17.2   3.7   25    3-27     36-70  (126)
 20 3dcl_A TM1086; SAD, structural  46.2      15 0.00065   16.6   5.0   33    5-37     85-117 (284)
 21 1vq8_Q 50S ribosomal protein L  38.1      21 0.00087   15.9   3.9   34    1-36     31-74  (96)
 22 1ugp_B NitrIle hydratase beta   37.5      21 0.00089   15.9   3.7   26    3-28    138-173 (226)
 23 3kw2_A Probable R-RNA methyltr  34.9      23 0.00099   15.6   4.0   37    2-38     31-67  (257)
 24 3hht_B NitrIle hydratase beta   34.5      24   0.001   15.6   3.7   52    3-71    141-202 (229)
 25 3jyw_Q 60S ribosomal protein L  29.8     8.4 0.00035   18.1  -0.2   37    1-37     30-76  (116)
 26 1b34_A Protein (small nuclear   26.9      28  0.0012   15.2   2.1   24    9-32     14-37  (119)
 27 2exd_A NFED short homolog; mem  24.8      36  0.0015   14.6   2.4   24   18-41     17-40  (80)
 28 1vhy_A Hypothetical protein HI  21.0      43  0.0018   14.2   3.9   35    2-36     34-68  (257)
 29 3a8g_B NitrIle hydratase subun  20.3      44  0.0019   14.1   3.0   23    3-25    122-154 (212)

No 1  
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_N
Probab=100.00  E-value=1.1e-40  Score=240.06  Aligned_cols=94  Identities=34%  Similarity=0.563  Sum_probs=91.3

Q ss_pred             CCEEEEEECCCCCCEEEEEEEECCCCEEEEECEEEEEEEECCCCCCCCEEEEEEECCCHHHEEEECC-CCCEEEEEEEE-
Q ss_conf             8699998437888646999997469989990605974320577765651799970468665788978-99622889999-
Q gi|254780250|r    7 GDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEASIHLSNLSLIDK-DGKQVRVGFSF-   84 (102)
Q Consensus         7 GD~V~VisGkdKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~~~~~gGii~~E~pIh~SNV~lvd~-~~k~trv~~~~-   84 (102)
                      ||+|+||||+||||+|+|++|++++|+|+|||+||++||++|+++++|||+++|+|||+|||||+|| +++|||++|++ 
T Consensus         1 GD~V~VisGkdKGk~G~Vl~V~~~~~~ViVeGvN~~kkh~k~~~~~~Ggii~~E~pIh~SNV~lvd~~~~k~trv~~~~~   80 (96)
T 2ftc_N            1 GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTHYRYIGKTMDYRGTMIPSEAPLLHRQVKLVDPMDRKPTEIEWRFT   80 (96)
T ss_pred             CCEEEEEECCCCCCCEEEEEEECCCCEEEEECEEEEEEECCCCCCCCCCEEEEECCEEHHHEEEEECCCCCCEEEEEEEC
T ss_conf             99999906898997079999998689999946599988258777678878998847873537798088999589999998


Q ss_pred             ECCEEEEEECCCCCEE
Q ss_conf             9997999981568771
Q gi|254780250|r   85 VDGKKIRIAKRSGEPI  100 (102)
Q Consensus        85 ~dG~kvRv~kksg~~i  100 (102)
                      +||+|+|+|++||++|
T Consensus        81 edG~KvRv~kksG~~I   96 (96)
T 2ftc_N           81 EAGERVRVSTRSGRII   96 (96)
T ss_pred             CCCCEEEEEECCCCCC
T ss_conf             7996999990468789


No 2  
>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V
Probab=100.00  E-value=2.7e-42  Score=248.86  Aligned_cols=100  Identities=37%  Similarity=0.663  Sum_probs=96.4

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEECEEEEEEEECCCC-CCCCEEEEEEECCCHHHEEEECC-CCCEEE
Q ss_conf             7226586999984378886469999974699899906059743205777-65651799970468665788978-996228
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP-NKEAGIISKEASIHLSNLSLIDK-DGKQVR   79 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~~-~~~gGii~~E~pIh~SNV~lvd~-~~k~tr   79 (102)
                      ++|++||+|+||||+|||++|+|++|++++|+|+|||+|++++|++|++ +++|||+++|+|||+|||||+|| +++|+|
T Consensus        14 ~kikkGD~V~VisGkdKGK~G~Vl~V~~k~n~ViVeGvN~~kkh~Kp~~~~~~Ggii~~E~pIh~SNV~lvdp~~~k~~r   93 (115)
T 2zjr_R           14 LHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASKVALVDPETGKATR   93 (115)
T ss_dssp             CSSCTTSEEECCSSSSTTCEEEEEEEETTTTEEEESSSCBCCCCCCTTSSSCCCCCCCBCCCBCSSSEECBSSSSBCCCC
T ss_pred             EEEECCCEEEEEECCCCCCCEEEEEEECCCCEEEEECCEEEEEECCCCCCCCCCCEEEEECCEEHHHEEEECCCCCCCEE
T ss_conf             02317999999155789971789999888999999685699985177766788867888836986778888587899528


Q ss_pred             EEEEEECCEEEEEECCCCCEEC
Q ss_conf             8999999979999815687715
Q gi|254780250|r   80 VGFSFVDGKKIRIAKRSGEPID  101 (102)
Q Consensus        80 v~~~~~dG~kvRv~kksg~~id  101 (102)
                      ++|+++||+|+|||++||++||
T Consensus        94 v~~~~~dG~KvR~~kksg~~Id  115 (115)
T 2zjr_R           94 VRKQIVDGKKVRVAVASGKTID  115 (115)
T ss_dssp             CCCCCSCTTSCCCCSSSCCC--
T ss_pred             EEEEEECCEEEEEEECCCCCCC
T ss_conf             9999929969999925787249


No 3  
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=100.00  E-value=1.5e-42  Score=250.21  Aligned_cols=100  Identities=31%  Similarity=0.531  Sum_probs=95.7

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEECEEEEEEEECCCC-CCCCEEEEEEECCCHHHEEEECC-CCCEEE
Q ss_conf             7226586999984378886469999974699899906059743205777-65651799970468665788978-996228
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP-NKEAGIISKEASIHLSNLSLIDK-DGKQVR   79 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~~-~~~gGii~~E~pIh~SNV~lvd~-~~k~tr   79 (102)
                      |+||+||+|+||+|+||||+|+|++|++++|+|+|||+|+++||+||++ +++|||+++|+|||+|||||+|| +++|||
T Consensus        67 ~~IKkGD~V~VIsGkDKGK~G~Vl~V~~k~n~ViVeGvN~~kKHvKp~~~~~~GgIi~~E~PIhiSNV~Lvdp~~~k~tR  146 (191)
T 3bbo_W           67 RHVKVGDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIEAAIHSSNVMLILKEQEVADR  146 (191)
T ss_dssp             CCSCCSSCEEECSSSSTTCCCSCCCCCSSSCCCCCSSCCCCCCBCCSCCSSSCCBSSCCCCCCCGGGEEECSSSSCCCCC
T ss_pred             EECCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEECCEEEEEECCCCCCCCCCCEEEEECCCCHHHEEEECCCCCCCEE
T ss_conf             00158999999256899943279899867999999696889874177656778852778756607886787688998438


Q ss_pred             EEEEE-ECCEEEEEECCCCCEEC
Q ss_conf             89999-99979999815687715
Q gi|254780250|r   80 VGFSF-VDGKKIRIAKRSGEPID  101 (102)
Q Consensus        80 v~~~~-~dG~kvRv~kksg~~id  101 (102)
                      |+|++ +||+|||||++||++||
T Consensus       147 Vg~k~~edGkKVRv~kktG~~Id  169 (191)
T 3bbo_W          147 VGHKILEDVRKVRYLIKTGEIVD  169 (191)
T ss_dssp             CCCCSSSCCCCCSSSCCSSSCCC
T ss_pred             EEEEECCCCCEEEEEECCCCCCC
T ss_conf             89999779959999925898248


No 4  
>2j01_Y 50S ribosomal protein L24; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: b.34.5.1 PDB: 1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y 2jl8_Y 2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y 2wh4_Y 2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ...
Probab=100.00  E-value=1.3e-42  Score=250.59  Aligned_cols=101  Identities=42%  Similarity=0.631  Sum_probs=96.3

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEECEEEEEEEECCCC-CCCCEEEEEEECCCHHHEEEECC-CCCEEE
Q ss_conf             7226586999984378886469999974699899906059743205777-65651799970468665788978-996228
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP-NKEAGIISKEASIHLSNLSLIDK-DGKQVR   79 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~~-~~~gGii~~E~pIh~SNV~lvd~-~~k~tr   79 (102)
                      ++|++||+|+||||+||||+|+|++|++++|+|+|||+|+++||+||++ +++|||+++|+|||+|||||+|| +++|||
T Consensus         5 ~kikkGD~V~VisGkdKGK~G~Vl~V~~~~~~ViVeGvN~~kkh~K~~~~~~~Ggii~~E~PIh~SNV~lvd~~~~k~tr   84 (110)
T 2j01_Y            5 MHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKEAPLHASKVRPICPACGKPTR   84 (110)
T ss_dssp             CCSCCSSCEECCSSTTSSCCBSCCCCCCTTCBCCTTSCCCCCCCCCSCCCSSCCCSSCCCCCCBGGGCEECSSSSCCCCC
T ss_pred             CEEECCCEEEEEECCCCCCEEEEEEEECCCCEEEEECCEEEEECCCCCCCCCCCCEEEEECCEEHHHEEEEECCCCCCEE
T ss_conf             48757999999168889971789999898999999783756530267777889868999836726767898288999579


Q ss_pred             EEEEE-ECCEEEEEECCCCCEECC
Q ss_conf             89999-999799998156877159
Q gi|254780250|r   80 VGFSF-VDGKKIRIAKRSGEPIDG  102 (102)
Q Consensus        80 v~~~~-~dG~kvRv~kksg~~id~  102 (102)
                      ++|++ +||+|+|||++||++||-
T Consensus        85 v~~k~~e~G~kvRv~kksg~~id~  108 (110)
T 2j01_Y           85 VRKKFLENGKKIRVCAKCGGALDT  108 (110)
T ss_dssp             EECTTSSCEECCTTTCC-------
T ss_pred             EEEEECCCCCEEEEEECCCCCCCC
T ss_conf             999996699499999457987367


No 5  
>3ofq_U 50S ribosomal protein L24; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 2j28_U* 3fik_U 2wwq_U 3ofr_U* 3i1n_U 1vs8_U 1vs6_U 1vt2_U 3i1p_U 3i1r_U 3i1t_U 3i20_U 3i22_U 3kcr_U 3orb_U* 3e1b_O 3e1d_O 2qam_U* 1p85_S 1p86_S ...
Probab=100.00  E-value=1.6e-41  Score=244.73  Aligned_cols=98  Identities=49%  Similarity=0.839  Sum_probs=92.8

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEECEEEEEEEECCC-C-CCCCEEEEEEECCCHHHEEEECC-CCCEE
Q ss_conf             722658699998437888646999997469989990605974320577-7-65651799970468665788978-99622
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQT-P-NKEAGIISKEASIHLSNLSLIDK-DGKQV   78 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~-~-~~~gGii~~E~pIh~SNV~lvd~-~~k~t   78 (102)
                      +||++||+|+||||+|||++|+|++|+++ |+|+|||+|+++||++|+ + +++|||+++|+|||+|||||+|| +++||
T Consensus         2 akIkkGD~V~VisGkdKGK~G~Vl~v~~~-~rviVeGvN~~kkH~Kp~~~~~~~Ggii~~E~pIhiSNV~lvd~~~~k~t   80 (102)
T 3ofq_U            2 AKIRRDDEVIVLTGKDKGKRGKVKNVLSS-GKVIVEGINLVKKHQKPVPALNQPGGIVEKEAAIQVSNVAIFNAATGKAD   80 (102)
T ss_dssp             CCSCSSCCBCCCSSSSCSCCBCCCCCCSS-SCCCCSSSSCCCBCCCCCSSSCCCCCCBCCCCCCCSTTCCBBCSSSSSBC
T ss_pred             CCCCCCCEEEEEECCCCCCCEEEEEEECC-CEEEEEEEEEEEEEECCCCCCCCCCCEEEEECCEEHHHEEEECCCCCCCE
T ss_conf             86317999999479889974589999589-96999752758885078877589986899986783778888828789846


Q ss_pred             EEEEEEECCEEEEEECCCCCEE
Q ss_conf             8899999997999981568771
Q gi|254780250|r   79 RVGFSFVDGKKIRIAKRSGEPI  100 (102)
Q Consensus        79 rv~~~~~dG~kvRv~kksg~~i  100 (102)
                      |++|+++||+|+|||++||++|
T Consensus        81 rv~~k~~dgkKvRv~kksg~~I  102 (102)
T 3ofq_U           81 RVGFRFEDGKKVRFFKSNSETI  102 (102)
T ss_dssp             CCCCCCSSSCCCCCCTTSCCCC
T ss_pred             EEEEEEECCEEEEEEECCCCCC
T ss_conf             8999998993999994479899


No 6  
>1vq8_T 50S ribosomal protein L24P; 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: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ...
Probab=99.90  E-value=2.3e-24  Score=151.45  Aligned_cols=72  Identities=25%  Similarity=0.329  Sum_probs=66.3

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEECEEEEEEEECCCCCCCCEEEEEEECCCHHHEEEECCC-CCEEEE
Q ss_conf             7226586999984378886469999974699899906059743205777656517999704686657889789-962288
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEASIHLSNLSLIDKD-GKQVRV   80 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~~~~~gGii~~E~pIh~SNV~lvd~~-~k~trv   80 (102)
                      ++|++||+|+||+|+|+|++|+|++|+++.++|+|||+|+.++|.+          +.|+|||+|||||+||. ++++|+
T Consensus        41 ~~IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~~rV~Vegvn~~k~~~k----------~~~~pIh~SNV~i~~~~~~~~~R~  110 (120)
T 1vq8_T           41 VRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDVTLEKTDGE----------EVPRPLDTSNVRVTDLDLEDEKRE  110 (120)
T ss_dssp             EECCTTCEEEECSSTTTTCEEEEEEEETTTTEEEETTCEEECSSSC----------EEECCBCGGGEEEEECCCCCHHHH
T ss_pred             CCEECCCEEEEEECCCCCCCCEEEEEECCCCEEEEECCEEEECCCC----------EEECCCCHHHEEEEECCCCCCHHH
T ss_conf             3150799999956676997532999986799999948289955897----------786434648889984767870476


Q ss_pred             EEE
Q ss_conf             999
Q gi|254780250|r   81 GFS   83 (102)
Q Consensus        81 ~~~   83 (102)
                      ++.
T Consensus       111 ~~l  113 (120)
T 1vq8_T          111 ARL  113 (120)
T ss_dssp             HHH
T ss_pred             HHH
T ss_conf             676


No 7  
>2wwb_L 60S ribosomal protein L26-A; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_L 2ww9_L 1s1i_U
Probab=99.85  E-value=2.5e-22  Score=140.38  Aligned_cols=64  Identities=28%  Similarity=0.317  Sum_probs=60.1

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEECEEEEEEEECCCCCCCCEEEEEEECCCHHHEEEECCCC
Q ss_conf             72265869999843788864699999746998999060597432057776565179997046866578897899
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEASIHLSNLSLIDKDG   75 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~~~~~gGii~~E~pIh~SNV~lvd~~~   75 (102)
                      +.|++||+|+|++|+|+|++|+|++|++++++|+|||+|+.++|.+|.          |+|||+|||+|+|+..
T Consensus        48 ~~IrkGD~V~Vi~G~~KGk~GkV~~V~~~~~kV~VEgvn~~K~~~k~~----------~~pIh~SNV~i~~~~~  111 (127)
T 2wwb_L           48 LPIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGASV----------PINLHPSKLVITKLHL  111 (127)
T ss_dssp             EECCTTSEEEECSSSSTTCEEEEEEEETTTTEEEESSCCCCBTTTBCC----------CCCBCGGGEEEEECCC
T ss_pred             CEEECCCEEEEEECCCCCCCCEEEEEECCCCEEEEECEEEEECCCCCE----------ECCCCCHHEEEEECCC
T ss_conf             106079999997743489413699998779999991838996389824----------2777635679993678


No 8  
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=99.27  E-value=1e-11  Score=82.78  Aligned_cols=63  Identities=29%  Similarity=0.388  Sum_probs=53.7

Q ss_pred             CCCCCCCEEEEEECCCCCCE-EEEEEEECCCCEEEEECEEEEEEEECCCCCCCCEEEEEEECCCHHHEEEECCC
Q ss_conf             72265869999843788864-69999974699899906059743205777656517999704686657889789
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKA-GQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEASIHLSNLSLIDKD   74 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~-G~V~~V~~k~~~ViVeGiN~~kkh~k~~~~~~gGii~~E~pIh~SNV~lvd~~   74 (102)
                      ..|++||+|+|+.|.++|++ |+|.+|++++.+|.|||+...+.        .|.  +...|||.|||++..-+
T Consensus        47 ~pVrkgD~V~V~RG~fkG~e~GKV~~V~~k~~~I~VEgvt~~K~--------dG~--~v~~pIhpSnv~ItkL~  110 (145)
T 2zkr_t           47 MPIRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQREKA--------NGT--TVHVGIHPSKVVITRLK  110 (145)
T ss_dssp             CBCCTTCEEEECSSTTTTCCSEEEEEEETTTTEEEETTCEEECS--------SCC--EEECCBCGGGEEECC-C
T ss_pred             EEECCCCEEEEEECCCCCCCCCEEEEEEECCCEEEECCEEEECC--------CCC--EEECCCCCCCEEEEEEC
T ss_conf             20136999999727978876867999980751999756689826--------997--76135275106999862


No 9  
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4
Probab=96.68  E-value=0.0019  Score=37.84  Aligned_cols=34  Identities=29%  Similarity=0.418  Sum_probs=31.5

Q ss_pred             CCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEE
Q ss_conf             2658699998437888646999997469989990
Q gi|254780250|r    4 IRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQ   37 (102)
Q Consensus         4 ikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVe   37 (102)
                      +..||.|.|++|...|-.|+|.++++.+.++.|.
T Consensus         5 F~~Gd~V~V~~GpF~g~~g~V~~i~~~~~rv~Vl   38 (58)
T 1nz9_A            5 FREGDQVRVVSGPFADFTGTVTEINPERGKVKVM   38 (58)
T ss_dssp             CCTTCEEEECSGGGTTCEEEEEEEETTTTEEEEE
T ss_pred             CCCCCEEEEECCCCCCCEEEEEEECCCCCEEEEE
T ss_conf             0699999990368999899999991889999999


No 10 
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens}
Probab=96.28  E-value=0.0044  Score=35.87  Aligned_cols=33  Identities=30%  Similarity=0.481  Sum_probs=30.3

Q ss_pred             CCCCEEEEEECCCCCCEEEEEEEECCCCEEEEE
Q ss_conf             658699998437888646999997469989990
Q gi|254780250|r    5 RTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQ   37 (102)
Q Consensus         5 kkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVe   37 (102)
                      ++|+.|.|+.|+++|.+|++++++.++..+.|+
T Consensus        72 k~g~~V~Vv~G~~rG~~g~L~~id~~~~~~~v~  104 (127)
T 2ckk_A           72 APGKRILVLNGGYRGNEGTLESINEKTFSATIV  104 (127)
T ss_dssp             CTTCEEEECSSTTTTCEEEEEEEEGGGTEEEEE
T ss_pred             CCCCEEEEEECCCCCCEEEEEEEECCCCEEEEE
T ss_conf             899979998467678589999993436889999


No 11 
>2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G
Probab=95.99  E-value=0.0073  Score=34.67  Aligned_cols=35  Identities=26%  Similarity=0.153  Sum_probs=31.4

Q ss_pred             CCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEE
Q ss_conf             22658699998437888646999997469989990
Q gi|254780250|r    3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQ   37 (102)
Q Consensus         3 kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVe   37 (102)
                      .+..||.|.|++|..+|-.|.|.+++..++++.|.
T Consensus       127 ~~~~Gd~V~I~~GPf~g~~g~v~~v~~~k~r~~V~  161 (181)
T 2jvv_A          127 LFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVS  161 (181)
T ss_dssp             CCCTTEEEEECSSTTTTEEEEEEEEETTTTEEEEE
T ss_pred             CCCCCCEEEEECCCCCCCEEEEEEEECCCCEEEEE
T ss_conf             10079889991368999689999980778999999


No 12 
>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5
Probab=95.94  E-value=0.0071  Score=34.74  Aligned_cols=32  Identities=28%  Similarity=0.484  Sum_probs=26.2

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEE
Q ss_conf             7226586999984378886469999974699899
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAF   35 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~Vi   35 (102)
                      ..++.||-|+||+|++.|.+|.|++|.  .+.|+
T Consensus        16 K~F~~GDHVkVi~G~~~GetGlVV~v~--~~~v~   47 (69)
T 2do3_A           16 KYFKMGDHVKVIAGRFEGDTGLIVRVE--ENFVI   47 (69)
T ss_dssp             SSCCTTCEEEESSSTTTTCEEEEEEEC--SSCEE
T ss_pred             EECCCCCEEEEECCEECCCCEEEEEEE--CCEEE
T ss_conf             513499838990656869757999996--99999


No 13 
>2joy_A 50S ribosomal protein L14E; protein solution structure, structural genomics, PSI-2, protein structure initiative; NMR {Sulfolobus solfataricus} SCOP: b.34.5.7 PDB: 2kds_A
Probab=94.01  E-value=0.04  Score=30.68  Aligned_cols=37  Identities=19%  Similarity=0.434  Sum_probs=33.7

Q ss_pred             CCCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEEC
Q ss_conf             97226586999984378886469999974699899906
Q gi|254780250|r    1 MEKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQG   38 (102)
Q Consensus         1 M~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeG   38 (102)
                      |.-+..|--|.+.+|.|+||...|+.++. .|+++|+|
T Consensus         1 m~~VEvGRVv~i~~G~~~GKl~vIvdiiD-~~rvLVdG   37 (96)
T 2joy_A            1 MPAIEVGRICVKVKGREAGSKCVIVDIID-DNFVLVTG   37 (96)
T ss_dssp             CCSSSTTEEEECSSSSTTCCEEEEEEECS-SSCEEEEC
T ss_pred             CCCEECCEEEEEEECCCCCCEEEEEEEEC-CCEEEEEC
T ss_conf             99564578999940787897899999977-98699978


No 14 
>1m1h_A Transcription antitermination protein NUSG; transcription termination, RNP motif, immunoglobulin fold, nucleic acid interaction; 1.95A {Aquifex aeolicus} SCOP: b.114.1.1 d.58.42.1 PDB: 1m1g_A 1npp_A 1npr_A
Probab=93.94  E-value=0.0081  Score=34.43  Aligned_cols=35  Identities=26%  Similarity=0.291  Sum_probs=30.5

Q ss_pred             CCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEE
Q ss_conf             22658699998437888646999997469989990
Q gi|254780250|r    3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQ   37 (102)
Q Consensus         3 kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVe   37 (102)
                      .+..||.|.|++|..+|-.|.|.+++..++++.|.
T Consensus       194 ~f~~Gd~V~I~~GPF~g~~G~V~eid~ek~rv~Vl  228 (248)
T 1m1h_A          194 EFEKGDQVRVIEGPFMNFTGTVEEVHPEKRKLTVM  228 (248)
T ss_dssp             -----------------------------------
T ss_pred             EECCCCEEEEEECCCCCCEEEEEEECCCCCEEEEE
T ss_conf             00179889994158999479999981888999999


No 15 
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=88.09  E-value=0.19  Score=26.97  Aligned_cols=31  Identities=23%  Similarity=0.367  Sum_probs=26.2

Q ss_pred             CCCCCEEEEEECCCCCCEEEEEEEECCCCEEEE
Q ss_conf             265869999843788864699999746998999
Q gi|254780250|r    4 IRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFV   36 (102)
Q Consensus         4 ikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViV   36 (102)
                      +..||.|.|+.|.-+|-+|+|.++...  .|.+
T Consensus         8 F~~GD~VeV~~GEl~~l~G~V~~v~~d--~Vti   38 (59)
T 2e6z_A            8 FQPGDNVEVCEGELINLQGKILSVDGN--KITI   38 (59)
T ss_dssp             CCTTSEEEECSSTTTTCEEEECCCBTT--EEEE
T ss_pred             CCCCCEEEEECCEECCCEEEEEEECCC--EEEE
T ss_conf             499998999226763779999997299--9999


No 16 
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum}
Probab=68.21  E-value=4.6  Score=19.49  Aligned_cols=29  Identities=21%  Similarity=0.486  Sum_probs=24.5

Q ss_pred             CCCCCCEEEEEECCCCCCEEEEEEEECCC
Q ss_conf             22658699998437888646999997469
Q gi|254780250|r    3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKS   31 (102)
Q Consensus         3 kikkGD~V~VisGkdKGk~G~V~~V~~k~   31 (102)
                      ++..|..+.|+.|+..|..|+|..+-...
T Consensus       138 ~fe~G~~~~vtgG~n~GrvG~I~~Ie~~~  166 (213)
T 3kbg_A          138 KMQPGNKAYITAGSHVNQTGTISKIEAKE  166 (213)
T ss_dssp             CCSTTCEEEECSSTTTTCEEEEEEECCCS
T ss_pred             ECCCCCEEEEECCCCCCEEEEEEEEEEEC
T ss_conf             23699999995885264469999999725


No 17 
>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=66.80  E-value=5.5  Score=19.05  Aligned_cols=33  Identities=24%  Similarity=0.334  Sum_probs=26.6

Q ss_pred             CCCEEEEEECCCCCCEEEEEEEECCCCEEEEEC
Q ss_conf             586999984378886469999974699899906
Q gi|254780250|r    6 TGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQG   38 (102)
Q Consensus         6 kGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeG   38 (102)
                      .|-+|.|..|.+||-.|.|..+....-+|-..-
T Consensus        20 iGktV~I~~GpyKG~~G~Vkd~t~~~~rVELhs   52 (71)
T 2e70_A           20 IGQTVRISQGPYKGYIGVVKDATESTARVELHS   52 (71)
T ss_dssp             TTSEEEECSSTTTTCEEEEEEECSSCEEEEESS
T ss_pred             CCCEEEEEECCCCCEEEEEEECCCCEEEEEEEC
T ss_conf             588889966376886899996528879999815


No 18 
>2zkr_q 60S ribosomal protein L21; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=63.16  E-value=2.9  Score=20.56  Aligned_cols=54  Identities=22%  Similarity=0.354  Sum_probs=36.2

Q ss_pred             CCCCCCCCEEEEEEC----------CCCCCEEEEEEEECCCCEEEE----------ECEEEEEEEECCCCCCCC
Q ss_conf             972265869999843----------788864699999746998999----------060597432057776565
Q gi|254780250|r    1 MEKIRTGDRVLVLAG----------KDKGKAGQVMGVVRKSGRAFV----------QGVNIVKRHQRQTPNKEA   54 (102)
Q Consensus         1 M~kikkGD~V~VisG----------kdKGk~G~V~~V~~k~~~ViV----------eGiN~~kkh~k~~~~~~g   54 (102)
                      |..++.||.|-|..-          .+-|++|+|..+....--|+|          .-+|+.--|++++...+.
T Consensus        31 l~~yk~GD~VdIk~d~svqKGMPhk~yhGkTG~V~~v~~~A~gV~Vnk~v~~r~~~Kri~vr~EHvr~Skcr~~  104 (160)
T 2zkr_q           31 MRIYKKGDIVDIKGMGTVQKGMPHKCYHGKTGRVYNVTQHAVGIIVNKQVKGKILAKRINVRIEHIKHSKSRDS  104 (160)
T ss_dssp             HCCCCTTCEEEECCCTTCCSSCCCGGGTTCEEEECCCCSSSEEEEEEECCSSCCSCEEEEECGGGEEEC-----
T ss_pred             HHHCCCCCEEEEEECCCCCCCCCCCEECCCCEEEEEECCCEEEEEEEEEECCCEECCEEEEECEEECCCCCHHH
T ss_conf             87515898899974585005897633435423588355814899999842673413068960547347644689


No 19 
>2zzd_A Thiocyanate hydrolase subunit alpha; scnase, cobalt, metalloprotein, sulfenic acid, sulfinic acid, nitrIle hydratase, carbonyl sulfide; HET: FRU TLA BGC; 1.78A {Thiobacillus thioparus} PDB: 2dd4_A 2dxb_A 2dd5_A* 2dxc_A*
Probab=52.10  E-value=12  Score=17.16  Aligned_cols=25  Identities=28%  Similarity=0.521  Sum_probs=19.4

Q ss_pred             CCCCCCEEEEEECC----------CCCCEEEEEEE
Q ss_conf             22658699998437----------88864699999
Q gi|254780250|r    3 KIRTGDRVLVLAGK----------DKGKAGQVMGV   27 (102)
Q Consensus         3 kikkGD~V~VisGk----------dKGk~G~V~~V   27 (102)
                      +++.||.|.|..-.          -+|++|+|.++
T Consensus        36 rF~vGD~Vrv~~~~p~gHtRlP~YvRGk~G~I~~~   70 (126)
T 2zzd_A           36 KFNVGDRVRIKDLPDLFYTRTMTYTRGATGTIVRL   70 (126)
T ss_dssp             SSCTTCEEEECCCCCSSCCSSCGGGTTCEEEEEEE
T ss_pred             CCCCCCEEEEECCCCCCCEECCHHHCCCEEEEEEE
T ss_conf             34789999982489999404767778987899997


No 20 
>3dcl_A TM1086; SAD, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG, unknown function; 2.25A {Thermotoga maritima} PDB: 3n99_A
Probab=46.15  E-value=15  Score=16.63  Aligned_cols=33  Identities=30%  Similarity=0.509  Sum_probs=27.5

Q ss_pred             CCCCEEEEEECCCCCCEEEEEEEECCCCEEEEE
Q ss_conf             658699998437888646999997469989990
Q gi|254780250|r    5 RTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQ   37 (102)
Q Consensus         5 kkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVe   37 (102)
                      ..|.+..|+||.-||.+|.|.-=.---+.|+|.
T Consensus        85 CiGN~A~V~SG~AkG~~G~VtGkHGg~ehvlV~  117 (284)
T 3dcl_A           85 CIGNEVIVMSGDAKGSRGFVTGKHGGVNHVLVH  117 (284)
T ss_dssp             CBTCEEEECSSTTTTCEEEEEEEETTTTEEEEE
T ss_pred             ECCCEEEEEECCCCCCCCEEEECCCCEEEEEEE
T ss_conf             328652897134579825696046875579997


No 21 
>1vq8_Q 50S ribosomal protein L21E; 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: b.34.5.1 PDB: 1vq4_Q* 1vq5_Q* 1vq6_Q* 1vq7_Q* 1s72_Q* 1vq9_Q* 1vqk_Q* 1vql_Q* 1vqm_Q* 1vqn_Q* 1vqo_Q* 1vqp_Q* 1yhq_Q* 1yi2_Q* 1yij_Q* 1yit_Q* 1yj9_Q* 1yjn_Q* 1yjw_Q* 2otj_Q* ...
Probab=38.12  E-value=21  Score=15.92  Aligned_cols=34  Identities=24%  Similarity=0.356  Sum_probs=22.9

Q ss_pred             CCCCCCCCEEEEEEC----------CCCCCEEEEEEEECCCCEEEE
Q ss_conf             972265869999843----------788864699999746998999
Q gi|254780250|r    1 MEKIRTGDRVLVLAG----------KDKGKAGQVMGVVRKSGRAFV   36 (102)
Q Consensus         1 M~kikkGD~V~VisG----------kdKGk~G~V~~V~~k~~~ViV   36 (102)
                      |..++.||.|-|..-          .+-|++|+|...-  ...++|
T Consensus        31 l~~f~~GD~V~I~idpsv~kGMPh~~yhGkTG~V~~~~--g~a~~V   74 (96)
T 1vq8_Q           31 VEEFDDGEKVHLKIDPSVPNGRFHPRFDGQTGTVEGKQ--GDAYKV   74 (96)
T ss_dssp             HCCCCTTCEEEECCCTTCCSSCCCGGGTTCEEEEEEEE--TTEEEE
T ss_pred             HHHCCCCCEEEEEECCCCCCCCCCCCCCCCCEEEEEEC--CEEEEE
T ss_conf             51026998899973697113887521148735799436--739999


No 22 
>1ugp_B NitrIle hydratase beta subunit; complex, N-butyric acid, non-corrin cobalt, hydration, lyase; HET: BUA; 1.63A {Pseudonocardia thermophila} SCOP: b.34.4.4 PDB: 1ire_B 1ugq_B 1ugr_B 1ugs_B
Probab=37.52  E-value=21  Score=15.87  Aligned_cols=26  Identities=31%  Similarity=0.455  Sum_probs=19.6

Q ss_pred             CCCCCCEEEEEECCC----------CCCEEEEEEEE
Q ss_conf             226586999984378----------88646999997
Q gi|254780250|r    3 KIRTGDRVLVLAGKD----------KGKAGQVMGVV   28 (102)
Q Consensus         3 kikkGD~V~VisGkd----------KGk~G~V~~V~   28 (102)
                      +++.||.|.|..-.-          +|++|+|..+.
T Consensus       138 ~F~vGd~Vrv~~~~~~gHtR~P~Y~rg~~G~I~~~~  173 (226)
T 1ugp_B          138 KFKEGDVVRFSTASPKGHARRARYVRGKTGTVVKHH  173 (226)
T ss_dssp             SCCTTCEEEECCCCCSSCCCCCGGGTTCEEEEEEEE
T ss_pred             CCCCCCEEEECCCCCCCCEECCHHHCCCEEEEEEEE
T ss_conf             478999899787899882017366678756999985


No 23 
>3kw2_A Probable R-RNA methyltransferase; structural genomics, unknown function, PSI-2, protein structure initiative; HET: MSE ADN; 2.00A {Porphyromonas gingivalis atcc 33277}
Probab=34.88  E-value=23  Score=15.63  Aligned_cols=37  Identities=24%  Similarity=0.258  Sum_probs=28.5

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEEEC
Q ss_conf             7226586999984378886469999974699899906
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQG   38 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViVeG   38 (102)
                      +|++.||.+.|.-|...--.++|.++.++.-.+.+..
T Consensus        31 LRl~~Gd~i~v~dg~G~~~~~~I~~i~k~~~~~~i~~   67 (257)
T 3kw2_A           31 LRMQAGDRLRLTDGRGSFFDAVIETADRKSCYVSVCG   67 (257)
T ss_dssp             SCCCTTCEEEEECSBSEEEEEEEEEECSSCEEEEEEE
T ss_pred             CCCCCCCEEEEEECCCCEEEEEEEEECCCEEEEEEEC
T ss_conf             7689999899997979889999999038759998620


No 24 
>3hht_B NitrIle hydratase beta subunit; alpha and beta proteins (A+B), lyase; 1.16A {Geobacillus pallidus} PDB: 2dpp_B 1v29_B
Probab=34.55  E-value=24  Score=15.60  Aligned_cols=52  Identities=17%  Similarity=0.204  Sum_probs=30.9

Q ss_pred             CCCCCCEEEEEECC----------CCCCEEEEEEEECCCCEEEEECEEEEEEEECCCCCCCCEEEEEEECCCHHHEEEE
Q ss_conf             22658699998437----------8886469999974699899906059743205777656517999704686657889
Q gi|254780250|r    3 KIRTGDRVLVLAGK----------DKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEASIHLSNLSLI   71 (102)
Q Consensus         3 kikkGD~V~VisGk----------dKGk~G~V~~V~~k~~~ViVeGiN~~kkh~k~~~~~~gGii~~E~pIh~SNV~lv   71 (102)
                      +++.||.|.|..-.          =+|++|+|..+.         |     -|+-|..+.-|.   -|.|-|+..|.+-
T Consensus       141 ~F~vGd~Vrv~~~~~~gHtR~P~Y~rg~~G~i~~~~---------g-----~~~~Pd~~a~~~---~~~p~~lY~V~F~  202 (229)
T 3hht_B          141 RFKVGERIKTKNIHPTGHTRFPRYARDKYGVIDEVY---------G-----AHVFPDDAAHRK---GENPQYLYRVRFE  202 (229)
T ss_dssp             SCCTTCEEEECCCCCSSCCSCCGGGTTCEEEEEEEE---------E-----EECCHHHHTTTS---CCCCEEEEEEEEE
T ss_pred             CCCCCCEEEEECCCCCCCCCCHHHHCCCEEEEEEEE---------C-----CCCCCCCCCCCC---CCCCEEEEEEEEC
T ss_conf             567898778842789985006577678746999883---------6-----878962124688---9887046998871


No 25 
>3jyw_Q 60S ribosomal protein L21(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_Q
Probab=29.76  E-value=8.4  Score=18.06  Aligned_cols=37  Identities=27%  Similarity=0.361  Sum_probs=26.6

Q ss_pred             CCCCCCCCEEEEEEC----------CCCCCEEEEEEEECCCCEEEEE
Q ss_conf             972265869999843----------7888646999997469989990
Q gi|254780250|r    1 MEKIRTGDRVLVLAG----------KDKGKAGQVMGVVRKSGRAFVQ   37 (102)
Q Consensus         1 M~kikkGD~V~VisG----------kdKGk~G~V~~V~~k~~~ViVe   37 (102)
                      |..++.||.|-|.--          .+-|++|+|..+-+...-++|.
T Consensus        30 l~~yk~GD~VdIkidpsvqKGMPhk~yhGkTG~V~~v~~ravgviVn   76 (116)
T 3jyw_Q           30 LKVYKVGDIVDIKANGSIQKGMPHKFYQGKTGVVYNVTKSSVGVIIN   76 (116)
T ss_dssp             TCCCCTTCBCCBCCCSSSCTTCCCSTTSSCCCBCCCCCSSSSSEEEE
T ss_pred             HHHCCCCCEEEEEECCCEECCCCCCEECCCCEEEEEECCCEEEEEEE
T ss_conf             74336998899974587657997644547654288477967999999


No 26 
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemic lupus erythematosus, SLE; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 3cw1_B
Probab=26.86  E-value=28  Score=15.24  Aligned_cols=24  Identities=17%  Similarity=0.151  Sum_probs=9.4

Q ss_pred             EEEEEECCCCCCEEEEEEEECCCC
Q ss_conf             999984378886469999974699
Q gi|254780250|r    9 RVLVLAGKDKGKAGQVMGVVRKSG   32 (102)
Q Consensus         9 ~V~VisGkdKGk~G~V~~V~~k~~   32 (102)
                      .|.|--=.+.--.|++..++..-|
T Consensus        14 ~VtVELKnG~~~~G~L~~vD~~MN   37 (119)
T 1b34_A           14 TVTIELKNGTQVHGTITGVDVSMN   37 (119)
T ss_dssp             EEEEEETTCCEEEEEEEEECTTCC
T ss_pred             EEEEEECCCCEEEEEEEEECCCEE
T ss_conf             699998899699999999859886


No 27 
>2exd_A NFED short homolog; membrane protein; NMR {Pyrococcus horikoshii OT3} SCOP: b.40.12.1
Probab=24.78  E-value=36  Score=14.64  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=20.8

Q ss_pred             CCCEEEEEEEECCCCEEEEECEEE
Q ss_conf             886469999974699899906059
Q gi|254780250|r   18 KGKAGQVMGVVRKSGRAFVQGVNI   41 (102)
Q Consensus        18 KGk~G~V~~V~~k~~~ViVeGiN~   41 (102)
                      .|++|.++..+....+|.++|-.-
T Consensus        17 IG~~g~v~~~~~~~G~V~v~Ge~W   40 (80)
T 2exd_A           17 KGKVGKVVKIAEDHYLVEVEGDKW   40 (80)
T ss_dssp             TTCEEEEEECCTTCEEEEETTEEE
T ss_pred             CCCEEEEEEECCCCEEEEECCEEE
T ss_conf             299999979679999999999899


No 28 
>1vhy_A Hypothetical protein HI0303; PSI, protein structure initiative, NEW YORK SGX research center for structural genomics, nysgxrc; HET: MSE; 1.90A {Haemophilus influenzae} SCOP: b.122.1.2 c.116.1.5 PDB: 1nxz_A
Probab=20.97  E-value=43  Score=14.21  Aligned_cols=35  Identities=11%  Similarity=0.278  Sum_probs=26.8

Q ss_pred             CCCCCCCEEEEEECCCCCCEEEEEEEECCCCEEEE
Q ss_conf             72265869999843788864699999746998999
Q gi|254780250|r    2 EKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFV   36 (102)
Q Consensus         2 ~kikkGD~V~VisGkdKGk~G~V~~V~~k~~~ViV   36 (102)
                      +|++.||.|.|.-|...--.++|.++.++.-.+.+
T Consensus        34 LRlk~Gd~I~v~dg~G~~~~a~I~~~~k~~~~~~i   68 (257)
T 1vhy_A           34 LRMTEGEQLELFDGSNHIYPAKIIESNKKSVKVEI   68 (257)
T ss_dssp             SCCCTTCEEEEECSSSEEEEEEEEEECSSCEEEEE
T ss_pred             CCCCCCCEEEEEECCCCEEEEEEEECCCCEEEEEE
T ss_conf             83899999999979899999999986686376310


No 29 
>3a8g_B NitrIle hydratase subunit beta; Fe, iron, lyase, metal-binding, oxidation; 1.11A {Rhodococcus erythropolis} PDB: 2ahj_B 2cyz_B* 2cz0_B 2cz6_B 2cz7_B 2d0q_B 2cz1_B 2zcf_B 2zpb_B 2zpe_B 2zpf_B 2zpg_B 2zph_B 2zpi_B 2qdy_B 3a8h_B 3a8l_B 3a8o_B 3a8m_B 1ahj_B
Probab=20.34  E-value=44  Score=14.13  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=15.7

Q ss_pred             CCCCCCEEEEEECC----------CCCCEEEEE
Q ss_conf             22658699998437----------888646999
Q gi|254780250|r    3 KIRTGDRVLVLAGK----------DKGKAGQVM   25 (102)
Q Consensus         3 kikkGD~V~VisGk----------dKGk~G~V~   25 (102)
                      +++.||.|.|..-.          =+||+|+|.
T Consensus       122 ~F~vGd~Vrv~~~~~~gHtRlP~Y~rgk~G~I~  154 (212)
T 3a8g_B          122 TFEVGQRVRVRDEYVPGHIRMPAYCRGRVGTIS  154 (212)
T ss_dssp             CCCTTCEEEECCCCCSSCCSCCGGGTTCEEEEE
T ss_pred             CCCCCCEEEECCCCCCCCEECCHHHCCCEEEEE
T ss_conf             679999899754899983016166668747998


Done!