Query         gi|254780243|ref|YP_003064656.1| 50S ribosomal protein L30 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 64
No_of_seqs    107 out of 803
Neff          4.7 
Searched_HMMs 33803
Date          Tue May 24 02:22:29 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780243.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2zjr_W 50S ribosomal protein   99.9 2.5E-23 7.5E-28  145.2   5.5   55   10-64      1-55  (55)
  2 >1bxy_A Protein (ribosomal pro  99.9 6.3E-23 1.8E-27  143.1   7.3   58    7-64      1-58  (60)
  3 >3i1n_Z 50S ribosomal protein   99.9   1E-22   3E-27  142.0   7.0   59    6-64      1-59  (59)
  4 >1vq8_W 50S ribosomal protein   99.6 1.3E-15   4E-20  103.9   7.3   55   10-64      2-56  (154)
  5 >3jyw_F 60S ribosomal protein   98.3 2.1E-07 6.2E-12   60.2   1.3   57    8-64     32-88  (194)
  6 >2zkr_w 60S ribosomal protein   98.1   1E-06   3E-11   56.5   1.0   57    7-63    109-165 (270)
  7 >2uz8_A Eukaryotic translation  19.9      30 0.00087   16.6   0.3   35   27-61      9-53  (60)
  8 >3e0r_A C3-degrading proteinas  18.7      44  0.0013   15.7   1.0   26   33-58      3-29  (120)
  9 >3iar_A Adenosine deaminase; p  10.3 1.3E+02   0.004   13.1   1.7   33    8-40    144-176 (179)
 10 >1ef4_A Subunit N, DNA-directe   6.6 1.7E+02  0.0051   12.5   0.8   15   22-36     27-41  (55)

No 1  
>>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} (W:)
Probab=99.88  E-value=2.5e-23  Score=145.21  Aligned_cols=55  Identities=42%  Similarity=0.690  Sum_probs=54.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             5999973368989899999998383467982898299789707986211147839
Q gi|254780243|r   10 ITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus        10 ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      ++|||+||+||+|++|++|+++|||+|+|++|+++|||++||||++|+|||+|||
T Consensus         1 lkItlvrs~ig~~~~~~~tl~~LGL~k~~~~v~~~dtP~irGmi~kVkhLV~VeE   55 (55)
T 2zjr_W            1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE   55 (55)
T ss_dssp             CEEEBCSCSTTSCHHHHHHHHHTTCCSTTCEEECCCSHHHHHHHHHTGGGBCCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEC
T ss_conf             9499974889999899999999299979998895799789889985143169859


No 2  
>>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography, conformational changes; 1.90A {Thermus thermophilus} (A:)
Probab=99.88  E-value=6.3e-23  Score=143.13  Aligned_cols=58  Identities=41%  Similarity=0.714  Sum_probs=57.1

Q ss_pred             CCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             2625999973368989899999998383467982898299789707986211147839
Q gi|254780243|r    7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus         7 ~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      |++++|||+||.||+|++|++|+++|||+|+|++|+++|||+++|||++|+|||+|||
T Consensus         1 Ma~~~It~vrs~ig~~~~~k~tl~~LgL~k~~~~v~~~~tp~~rGmi~kV~hlV~v~e   58 (60)
T 1bxy_A            1 MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV   58 (60)
T ss_dssp             CCEEEEEECSCCTTCCHHHHHHHHHHTCCSTTCEEEEECCHHHHHHHHHTTTTEEEEE
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEE
T ss_conf             9967999935889989899999998199979998995799789879984012469997


No 3  
>>3i1n_Z 50S ribosomal protein L30; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_Y 3e1b_R 3e1d_R 1vs6_Y 3i1p_Z 3i1r_Z 3i1t_Z 3i20_Z 3i22_Z 2qam_Y* 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* ... (Z:)
Probab=99.87  E-value=1e-22  Score=141.99  Aligned_cols=59  Identities=34%  Similarity=0.596  Sum_probs=56.7

Q ss_pred             CCCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             22625999973368989899999998383467982898299789707986211147839
Q gi|254780243|r    6 KMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus         6 ~~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      |++.++|+|+||+||+|++|++|+++|||+|+|++++++|||+++|||++|+|||+|||
T Consensus         1 Mak~~~V~~vrs~ig~~~~~k~tl~~LgL~k~~~~v~~~dtp~~rGmi~kVkhLV~v~E   59 (59)
T 3i1n_Z            1 MAKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE   59 (59)
T ss_dssp             -CCCEEEECCSCCSSCCHHHHHHHHHHTCCSTTCCEEECCCHHHHHHHHHTGGGCEEEC
T ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEC
T ss_conf             99607999925879999899999998099989998995799889889996344469849


No 4  
>>1vq8_W 50S ribosomal protein L30P; 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} (W:)
Probab=99.61  E-value=1.3e-15  Score=103.95  Aligned_cols=55  Identities=22%  Similarity=0.395  Sum_probs=53.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             5999973368989899999998383467982898299789707986211147839
Q gi|254780243|r   10 ITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus        10 ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      +.|+++||.+|.|+++++|+++|||+++|++|+++|||+++|||++|+|+|.++|
T Consensus         2 ~~Virirg~~g~~~~~~~tL~~LgL~k~~~~v~~~~tp~~~gmL~~V~~~V~~g~   56 (154)
T 1vq8_W            2 HALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGE   56 (154)
T ss_dssp             EEEEECSCSTTSCHHHHHHHHHTTCCSTTEEEEECCCHHHHHHHHHSGGGEEEEC
T ss_pred             EEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEEECCHHHHHHHHEECCCEEEEC
T ss_conf             6899937889989899999998099866876897189889856755354156736


No 5  
>>3jyw_F 60S ribosomal protein L7(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_F (F:20-213)
Probab=98.27  E-value=2.1e-07  Score=60.15  Aligned_cols=57  Identities=21%  Similarity=0.183  Sum_probs=51.8

Q ss_pred             CEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             625999973368989899999998383467982898299789707986211147839
Q gi|254780243|r    8 QKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus         8 ~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      +-+-|-++||..+.+++.+++++-|+|+++|+.|+.++||++.||+++|+.-|.+-|
T Consensus        32 kl~~VIRirg~~~v~~~v~~~L~lLrL~~~~~~vfv~~~~~~~~mL~~v~pyV~~G~   88 (194)
T 3jyw_F           32 GLVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGY   88 (194)
T ss_dssp             CCCCCCCCSCSSCCCHHHHHHHGGGCCCSSSCBCCCCCSSTTTTHHHHTTTTSCEEC
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHHHHHEECCCCEEEEHHHHHHHHHHHHHHHHCCC
T ss_conf             738999952556699972899999877211477268756999999997206765178


No 6  
>>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (w:)
Probab=98.05  E-value=1e-06  Score=56.47  Aligned_cols=57  Identities=18%  Similarity=0.047  Sum_probs=52.2

Q ss_pred             CCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEE
Q ss_conf             262599997336898989999999838346798289829978970798621114783
Q gi|254780243|r    7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIV   63 (64)
Q Consensus         7 ~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~Ve   63 (64)
                      .+-+-|.++|+..+.+++.+++++-|+|+++|+.|+.++||++.||+++|...|.+-
T Consensus       109 ~kl~~VIRirg~~~i~p~v~k~L~lLrL~~i~~~vfv~~t~~~~~mLk~V~pyVt~G  165 (270)
T 2zkr_w          109 PKLAFVIRIRGINGVSPKVRKVLQLLRLRQIFNGTFVKLNKASINMLRIVEPYIAWG  165 (270)
T ss_dssp             --CEEEECCSCSSSSCTTSSSHHHHTCCCSSSEEEEECCCHHHHHTTTSSTTSCBCC
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHEEEE
T ss_conf             607999995366688989999999847784042699968888999999987712333


No 7  
>>2uz8_A Eukaryotic translation elongation factor 1 epsilon-1; protein biosynthesis, aminoacyl-tRNA synthetase, GST, nuclear protein, RNA-binding protein; HET: MSE; 2.0A {Homo sapiens} (A:1-60)
Probab=19.89  E-value=30  Score=16.59  Aligned_cols=35  Identities=34%  Similarity=0.575  Sum_probs=25.6

Q ss_pred             HHHHHHCCCCCCCEEE--------E--CCCHHHHHHHHHHHHHEE
Q ss_conf             9999838346798289--------8--299789707986211147
Q gi|254780243|r   27 KVLIGLGLNKMNRCRV--------L--DDTPSVRGMISTVHHLVR   61 (64)
Q Consensus        27 ~tl~~LGL~k~~~~v~--------~--~dtP~irGmi~kV~hLV~   61 (64)
                      ..-+.|||++-|+-..        +  .+-|+.-|...-..|||+
T Consensus         9 ~LEk~LGL~~gNKYsaQg~~kiPVLqtN~GP~L~Gl~TIA~HLVk   53 (60)
T 2uz8_A            9 LLEKSLGLSKGNKYSAQGERQIPVLQTNNGPSLXGLTTIAAHLVK   53 (60)
T ss_dssp             HHHHHTTCCSCCCCEEETTTTEEEEECSSCCEEESHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHCCCCCCEEEEEEECCCCEEECHHHHHHHHHH
T ss_conf             886336889988831488980548996487236332999999999


No 8  
>>3e0r_A C3-degrading proteinase (CPPA protein); MCSG, PSI, SAD, structural genomics, protein structure initiative; 2.30A {Streptococcus pneumoniae} (A:68-187)
Probab=18.68  E-value=44  Score=15.67  Aligned_cols=26  Identities=27%  Similarity=0.501  Sum_probs=18.6

Q ss_pred             CCCCCCCEEEECCCH-HHHHHHHHHHH
Q ss_conf             834679828982997-89707986211
Q gi|254780243|r   33 GLNKMNRCRVLDDTP-SVRGMISTVHH   58 (64)
Q Consensus        33 GL~k~~~~v~~~dtP-~irGmi~kV~h   58 (64)
                      |++|+|+.|+.-.+| +|.+.+.+-.+
T Consensus         3 G~KKl~~ivIK~~~~~EIE~LLa~~~~   29 (120)
T 3e0r_A            3 GRKKLARLIVKVENPLEIEGILSKTDS   29 (120)
T ss_dssp             SSCSEEEEEEEESSHHHHHHHHTTCSC
T ss_pred             CCCCCEEEEEEECCHHHHHHHHHCCCC
T ss_conf             878802799991999999999976997


No 9  
>>3iar_A Adenosine deaminase; purine metabolism, structural genomics, structural genomics consortium, SGC, acetylation, disease mutation; HET: 3D1; 1.52A {Homo sapiens} PDB: 2bgn_E* 1w1i_E* 1qxl_A* 1krm_A* 1vfl_A 1ndv_A* 1ndy_A* 1ndz_A* 1o5r_A* 1uml_A* 1v79_A* 1v7a_A* 1ndw_A 1wxy_A* 1wxz_A* 2e1w_A* 2z7g_A* 2ada_A* 1a4m_A* 1a4l_A* ... (A:61-239)
Probab=10.27  E-value=1.3e+02  Score=13.06  Aligned_cols=33  Identities=9%  Similarity=0.066  Sum_probs=27.8

Q ss_pred             CEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCE
Q ss_conf             625999973368989899999998383467982
Q gi|254780243|r    8 QKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRC   40 (64)
Q Consensus         8 ~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~   40 (64)
                      ..+.+|..-+=.+.+...++++..||-+|+|+-
T Consensus       144 ~gl~~t~HAGE~~~~~~i~~Ai~~l~~~RIGHG  176 (179)
T 3iar_A          144 SGIHRTVHAGEVGSAEVVKEAVDILKTERLGHG  176 (179)
T ss_dssp             HTCEEEEEESSSSCHHHHHHHHHTSCCSEEEEC
T ss_pred             CCCCEEEECCCCCCCHHHHHHHHHHCCCCCHHH
T ss_conf             499044325677981149999987188533267


No 10 
>>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} (A:)
Probab=6.65  E-value=1.7e+02  Score=12.49  Aligned_cols=15  Identities=33%  Similarity=0.457  Sum_probs=11.3

Q ss_pred             CHHHHHHHHHHCCCC
Q ss_conf             989999999838346
Q gi|254780243|r   22 PSVQRKVLIGLGLNK   36 (64)
Q Consensus        22 ~~~~r~tl~~LGL~k   36 (64)
                      .+...+.+.+|||+|
T Consensus        27 g~~~~~aLD~Lgl~R   41 (55)
T 1ef4_A           27 GEDPKDVLDDLGLKR   41 (55)
T ss_dssp             TCCHHHHHHHHTCSS
T ss_pred             CCCHHHHHHHCCCEE
T ss_conf             999789998849805


Done!