Query         gi|254780909|ref|YP_003065322.1| hypothetical protein CLIBASIA_04040 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 159
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 13730
Date          Wed Jun  1 10:31:58 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780909.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1zoqc1 a.153.1.1 (C:2065-2111  10.1      41   0.003   11.7   1.3   15  100-114    12-26  (47)
  2 d1whqa_ d.50.1.1 (A:) ATP-depe   6.6      60  0.0043   10.8   3.9   38   59-104    58-95  (99)
  3 d3cjsb1 d.47.1.1 (B:1-70) Ribo   5.0      74  0.0054   10.3   0.9   25   20-45     13-37  (70)
  4 d2gycg2 d.47.1.1 (G:2-72) Ribo   4.6      78  0.0057   10.1  -0.0   19   21-40     13-31  (71)
  5 d1m70a2 a.3.1.4 (A:93-190) Cyt   4.0      94  0.0068    9.6   1.4   10   34-43      6-15  (98)
  6 d1uila_ d.50.1.1 (A:) ATP-depe   3.7   1E+02  0.0074    9.4   3.0   10   69-78     90-99  (113)
  7 d1umqa_ a.4.1.12 (A:) Photosyn   3.3 1.2E+02  0.0085    9.1   2.5   18   31-48     13-30  (60)
  8 d1mmsa2 d.47.1.1 (A:8-70) Ribo   3.1 1.2E+02  0.0091    8.9   1.4   25   20-45      7-31  (63)
  9 d1o0wa2 d.50.1.1 (A:168-236) R   3.1 1.3E+02  0.0094    8.8   2.4   17   59-77     53-69  (69)
 10 d1aqta1 a.2.10.1 (A:87-136) Ep   2.8 1.4E+02    0.01    8.6   2.5   15   63-77      5-19  (50)

No 1  
>d1zoqc1 a.153.1.1 (C:2065-2111) Nuclear receptor coactivator CBP/p300 ibid domain {Mouse (Mus musculus) [TaxId: 10090]}
Probab=10.09  E-value=41  Score=11.72  Aligned_cols=15  Identities=47%  Similarity=0.587  Sum_probs=10.7

Q ss_pred             CCCHHHHHHHHHHHH
Q ss_conf             840378999985331
Q gi|254780909|r  100 EPESQETQQQVINKT  114 (159)
Q Consensus       100 epesqetqqqvinkt  114 (159)
                      .|.|-+-||||.+--
T Consensus        12 sP~sP~QQqQvL~IL   26 (47)
T d1zoqc1          12 SPSSPQQQQQVLNIL   26 (47)
T ss_dssp             SCCCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
T ss_conf             999879999999999


No 2  
>d1whqa_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]}
Probab=6.57  E-value=60  Score=10.80  Aligned_cols=38  Identities=26%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCCCHH
Q ss_conf             9988999999999999987643217500000120753136784037
Q gi|254780909|r   59 RKAAEQAAEAAKKAAEKIIHKDKKKPKENQEVNEVPVAANIEPESQ  104 (159)
Q Consensus        59 rkaaeqaaeaakkaaekiihkdkkkpkenqevnevpvaaniepesq  104 (159)
                      +|.|||.  ||+.+-+.+++.....      ..++|...++.|.++
T Consensus        58 KK~AEq~--AA~~al~~L~~~~~~~------~~~~P~~~~~~~~~~   95 (99)
T d1whqa_          58 KKDAQSN--AARDFVNYLVRINEVK------SEEVPAVGIVPPPSG   95 (99)
T ss_dssp             HHHHHHH--HHHHHHHHHHHHTSSC------TTTSCCCCCCCCCCC
T ss_pred             HHHHHHH--HHHHHHHHHHHCCCCC------HHHCCCCCCCCCCCC
T ss_conf             8899999--9999999999859998------544888778899999


No 3  
>d3cjsb1 d.47.1.1 (B:1-70) Ribosomal protein L11, N-terminal domain {Thermus thermophilus [TaxId: 274]}
Probab=5.04  E-value=74  Score=10.26  Aligned_cols=25  Identities=32%  Similarity=0.676  Sum_probs=17.4

Q ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             30466889998706788865788888
Q gi|254780909|r   20 SCGQADPVAPPPPQTLAERGKALLDE   45 (159)
Q Consensus        20 scgqadpvappppqtlaergkallde   45 (159)
                      --|+|.| +||--+.|..+|--+.+-
T Consensus        13 ~aG~A~P-~PPvGpaLG~~GiNi~~F   37 (70)
T d3cjsb1          13 PAGKATP-APPVGPALGQHGANIMEF   37 (70)
T ss_dssp             ETTCCCS-STTHHHHHHTTTCCHHHH
T ss_pred             ECCCCCC-CCCCCCHHHHCCCCHHHH
T ss_conf             2577789-999764254528679999


No 4  
>d2gycg2 d.47.1.1 (G:2-72) Ribosomal protein L11, N-terminal domain {Escherichia coli [TaxId: 562]}
Probab=4.55  E-value=78  Score=10.10  Aligned_cols=19  Identities=37%  Similarity=0.775  Sum_probs=8.6

Q ss_pred             CCCCCCCCCCCHHHHHHHHH
Q ss_conf             04668899987067888657
Q gi|254780909|r   21 CGQADPVAPPPPQTLAERGK   40 (159)
Q Consensus        21 cgqadpvappppqtlaergk   40 (159)
                      .|+|.| +||--+.|..+|-
T Consensus        13 aG~A~P-aPPvGpaLG~~Gi   31 (71)
T d2gycg2          13 AGMANP-SPPVGPALGQQGV   31 (71)
T ss_dssp             TTCCCS-SSSTTTTTTSSSC
T ss_pred             CCCCCC-CCCCCCHHHHCCC
T ss_conf             477789-9997643545386


No 5  
>d1m70a2 a.3.1.4 (A:93-190) Cytochrome c4 {Pseudomonas stutzeri [TaxId: 316]}
Probab=3.97  E-value=94  Score=9.65  Aligned_cols=10  Identities=40%  Similarity=0.770  Sum_probs=5.2

Q ss_pred             HHHHHHHHHH
Q ss_conf             7888657888
Q gi|254780909|r   34 TLAERGKALL   43 (159)
Q Consensus        34 tlaergkall   43 (159)
                      .++++|+.|.
T Consensus         6 a~~~~G~~l~   15 (98)
T d1m70a2           6 ALAKQGEKLF   15 (98)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             9999899999


No 6  
>d1uila_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]}
Probab=3.72  E-value=1e+02  Score=9.45  Aligned_cols=10  Identities=20%  Similarity=0.311  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999876
Q gi|254780909|r   69 AKKAAEKIIH   78 (159)
Q Consensus        69 akkaaekiih   78 (159)
                      |+++-+.+.|
T Consensus        90 A~~~l~~L~~   99 (113)
T d1uila_          90 ALSLVRQLYH   99 (113)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             9999999997


No 7  
>d1umqa_ a.4.1.12 (A:) Photosynthetic apparatus regulatory protein PprA (RegA), DNA-binding domain {Rhodobacter sphaeroides [TaxId: 1063]}
Probab=3.32  E-value=1.2e+02  Score=9.09  Aligned_cols=18  Identities=6%  Similarity=0.017  Sum_probs=6.9

Q ss_pred             CHHHHHHHHHHHHHHHHH
Q ss_conf             706788865788888878
Q gi|254780909|r   31 PPQTLAERGKALLDEATQ   48 (159)
Q Consensus        31 ppqtlaergkalldeatq   48 (159)
                      .|.+|.+--+.++-.+-+
T Consensus        13 ~~~~l~~~Er~~I~~aL~   30 (60)
T d1umqa_          13 NPMSADRVRWEHIQRIYE   30 (60)
T ss_dssp             SSSCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHH
T ss_conf             998999999999999999


No 8  
>d1mmsa2 d.47.1.1 (A:8-70) Ribosomal protein L11, N-terminal domain {Thermotoga maritima [TaxId: 2336]}
Probab=3.14  E-value=1.2e+02  Score=8.91  Aligned_cols=25  Identities=32%  Similarity=0.659  Sum_probs=16.5

Q ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             30466889998706788865788888
Q gi|254780909|r   20 SCGQADPVAPPPPQTLAERGKALLDE   45 (159)
Q Consensus        20 scgqadpvappppqtlaergkallde   45 (159)
                      .-|+|.| +||--+.|..+|--+.+-
T Consensus         7 ~aG~A~p-~PPvGpaLG~~GiNi~~F   31 (63)
T d1mmsa2           7 PAGKATP-APPVGPALGQHGVNIMEF   31 (63)
T ss_dssp             ETTCCCC-TTTTTHHHHTTTCCHHHH
T ss_pred             ECCCCCC-CCCCCCHHHHCCCCHHHH
T ss_conf             5687789-999765021338688999


No 9  
>d1o0wa2 d.50.1.1 (A:168-236) RNase III, C-terminal domain {Thermotoga maritima [TaxId: 2336]}
Probab=3.05  E-value=1.3e+02  Score=8.83  Aligned_cols=17  Identities=53%  Similarity=0.686  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             9988999999999999987
Q gi|254780909|r   59 RKAAEQAAEAAKKAAEKII   77 (159)
Q Consensus        59 rkaaeqaaeaakkaaekii   77 (159)
                      +|.|||  .||+.+-++||
T Consensus        53 KK~Aeq--~AA~~aL~~L~   69 (69)
T d1o0wa2          53 KKEAEK--EAARIAYEKLL   69 (69)
T ss_dssp             HHHHHH--HHHHHHHHHHC
T ss_pred             HHHHHH--HHHHHHHHHHC
T ss_conf             999999--99999999869


No 10 
>d1aqta1 a.2.10.1 (A:87-136) Epsilon subunit of F1F0-ATP synthase C-terminal domain {Escherichia coli [TaxId: 562]}
Probab=2.81  E-value=1.4e+02  Score=8.58  Aligned_cols=15  Identities=47%  Similarity=0.448  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             999999999999987
Q gi|254780909|r   63 EQAAEAAKKAAEKII   77 (159)
Q Consensus        63 eqaaeaakkaaekii   77 (159)
                      |..|+.||+.||..|
T Consensus         5 earA~eAk~~AEe~l   19 (50)
T d1aqta1           5 EARAMEAKRKAEEHI   19 (50)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             999999999999998


Done!