Query         gi|254780890|ref|YP_003065303.1| hypothetical protein CLIBASIA_03935 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 104
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 13730
Date          Wed Jun  1 10:25:11 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780890.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 d2qamc2 b.40.4.5 (C:61-124) N-  10.3      12  0.0009   15.9  -1.8   16   54-69     29-44  (64)
  2 d1skva_ a.30.5.1 (A:) Hypothet  10.0      51  0.0037   12.6   1.6   10    6-15      5-14  (64)
  3 d1rl2a2 b.40.4.5 (A:60-125) N-   6.5      16  0.0012   15.3  -2.5   16   54-69     30-45  (66)
  4 d1vqoa2 b.40.4.5 (A:1-90) N-te   5.8      19  0.0014   14.9  -2.5   16   54-69     54-69  (90)
  5 d2hfva1 d.58.5.5 (A:23-97) Hyp   5.7      65  0.0047   12.0   0.2   19   71-89      4-22  (75)
  6 d2zjra2 b.40.4.5 (A:33-127) N-   5.4      20  0.0015   14.7  -2.5   15   54-68     59-73  (95)
  7 d2outa1 a.140.3.2 (A:94-131) U   4.6      73  0.0053   11.7  -0.2   19   48-66     18-36  (38)
  8 d2j01d2 b.40.4.5 (D:2-126) N-t   3.0      43  0.0031   13.0  -2.5   14   55-68     91-104 (125)
  9 d2gmqa1 b.122.1.11 (A:12-113)    3.0      67  0.0049   11.9  -1.5   24   65-93     30-53  (102)
 10 d1gmxa_ c.46.1.3 (A:) Sulfurtr   2.7 1.3E+02  0.0097   10.2  -0.3   39    1-39     22-60  (108)

No 1  
>d2qamc2 b.40.4.5 (C:61-124) N-terminal domain of ribosomal protein L2 {Escherichia coli [TaxId: 562]}
Probab=10.25  E-value=12  Score=15.94  Aligned_cols=16  Identities=38%  Similarity=0.868  Sum_probs=12.8

Q ss_pred             HHHHHHHHCCCHHHHH
Q ss_conf             4424642056357899
Q gi|254780890|r   54 IIALIVFREGEKSLIF   69 (104)
Q Consensus        54 iialivfregekslif   69 (104)
                      -|||+.|..|||+.|.
T Consensus        29 ~IALv~y~dG~k~Yil   44 (64)
T d2qamc2          29 NIALVLYKDGERRYIL   44 (64)
T ss_dssp             CCBCCCBTTSCCCCBC
T ss_pred             EEEEEECCCCCEEEEE
T ss_conf             5899994799699998


No 2  
>d1skva_ a.30.5.1 (A:) Hypothetical protein D-63 {Sulfolobus virus-like particle SSV1 [TaxId: 244589]}
Probab=10.00  E-value=51  Score=12.56  Aligned_cols=10  Identities=40%  Similarity=0.428  Sum_probs=6.8

Q ss_pred             CHHHHHHHHH
Q ss_conf             0031232255
Q gi|254780890|r    6 REKEVFLESE   15 (104)
Q Consensus         6 rekevflese   15 (104)
                      -|||.|++-.
T Consensus         5 ~ekeLfleLD   14 (64)
T d1skva_           5 LEKELFEMLD   14 (64)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             1989999986


No 3  
>d1rl2a2 b.40.4.5 (A:60-125) N-terminal domain of ribosomal protein L2 {Bacillus stearothermophilus [TaxId: 1422]}
Probab=6.48  E-value=16  Score=15.28  Aligned_cols=16  Identities=50%  Similarity=0.725  Sum_probs=12.3

Q ss_pred             HHHHHHHHCCCHHHHH
Q ss_conf             4424642056357899
Q gi|254780890|r   54 IIALIVFREGEKSLIF   69 (104)
Q Consensus        54 iialivfregekslif   69 (104)
                      -|||+.|..|+|+.|.
T Consensus        30 ~IAlv~y~dG~k~YIL   45 (66)
T d1rl2a2          30 NIALINYADGEKRYII   45 (66)
T ss_dssp             EEEEEEETTSCEEEEE
T ss_pred             EEEEEECCCCCEEEEE
T ss_conf             7999995799199998


No 4  
>d1vqoa2 b.40.4.5 (A:1-90) N-terminal domain of ribosomal protein L2 {Archaeon Haloarcula marismortui [TaxId: 2238]}
Probab=5.80  E-value=19  Score=14.94  Aligned_cols=16  Identities=31%  Similarity=0.725  Sum_probs=12.7

Q ss_pred             HHHHHHHHCCCHHHHH
Q ss_conf             4424642056357899
Q gi|254780890|r   54 IIALIVFREGEKSLIF   69 (104)
Q Consensus        54 iialivfregekslif   69 (104)
                      -|||+.|..|++++|.
T Consensus        54 ~iAlv~~~dg~~~yil   69 (90)
T d1vqoa2          54 PVAAVEFEDGDRRLIL   69 (90)
T ss_dssp             EEEEEEETTSCEEEEC
T ss_pred             EEEEEEECCCCEEEEE
T ss_conf             6789994699899997


No 5  
>d2hfva1 d.58.5.5 (A:23-97) Hypothetical protein RPA1041 {Rhodopseudomonas palustris [TaxId: 1076]}
Probab=5.66  E-value=65  Score=11.96  Aligned_cols=19  Identities=37%  Similarity=0.396  Sum_probs=9.7

Q ss_pred             HHHCCCCCHHHHHHHHHHH
Q ss_conf             9751643303699999999
Q gi|254780890|r   71 LLRTNQKTNSSLTQAIIQE   89 (104)
Q Consensus        71 llrtnqktnssltqaiiqe   89 (104)
                      |+|||.-+--|.-+|+.++
T Consensus         4 LlrTnD~v~is~~~aLL~~   22 (75)
T d2hfva1           4 LLRTNDAVLLSAVGALLDG   22 (75)
T ss_dssp             EEEECCHHHHHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHH
T ss_conf             1234888899999999735


No 6  
>d2zjra2 b.40.4.5 (A:33-127) N-terminal domain of ribosomal protein L2 {Deinococcus radiodurans [TaxId: 1299]}
Probab=5.42  E-value=20  Score=14.74  Aligned_cols=15  Identities=47%  Similarity=0.738  Sum_probs=12.1

Q ss_pred             HHHHHHHHCCCHHHH
Q ss_conf             442464205635789
Q gi|254780890|r   54 IIALIVFREGEKSLI   68 (104)
Q Consensus        54 iialivfregeksli   68 (104)
                      -|||+.|..||++.|
T Consensus        59 ~IALv~y~dG~k~YI   73 (95)
T d2zjra2          59 RIALLHYADGEKRYI   73 (95)
T ss_dssp             CEEEEEETTSCEEEE
T ss_pred             EEEEEECCCCEEEEE
T ss_conf             899999379949999


No 7  
>d2outa1 a.140.3.2 (A:94-131) Uncharacterized protein HI1507 in Mu-like prophage FluMu region {Haemophilus influenzae [TaxId: 727]}
Probab=4.58  E-value=73  Score=11.69  Aligned_cols=19  Identities=42%  Similarity=0.489  Sum_probs=14.3

Q ss_pred             EEEHHHHHHHHHHHCCCHH
Q ss_conf             0010124424642056357
Q gi|254780890|r   48 YIITARIIALIVFREGEKS   66 (104)
Q Consensus        48 yiitariialivfregeks   66 (104)
                      --..|..|||..-..||||
T Consensus        18 satkaelialfapadgeks   36 (38)
T d2outa1          18 SATKAELIALFAPADGEKS   36 (38)
T ss_dssp             SCCSHHHHHHCCSCCSSCC
T ss_pred             CCHHHHHHHHCCCCCCCCC
T ss_conf             3006768874266676536


No 8  
>d2j01d2 b.40.4.5 (D:2-126) N-terminal domain of ribosomal protein L2 {Thermus thermophilus [TaxId: 274]}
Probab=2.99  E-value=43  Score=12.97  Aligned_cols=14  Identities=50%  Similarity=0.814  Sum_probs=0.0

Q ss_pred             HHHHHHHCCCHHHH
Q ss_conf             42464205635789
Q gi|254780890|r   55 IALIVFREGEKSLI   68 (104)
Q Consensus        55 ialivfregeksli   68 (104)
                      |||+.+..|+++.|
T Consensus        91 IALv~y~dg~k~YI  104 (125)
T d2j01d2          91 IALLHYVDGEKRYI  104 (125)
T ss_dssp             EEEEEETTSCEEEE
T ss_pred             EEEEEECCCCEEEE
T ss_conf             99999279959999


No 9  
>d2gmqa1 b.122.1.11 (A:12-113) Uncharacterized protein PrgU {Enterococcus faecalis [TaxId: 1351]}
Probab=2.97  E-value=67  Score=11.88  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=0.0

Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             57899997516433036999999999989
Q gi|254780890|r   65 KSLIFDLLRTNQKTNSSLTQAIIQEIDTL   93 (104)
Q Consensus        65 kslifdllrtnqktnssltqaiiqeidtl   93 (104)
                      +.--|.++-.||-|...     |||||++
T Consensus        30 ~~~~~E~~~N~QiT~EN-----I~EI~~i   53 (102)
T d2gmqa1          30 NTRAMEMWYNKQITEEN-----IQEITTL   53 (102)
T ss_dssp             HHHHHHHHHHTSSCTTT-----GGGCCEE
T ss_pred             CCCEEEEHHHCCCCHHH-----CEEEEEE
T ss_conf             78067531307688443-----3155677


No 10 
>d1gmxa_ c.46.1.3 (A:) Sulfurtransferase GlpE {Escherichia coli [TaxId: 562]}
Probab=2.71  E-value=1.3e+02  Score=10.24  Aligned_cols=39  Identities=23%  Similarity=0.428  Sum_probs=0.0

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             972640031232255335567758888998510024796
Q gi|254780890|r    1 MFYDSREKEVFLESEVVHNIRLQIEEISAILSKKSRDTP   39 (104)
Q Consensus         1 mfydsrekevflesevvhnirlqieeisailskksrdtp   39 (104)
                      .+-|.|..+-|....+..-+.+..+++...+....+|+|
T Consensus        22 ~liDvR~~~e~~~ghI~gA~~ip~~~l~~~~~~~~~~~~   60 (108)
T d1gmxa_          22 VLVDIRDPQSFAMGHAVQAFHLTNDTLGAFMRDNDFDTP   60 (108)
T ss_dssp             EEEECSCHHHHHHCEETTCEECCHHHHHHHHHHSCTTSC
T ss_pred             EEEECCCHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCC
T ss_conf             999788789987437787521000117887530024676


Done!