Query         gi|254780850|ref|YP_003065263.1| hypothetical protein CLIBASIA_03725 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 30
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 13730
Date          Wed Jun  1 10:11:13 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780850.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 d1twff_ a.143.1.2 (F:) RPB6 {B   7.7      43  0.0031   15.5   0.1   14   16-29     64-77  (84)
  2 d1hyoa1 b.34.8.1 (A:1-118) Fum   6.8      66  0.0048   14.6   0.7   15   15-29     13-27  (118)
  3 d1qkla_ a.143.1.2 (A:) RPB6 {H   4.9      67  0.0049   14.6  -0.2   15   15-29    106-120 (127)
  4 d2qtpa1 d.79.9.1 (A:3-171) Unc   3.0 1.5E+02   0.011   12.9   0.3   16    2-17     84-99  (169)
  5 d1bhda_ a.40.1.1 (A:) Utrophin   3.0   2E+02   0.014   12.4   0.9   12   18-29     23-35  (108)
  6 d1bkra_ a.40.1.1 (A:) beta-spe   2.6 2.3E+02   0.017   12.1   0.9   13   17-29     19-32  (108)
  7 d2b5dx1 a.8.3.3 (X:415-528) Al   2.3 1.2E+02   0.009   13.4  -0.8   13   16-28     39-51  (114)
  8 d2bgwa2 c.52.1.20 (A:16-148) X   2.2 1.6E+02   0.011   12.9  -0.5   15   11-25     25-39  (133)
  9 d2qlvb1 b.1.18.21 (B:161-247)    2.0 2.9E+02   0.021   11.7   0.7   10   20-29     19-28  (87)
 10 d1sg1x3 g.24.1.1 (X:96-137) Lo   1.9 2.5E+02   0.019   11.9   0.3    7   20-26     27-33  (42)

No 1  
>d1twff_ a.143.1.2 (F:) RPB6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=7.75  E-value=43  Score=15.47  Aligned_cols=14  Identities=50%  Similarity=0.994  Sum_probs=11.4

Q ss_pred             HCCCCCCCCCCCCC
Q ss_conf             21686111233135
Q gi|254780850|r   16 TRNLPMGQFSDWKD   29 (30)
Q Consensus        16 trnlpmgqfsdwkd   29 (30)
                      -|.+|.|.+-+|+-
T Consensus        64 rR~lP~g~~E~w~l   77 (84)
T d1twff_          64 RRYLPDGSFEDWSV   77 (84)
T ss_dssp             EEECTTSCEEEEET
T ss_pred             EEECCCCCEEEEEH
T ss_conf             88789997899887


No 2  
>d1hyoa1 b.34.8.1 (A:1-118) Fumarylacetoacetate hydrolase, FAH, N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}
Probab=6.83  E-value=66  Score=14.61  Aligned_cols=15  Identities=40%  Similarity=0.656  Sum_probs=10.5

Q ss_pred             HHCCCCCCCCCCCCC
Q ss_conf             521686111233135
Q gi|254780850|r   15 ETRNLPMGQFSDWKD   29 (30)
Q Consensus        15 etrnlpmgqfsdwkd   29 (30)
                      --.|||.|-||...+
T Consensus        13 piqNLPfGVfs~~~~   27 (118)
T d1hyoa1          13 PIQNLPYGVFSTQSN   27 (118)
T ss_dssp             CTTTCCEEEEECSSC
T ss_pred             CCCCCCEEEEECCCC
T ss_conf             865687388874899


No 3  
>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]}
Probab=4.89  E-value=67  Score=14.58  Aligned_cols=15  Identities=40%  Similarity=0.800  Sum_probs=11.6

Q ss_pred             HHCCCCCCCCCCCCC
Q ss_conf             521686111233135
Q gi|254780850|r   15 ETRNLPMGQFSDWKD   29 (30)
Q Consensus        15 etrnlpmgqfsdwkd   29 (30)
                      --|.||-|.|-+||-
T Consensus       106 IrR~lp~g~~E~w~l  120 (127)
T d1qkla_         106 IRRYLPDGSYEDWGV  120 (127)
T ss_dssp             EEEEETTTEEEEESS
T ss_pred             EEEECCCCCEEEEEH
T ss_conf             988789997799876


No 4  
>d2qtpa1 d.79.9.1 (A:3-171) Uncharacterized protein SPO0826 {Silicibacter pomeroyi [TaxId: 89184]}
Probab=3.01  E-value=1.5e+02  Score=12.93  Aligned_cols=16  Identities=25%  Similarity=0.322  Sum_probs=12.6

Q ss_pred             CCCHHHHHHHHHHHHC
Q ss_conf             7401455303455521
Q gi|254780850|r    2 DTGCEQEVGGALLETR   17 (30)
Q Consensus         2 dtgceqevggalletr   17 (30)
                      .+.+|.|-++||+.+|
T Consensus        84 G~~GE~EHa~Al~H~~   99 (169)
T d2qtpa1          84 GENGELEHAAAILHPK   99 (169)
T ss_dssp             CTTSCHHHHHHHTCSC
T ss_pred             CCCCCHHHCCEEECCC
T ss_conf             6775343302442020


No 5  
>d1bhda_ a.40.1.1 (A:) Utrophin {Human (Homo sapiens) [TaxId: 9606]}
Probab=2.96  E-value=2e+02  Score=12.42  Aligned_cols=12  Identities=25%  Similarity=0.764  Sum_probs=8.7

Q ss_pred             CCCCCCCC-CCCC
Q ss_conf             68611123-3135
Q gi|254780850|r   18 NLPMGQFS-DWKD   29 (30)
Q Consensus        18 nlpmgqfs-dwkd   29 (30)
                      +.++-.|| ||+|
T Consensus        23 ~v~v~nFs~sw~D   35 (108)
T d1bhda_          23 QVNVLNFTTSWTD   35 (108)
T ss_dssp             TCCCCSSSGGGTT
T ss_pred             CCCCCCCCCCCCC
T ss_conf             9676357543655


No 6  
>d1bkra_ a.40.1.1 (A:) beta-spectrin {Human (Homo sapiens) [TaxId: 9606]}
Probab=2.63  E-value=2.3e+02  Score=12.12  Aligned_cols=13  Identities=31%  Similarity=0.928  Sum_probs=8.8

Q ss_pred             CCCCCCCCC-CCCC
Q ss_conf             168611123-3135
Q gi|254780850|r   17 RNLPMGQFS-DWKD   29 (30)
Q Consensus        17 rnlpmgqfs-dwkd   29 (30)
                      +++++-.|| +|+|
T Consensus        19 ~~v~V~nFs~sw~D   32 (108)
T d1bkra_          19 PNVNIHNFTTSWRD   32 (108)
T ss_dssp             TTCCCSSSSGGGTT
T ss_pred             CCCCCCCCCCCCCC
T ss_conf             99675068876648


No 7  
>d2b5dx1 a.8.3.3 (X:415-528) Alpha-amylase AmyC {Thermotoga maritima [TaxId: 2336]}
Probab=2.34  E-value=1.2e+02  Score=13.37  Aligned_cols=13  Identities=46%  Similarity=0.728  Sum_probs=9.7

Q ss_pred             HCCCCCCCCCCCC
Q ss_conf             2168611123313
Q gi|254780850|r   16 TRNLPMGQFSDWK   28 (30)
Q Consensus        16 trnlpmgqfsdwk   28 (30)
                      .|.|-+-|-|||-
T Consensus        39 aRELLLaqSSDWa   51 (114)
T d2b5dx1          39 LRELFLAQSSDWA   51 (114)
T ss_dssp             HHHHHHTTBGGGT
T ss_pred             HHHHHHHHHCCCH
T ss_conf             9999999834525


No 8  
>d2bgwa2 c.52.1.20 (A:16-148) XPF endonuclease {Aeropyrum pernix [TaxId: 56636]}
Probab=2.17  E-value=1.6e+02  Score=12.87  Aligned_cols=15  Identities=33%  Similarity=0.758  Sum_probs=11.5

Q ss_pred             HHHHHHCCCCCCCCC
Q ss_conf             345552168611123
Q gi|254780850|r   11 GALLETRNLPMGQFS   25 (30)
Q Consensus        11 galletrnlpmgqfs   25 (30)
                      |.-.+.++||.|.|.
T Consensus        25 gi~~~~~~L~~GDy~   39 (133)
T d2bgwa2          25 GVQVIPKQLPMGDYL   39 (133)
T ss_dssp             TCEEEEECCSSSSEE
T ss_pred             CCEEEEEECCCCCEE
T ss_conf             998999976876799


No 9  
>d2qlvb1 b.1.18.21 (B:161-247) SIP2 {Saccharomyces cerevisiae [TaxId: 4932]}
Probab=2.02  E-value=2.9e+02  Score=11.66  Aligned_cols=10  Identities=30%  Similarity=1.026  Sum_probs=6.1

Q ss_pred             CCCCCCCCCC
Q ss_conf             6111233135
Q gi|254780850|r   20 PMGQFSDWKD   29 (30)
Q Consensus        20 pmgqfsdwkd   29 (30)
                      -+|.|.+|+.
T Consensus        19 v~GsFn~W~~   28 (87)
T d2qlvb1          19 VTGSFTKWRK   28 (87)
T ss_dssp             EEEGGGTTSS
T ss_pred             EEEEECCCCC
T ss_conf             9988647686


No 10 
>d1sg1x3 g.24.1.1 (X:96-137) Low affinity neurotrophin receptor p75NTR {Rat (Rattus norvegicus) [TaxId: 10116]}
Probab=1.94  E-value=2.5e+02  Score=11.91  Aligned_cols=7  Identities=57%  Similarity=1.151  Sum_probs=0.0

Q ss_pred             CCCCCCC
Q ss_conf             6111233
Q gi|254780850|r   20 PMGQFSD   26 (30)
Q Consensus        20 pmgqfsd   26 (30)
                      |.|-|||
T Consensus        27 ~~GtFSd   33 (42)
T d1sg1x3          27 PEGTYSD   33 (42)
T ss_dssp             CTTEECC
T ss_pred             CCCCCCC
T ss_conf             3986448


Done!