Query         gi|254781205|ref|YP_003065618.1| hypothetical protein CLIBASIA_05560 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 171
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 13730
Date          Wed Jun  1 11:44:57 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781205.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 d2yrka1 g.37.1.4 (A:8-55) Zinc  10.5      23  0.0017   14.5  -0.3   19   25-43     11-29  (48)
  2 d1i5pa2 b.77.2.1 (A:264-472) d   7.3      27   0.002   14.1  -1.0   13   79-91     43-55  (209)
  3 d1ig6a_ a.4.3.1 (A:) MRF-2 DNA   6.7      72  0.0052   11.7   1.3   41  119-163    43-84  (107)
  4 d2pgga1 e.8.1.4 (A:31-804) Vir   5.9      37  0.0027   13.3  -0.9   55  102-157   389-443 (774)
  5 d1v54j_ f.23.4.1 (J:) Mitochon   5.5      85  0.0062   11.3   0.9   18    5-22     27-44  (58)
  6 d1lm4a_ d.167.1.1 (A:) Peptide   4.6      97  0.0071   11.0   0.8   17   11-27     69-85  (194)
  7 d2f9yb1 c.14.1.4 (B:23-285) Ac   4.4      76  0.0055   11.6  -0.2   14  140-153   202-215 (263)
  8 d1f53a_ b.11.1.4 (A:) Killer t   4.3      73  0.0053   11.7  -0.3   30  123-152    52-81  (84)
  9 d1eysh2 f.23.10.1 (H:7-43) Pho   4.2      39  0.0028   13.2  -1.8   12   55-68     21-32  (37)
 10 d2f6ma1 a.2.17.1 (A:322-385) V   4.1      81  0.0059   11.4  -0.3   30   43-75      9-38  (64)

No 1  
>d2yrka1 g.37.1.4 (A:8-55) Zinc finger homeobox protein 4, ZFHX4 {Human (Homo sapiens) [TaxId: 9606]}
Probab=10.48  E-value=23  Score=14.47  Aligned_cols=19  Identities=37%  Similarity=0.473  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             1346666553212467888
Q gi|254781205|r   25 ISSTLASHRSSIRDHEYRS   43 (171)
Q Consensus        25 isstlashrssirdheyrs   43 (171)
                      +-+.--|++.|+|||-+-.
T Consensus        11 lC~vKYs~~~SvrdHiFsk   29 (48)
T d2yrka1          11 LCGVKYSARLSIRDHIFSK   29 (48)
T ss_dssp             TTTCCCCSSSCHHHHHTSH
T ss_pred             CCCEEEEEECCHHHHHHHH
T ss_conf             1153430102167665229


No 2  
>d1i5pa2 b.77.2.1 (A:264-472) delta-Endotoxin (insectocide), middle domain {Bacillus thuringiensis subsp. kurstaki, CRY2AA [TaxId: 29339]}
Probab=7.28  E-value=27  Score=14.08  Aligned_cols=13  Identities=46%  Similarity=0.853  Sum_probs=9.0

Q ss_pred             HHHHCCCCCCEEE
Q ss_conf             8860466551366
Q gi|254781205|r   79 AVLSGVSGASLDL   91 (171)
Q Consensus        79 avlsgvsgasldl   91 (171)
                      -|||||||+.+..
T Consensus        43 YVLsG~SG~~~~~   55 (209)
T d1i5pa2          43 YILSGISGTRLSI   55 (209)
T ss_dssp             BCEEEEEEEEEEE
T ss_pred             EEEECCCCCEEEE
T ss_conf             5886344530688


No 3  
>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=6.70  E-value=72  Score=11.75  Aligned_cols=41  Identities=20%  Similarity=0.390  Sum_probs=22.6

Q ss_pred             HHHHCHHHHHHHHHHCCCCEEEHHCCCC-HHHCCHHHHHHHHHHHH
Q ss_conf             8641211210666421542000010477-01100013568888762
Q gi|254781205|r  119 AKEAGWHRANKEAVKNNRWASVAAIAGP-PMVESASSAGMKMFRRY  163 (171)
Q Consensus       119 akeagwhrankeavknnrwasvaaiagp-pmvesassagmkmfrry  163 (171)
                      .+..||...+    +++.|..|+..-|- |...+++..=-..+.+|
T Consensus        43 ~~~GG~~~V~----~~~~W~~ia~~lg~~~~~~~~~~~Lk~~Y~~~   84 (107)
T d1ig6a_          43 QKLGGYETIT----ARRQWKHIYDELGGNPGSTSAATCTRRHYERL   84 (107)
T ss_dssp             HHTTHHHHHH----HHTTHHHHHHHHTCCTTCTTTTTTHHHHHHHH
T ss_pred             HHHCCHHHCC----CCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHH
T ss_conf             9967705336----50619999998688987787999999999999


No 4  
>d2pgga1 e.8.1.4 (A:31-804) Viral RNA polymerase {Avian infectious bursal disease virus [TaxId: 10995]}
Probab=5.95  E-value=37  Score=13.33  Aligned_cols=55  Identities=25%  Similarity=0.415  Sum_probs=43.6

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCCCCEEEHHCCCCHHHCCHHHHHH
Q ss_conf             03313445678899998864121121066642154200001047701100013568
Q gi|254781205|r  102 KGINTARTAREQTVARFAKEAGWHRANKEAVKNNRWASVAAIAGPPMVESASSAGM  157 (171)
Q Consensus       102 kgintartareqtvarfakeagwhrankeavknnrwasvaaiagppmvesassagm  157 (171)
                      ||--.+....-|+++-+--.-||. .+-+..-|-.||..|--..|-||-..|+-=|
T Consensus       389 KGEANcTp~haqa~~yyLLTRGWs-~~G~P~fN~TWAt~am~~aP~mvVdsscllm  443 (774)
T d2pgga1         389 KGEANCTRQHMQAAMYYILTRGWS-DNGDPMFNQTWATFAMNIAPALVVDSSCLIM  443 (774)
T ss_dssp             TGGGGCCHHHHHHHHHHHHHHHSE-ETTEECBCHHHHHHHHHTHHHHHBSCEEEEB
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC-CCCCCCCCHHHHHHHHHCCCCEEECHHHHHH
T ss_conf             566568889999999999972677-6898563588999998318613642267652


No 5  
>d1v54j_ f.23.4.1 (J:) Mitochondrial cytochrome c oxidase subunit VIIa {Cow (Bos taurus) [TaxId: 9913]}
Probab=5.48  E-value=85  Score=11.35  Aligned_cols=18  Identities=28%  Similarity=0.462  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHCC
Q ss_conf             677776554210121044
Q gi|254781205|r    5 MDDLLYGLSLASPLVGAG   22 (171)
Q Consensus         5 mddllyglslasplvgag   22 (171)
                      +|-+||.+..+--++|.+
T Consensus        27 ~D~~LYr~Tm~L~~~G~~   44 (58)
T d1v54j_          27 TDNILYRVTMTLCLGGTL   44 (58)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHH
T ss_conf             017999999999999899


No 6  
>d1lm4a_ d.167.1.1 (A:) Peptide deformylase {Staphylococcus aureus [TaxId: 1280]}
Probab=4.63  E-value=97  Score=11.02  Aligned_cols=17  Identities=29%  Similarity=0.585  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHCCCHHHH
Q ss_conf             55421012104400134
Q gi|254781205|r   11 GLSLASPLVGAGLRISS   27 (171)
Q Consensus        11 glslasplvgaglriss   27 (171)
                      |..||.|-||-.+||--
T Consensus        69 GvGLAApQIGv~~Rifv   85 (194)
T d1lm4a_          69 GVGLAAPQINISKRMIA   85 (194)
T ss_dssp             BSEEEGGGGTCCBSEEE
T ss_pred             CCEEEEEEEEHHHHHHE
T ss_conf             62134212125335221


No 7  
>d2f9yb1 c.14.1.4 (B:23-285) Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta, AccD {Escherichia coli [TaxId: 562]}
Probab=4.37  E-value=76  Score=11.62  Aligned_cols=14  Identities=29%  Similarity=0.627  Sum_probs=8.8

Q ss_pred             EHHCCCCHHHCCHH
Q ss_conf             00104770110001
Q gi|254781205|r  140 VAAIAGPPMVESAS  153 (171)
Q Consensus       140 vaaiagppmvesas  153 (171)
                      ...++||+|||.+.
T Consensus       202 ~i~~aGP~vve~~~  215 (263)
T d2f9yb1         202 LIGFAGPRVIEQTV  215 (263)
T ss_dssp             BEESSCHHHHHHHH
T ss_pred             EEECCCHHHHHHHC
T ss_conf             45425987875540


No 8  
>d1f53a_ b.11.1.4 (A:) Killer toxin-like protein SKLP {Streptomyces sp. [TaxId: 1931]}
Probab=4.26  E-value=73  Score=11.70  Aligned_cols=30  Identities=30%  Similarity=0.532  Sum_probs=25.0

Q ss_pred             CHHHHHHHHHHCCCCEEEHHCCCCHHHCCH
Q ss_conf             211210666421542000010477011000
Q gi|254781205|r  123 GWHRANKEAVKNNRWASVAAIAGPPMVESA  152 (171)
Q Consensus       123 gwhrankeavknnrwasvaaiagppmvesa  152 (171)
                      -+|.||-..|.-.||-.+.--.-||-|.+-
T Consensus        52 ~Y~DANG~sV~~~~~~~Is~P~RPP~V~~I   81 (84)
T d1f53a_          52 IYYDANGDSVRVDRWHDITYPNRPPKVNSI   81 (84)
T ss_dssp             EEEETTTEEEECCSSCEECCSSSCCCCCBC
T ss_pred             EEECCCCCEEEEEEEEEEECCCCCCCCCEE
T ss_conf             887079988988766575058999976757


No 9  
>d1eysh2 f.23.10.1 (H:7-43) Photosystem II reaction centre subunit H, transmembrane region {Thermochromatium tepidum [TaxId: 1050]}
Probab=4.20  E-value=39  Score=13.24  Aligned_cols=12  Identities=67%  Similarity=1.298  Sum_probs=7.0

Q ss_pred             EEEECCCHHHHHHH
Q ss_conf             23441203676640
Q gi|254781205|r   55 VLYLDREDQARREG   68 (171)
Q Consensus        55 vlyldredqarreg   68 (171)
                      +.||.||++  |||
T Consensus        21 i~YL~rE~~--REG   32 (37)
T d1eysh2          21 IIYLRREDK--REG   32 (37)
T ss_dssp             HHHHHHHTT--SSS
T ss_pred             HHHHHHCCC--CCC
T ss_conf             999972354--357


No 10 
>d2f6ma1 a.2.17.1 (A:322-385) Vacuolar protein sorting-associated protein 23, VPS23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=4.06  E-value=81  Score=11.45  Aligned_cols=30  Identities=23%  Similarity=0.377  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHEEEEECCCHHHHHHHHHHHHHH
Q ss_conf             887542100000234412036766401334278
Q gi|254781205|r   43 SLLAEENALRADVLYLDREDQARREGIMDTGVF   75 (171)
Q Consensus        43 sllaeenalradvlyldredqarregimdtgvf   75 (171)
                      .+.|||.|+---+.||+   ++-+.|.++...|
T Consensus         9 ~l~Aed~AieDaiy~L~---~aL~~G~I~~d~y   38 (64)
T d2f6ma1           9 NLVAQDYALTDTIEALS---RMLHRGTIPLDTF   38 (64)
T ss_dssp             HHHHHHHHHHHHHHHHH---HHHHHTSSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHH---HHHHCCCCCHHHH
T ss_conf             99979988899999999---9998697679999


Done!