Query         gi|254781207|ref|YP_003065620.1| hypothetical protein CLIBASIA_05570 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 80
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 23785
Date          Wed Jun  1 02:19:32 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781207.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2ifo_A Inovirus; helical virus  28.7      32  0.0013   15.3   3.3   28   13-43      7-34  (46)
  2 1cii_A Colicin IA; bacteriocin  14.8      20 0.00086   16.3  -0.7   14   24-37    567-580 (602)
  3 2xlt_A Flavin-containing monoo  13.8      51  0.0021   14.2   1.1   11   45-55     12-22  (461)
  4 3few_X Colicin S4; cell lysis,  11.4      82  0.0034   13.0   3.1   22   26-47    462-483 (505)
  5 1zrx_A Stomoxyn; helical pepti  11.4      49  0.0021   14.3   0.4   13   36-48     29-41  (42)
  6 1z64_A Pleruocidin; helix, mic  11.3      82  0.0035   13.0   3.0   19    4-22      2-20  (26)
  7 2fv4_B Hypothetical 24.6 kDa p   8.1      66  0.0028   13.6   0.0   13   55-67      1-13  (77)
  8 1yfn_E Sigma-E factor negative   8.0 1.1E+02  0.0047   12.3   1.6   14    1-14     12-25  (32)
  9 3a1q_C Ubiquitin interaction m   7.6 1.2E+02  0.0049   12.2   3.7   18   58-75     24-41  (45)
 10 1jb0_F Photosystem 1 reaction    6.9 1.1E+02  0.0048   12.3   0.7    5   31-35    100-104 (164)

No 1  
>2ifo_A Inovirus; helical virus; NMR {Filamentous phage} SCOP: h.1.4.1
Probab=28.67  E-value=32  Score=15.26  Aligned_cols=28  Identities=39%  Similarity=0.515  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999998887788764237788888754447
Q gi|254781207|r   13 TVGAVVGTVATAAALATPIGWVGAAVAGVGA   43 (80)
Q Consensus        13 tvgavvgtvataaalatpigwvgaavagvga   43 (80)
                      .||+||...   .+-++||+-.|+||-+|--
T Consensus         7 dvg~vvsai---~aaa~pi~~ig~avl~v~v   34 (46)
T 2ifo_A            7 DVGDVVSAI---QGAAGPIAAIGGAVLTVMV   34 (46)
T ss_dssp             HHHHHHHHH---HHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHH---HHCCCCHHHHHHHHHHHHH
T ss_conf             599999998---8616844676464753345


No 2  
>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1
Probab=14.80  E-value=20  Score=16.28  Aligned_cols=14  Identities=14%  Similarity=0.375  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             88764237788888
Q gi|254781207|r   24 AAALATPIGWVGAA   37 (80)
Q Consensus        24 aaalatpigwvgaa   37 (80)
                      .+.+.+|+|-+|.+
T Consensus       567 ~~~~~~~~~~~~~~  580 (602)
T 1cii_A          567 SILTGSALGIIGYG  580 (602)
T ss_dssp             HHHTTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             98863389999999


No 3  
>2xlt_A Flavin-containing monooxygenase; oxidoreductase, trimethyaminuria; HET: FAD NA0 EPE; 2.20A {Methylophaga aminisulfidivorans} PDB: 2vqb_A* 2vq7_A* 2xlu_A* 2xlp_A* 2xlr_A* 2xls_A*
Probab=13.76  E-value=51  Score=14.16  Aligned_cols=11  Identities=45%  Similarity=0.827  Sum_probs=4.0

Q ss_pred             HHHCCHHHHHH
Q ss_conf             76145357899
Q gi|254781207|r   45 VVGAGASDLAM   55 (80)
Q Consensus        45 vvgagasdlam   55 (80)
                      |+|||.|-|++
T Consensus        12 IIGAG~sGL~~   22 (461)
T 2xlt_A           12 ILGAGPSGMAQ   22 (461)
T ss_dssp             EECCSHHHHHH
T ss_pred             EECCHHHHHHH
T ss_conf             98932999999


No 4  
>3few_X Colicin S4; cell lysis, Y-RAY, cell killing, immune system; 2.45A {Escherichia coli}
Probab=11.42  E-value=82  Score=13.04  Aligned_cols=22  Identities=36%  Similarity=0.448  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7642377888887544477761
Q gi|254781207|r   26 ALATPIGWVGAAVAGVGAAVVG   47 (80)
Q Consensus        26 alatpigwvgaavagvgaavvg   47 (80)
                      ..+||||-+|..+.++-.+.+.
T Consensus       462 ~~~~~~~i~~~~~~~~~~~~i~  483 (505)
T 3few_X          462 APAIAVGIVGILLAAVVGALLD  483 (505)
T ss_dssp             SCSSHHHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHC
T ss_conf             4067999999999999999837


No 5  
>1zrx_A Stomoxyn; helical peptide in TFE, antimicrobial protein, antibiotic; NMR {Synthetic}
Probab=11.37  E-value=49  Score=14.25  Aligned_cols=13  Identities=69%  Similarity=0.889  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHC
Q ss_conf             8875444777614
Q gi|254781207|r   36 AAVAGVGAAVVGA   48 (80)
Q Consensus        36 aavagvgaavvga   48 (80)
                      +..+|-|++||.+
T Consensus        29 aviagsgaavvaa   41 (42)
T 1zrx_A           29 AVIAGSGAAVVAA   41 (42)
T ss_dssp             TTTGGGTHHHHHH
T ss_pred             EEEECCCCEEEEC
T ss_conf             0353586045643


No 6  
>1z64_A Pleruocidin; helix, micelle, antimicrobial protein; NMR {Pseudopleuronectes americanus}
Probab=11.30  E-value=82  Score=13.02  Aligned_cols=19  Identities=47%  Similarity=0.672  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             5778999999999998887
Q gi|254781207|r    4 WNSITSIAATVGAVVGTVA   22 (80)
Q Consensus         4 wnsitsiaatvgavvgtva   22 (80)
                      |.|.-.-++.||.-||..+
T Consensus         2 wgsffkkaahvgkhvgkaa   20 (26)
T 1z64_A            2 WGSFFKKAAHVGKHVGKAA   20 (26)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
T ss_conf             0488999999886632999


No 7  
>2fv4_B Hypothetical 24.6 kDa protein in ILV2-ADE17 intergenic region; alpha-beta, complex, coiled-coil, structural protein, protein binding; NMR {Saccharomyces cerevisiae} SCOP: d.300.1.2
Probab=8.11  E-value=66  Score=13.56  Aligned_cols=13  Identities=46%  Similarity=0.486  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9998865799999
Q gi|254781207|r   55 MHKMREQEEEEKK   67 (80)
Q Consensus        55 mhkmreqeeeekk   67 (80)
                      |-||+|.|.||+-
T Consensus         1 ~~~~~e~Elee~s   13 (77)
T 2fv4_B            1 MAKVIEPELEEQS   13 (77)
T ss_dssp             -------------
T ss_pred             CHHHHHHHHHHHH
T ss_conf             9006676766652


No 8  
>1yfn_E Sigma-E factor negative regulatory protein; protein-peptide complex, SSPB, RSEA, protein binding; 1.80A {Escherichia coli}
Probab=8.05  E-value=1.1e+02  Score=12.32  Aligned_cols=14  Identities=36%  Similarity=0.781  Sum_probs=9.7

Q ss_pred             CCHHHHHHHHHHHH
Q ss_conf             93357789999999
Q gi|254781207|r    1 MGFWNSITSIAATV   14 (80)
Q Consensus         1 mgfwnsitsiaatv   14 (80)
                      |-||+.+..-++..
T Consensus        12 mPFW~K~RPwasqi   25 (32)
T 1yfn_E           12 MPFWQKVRPWAAQL   25 (32)
T ss_pred             CCHHHHHCHHHHHH
T ss_conf             82887625099988


No 9  
>3a1q_C Ubiquitin interaction motif-containing protein 1; protein complex, cytoplasm, nucleus, phosphoprotein, UBL conjugation, transcription regulation; 2.20A {Mus musculus}
Probab=7.62  E-value=1.2e+02  Score=12.21  Aligned_cols=18  Identities=39%  Similarity=0.702  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             886579999999999887
Q gi|254781207|r   58 MREQEEEEKKLLKKGLKK   75 (80)
Q Consensus        58 mreqeeeekkllkkglkk   75 (80)
                      ...|+|+|..||.|.+..
T Consensus        24 vn~~~e~e~ellrkai~e   41 (45)
T 3a1q_C           24 VNNQEEKEEELLRKAIAE   41 (45)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHH
T ss_conf             011477799999999998


No 10 
>1jb0_F Photosystem 1 reaction centre subunit III; membrane protein, multiprotein-pigment complex, photosynthesis; HET: CL1 PQN BCR LHG LMG; 2.50A {Synechococcus elongatus} SCOP: f.23.16.1
Probab=6.85  E-value=1.1e+02  Score=12.26  Aligned_cols=5  Identities=100%  Similarity=2.315  Sum_probs=0.0

Q ss_pred             HHHHH
Q ss_conf             77888
Q gi|254781207|r   31 IGWVG   35 (80)
Q Consensus        31 igwvg   35 (80)
                      |||+|
T Consensus       100 IGW~G  104 (164)
T 1jb0_F          100 IGWVG  104 (164)
T ss_dssp             HHHHH
T ss_pred             HHHHH
T ss_conf             33542


Done!