Query         gi|254781227|ref|YP_003065640.1| hypothetical protein CLIBASIA_05670 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 68
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Mon May 30 07:04:58 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781227.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 pfam04924 Pox_A6 Poxvirus A6 p  55.7     8.1 0.00021   20.0   2.0   18   45-62    191-209 (371)
  2 pfam08990 Docking Erythronolid  39.7      33 0.00084   16.8   3.1   19   47-65      2-20  (27)
  3 TIGR02109 PQQ_syn_pqqE coenzym  36.8      11 0.00029   19.3   0.3   11   21-31    291-301 (363)
  4 pfam10140 essB Predicted membr  21.5      74  0.0019   15.0   2.3   23   45-67    111-133 (359)
  5 COG3835 CdaR Sugar diacid util  19.9      86  0.0022   14.7   2.7   25   38-62     84-108 (376)
  6 COG4920 Predicted membrane pro  16.9      97  0.0025   14.4   2.1   19   46-64     83-101 (249)
  7 COG1456 CdhE CO dehydrogenase/  15.3 1.1E+02  0.0029   14.1   2.6   33   23-55    377-409 (467)
  8 COG4499 Predicted membrane pro  14.4 1.2E+02   0.003   14.0   2.3   25   44-68    137-161 (434)
  9 TIGR01125 TIGR01125 MiaB-like   13.2 1.3E+02  0.0033   13.8   3.4   32   29-62    322-353 (475)
 10 pfam05251 UPF0197 Uncharacteri  11.0 1.5E+02  0.0038   13.4   1.6   12   54-65     48-59  (77)

No 1  
>pfam04924 Pox_A6 Poxvirus A6 protein.
Probab=55.71  E-value=8.1  Score=20.01  Aligned_cols=18  Identities=61%  Similarity=0.875  Sum_probs=13.3

Q ss_pred             CCCCHHHHHHHHH-HHHHH
Q ss_conf             7756899999999-99999
Q gi|254781227|r   45 ETTDEEKLREYKE-FVISA   62 (68)
Q Consensus        45 ettdeeklreyke-fvisa   62 (68)
                      --||.+||.||+| |-||+
T Consensus       191 LvtDK~KL~EYreifsiS~  209 (371)
T pfam04924       191 LVTDKEKLEEYREIFSIST  209 (371)
T ss_pred             CCCCHHHHHHHHHHHHHHH
T ss_conf             0044888999999994008


No 2  
>pfam08990 Docking Erythronolide synthase docking. The N terminal docking domain found in modular polyketide synthase assumes an alpha-helical structure, wherein two alpha-helices are connected by a short loop. Two such N-terminal domains dimerize to form amphipathic parallel alpha-helical coiled coils: dimerization is essential for protein function.
Probab=39.73  E-value=33  Score=16.84  Aligned_cols=19  Identities=37%  Similarity=0.602  Sum_probs=14.7

Q ss_pred             CCHHHHHHHHHHHHHHHHH
Q ss_conf             5689999999999999887
Q gi|254781227|r   47 TDEEKLREYKEFVISAFAK   65 (68)
Q Consensus        47 tdeeklreykefvisafak   65 (68)
                      .+|+|||+|-..|..-.-.
T Consensus         2 ~~e~kLr~YLkrvtadL~~   20 (27)
T pfam08990         2 ANEEKLRDYLKRVTADLHE   20 (27)
T ss_pred             CCHHHHHHHHHHHHHHHHH
T ss_conf             8489999999999999999


No 3  
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E; InterPro: IPR011843    This entry describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.; GO: 0051539 4 iron 4 sulfur cluster binding, 0018189 pyrroloquinoline quinone biosynthetic process.
Probab=36.80  E-value=11  Score=19.26  Aligned_cols=11  Identities=36%  Similarity=0.770  Sum_probs=8.3

Q ss_pred             EEEECCCCCCC
Q ss_conf             34204410346
Q gi|254781227|r   21 EIRADGWMKED   31 (68)
Q Consensus        21 eiradgwmked   31 (68)
                      ..|.++||+|-
T Consensus       291 ~YRG~~WMpEP  301 (363)
T TIGR02109       291 AYRGTDWMPEP  301 (363)
T ss_pred             CCCCCCCCCCC
T ss_conf             25587888788


No 4  
>pfam10140 essB Predicted membrane protein essB. Members of this family of prokaryotic proteins include the virulence factor essB, which is required for the synthesis and secretion of EsxA and EsxB, both ESAT-6 like proteins.
Probab=21.47  E-value=74  Score=15.05  Aligned_cols=23  Identities=39%  Similarity=0.660  Sum_probs=18.9

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             77568999999999999988740
Q gi|254781227|r   45 ETTDEEKLREYKEFVISAFAKAI   67 (68)
Q Consensus        45 ettdeeklreykefvisafakai   67 (68)
                      +.+.|+-|++||-++|+.|.+..
T Consensus       111 ~~~ee~fl~~yKa~ii~ll~~k~  133 (359)
T pfam10140       111 ELDEERFLKEYKAFIIALFDGKY  133 (359)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCC
T ss_conf             78999999999999999976677


No 5  
>COG3835 CdaR Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]
Probab=19.89  E-value=86  Score=14.70  Aligned_cols=25  Identities=40%  Similarity=0.542  Sum_probs=21.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Q ss_conf             9998406775689999999999999
Q gi|254781227|r   38 VVVSVAGETTDEEKLREYKEFVISA   62 (68)
Q Consensus        38 vvvsvagettdeeklreykefvisa   62 (68)
                      -||+|-|-|-+.+++|.|-|.|--+
T Consensus        84 ~vVGViGITGeP~~Vr~y~ELVrm~  108 (376)
T COG3835          84 KVVGVIGITGEPEEVRKYGELVRMT  108 (376)
T ss_pred             CEEEEEECCCCHHHHHHHHHHHHHH
T ss_conf             2589985568907789999999999


No 6  
>COG4920 Predicted membrane protein [Function unknown]
Probab=16.89  E-value=97  Score=14.42  Aligned_cols=19  Identities=47%  Similarity=0.742  Sum_probs=15.4

Q ss_pred             CCCHHHHHHHHHHHHHHHH
Q ss_conf             7568999999999999988
Q gi|254781227|r   46 TTDEEKLREYKEFVISAFA   64 (68)
Q Consensus        46 ttdeeklreykefvisafa   64 (68)
                      ..|||-|.||++|.-+.|.
T Consensus        83 ~kDee~l~E~~~~~~~~f~  101 (249)
T COG4920          83 EKDEELLNEYKRFARASFM  101 (249)
T ss_pred             HHHHHHHHHHHHHHHHHCC
T ss_conf             7449999999999998222


No 7  
>COG1456 CdhE CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]
Probab=15.27  E-value=1.1e+02  Score=14.09  Aligned_cols=33  Identities=36%  Similarity=0.494  Sum_probs=27.2

Q ss_pred             EECCCCCCCCCEEEEEEEEECCCCCCHHHHHHH
Q ss_conf             204410346823689999840677568999999
Q gi|254781227|r   23 RADGWMKEDNTARLSVVVSVAGETTDEEKLREY   55 (68)
Q Consensus        23 radgwmkedntarlsvvvsvagettdeeklrey   55 (68)
                      .-|+|.---+|.-+.|-|||||-.-.-++..+.
T Consensus       377 ~i~cwLLvldT~G~aVdvSvAGGQ~tg~~vk~l  409 (467)
T COG1456         377 GIDCWLLVLDTGGLAVDVSVAGGQLTGEKVKDL  409 (467)
T ss_pred             CEEEEEEEEECCCCEEEEEEECCCCCCHHHHHH
T ss_conf             824899998069827999860564360889999


No 8  
>COG4499 Predicted membrane protein [Function unknown]
Probab=14.41  E-value=1.2e+02  Score=13.96  Aligned_cols=25  Identities=44%  Similarity=0.550  Sum_probs=19.9

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             6775689999999999999887409
Q gi|254781227|r   44 GETTDEEKLREYKEFVISAFAKAIS   68 (68)
Q Consensus        44 gettdeeklreykefvisafakais   68 (68)
                      -|++.|+-+.+||-++|.+|....|
T Consensus       137 ye~tee~f~~~ykA~~~~~fn~k~~  161 (434)
T COG4499         137 YEMTEERFLKEYKALAIYAFNGKFS  161 (434)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             7789999999999999999737764


No 9  
>TIGR01125 TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125; InterPro: IPR005840   This is a family of mainly hypothetical proteins of unknown function. .
Probab=13.24  E-value=1.3e+02  Score=13.78  Aligned_cols=32  Identities=34%  Similarity=0.520  Sum_probs=26.9

Q ss_pred             CCCCCEEEEEEEEECCCCCCHHHHHHHHHHHHHH
Q ss_conf             3468236899998406775689999999999999
Q gi|254781227|r   29 KEDNTARLSVVVSVAGETTDEEKLREYKEFVISA   62 (68)
Q Consensus        29 kedntarlsvvvsvagettdeeklreykefvisa   62 (68)
                      -+|-.-|-|+.|.-.|||  ||...|.+.||-.+
T Consensus       322 ~P~~vlRttfIVGFPGET--EEdF~eL~~Fv~e~  353 (475)
T TIGR01125       322 VPDAVLRTTFIVGFPGET--EEDFQELLDFVEEG  353 (475)
T ss_pred             CCCCEEEEEEEECCCCCC--HHHHHHHHHHHHHH
T ss_conf             566177224688688998--78899999998520


No 10 
>pfam05251 UPF0197 Uncharacterized protein family (UPF0197). This family of proteins is functionally uncharacterized.
Probab=10.96  E-value=1.5e+02  Score=13.43  Aligned_cols=12  Identities=42%  Similarity=0.570  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999999999887
Q gi|254781227|r   54 EYKEFVISAFAK   65 (68)
Q Consensus        54 eykefvisafak   65 (68)
                      -|||..||++|-
T Consensus        48 l~KEllis~~as   59 (77)
T pfam05251        48 LFKELLISLVAS   59 (77)
T ss_pred             HHHHHHHHHHHH
T ss_conf             899999999999


Done!