Query         gi|254780379|ref|YP_003064792.1| flagellar hook-basal body protein FliE [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 108
No_of_seqs    102 out of 524
Neff          6.0 
Searched_HMMs 33803
Date          Wed Jun  1 12:34:44 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780379.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2qn0_A Neurotoxin; botulism,   33.9      22 0.00066   15.8   1.8   14   92-105    56-69  (87)
  2 >1pdn_C Protein (PRD paired);   18.6      60  0.0018   13.3   1.7   12   91-102     5-16  (53)
  3 >3c24_A Putative oxidoreductas  17.4      61  0.0018   13.2   1.5   36   38-73      5-40  (72)
  4 >1se7_A HOT, homologue of the   11.6      93  0.0027   12.1   1.3   10   99-108    27-36  (83)
  5 >2qn0_A Neurotoxin; botulism,   11.2      96  0.0028   12.1   2.2   17   88-104     7-23  (65)
  6 >2bpq_A Anthranilate phosphori  10.8      94  0.0028   12.1   0.9   40   32-71     19-58  (212)
  7 >2k27_A Paired box protein PAX  10.7      99  0.0029   11.9   2.2   13   90-102    28-40  (75)
  8 >1l6x_B Minimized B-domain of   10.4   1E+02   0.003   11.9   1.3   10   98-107     7-16  (34)
  9 >1zda_A Mini protein A domain,  10.1   1E+02  0.0031   11.8   1.5   10   98-107    12-21  (38)
 10 >1wwp_A Hypothetical protein T   9.9      76  0.0022   12.7   0.1   18   86-103    77-94  (119)

No 1  
>>2qn0_A Neurotoxin; botulism, snares, protease; 1.75A {Clostridium botulinum} PDB: 3deb_A (A:223-278,A:344-374)
Probab=33.91  E-value=22  Score=15.81  Aligned_cols=14  Identities=21%  Similarity=0.546  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHC
Q ss_conf             99999999999961
Q gi|254780379|r   92 LRDKILSAVSEVSK  105 (108)
Q Consensus        92 VRnK~v~AYqeImr  105 (108)
                      +|||.|+-|+|+..
T Consensus        56 ~~~~~~~~~~~~~~   69 (87)
T 2qn0_A           56 IRNKFVELYNELTQ   69 (87)
T ss_dssp             GHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
T ss_conf             28999999999982


No 2  
>>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} (C:17-69)
Probab=18.56  E-value=60  Score=13.26  Aligned_cols=12  Identities=25%  Similarity=0.434  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999999999999
Q gi|254780379|r   91 ALRDKILSAVSE  102 (108)
Q Consensus        91 qVRnK~v~AYqe  102 (108)
                      -.|.|+|++|++
T Consensus         5 DlR~riv~~~~~   16 (53)
T 1pdn_C            5 NIRLKIVEMAAD   16 (53)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHC
T ss_conf             999999999986


No 3  
>>3c24_A Putative oxidoreductase; YP_511008.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 1.62A {Jannaschia SP} (A:196-267)
Probab=17.44  E-value=61  Score=13.22  Aligned_cols=36  Identities=8%  Similarity=0.093  Sum_probs=26.3

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHH
Q ss_conf             659999999999999999999999999981489899
Q gi|254780379|r   38 ISFSALLQDMAKGAIGDMEKAENVSLAALQGKTSMR   73 (108)
Q Consensus        38 ~sF~~~L~~~i~~vn~~q~~a~~~~~~~~~G~~dl~   73 (108)
                      .+|..+|.++++++...----++...+|++|-.++-
T Consensus         5 ~~ll~~mreA~dE~V~r~GVP~~aArdfLlGH~~i~   40 (72)
T 3c24_A            5 XPFVETXVHAVDECADRYGIDRQAALDFXIGHLNVE   40 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             899999999999999984998999999986354445


No 4  
>>1se7_A HOT, homologue of the theta subunit of DNA polymerase III; E. coli bacteriophage P1, homologue of theta, E. coli DNA polymerase III; NMR {Enterobacteria phage P1} (A:)
Probab=11.59  E-value=93  Score=12.13  Aligned_cols=10  Identities=20%  Similarity=0.238  Sum_probs=7.2

Q ss_pred             HHHHHHCCCC
Q ss_conf             9999961889
Q gi|254780379|r   99 AVSEVSKMQI  108 (108)
Q Consensus        99 AYqeImrMqV  108 (108)
                      ||+|=.||||
T Consensus        27 afkERyNmpV   36 (83)
T 1se7_A           27 AYKERLNIPV   36 (83)
T ss_dssp             HHHHHTCCCC
T ss_pred             HHHHHHCCCC
T ss_conf             9999817854


No 5  
>>2qn0_A Neurotoxin; botulism, snares, protease; 1.75A {Clostridium botulinum} PDB: 3deb_A (A:279-343)
Probab=11.18  E-value=96  Score=12.05  Aligned_cols=17  Identities=12%  Similarity=0.143  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999996
Q gi|254780379|r   88 LSIALRDKILSAVSEVS  104 (108)
Q Consensus        88 ~~vqVRnK~v~AYqeIm  104 (108)
                      +-.++|+|+++-|+.|-
T Consensus         7 ~~~~iy~k~L~~y~~IA   23 (65)
T 2qn0_A            7 ARKYFEEKALDYYRSIA   23 (65)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             67899999877799999


No 6  
>>2bpq_A Anthranilate phosphoribosyltransferase; tryptophan biosynthesis, transferase phosphoribosyltransferase, amino-acid biosynthesis; 1.9A {Mycobacterium tuberculosis} PDB: 1zvw_A* (A:1-112,A:185-284)
Probab=10.77  E-value=94  Score=12.09  Aligned_cols=40  Identities=13%  Similarity=0.064  Sum_probs=33.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             7888866599999999999999999999999999814898
Q gi|254780379|r   32 EGGSSPISFSALLQDMAKGAIGDMEKAENVSLAALQGKTS   71 (108)
Q Consensus        32 ~~~~~~~sF~~~L~~~i~~vn~~q~~a~~~~~~~~~G~~d   71 (108)
                      ........|.++++...+.-+=...++......+..|+.+
T Consensus        19 ~~~~~~~~~~~~l~kl~~g~~Ls~eEa~~~~~~i~~g~~s   58 (212)
T 2bpq_A           19 AEAASVPSWPQILGRLTDNRDLARGQAAWAMDQIMTGNAR   58 (212)
T ss_dssp             ------CCHHHHHHHHHTTCCCCTTHHHHHHHHHHTTCCC
T ss_pred             CCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             7877779889999999769997999999999999879999


No 7  
>>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens} (A:1-75)
Probab=10.69  E-value=99  Score=11.95  Aligned_cols=13  Identities=15%  Similarity=0.365  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999999999
Q gi|254780379|r   90 IALRDKILSAVSE  102 (108)
Q Consensus        90 vqVRnK~v~AYqe  102 (108)
                      +..|.|+|++|++
T Consensus        28 ~DLR~rIV~~~~~   40 (75)
T 2k27_A           28 EVVRQRIVDLAHQ   40 (75)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC
T ss_conf             9999999999975


No 8  
>>1l6x_B Minimized B-domain of protein A Z34C; IGG1 FC, FC complex, immune system; HET: NAG BMA MAN GAL FUL; 1.65A {Homo sapiens} (B:)
Probab=10.44  E-value=1e+02  Score=11.90  Aligned_cols=10  Identities=10%  Similarity=-0.117  Sum_probs=0.0

Q ss_pred             HHHHHHHCCC
Q ss_conf             9999996188
Q gi|254780379|r   98 SAVSEVSKMQ  107 (108)
Q Consensus        98 ~AYqeImrMq  107 (108)
                      .||-||.+||
T Consensus         7 ~afyEil~lP   16 (34)
T 1l6x_B            7 RRFYEALHDP   16 (34)
T ss_dssp             HHHHHHHHCT
T ss_pred             HHHHHHHHCC
T ss_conf             9999998088


No 9  
>>1zda_A Mini protein A domain, Z38; IGG binding domain, protein A mimic; NMR {Synthetic construct} (A:)
Probab=10.07  E-value=1e+02  Score=11.82  Aligned_cols=10  Identities=10%  Similarity=-0.117  Sum_probs=0.0

Q ss_pred             HHHHHHHCCC
Q ss_conf             9999996188
Q gi|254780379|r   98 SAVSEVSKMQ  107 (108)
Q Consensus        98 ~AYqeImrMq  107 (108)
                      .||-||.+||
T Consensus        12 ~afyEil~lP   21 (38)
T 1zda_A           12 RRFYEALHDP   21 (38)
T ss_dssp             HHHHHHHSCS
T ss_pred             HHHHHHHHCC
T ss_conf             9999998188


No 10 
>>1wwp_A Hypothetical protein TTHA0636; structural genomics, unknown function, riken structural genomics/proteomics initiative, RSGI; 2.11A {Thermus thermophilus HB8} (A:)
Probab=9.86  E-value=76  Score=12.66  Aligned_cols=18  Identities=11%  Similarity=-0.062  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999999
Q gi|254780379|r   86 LNLSIALRDKILSAVSEV  103 (108)
Q Consensus        86 l~~~vqVRnK~v~AYqeI  103 (108)
                      +.-++..||.++--|.+|
T Consensus        77 l~~~~~~RN~lvH~Y~~i   94 (119)
T 1wwp_A           77 ALGXVDDRSLTVHTYNEP   94 (119)
T ss_dssp             HHHHHHHHHHGGGTTSHH
T ss_pred             HHHHHHHCCCCCCCCCHH
T ss_conf             999998658532224598


Done!