Query         gi|254780208|ref|YP_003064621.1| hypothetical protein CLIBASIA_00465 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 66
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 33803
Date          Mon May 23 14:47:50 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780208.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2jxj_A Histone demethylase ja  10.8 1.2E+02  0.0035   12.8   2.1   15    9-23      6-20  (37)
  2 >3ir4_A Glutaredoxin 2; glutat   9.3 1.2E+02  0.0037   12.7   1.0   12   22-33     89-100 (131)
  3 >1a6d_B Thermosome (beta subun   7.5   1E+02  0.0031   13.1   0.0   29   30-58      2-30  (104)
  4 >2cy7_A Cysteine protease APG4   7.1 1.7E+02  0.0051   11.9   1.1   17    2-18     73-89  (365)
  5 >2p82_A Cysteine protease ATG4   6.2 1.9E+02  0.0057   11.7   1.1   16    2-17     69-84  (355)
  6 >2v3c_C SRP54, signal recognit   5.6 1.3E+02  0.0039   12.5  -0.3   30   31-60     70-107 (108)
  7 >2kix_A BM2 protein; channel,    5.1 2.3E+02  0.0067   11.3   2.6   16   47-62      7-22  (33)
  8 >1q3q_A Thermosome alpha subun   4.9 1.3E+02  0.0038   12.6  -0.7   28   30-57      2-29  (105)
  9 >2veq_A Centromere DNA-binding   4.9 2.3E+02  0.0069   11.2   2.2   14   45-58     73-86  (131)
 10 >2efe_A Similarity to vacuolar   4.7 2.2E+02  0.0066   11.3   0.4   23   35-57     16-38  (96)

No 1  
>>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens} (A:1-37)
Probab=10.78  E-value=1.2e+02  Score=12.81  Aligned_cols=15  Identities=40%  Similarity=0.601  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             999999999766999
Q gi|254780208|r    9 RIMHLFLDQIGNFLM   23 (66)
Q Consensus         9 rimhlfldqignflm   23 (66)
                      |+---|||||..|--
T Consensus         6 RVkLnfLdqiaKfWe   20 (37)
T 2jxj_A            6 RVRLDFLDQLAKFWE   20 (37)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
T ss_conf             069999999999999


No 2  
>>3ir4_A Glutaredoxin 2; glutathione, IDP00895, structural genomics, center for structural genomics of infectious diseases, csgid; HET: MSE GTT; 1.20A {Salmonella enterica subsp} PDB: 1g7o_A (A:1-80,A:168-218)
Probab=9.31  E-value=1.2e+02  Score=12.72  Aligned_cols=12  Identities=42%  Similarity=0.935  Sum_probs=9.0

Q ss_pred             HHHHHHHHCCHH
Q ss_conf             999999713216
Q gi|254780208|r   22 LMFFPMLRNRHM   33 (66)
Q Consensus        22 lmffpmlrnrhm   33 (66)
                      ...||+|||-.+
T Consensus        89 i~~fp~lr~lt~  100 (131)
T 3ir4_A           89 IHLFPLLRNLTL  100 (131)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHC
T ss_conf             999999998753


No 3  
>>1a6d_B Thermosome (beta subunit); group II chaperonin, CCT, TRIC, protein folding, ATPase; 2.60A {Thermoplasma acidophilum} (B:147-215,B:368-402)
Probab=7.51  E-value=1e+02  Score=13.11  Aligned_cols=29  Identities=14%  Similarity=0.218  Sum_probs=22.6

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             32168899888878999999999999999
Q gi|254780208|r   30 NRHMSIKILKNTLTTAFISSFKSFISRFL   58 (66)
Q Consensus        30 nrhmsikilkntlttafissfksfisrfl   58 (66)
                      |+..-+++.+.++++-+++..+.+++...
T Consensus         2 D~e~L~~va~TslsSK~~~~~~d~la~lv   30 (104)
T 1a6d_B            2 EKALLLKMAQTSLNSKSASVAKDKLAEIS   30 (104)
T ss_dssp             HHHHHHHHHHHHHTTSGGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             58998875551025313566777777788


No 4  
>>2cy7_A Cysteine protease APG4B; papain-like fold, autophagy, hydrolase; 1.90A {Homo sapiens} (A:1-365)
Probab=7.06  E-value=1.7e+02  Score=11.93  Aligned_cols=17  Identities=29%  Similarity=0.602  Sum_probs=13.1

Q ss_pred             CHHHHHHHHHHHHHHHH
Q ss_conf             06999999999999997
Q gi|254780208|r    2 CIWGMMIRIMHLFLDQI   18 (66)
Q Consensus         2 ciwgmmirimhlfldqi   18 (66)
                      |=||-|||-....|.|.
T Consensus        73 ~GWGCMlR~gQMlLAqa   89 (365)
T 2cy7_A           73 TGWGCMLRCGQMIFAQA   89 (365)
T ss_dssp             TTTCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH
T ss_conf             76127887788888889


No 5  
>>2p82_A Cysteine protease ATG4A; autophagy, hydrolase, protein transport, thiol protease, transport, UBL conjugation pathway, structural genomics; 2.10A {Homo sapiens} (A:)
Probab=6.23  E-value=1.9e+02  Score=11.69  Aligned_cols=16  Identities=38%  Similarity=0.731  Sum_probs=12.7

Q ss_pred             CHHHHHHHHHHHHHHH
Q ss_conf             0699999999999999
Q gi|254780208|r    2 CIWGMMIRIMHLFLDQ   17 (66)
Q Consensus         2 ciwgmmirimhlfldq   17 (66)
                      |=||-|||-....|.|
T Consensus        69 ~GWGCmlR~gQMlLAq   84 (355)
T 2p82_A           69 AGWGCMLRCGQMMLAQ   84 (355)
T ss_dssp             TTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
T ss_conf             7740799999999988


No 6  
>>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} (C:1-91,C:280-296)
Probab=5.61  E-value=1.3e+02  Score=12.55  Aligned_cols=30  Identities=37%  Similarity=0.435  Sum_probs=17.8

Q ss_pred             CHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHH
Q ss_conf             216889988887899999--------999999999999
Q gi|254780208|r   31 RHMSIKILKNTLTTAFIS--------SFKSFISRFLHM   60 (66)
Q Consensus        31 rhmsikilkntlttafis--------sfksfisrflhm   60 (66)
                      +..-+++++..|+.-.-.        .-|.||||.|.|
T Consensus        70 ~~~v~kav~deL~~iL~p~~~~~~~~~~~~~~~~~~~~  107 (108)
T 2v3c_C           70 KEHIIKIVYEELVKLLGEEAKKLEPFDPKKFISRLLGM  107 (108)
T ss_dssp             HHHHHHHHHHHHHHHHCCSCCCCCBCCHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCHHHHCHHHHHHHHHCC
T ss_conf             99999999999998746332203332649999988436


No 7  
>>2kix_A BM2 protein; channel, transport protein; NMR {Influenza b virus} (A:)
Probab=5.11  E-value=2.3e+02  Score=11.30  Aligned_cols=16  Identities=56%  Similarity=0.663  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999999999999971
Q gi|254780208|r   47 ISSFKSFISRFLHMIA   62 (66)
Q Consensus        47 issfksfisrflhmia   62 (66)
                      |-|.-|||-.-||.+|
T Consensus         7 ilsi~sfilsalhf~a   22 (33)
T 2kix_A            7 ILSISSFILSALHFIA   22 (33)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             9999999999999999


No 8  
>>1q3q_A Thermosome alpha subunit; chaperone, chaperonin; HET: ANP; 2.30A {Thermococcus SP} (A:149-217,A:369-404)
Probab=4.95  E-value=1.3e+02  Score=12.63  Aligned_cols=28  Identities=18%  Similarity=0.322  Sum_probs=21.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             3216889988887899999999999999
Q gi|254780208|r   30 NRHMSIKILKNTLTTAFISSFKSFISRF   57 (66)
Q Consensus        30 nrhmsikilkntlttafissfksfisrf   57 (66)
                      ||..-+++.+.++++-+++..+.|++..
T Consensus         2 d~e~L~~va~TslsSK~~~~~~d~la~l   29 (105)
T 1q3q_A            2 DEETLLKIAATSITGKNAESHKELLAKL   29 (105)
T ss_dssp             CHHHHHHHHHHHSCSSTTGGGHHHHHHH
T ss_pred             CHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             2889988888742022115589999999


No 9  
>>2veq_A Centromere DNA-binding protein complex CBF3 subunit B; transcription factor, cell cycle, zinc, CEP3P, nucleus, phosphorylation; 2.49A {Saccharomyces cerevisiae} PDB: 2quq_A (A:278-408)
Probab=4.87  E-value=2.3e+02  Score=11.20  Aligned_cols=14  Identities=36%  Similarity=0.503  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999999
Q gi|254780208|r   45 AFISSFKSFISRFL   58 (66)
Q Consensus        45 afissfksfisrfl   58 (66)
                      .|-|.|.+|+++|+
T Consensus        73 S~nskFekF~~~f~   86 (131)
T 2veq_A           73 SNNSRFQKFIALFQ   86 (131)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             67778999999999


No 10 
>>2efe_A Similarity to vacuolar protein sorting- associated protein VPS9; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_A 2efc_A* 2efh_A* (A:1-96)
Probab=4.73  E-value=2.2e+02  Score=11.31  Aligned_cols=23  Identities=30%  Similarity=0.590  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89988887899999999999999
Q gi|254780208|r   35 IKILKNTLTTAFISSFKSFISRF   57 (66)
Q Consensus        35 ikilkntlttafissfksfisrf   57 (66)
                      ++-||+.-......+.|+||.+|
T Consensus        16 L~~Lk~psa~~i~k~ik~Fi~~f   38 (96)
T 2efe_A           16 LERMRKPSAGDFVKSIKSFIVSF   38 (96)
T ss_dssp             ---CCSGGGHHHHHHHHHHHHTT
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHH
T ss_conf             99873121248999999999986


Done!