Query         gi|254781023|ref|YP_003065436.1| hypothetical protein CLIBASIA_04625 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 34
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 23785
Date          Tue May 31 23:35:59 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781023.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3e8v_A Possible transglutamina   5.4      94  0.0039   14.9  -0.4   18    4-21     43-60  (82)
  2 3la7_A Global nitrogen regulat   4.5 1.7E+02   0.007   13.8   0.4   21   12-32     31-53  (243)
  3 3lvf_P GAPDH 1, glyceraldehyde   4.4 2.1E+02  0.0088   13.3   0.9   21   11-31    195-217 (338)
  4 2g82_O GAPDH, glyceraldehyde-3   3.9   2E+02  0.0086   13.3   0.4   28    3-30    181-210 (331)
  5 3mmp_G RNA-directed RNA polyme   3.7 2.6E+02   0.011   12.9   0.8   18    2-19    381-398 (589)
  6 2pw8_I Lepirudin, hirudin vari   2.5 3.5E+02   0.015   12.3   0.4   18    3-20     45-62  (65)
  7 1gad_O D-glyceraldehyde-3-phos   2.3 4.3E+02   0.018   11.8   0.7   28    3-30    181-211 (330)
  8 3d4r_A Domain of unknown funct   2.3 3.4E+02   0.014   12.3   0.2   11    6-16    130-140 (169)
  9 1l9v_A Rotavirus-NSP2; alpha/b   2.3 3.5E+02   0.015   12.3   0.2    9    7-15    219-227 (317)
 10 2gu0_A Nonstructural protein 2   2.2 3.6E+02   0.015   12.2   0.2    9    7-15    216-224 (312)

No 1  
>3e8v_A Possible transglutaminase-family protein; structural genomics, unknown function, PSI-2, protein structure initiative; 2.40A {Bacteroides fragilis nctc 9343}
Probab=5.37  E-value=94  Score=14.90  Aligned_cols=18  Identities=33%  Similarity=0.545  Sum_probs=13.3

Q ss_pred             CCCCCCCCCCHHHHHHCC
Q ss_conf             100003765101112104
Q gi|254781023|r    4 QRRITSGKGDFRESATEN   21 (34)
Q Consensus         4 qrritsgkgdfresaten   21 (34)
                      +-+++.|+||+.-+|..+
T Consensus        43 ~a~lt~G~Gdmlv~A~k~   60 (82)
T 3e8v_A           43 HASLTAGKGDMLVWASKD   60 (82)
T ss_dssp             EEEEECCSEEEEEEEEET
T ss_pred             EEEEEECCCCEEEEEECC
T ss_conf             099995587599999859


No 2  
>3la7_A Global nitrogen regulator; activator, DNA-binding, transcription, transcription regulation; HET: BOG; 1.90A {Anabaena} PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A*
Probab=4.55  E-value=1.7e+02  Score=13.76  Aligned_cols=21  Identities=29%  Similarity=0.567  Sum_probs=14.9

Q ss_pred             CCHHHHHHCCCCCCCC--CCCCC
Q ss_conf             5101112104886424--67422
Q gi|254781023|r   12 GDFRESATENIPPSIK--GKGEM   32 (34)
Q Consensus        12 gdfresatenippsik--gkgem   32 (34)
                      -+||+-+.++.||.|+  .||+.
T Consensus        31 ~~~~~l~~~~~~~~i~ty~kge~   53 (243)
T 3la7_A           31 NVFRQMATGAFPPVVETFERNKT   53 (243)
T ss_dssp             HHHHHHCCSSCCCEEEEECTTCE
T ss_pred             HHHHHHCCCCCCCCEEEECCCCE
T ss_conf             99987320236620379899999


No 3  
>3lvf_P GAPDH 1, glyceraldehyde-3-phosphate dehydrogenase 1; oxidoreductase, glycolysis, rossmann fold; HET: NAD; 1.70A {Staphylococcus aureus} PDB: 3l6o_Q 3k73_Q 3lc2_O* 3lc7_O 3lc1_P* 3hq4_R* 3kv3_O* 3l4s_Q* 3k9q_Q* 3ksd_Q* 3ksz_O*
Probab=4.40  E-value=2.1e+02  Score=13.29  Aligned_cols=21  Identities=48%  Similarity=0.697  Sum_probs=14.4

Q ss_pred             CCCHH--HHHHCCCCCCCCCCCC
Q ss_conf             65101--1121048864246742
Q gi|254781023|r   11 KGDFR--ESATENIPPSIKGKGE   31 (34)
Q Consensus        11 kgdfr--esatenippsikgkge   31 (34)
                      |.|+|  .+|..||-|+-.|-..
T Consensus       195 ~~d~Rr~Raa~~nIIPttTgaak  217 (338)
T 3lvf_P          195 KGDKRRARAAAENIIPNSTGAAK  217 (338)
T ss_dssp             TCCTTTTSCGGGCCEEEECSTTT
T ss_pred             CCCCCCCCHHHHCCEECCCCHHH
T ss_conf             77766651355274226652789


No 4  
>2g82_O GAPDH, glyceraldehyde-3-phosphate dehydrogenase; G3PDH, glycolysis, oxidoreductase, NAD, rossmann fold; HET: NAD PGE; 1.65A {Thermus aquaticus} SCOP: c.2.1.3 d.81.1.1 PDB: 1cer_O* 1vc2_A*
Probab=3.86  E-value=2e+02  Score=13.34  Aligned_cols=28  Identities=32%  Similarity=0.447  Sum_probs=17.5

Q ss_pred             CCCCCCCCCCCHHH--HHHCCCCCCCCCCC
Q ss_conf             31000037651011--12104886424674
Q gi|254781023|r    3 TQRRITSGKGDFRE--SATENIPPSIKGKG   30 (34)
Q Consensus         3 tqrritsgkgdfre--satenippsikgkg   30 (34)
                      +|+-+-.-..|||.  +|..||-|+..|-.
T Consensus       181 ~Q~l~D~~~~d~Rr~Raa~~nIIPtsTgAa  210 (331)
T 2g82_O          181 DQRLLDLPHKDLRRARAAAINIIPTTTGAA  210 (331)
T ss_dssp             TSBSSSCCCSSTTTTSBGGGCCEEECCCHH
T ss_pred             CCCCCCCCCCCCCCCCHHHCCCCCCCCCCC
T ss_conf             752355777664432545505666667621


No 5  
>3mmp_G RNA-directed RNA polymerase beta chain; RDRP,HOST-factor complex, translation, transferase; HET: PXN; 2.50A {Enterobacteria phage qbeta}
Probab=3.68  E-value=2.6e+02  Score=12.87  Aligned_cols=18  Identities=39%  Similarity=0.516  Sum_probs=12.4

Q ss_pred             CCCCCCCCCCCCHHHHHH
Q ss_conf             731000037651011121
Q gi|254781023|r    2 KTQRRITSGKGDFRESAT   19 (34)
Q Consensus         2 ktqrritsgkgdfresat   19 (34)
                      ++.++-|-.+|-||||.-
T Consensus       381 ~~N~kKTF~~G~FRESCG  398 (589)
T 3mmp_G          381 TTNTKKTFSEGPFRESCG  398 (589)
T ss_dssp             CBCGGGCBSSSSEEEETT
T ss_pred             ECCCCCCCCCCCCHHHHC
T ss_conf             037765435676332312


No 6  
>2pw8_I Lepirudin, hirudin variant-1; thrombin, sulfotyrosine, hydrolase; HET: TYS; 1.84A {Hirudo medicinalis} PDB: 1hrt_I 2hir_A 5hir_A 4hir_A 6hir_A 3htc_I 4htc_I* 2joo_A 1hic_A
Probab=2.46  E-value=3.5e+02  Score=12.25  Aligned_cols=18  Identities=33%  Similarity=0.532  Sum_probs=10.3

Q ss_pred             CCCCCCCCCCCHHHHHHC
Q ss_conf             310000376510111210
Q gi|254781023|r    3 TQRRITSGKGDFRESATE   20 (34)
Q Consensus         3 tqrritsgkgdfresate   20 (34)
                      |..+-..+.|||.|-..|
T Consensus        45 Tpkpqs~~~gDFeeipee   62 (65)
T 2pw8_I           45 TPKPQSHNDGDFEEIPEE   62 (65)
T ss_dssp             EECCCC---CCCCCCCGG
T ss_pred             CCCCCCCCCCCCCCCCHH
T ss_conf             768755688774528477


No 7  
>1gad_O D-glyceraldehyde-3-phosphate dehydrogenase; oxidoreductase (aldehyde(D)-NAD+(A)); HET: NAD; 1.80A {Escherichia coli} SCOP: c.2.1.3 d.81.1.1 PDB: 1dc4_A* 1dc3_A 1dc6_A* 1dc5_A* 1s7c_A* 1gae_O* 2vyn_A* 2vyv_A*
Probab=2.31  E-value=4.3e+02  Score=11.83  Aligned_cols=28  Identities=36%  Similarity=0.602  Sum_probs=17.4

Q ss_pred             CCCCCCC-CCCCHH--HHHHCCCCCCCCCCC
Q ss_conf             3100003-765101--112104886424674
Q gi|254781023|r    3 TQRRITS-GKGDFR--ESATENIPPSIKGKG   30 (34)
Q Consensus         3 tqrrits-gkgdfr--esatenippsikgkg   30 (34)
                      +|+-+-+ ...|+|  .+|..||-|+-.|-.
T Consensus       181 ~Q~l~D~~~~~d~Rr~Raa~~niIPt~Tgaa  211 (330)
T 1gad_O          181 TQKTVDGPSHKDWRGGRGASQNIIPSSTGAA  211 (330)
T ss_dssp             TSBSSSCCCSSCGGGGSBTTTCCEEEECCTT
T ss_pred             CCCCCCCCCCCCCCCCCHHHHCCCCCCCCHH
T ss_conf             8731237676654445424416652566388


No 8  
>3d4r_A Domain of unknown function from the PFAM-B_34464; structural genomics, joint center for structural genomics; HET: MSE; 2.20A {Methanococcus maripaludis}
Probab=2.30  E-value=3.4e+02  Score=12.31  Aligned_cols=11  Identities=45%  Similarity=0.670  Sum_probs=6.7

Q ss_pred             CCCCCCCCHHH
Q ss_conf             00037651011
Q gi|254781023|r    6 RITSGKGDFRE   16 (34)
Q Consensus         6 ritsgkgdfre   16 (34)
                      -|+++||+.|-
T Consensus       130 ~i~T~KGEVR~  140 (169)
T 3d4r_A          130 TLESKKGDLRY  140 (169)
T ss_dssp             EEECTTCCEEE
T ss_pred             EEEECCCCEEE
T ss_conf             99826850799


No 9  
>1l9v_A Rotavirus-NSP2; alpha/beta protein, HIT-like fold, octamer, two domain protein, viral protein; 2.60A {Simian 11 rotavirus} SCOP: d.13.2.1 d.216.1.1 PDB: 2r7c_A* 2r7j_A 2r7p_A* 2r8f_A*
Probab=2.29  E-value=3.5e+02  Score=12.25  Aligned_cols=9  Identities=67%  Similarity=1.217  Sum_probs=0.0

Q ss_pred             CCCCCCCHH
Q ss_conf             003765101
Q gi|254781023|r    7 ITSGKGDFR   15 (34)
Q Consensus         7 itsgkgdfr   15 (34)
                      ||.|||.+|
T Consensus       219 ItHGKgHyR  227 (317)
T 1l9v_A          219 ITHGKGHYR  227 (317)
T ss_dssp             EECSSSSEE
T ss_pred             EECCCCEEE
T ss_conf             961786079


No 10 
>2gu0_A Nonstructural protein 2; NSP2, HIT motif, bristol, viral protein; 2.80A {Human rotavirus C}
Probab=2.21  E-value=3.6e+02  Score=12.17  Aligned_cols=9  Identities=44%  Similarity=0.844  Sum_probs=0.0

Q ss_pred             CCCCCCCHH
Q ss_conf             003765101
Q gi|254781023|r    7 ITSGKGDFR   15 (34)
Q Consensus         7 itsgkgdfr   15 (34)
                      ||.|||.+|
T Consensus       216 ItHGkgHyR  224 (312)
T 2gu0_A          216 ISHGKRHWR  224 (312)
T ss_dssp             ECSSSSEEE
T ss_pred             EECCCCCEE
T ss_conf             961776079


Done!