Query         gi|254781169|ref|YP_003065582.1| ascorbate-specific PTS system enzyme IIC/IIB [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 461
No_of_seqs    130 out of 259
Neff          4.7 
Searched_HMMs 13730
Date          Wed Jun  1 11:45:06 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781169.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d2d69a2 d.58.9.1 (A:8-133) Rib  23.5      10 0.00076   13.7   0.6   32  196-227    88-122 (126)
  2 d1geha2 d.58.9.1 (A:12-136) Ri  21.6      12 0.00087   13.3   0.6   31  197-227    88-121 (125)
  3 d1svda2 d.58.9.1 (A:16-142) Ri  19.7      16  0.0011   12.6   0.9   33  195-227    87-122 (127)
  4 d1vcoa2 c.37.1.10 (A:11-282) C  17.8      19  0.0014   12.1   0.9   11   77-87     33-43  (272)
  5 d1wdda2 d.58.9.1 (A:11-150) Ri  16.9      19  0.0014   12.0   0.8   33  195-227    99-134 (140)
  6 d1bwva2 d.58.9.1 (A:7-149) Rib  16.4      16  0.0012   12.4   0.3   33  195-227   104-139 (144)
  7 d1xfja_ d.194.1.2 (A:) Hypothe  14.9     6.8  0.0005   15.0  -1.9   36  357-397   109-144 (256)
  8 d1ccda_ a.101.1.1 (A:) Clara c  14.5      23  0.0017   11.4   1.6   36  293-329     2-37  (77)
  9 d1j1va_ a.4.12.2 (A:) Chromoso  13.1      25  0.0018   11.2   0.6   14  205-218    50-63  (94)
 10 d1t8ha_ d.194.1.2 (A:) Hypothe  10.6      12 0.00087   13.3  -1.8   36  359-399   126-161 (272)

No 1  
>d2d69a2 d.58.9.1 (A:8-133) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Archaeon Pyrococcus horikoshii [TaxId: 53953]}
Probab=23.52  E-value=10  Score=13.74  Aligned_cols=32  Identities=3%  Similarity=-0.003  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHCCCC---CCCHHHHCCCCHH
Q ss_conf             1469999999997561882---0073431288314
Q gi|254781169|r  196 QQQVASWIAYKIAPYLGDR---SENINSLKLSKWL  227 (461)
Q Consensus       196 ~~~~~~~~a~~ig~~~G~k---~~stE~iklPk~L  227 (461)
                      -+++...+++.+|..||=|   .-+.||+.+|+..
T Consensus        88 eGsv~nlltsI~GNvfG~kav~aLRLeD~r~P~ay  122 (126)
T d2d69a2          88 EGSLVQLFSAVAGNVFGMKALKNLRLLDFHPPYEY  122 (126)
T ss_dssp             TTCHHHHHHHHTTGGGGCTTEEEEEEEEEECCHHH
T ss_pred             CCCHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHH
T ss_conf             54245677775155133036543024240488999


No 2  
>d1geha2 d.58.9.1 (A:12-136) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Archaeon Thermococcus kodakaraensis [TaxId: 311400]}
Probab=21.57  E-value=12  Score=13.34  Aligned_cols=31  Identities=13%  Similarity=0.189  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHCCCCC---CCHHHHCCCCHH
Q ss_conf             4699999999975618820---073431288314
Q gi|254781169|r  197 QQVASWIAYKIAPYLGDRS---ENINSLKLSKWL  227 (461)
Q Consensus       197 ~~~~~~~a~~ig~~~G~k~---~stE~iklPk~L  227 (461)
                      +++-..+++.+|..||=|.   -+.||+.+|+..
T Consensus        88 gsv~nlltsi~GNvfG~kal~alRLeD~r~P~a~  121 (125)
T d1geha2          88 ANLPGLLASIAGNIFGMKRVKGLRLEDLYFPEKL  121 (125)
T ss_dssp             TCHHHHHHHHTSGGGGCTTEEECEEEEEECCHHH
T ss_pred             CCHHHHHHHHHCCCCCCCHHHCCEECCCCCCHHH
T ss_conf             5066777776063025421102031020389889


No 3  
>d1svda2 d.58.9.1 (A:16-142) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Archaeon Halothiobacillus neapolitanus [TaxId: 927]}
Probab=19.75  E-value=16  Score=12.58  Aligned_cols=33  Identities=6%  Similarity=0.134  Sum_probs=26.9

Q ss_pred             EHHHHHHHHHHHHHHHCCCCC---CCHHHHCCCCHH
Q ss_conf             014699999999975618820---073431288314
Q gi|254781169|r  195 HQQQVASWIAYKIAPYLGDRS---ENINSLKLSKWL  227 (461)
Q Consensus       195 H~~~~~~~~a~~ig~~~G~k~---~stE~iklPk~L  227 (461)
                      .-+++...+++.+|..||=|.   -+.||+.+|...
T Consensus        87 EeGsv~n~ltsI~GNvfGmKal~alRLeD~riP~ay  122 (127)
T d1svda2          87 EEGSVVNVFTSLVGNVFGFKAVRGLRLEDVRFPLAY  122 (127)
T ss_dssp             CTTCHHHHHHHHHSSGGGCTTEEEEEEEEEECCHHH
T ss_pred             CCCHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHH
T ss_conf             520056777775044100466655244014589899


No 4  
>d1vcoa2 c.37.1.10 (A:11-282) CTP synthase PyrG, N-terminal domain {Thermus thermophilus [TaxId: 274]}
Probab=17.85  E-value=19  Score=12.06  Aligned_cols=11  Identities=36%  Similarity=0.673  Sum_probs=4.4

Q ss_pred             HCCCEECCCHH
Q ss_conf             18802525828
Q gi|254781169|r   77 HHIDGSIIDPY   87 (461)
Q Consensus        77 f~~~gvv~~~~   87 (461)
                      +.+.-.=.|||
T Consensus        33 ~~v~~~K~DpY   43 (272)
T d1vcoa2          33 YRVTAIKIDPY   43 (272)
T ss_dssp             CCEEEEEEECS
T ss_pred             CCEEEEEECCC
T ss_conf             86047740453


No 5  
>d1wdda2 d.58.9.1 (A:11-150) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Rice (Oryza sativa) [TaxId: 4530]}
Probab=16.87  E-value=19  Score=11.97  Aligned_cols=33  Identities=9%  Similarity=0.202  Sum_probs=26.8

Q ss_pred             EHHHHHHHHHHHHHHHCCCC---CCCHHHHCCCCHH
Q ss_conf             01469999999997561882---0073431288314
Q gi|254781169|r  195 HQQQVASWIAYKIAPYLGDR---SENINSLKLSKWL  227 (461)
Q Consensus       195 H~~~~~~~~a~~ig~~~G~k---~~stE~iklPk~L  227 (461)
                      --+++...+++.+|..||=|   .-+.||+.+|...
T Consensus        99 EeGsv~nlltsIvGNvfGmKav~alRLeD~r~P~ay  134 (140)
T d1wdda2          99 EEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPPTY  134 (140)
T ss_dssp             CTTCHHHHHHHHHSSGGGBTTEEEEEEEEEECCHHH
T ss_pred             CCCCHHHHHHHHHCCCCCHHHHHHCCHHHCCCCHHH
T ss_conf             785187777876354112255401202001589899


No 6  
>d1bwva2 d.58.9.1 (A:7-149) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Galdieria partita [TaxId: 83374]}
Probab=16.39  E-value=16  Score=12.42  Aligned_cols=33  Identities=15%  Similarity=0.215  Sum_probs=27.0

Q ss_pred             EHHHHHHHHHHHHHHHCCCCC---CCHHHHCCCCHH
Q ss_conf             014699999999975618820---073431288314
Q gi|254781169|r  195 HQQQVASWIAYKIAPYLGDRS---ENINSLKLSKWL  227 (461)
Q Consensus       195 H~~~~~~~~a~~ig~~~G~k~---~stE~iklPk~L  227 (461)
                      .-+++...+++.+|..||=|.   -..||+.+|...
T Consensus       104 EeGsv~nlltsI~GNVFGfKav~aLRLeD~riP~ay  139 (144)
T d1bwva2         104 EEGSIANLTASIIGNVFGFKAVKALRLEDMRLPLAY  139 (144)
T ss_dssp             CTTCHHHHHHHHTSSGGGCTTEEEEEEEEEECCHHH
T ss_pred             CCCCHHHHHHHHCCCCCCHHHHHHHHHCCCCCCHHH
T ss_conf             663177888875044212266554133113599899


No 7  
>d1xfja_ d.194.1.2 (A:) Hypothetical protein CC0490 {Caulobacter crescentus [TaxId: 155892]}
Probab=14.89  E-value=6.8  Score=14.98  Aligned_cols=36  Identities=25%  Similarity=0.449  Sum_probs=25.5

Q ss_pred             HHHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             56887537505765421346388999999999899999999
Q gi|254781169|r  357 GFIPMFFSNATIGIFANHYGGWRAASKICFVMGVIEILGSI  397 (461)
Q Consensus       357 g~i~~FF~gatagVfgNa~GG~rgAiig~fv~Gii~~~~~a  397 (461)
                      -=+|.+|..-..++.|....||||.+-     |++......
T Consensus       109 DC~PIll~d~~~~~ia~vHaGWrG~~~-----gI~~~~i~~  144 (256)
T d1xfja_         109 DCAPVLLVDPEARIVAAAHAGWRGALD-----GVVQSAVDR  144 (256)
T ss_dssp             SSEEEEEEETTTTEEEEEEECHHHHHH-----THHHHHHHH
T ss_pred             HHHHHHEECCCCCEEEEECCCCCCHHC-----CCCHHHHHH
T ss_conf             102344010354268872112433330-----661378899


No 8  
>d1ccda_ a.101.1.1 (A:) Clara cell 17kDa protein {Rat (Rattus norvegicus) [TaxId: 10116]}
Probab=14.54  E-value=23  Score=11.42  Aligned_cols=36  Identities=17%  Similarity=0.250  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHCCCCCHHCCHHHHHCCCCHHHHH
Q ss_conf             9899998988876469980020077750857676899
Q gi|254781169|r  293 KELTSSFRGISTSLIPGAILAIDCSAIYGFAPNALIW  329 (461)
Q Consensus       293 ~EivpAFkGIseKliP~A~PAlDcpv~F~yaPNAVli  329 (461)
                      +||-|||+-.-+.+.-|.--. =...+=+|.||+.+.
T Consensus         2 ~~iCPa~~~~V~~fl~GT~ee-Y~~~vk~y~~d~~~l   37 (77)
T d1ccda_           2 SDICPGFLQVLEALLLGSESN-YEAALKPFNPASDLQ   37 (77)
T ss_dssp             TTSCHHHHHHHHHHTTSCHHH-HHHHHTTTCCCHHHH
T ss_pred             CCCCHHHHHHHHHHHCCCHHH-HHHHHHCCCCCHHHH
T ss_conf             631688999999997698899-999997259989999


No 9  
>d1j1va_ a.4.12.2 (A:) Chromosomal replication initiation factor DnaA C-terminal domain IV {Escherichia coli [TaxId: 562]}
Probab=13.12  E-value=25  Score=11.20  Aligned_cols=14  Identities=21%  Similarity=0.332  Sum_probs=8.8

Q ss_pred             HHHHHHCCCCCCCH
Q ss_conf             99975618820073
Q gi|254781169|r  205 YKIAPYLGDRSENI  218 (461)
Q Consensus       205 ~~ig~~~G~k~~st  218 (461)
                      .-+|+.||+++.||
T Consensus        50 ~~Ig~~fg~rdHsT   63 (94)
T d1j1va_          50 PEIGDAFGGRDHTT   63 (94)
T ss_dssp             HHHHHHTTSCCHHH
T ss_pred             HHHHHHHCCCCCHH
T ss_conf             99999958997019


No 10 
>d1t8ha_ d.194.1.2 (A:) Hypothetical protein YlmD {Bacillus stearothermophilus [TaxId: 1422]}
Probab=10.60  E-value=12  Score=13.35  Aligned_cols=36  Identities=22%  Similarity=0.672  Sum_probs=25.1

Q ss_pred             HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88753750576542134638899999999989999999999
Q gi|254781169|r  359 IPMFFSNATIGIFANHYGGWRAASKICFVMGVIEILGSIWA  399 (461)
Q Consensus       359 i~~FF~gatagVfgNa~GG~rgAiig~fv~Gii~~~~~a~~  399 (461)
                      +|.+|..-..++.|-..-||||+.     +|++......+.
T Consensus       126 ~PIll~d~~~~~iaavHaGWRG~~-----~gIi~~~i~~m~  161 (272)
T d1t8ha_         126 VPIYFVAPSAGLVGLAHAGWRGTA-----GGIAGHMVWLWQ  161 (272)
T ss_dssp             EEEEEEETTTTEEEEEEECHHHHH-----TTHHHHHHHHHH
T ss_pred             CCEEEEECCCCEEEEEECCCCHHH-----HHHHHHHHHHHH
T ss_conf             401477225764788614670288-----889999998753


Done!