Query         gi|254780284|ref|YP_003064697.1| hypothetical protein CLIBASIA_00845 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 623
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 33803
Date          Tue May 24 13:22:12 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780284.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2qj6_A Toxin A; clostridial r  37.4      13 0.00039   16.6   1.1   20  371-390     6-25  (39)
  2 >3fym_A Putative uncharacteriz  26.2      24 0.00072   15.0   0.9  111  345-461    12-128 (130)
  3 >2qgs_A Protein Se1688; alpha-  20.0      44  0.0013   13.4   1.2   79  383-472     4-91  (97)
  4 >1vyi_A RNA polymerase alpha s  14.2      70  0.0021   12.2   2.1   48  353-405     6-57  (112)
  5 >2j6p_A SB(V)-AS(V) reductase;  13.8      66   0.002   12.3   0.9   41    7-47     27-71  (121)
  6 >1x1i_A Xanthan lyase; alpha/a  13.7      72  0.0021   12.1   1.7   82  368-449    62-147 (155)
  7 >2hjj_A Hypothetical protein Y  10.1      95  0.0028   11.4   1.3   19  215-233    20-38  (87)
  8 >1pby_A Quinohemoprotein amine   9.6      60  0.0018   12.6  -0.5   10   14-23     18-27  (61)
  9 >1tt5_A APPBP1, amyloid protei   9.3   1E+02   0.003   11.2   2.8   41   21-62     64-108 (140)
 10 >1gpi_A Exoglucanase I; hydrol   9.1      99  0.0029   11.3   0.5   12  204-215    41-52  (80)

No 1  
>>2qj6_A Toxin A; clostridial repetitive oligo peptides; 2.50A {Clostridium difficile} (A:200-238)
Probab=37.44  E-value=13  Score=16.59  Aligned_cols=20  Identities=35%  Similarity=0.546  Sum_probs=15.9

Q ss_pred             CCEEEEECCCCCHHHHCCCC
Q ss_conf             66044411762100104311
Q gi|254780284|r  371 GGKKYLFNSNTEGIARGISI  390 (623)
Q Consensus       371 ggkkylfnsntegiargisi  390 (623)
                      .||||.||.||.--+.|..+
T Consensus         6 dgkkYYFn~Ntaia~tgy~~   25 (39)
T 2qj6_A            6 DGNRYYFEPNTAMGANGYKT   25 (39)
T ss_dssp             TTEEEEECTTTCCBCCEEEE
T ss_pred             EHHEEEECCCCCCCCCCEEE
T ss_conf             12068722545321000378


No 2  
>>3fym_A Putative uncharacterized protein; HTH DNA binding, DNA binding protein; 1.00A {Staphylococcus aureus subsp} (A:)
Probab=26.20  E-value=24  Score=14.97  Aligned_cols=111  Identities=10%  Similarity=0.021  Sum_probs=56.8

Q ss_pred             HCHHHCCHHHHHHHHHHHHHHCCHHHCCEEEEECC------CCCHHHHCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCC
Q ss_conf             04334028984556753222201220660444117------621001043115666532101121033576200122225
Q gi|254780284|r  345 VDEEKLSLEKVNHSLEQDIATLSFEEGGKKYLFNS------NTEGIARGISINRDCSLGDDVHRENMFSAPEISVDGFHE  418 (623)
Q Consensus       345 vdeeklslekvnhsleqdiatlsfeeggkkylfns------ntegiargisinrdcslgddvhrenmfsapeisvdgfhe  418 (623)
                      -.+..+|++.+...+.-..++++--|-|+..-+..      ....||+...++-|--++.+.-+..-.....-.....+.
T Consensus        12 R~~~glt~~elA~~~gis~~~is~~E~g~~~p~~~~~~~~~~l~~ia~~l~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~   91 (130)
T 3fym_A           12 RERLGMTLTELEQRTGIKREMLVHIENNEFDQLPNKNYSEGFIRKYASVVNIEPNQLIQAHQDEIPSNQAEWDEVITVFN   91 (130)
T ss_dssp             HHHTTCCHHHHHHHHCCCHHHHHHHHTTCGGGSSSGGGHHHHHHHHHHHTTCCHHHHHHHTTTTSCCCCCCC--------
T ss_pred             HHHCCCCHHHHHHHHCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             99969999999988298999999998589654643169999999999995959999999998764654333110000012


Q ss_pred             CCHHCCHHHHCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5101013430342024530363035889999984478999887
Q gi|254780284|r  419 GSSLVSPALKSNSKRDVAQNRKFWLIGYILIVVGCGIYWFFQL  461 (623)
Q Consensus       419 gsslvspalksnskrdvaqnrkfwligyilivvgcgiywffql  461 (623)
                      ..     . .............++++.-+++.++-|+||+.+.
T Consensus        92 ~~-----~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (130)
T 3fym_A           92 NN-----K-DLDYKSKSKEPIQLLVIMGITVLITLLLWIMLVL  128 (130)
T ss_dssp             -------------------------------------------
T ss_pred             CC-----C-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             23-----4-4330001130699999999999999999999999


No 3  
>>2qgs_A Protein Se1688; alpha-helical protein, structural genomics, PSI-2, protein structure initiative; 2.00A {Staphylococcus epidermidis atcc 12228} (A:129-225)
Probab=20.02  E-value=44  Score=13.42  Aligned_cols=79  Identities=19%  Similarity=0.297  Sum_probs=51.6

Q ss_pred             HHHHCCC----CCCCCCCCCHHHHHHCCC-----CCCCCCCCCCCCCHHCCHHHHCCCHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             0010431----156665321011210335-----7620012222551010134303420245303630358899999844
Q gi|254780284|r  383 GIARGIS----INRDCSLGDDVHRENMFS-----APEISVDGFHEGSSLVSPALKSNSKRDVAQNRKFWLIGYILIVVGC  453 (623)
Q Consensus       383 giargis----inrdcslgddvhrenmfs-----apeisvdgfhegsslvspalksnskrdvaqnrkfwligyilivvgc  453 (623)
                      ||||-+.    .+|----.++..+++|-.     ...-+++-|+|---....-++..+-|..|+.|.-++..|+      
T Consensus         4 GIaR~F~y~G~~gr~lydp~~~~~~~~~~~~~~~~~~~~i~HF~eKLlkL~~~m~T~tgr~~A~~R~~~m~~Fl------   77 (97)
T 2qgs_A            4 GIARTFQFSGHFGEPXWTETKLSNEELHTSLVEELDNSAIKHFYEKLFKLKDLXHTPTAKKLAEERHQFXIQYL------   77 (97)
T ss_dssp             HHHHHHHHHHHHTCCSCCCCCCCHHHHTSGGGGGSCCCHHHHHHHTGGGSGGGCCSHHHHHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH------
T ss_conf             18999999866178667855567641127765025553899999999864876789999999999999999999------


Q ss_pred             HHHHHHHHHHHHCCCCCCC
Q ss_conf             7899988753200146784
Q gi|254780284|r  454 GIYWFFQLHREISFANEKP  472 (623)
Q Consensus       454 giywffqlhreisfanekp  472 (623)
                           =|+..|+.+..|.|
T Consensus        78 -----~~~~~E~~~~~e~~   91 (97)
T 2qgs_A           78 -----KQFXSEWNFNKELE   91 (97)
T ss_dssp             -----HHHHHHHTTTC---
T ss_pred             -----HHHHHHHCCCHHHH
T ss_conf             -----99999968455354


No 4  
>>1vyi_A RNA polymerase alpha subunit; transferase, replication, transcription, RNA-directed RNA polymerase, phosphorylation; HET: GOL; 1.5A {Rabies virus} (A:)
Probab=14.24  E-value=70  Score=12.18  Aligned_cols=48  Identities=38%  Similarity=0.470  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHCCHHHCCEEEEECCCCCHHHH----CCCCCCCCCCCCHHHHHHC
Q ss_conf             9845567532222012206604441176210010----4311566653210112103
Q gi|254780284|r  353 EKVNHSLEQDIATLSFEEGGKKYLFNSNTEGIAR----GISINRDCSLGDDVHRENM  405 (623)
Q Consensus       353 ekvnhsleqdiatlsfeeggkkylfnsntegiar----gisinrdcslgddvhrenm  405 (623)
                      |....|+|..||.---|--.|||-|.|..-||--    -.-+|    | ||.-++.|
T Consensus         6 eedd~svEaEiaHQiAESfSKkYkFPSrSSGIFL~NFEQLKmN----L-DdIVk~a~   57 (112)
T 1vyi_A            6 EEDDLSVEAEIAHQIAESFSKKYKFPSRSSGIFLYNFEQLKMN----L-DDIVKEAK   57 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCCEEEEBTTSCEEEECGGGGCCC----H-HHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECHHHHHCC----H-HHHHHHHC
T ss_conf             1323017889999999986450468877774677618987456----8-99999862


No 5  
>>2j6p_A SB(V)-AS(V) reductase; arsenate reductase, antimonate reductase, CDC25 phosphatase, rhodanese, C-MYC epitope, oxidoreductase; HET: EPE; 2.15A {Leishmania major} (A:1-121)
Probab=13.82  E-value=66  Score=12.33  Aligned_cols=41  Identities=20%  Similarity=0.037  Sum_probs=26.6

Q ss_pred             HHHHCCCCCCCCCCCCCCCCHHHHHHHHHHH----HHHHHHCCHH
Q ss_conf             8641002311134643342123457888877----7656630014
Q gi|254780284|r    7 FLDKRDASFRIGQFPSSIPSLDSSIKDYSRQ----LTNIFLKDKV   47 (623)
Q Consensus         7 fldkrdasfrigqfpssipsldssikdysrq----ltniflkdkv   47 (623)
                      ++|-|+..|..|.+|.+|.---+.+.+...+    ....+-++++
T Consensus        27 liDvR~~e~~~ghIpgAi~~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (121)
T 2j6p_A           27 VIDCRDSDRDCGFIVNSINMPTISCTEEMYEKLAKTLFEEKKELA   71 (121)
T ss_dssp             EEECCSTTGGGCBCTTCEECCTTTCCHHHHHHHHHHHHHTTCCEE
T ss_pred             EEECCHHHHCCCEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCEE
T ss_conf             998983786678028760578077888778887655554057626


No 6  
>>1x1i_A Xanthan lyase; alpha/alpha barrel, beta sandwich; HET: 46M; 1.80A {Bacillus SP} (A:203-357)
Probab=13.73  E-value=72  Score=12.09  Aligned_cols=82  Identities=11%  Similarity=0.066  Sum_probs=52.1

Q ss_pred             HHHCCEEEEECCCCCHHHHCCCCCCCCCCCCHHHHHHCCCCCCC----CCCCCCCCCHHCCHHHHCCCHHHHHHCCCCHH
Q ss_conf             22066044411762100104311566653210112103357620----01222255101013430342024530363035
Q gi|254780284|r  368 FEEGGKKYLFNSNTEGIARGISINRDCSLGDDVHRENMFSAPEI----SVDGFHEGSSLVSPALKSNSKRDVAQNRKFWL  443 (623)
Q Consensus       368 feeggkkylfnsntegiargisinrdcslgddvhrenmfsapei----svdgfhegsslvspalksnskrdvaqnrkfwl  443 (623)
                      +.+|=..++++...--..+|-+|-|.-+.+-.+-++-|.+.-.+    +-+.--+=.+++--.+.++...+...+|.||-
T Consensus        62 i~~g~~~~~~~g~~~~~v~GR~isR~~~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~f~~  141 (155)
T 1x1i_A           62 IYEAYRPLLYKGAMMDMVRGREISRSYAQDHAVGHGIVASIVRLAQFAPAPHAAAFKQIAKRVIQEDTFSSFYGDVSTDT  141 (155)
T ss_dssp             HHHTTGGGEETTEECGGGSGGGGGCTTCCHHHHHHHHHHHHHHHTTTCCTTHHHHHHHHHHHHHHHCCSSCGGGGSCHHH
T ss_pred             HHHHHHHHEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHH
T ss_conf             99741543367721622478742256655432268999999998642897889999999987530465321123456578


Q ss_pred             HHHHHH
Q ss_conf             889999
Q gi|254780284|r  444 IGYILI  449 (623)
Q Consensus       444 igyili  449 (623)
                      +.|..-
T Consensus       142 ~d~~~~  147 (155)
T 1x1i_A          142 IRLAKA  147 (155)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
T ss_conf             999998


No 7  
>>2hjj_A Hypothetical protein YKFF; structure, northeast structural genomics consortium (NESG), protein structure initiative., PSI-2; NMR {Escherichia coli K12} (A:)
Probab=10.07  E-value=95  Score=11.37  Aligned_cols=19  Identities=37%  Similarity=0.524  Sum_probs=13.6

Q ss_pred             CCCCCCCEEEECCCCCCCC
Q ss_conf             0354341566336753212
Q gi|254780284|r  215 LEGKKENIFLADDQGISLK  233 (623)
Q Consensus       215 legkkenifladdqgislk  233 (623)
                      ....-.|+|+.||||+-..
T Consensus        20 V~a~Y~NV~IEDDQgtHFR   38 (87)
T 2hjj_A           20 VTTTYSNITLEDDQGSHFR   38 (87)
T ss_dssp             HHHHCTTEEEESCSSSCCE
T ss_pred             HHHHHCCEEEECCCCCEEE
T ss_conf             9988516023248987589


No 8  
>>1pby_A Quinohemoprotein amine dehydrogenase 60 kDa subunit; oxidoreductase; HET: TRW HEM; 1.70A {Paracoccus denitrificans} (A:107-167)
Probab=9.64  E-value=60  Score=12.58  Aligned_cols=10  Identities=50%  Similarity=1.152  Sum_probs=7.2

Q ss_pred             CCCCCCCCCC
Q ss_conf             3111346433
Q gi|254780284|r   14 SFRIGQFPSS   23 (623)
Q Consensus        14 sfrigqfpss   23 (623)
                      .|.+||||+-
T Consensus        18 ~fHlGq~Ptl   27 (61)
T 1pby_A           18 NFHLGQFPTL   27 (61)
T ss_dssp             HHHHHHCGGG
T ss_pred             HHHCCCCCHH
T ss_conf             5230357427


No 9  
>>1tt5_A APPBP1, amyloid protein-binding protein 1; cell cycle, ligase; 2.60A {Homo sapiens} (A:169-183,A:275-399)
Probab=9.31  E-value=1e+02  Score=11.19  Aligned_cols=41  Identities=27%  Similarity=0.451  Sum_probs=17.6

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHH----HCCHHHHHHHHHHHHHHHHH
Q ss_conf             4334212345788887776566----30014431267899988641
Q gi|254780284|r   21 PSSIPSLDSSIKDYSRQLTNIF----LKDKVFFDGLEQELLASLGS   62 (623)
Q Consensus        21 pssipsldssikdysrqltnif----lkdkvffdgleqellaslgs   62 (623)
                      +.+||-+.++-..|- +|-|||    .+|.--|-+.-+++|.++|.
T Consensus        64 ~G~lPDM~s~T~~YI-~LQ~IY~~KA~~D~~~v~~~v~~~l~~~g~  108 (140)
T 1tt5_A           64 RGTIPDMIADSGKYI-KLQNVYREKAKKDAAAVGNHVAKLLQSIGQ  108 (140)
T ss_dssp             CCCCCCCSSCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCCCCCCCCCHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             998887123626489-999999998885799999999989987068


No 10 
>>1gpi_A Exoglucanase I; hydrolase, glycosidase, cellulase, beta-glucanase, glycoprotein, cellulose degradation, enzyme, reaction center; HET: NAG; 1.32A {Phanerochaete chrysosporium} (A:38-78,A:162-200)
Probab=9.07  E-value=99  Score=11.27  Aligned_cols=12  Identities=50%  Similarity=0.800  Sum_probs=8.4

Q ss_pred             HHHHCCCHHHHC
Q ss_conf             776313113420
Q gi|254780284|r  204 MAKYGTGMSSAL  215 (623)
Q Consensus       204 makygtgmssal  215 (623)
                      .||||||.-.|-
T Consensus        41 YAkYGtGYCDaq   52 (80)
T 1gpi_A           41 YAKYGTGYCDSQ   52 (80)
T ss_dssp             HGGGTCCCCBTT
T ss_pred             CCCCCCCCCCCC
T ss_conf             332467634445


Done!