Query         gi|254781034|ref|YP_003065447.1| hypothetical protein CLIBASIA_04680 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 344
No_of_seqs    130 out of 162
Neff          6.2 
Searched_HMMs 23785
Date          Wed Jun  1 01:13:10 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781034.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3bee_A Putative YFRE protein;   61.5     6.2 0.00026   16.7   5.0   67  251-324    21-92  (93)
  2 1m1j_B Fibrinogen beta chain;   44.3      12  0.0005   15.0  11.4   12  265-276   255-266 (464)
  3 2uwj_G Type III export protein  29.1      21 0.00087   13.5   3.6   53  283-338    42-94  (115)
  4 2p58_C Putative type III secre  28.1      21  0.0009   13.4   4.7   56  283-341    43-98  (116)
  5 3k7c_A Putative NTF2-like tran  28.1      22 0.00091   13.4   5.3   45  277-321     6-53  (114)
  6 2wsc_L Photosystem I reaction   25.7      24   0.001   13.1   1.9   36   24-59    173-208 (216)
  7 3kez_A Putative sugar binding   19.9      31  0.0013   12.4   3.4   27  280-306   338-364 (461)
  8 1m1j_C Fibrinogen gamma chain;  19.6      32  0.0013   12.3  10.9   38  127-164    80-117 (409)
  9 2p90_A Hypothetical protein CG  16.5      37  0.0016   11.9   3.3   71  133-203   231-301 (319)
 10 1deb_A APC protein, adenomatou  16.5      37  0.0016   11.9   5.6   41  135-175     7-47  (54)

No 1  
>3bee_A Putative YFRE protein; putaive YFRE protein, structural genomics, PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}
Probab=61.49  E-value=6.2  Score=16.72  Aligned_cols=67  Identities=10%  Similarity=0.143  Sum_probs=46.1

Q ss_pred             CCCHHHHHHHHHHHHHEEECCCCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-----CHHHHHHHHHHHHHHHHH
Q ss_conf             78889999999987632412788778889888999999999829989999989719-----988899999999999999
Q gi|254781034|r  251 DSGFANYLLFQLTRLVKVRPIGGNIEGDAITDVIARIENNLKTGDLVKAAAEWDKI-----PEKARQPSMFLRNALEAH  324 (344)
Q Consensus       251 ~~g~~~~l~~~~~slv~vR~~~~~~~G~~~dailaRae~aL~~GdL~~Al~el~~L-----p~~a~~~~~~w~~~~eaR  324 (344)
                      ++-+.+.....+...+...|       +.+.+..-..-.+.+.||+..|+..|..+     |...+......+.+++.+
T Consensus        21 ~~~~t~ea~~~l~~aL~~~P-------~~~~al~~lg~~~~~~g~y~~Ai~~w~~lL~~~p~~~~r~~i~~~I~~A~~~   92 (93)
T 3bee_A           21 KQAMTDEVSLLLEQALQLEP-------YNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNLDRVTIIESINKAKKL   92 (93)
T ss_dssp             TTCCCHHHHHHHHHHHHHCT-------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHCC-------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHC
T ss_conf             99889999999999997786-------9899999999999986899999999999984289981199999999999863


No 2  
>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*
Probab=44.34  E-value=12  Score=15.00  Aligned_cols=12  Identities=8%  Similarity=0.169  Sum_probs=7.8

Q ss_pred             HHEEECCCCCCC
Q ss_conf             632412788778
Q gi|254781034|r  265 LVKVRPIGGNIE  276 (344)
Q Consensus       265 lv~vR~~~~~~~  276 (344)
                      .|.-||.+|.+.
T Consensus       255 tViQrR~dGsv~  266 (464)
T 1m1j_B          255 TLIQNRQDGSVN  266 (464)
T ss_dssp             EEEEEESSCCSC
T ss_pred             EEEEECCCCCCC
T ss_conf             999836788668


No 3  
>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}
Probab=29.12  E-value=21  Score=13.48  Aligned_cols=53  Identities=21%  Similarity=0.077  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999982998999998971998889999999999999999999999999753
Q gi|254781034|r  283 VIARIENNLKTGDLVKAAAEWDKIPEKARQPSMFLRNALEAHICSDAILKEEMAKI  338 (344)
Q Consensus       283 ilaRae~aL~~GdL~~Al~el~~Lp~~a~~~~~~w~~~~eaRl~ad~~~~~~~a~~  338 (344)
                      .+-|.....++||+..|+.-...++-+   -..+|+.-.+-|+.--..+......+
T Consensus        42 ~lIR~sSLmNrG~Yq~Al~l~~~~~~p---dlepw~ALce~rlGl~~~le~Rl~~l   94 (115)
T 2uwj_G           42 RLIRISSLANQGRYQEALAFAHGNPWP---ALEPWFALCEWHLGLGAALDRRLAGL   94 (115)
T ss_dssp             HHHHHHHHHHTTCHHHHHGGGTTCCCG---GGHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHCCCCCCC---HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             999999987340389999855888883---18999999988614188999999998


No 4  
>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}
Probab=28.13  E-value=21  Score=13.38  Aligned_cols=56  Identities=13%  Similarity=0.175  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99999999982998999998971998889999999999999999999999999753340
Q gi|254781034|r  283 VIARIENNLKTGDLVKAAAEWDKIPEKARQPSMFLRNALEAHICSDAILKEEMAKIPQT  341 (344)
Q Consensus       283 ilaRae~aL~~GdL~~Al~el~~Lp~~a~~~~~~w~~~~eaRl~ad~~~~~~~a~~~~~  341 (344)
                      .+-|.....++||+..|+.....++-+.   ..+|++-++-|+.--..+..-+..+-++
T Consensus        43 ~lIR~sSLmNrG~Yq~Al~l~~~~~~pD---lepw~ALce~rlGl~s~le~rL~rla~s   98 (116)
T 2p58_C           43 QLIRLSSLMNRGDYASALQQGNKLAYPD---LEPWLALCEYRLGLGSALESRLNRLARS   98 (116)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHTTSCCGG---GHHHHHHHHHHHTCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCHHHHHHHHHCCCCCCCC---HHHHHHHHHHHHCCHHHHHHHHHHHHHC
T ss_conf             9999999873304899998477778841---8999999988614188999999999877


No 5  
>3k7c_A Putative NTF2-like transpeptidase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: PGE; 2.00A {Campylobacter jejuni}
Probab=28.06  E-value=22  Score=13.37  Aligned_cols=45  Identities=9%  Similarity=0.071  Sum_probs=32.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHH---HHCCHHHHHHHHHHHHHH
Q ss_conf             889888999999999829989999989---719988899999999999
Q gi|254781034|r  277 GDAITDVIARIENNLKTGDLVKAAAEW---DKIPEKARQPSMFLRNAL  321 (344)
Q Consensus       277 G~~~dailaRae~aL~~GdL~~Al~el---~~Lp~~a~~~~~~w~~~~  321 (344)
                      +++|+.+.-+-=.+|.+||++.+++-+   +..|+..+.-+.+++...
T Consensus         6 ~~sP~~~ak~f~~~l~~GD~e~a~~~~~~~~~~~~~~~~~~~~~l~~~   53 (114)
T 3k7c_A            6 SSNPEDLAKNFTKDLYSGDTKSVMSYIDLSEAKSDEEKTFVSDKITQV   53 (114)
T ss_dssp             -CCHHHHHHHHHHHHTTTCHHHHHHTBCCSSCCSHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             999699999999999828999998545776556778999999999998


No 6  
>2wsc_L Photosystem I reaction center subunit XI, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Spinacia oleracea} PDB: 2wse_L* 2wsf_L* 2o01_L*
Probab=25.72  E-value=24  Score=13.11  Aligned_cols=36  Identities=8%  Similarity=-0.140  Sum_probs=22.8

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             886554543301466777642346789999975332
Q gi|254781034|r   24 PPSCDVKKITWRKFFWEKILSNKTFFKILALVCVIV   59 (344)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~ggiial~~~~~   59 (344)
                      .++.+..+...-..|.+|+|++++.|.+.|+.+...
T Consensus       173 ~~p~~L~T~eGWs~Ft~GF~iGG~GGa~fAyfLl~~  208 (216)
T 2wsc_L          173 KQPDQLQSADGWAKFTGGFFFGGVSGVTWACFLMYV  208 (216)
T ss_dssp             TCSSCCCCHHHHHHHHHHHHHHHBTTTHHHHHSCCC
T ss_pred             CCHHHCCCCCCHHHHCCCEEECCCHHHHHHHHHHHC
T ss_conf             883442272258885030000134089999999963


No 7  
>3kez_A Putative sugar binding protein; structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 1.90A {Bacteroides vulgatus atcc 8482}
Probab=19.88  E-value=31  Score=12.38  Aligned_cols=27  Identities=26%  Similarity=0.288  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHC
Q ss_conf             888999999999829989999989719
Q gi|254781034|r  280 ITDVIARIENNLKTGDLVKAAAEWDKI  306 (344)
Q Consensus       280 ~dailaRae~aL~~GdL~~Al~el~~L  306 (344)
                      .|..|-+||++++.|+...|+..++.+
T Consensus       338 aE~~L~~AEA~~~~g~~~~A~~~lN~v  364 (461)
T 3kez_A          338 SEAYLNAAEAAVQTGDNAKAVKYLNSI  364 (461)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             999999999999869989999999999


No 8  
>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C
Probab=19.56  E-value=32  Score=12.34  Aligned_cols=38  Identities=16%  Similarity=0.128  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98888876336789999999999999999999999999
Q gi|254781034|r  127 NTQNFNIKPLLEEIASLKQLISDLSKNYQDIVTRLTKM  164 (344)
Q Consensus       127 ~~~~~~~~~~~~~v~~Le~~~~~~~~~~~~l~~~l~~~  164 (344)
                      ++.......+.+++..++..+.....++.++...+...
T Consensus        80 e~l~q~~~el~eei~~lk~~I~~~e~qI~eLq~~l~~~  117 (409)
T 1m1j_C           80 EQLTQKSKKIIEEIIRYENTILAHENTIQQLTDMHIMN  117 (409)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999998999999999877


No 9  
>2p90_A Hypothetical protein CGL1923; structural genomics, PSI-2, MCSG, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032} SCOP: c.56.8.1
Probab=16.51  E-value=37  Score=11.90  Aligned_cols=71  Identities=8%  Similarity=0.101  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             76336789999999999999999999999999950012476699999999999999996699628999999
Q gi|254781034|r  133 IKPLLEEIASLKQLISDLSKNYQDIVTRLTKMETLTANPLRNPNTQRMVSLLILKNALDKGEYSSLNTTMQ  203 (344)
Q Consensus       133 ~~~~~~~v~~Le~~~~~~~~~~~~l~~~l~~~e~~~~~~~~~~~~~~~~A~~~L~~Ai~~G~pf~~eL~~l  203 (344)
                      +..+.++....++.++++..+..++..-+..+|.+...............+.....-+-+|.-++.+++.+
T Consensus       231 ~~~L~e~A~~~e~~i~e~~~~~~El~~~v~~LE~~yD~~~~~~~~~~~~~~~~~~~~~ps~d~l~~e~E~f  301 (319)
T 2p90_A          231 LLALERDAEKVHRQLMEQTEESSEIQRVVGALEQQYDSELERYRNRHPQAVMPGESELPSGDEIGAEFEKF  301 (319)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCC---------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf             79999999999999999986099999999999997737765212333100245567899989999999999


No 10 
>1deb_A APC protein, adenomatous polyposis coli protein; coiled coil, tumor suppressor, structural protein; 2.40A {Homo sapiens} SCOP: h.1.18.1
Probab=16.50  E-value=37  Score=11.90  Aligned_cols=41  Identities=32%  Similarity=0.347  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             33678999999999999999999999999995001247669
Q gi|254781034|r  135 PLLEEIASLKQLISDLSKNYQDIVTRLTKMETLTANPLRNP  175 (344)
Q Consensus       135 ~~~~~v~~Le~~~~~~~~~~~~l~~~l~~~e~~~~~~~~~~  175 (344)
                      .+..+|..|..+-.-++.+..+.++.+.++|..+.+.++..
T Consensus         7 QL~~QVe~Lk~ENshLr~EL~dNS~~lskLe~ets~mKevl   47 (54)
T 1deb_A            7 QLLKQVEALKMENSNLRQELEDNSNHLTKLETEASNMKEVL   47 (54)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999998606999998822788888875640399999


Done!