Query         gi|254780165|ref|YP_003064578.1| hypothetical protein CLIBASIA_00240 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 71
No_of_seqs    97 out of 99
Neff          3.8 
Searched_HMMs 13730
Date          Sun May 22 22:08:00 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780165.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 d1wxxa1 b.122.1.9 (A:1-64) Hyp  50.1     7.6 0.00055   18.4   3.5   51    1-53      1-51  (64)
  2 d2fa8a1 c.47.1.23 (A:4-89) Hyp  41.2      11 0.00083   17.4   3.2   36   11-46     20-56  (86)
  3 d1ej0a_ c.66.1.2 (A:) RNA meth  36.4      12  0.0009   17.2   2.8   34    8-41    140-173 (180)
  4 d1r7ma2 d.95.2.1 (A:121-225) D  33.7      17  0.0013   16.4   3.2   28    4-31     46-73  (105)
  5 d1c52a_ a.3.1.1 (A:) Cytochrom  32.3      13 0.00098   17.0   2.4   21    4-24     74-94  (131)
  6 d1plqa1 d.131.1.2 (A:1-126) Pr  25.3      24  0.0018   15.5   5.6   43   27-70     78-122 (126)
  7 d1u7ba1 d.131.1.2 (A:1-126) Pr  23.5      26  0.0019   15.3   5.3   43   27-70     78-122 (126)
  8 d2do1a1 a.140.2.1 (A:5-46) Nuc  22.0      16  0.0012   16.5   1.4   13    7-19     27-39  (42)
  9 d1kn0a_ d.50.1.3 (A:) The homo  21.8      26  0.0019   15.3   2.3   37    3-41      5-42  (184)
 10 d1jz8a3 b.18.1.5 (A:13-219) be  20.0      31  0.0023   14.9   2.9   32   30-65    131-162 (207)

No 1  
>d1wxxa1 b.122.1.9 (A:1-64) Hypothetical protein TTHA1280, N-terminal domain {Thermus thermophilus [TaxId: 274]}
Probab=50.14  E-value=7.6  Score=18.43  Aligned_cols=51  Identities=18%  Similarity=0.244  Sum_probs=37.6

Q ss_pred             CCEEECHHHHHHHHHHHHHHCCCCEEEEECCCCCCCEEEEECCEEEEEEEEEC
Q ss_conf             92045899999999999986199639950799887278988897999998434
Q gi|254780165|r    1 MEVRMRADEIKKLERYLKRVFGSGIAVQSRENQSDSVEVLMNSEFIGLVYRND   53 (71)
Q Consensus         1 m~i~M~~~Ei~klq~yLr~~F~~~i~v~~r~~~~DSaEV~i~~EfiGvi~~D~   53 (71)
                      |++..++..-++|+.---=.|.|+|. +.. .....++|+-++.|+|.-|-+-
T Consensus         1 mkv~lk~~~~~rl~~gHPWVf~~~i~-~~~-~~~g~~~v~~~~~~lg~g~~np   51 (64)
T d1wxxa1           1 MRIQVNAKGAARLLSRHLWVFRRDVV-SGP-ETPGLYPVYWGRRFLALALYNP   51 (64)
T ss_dssp             CCEEECHHHHHHHHTTCCEECGGGEE-ECC-SSCEEEEEEETTEEEEEEEECT
T ss_pred             CEEEECCCHHHHHHCCCCCCHHHHHH-CCC-CCCCEEEEEECCCEEEEEEECC
T ss_conf             98999454244766489610122441-268-9998599998996899999899


No 2  
>d2fa8a1 c.47.1.23 (A:4-89) Hypothetical protein Atu0228 {Agrobacterium tumefaciens [TaxId: 358]}
Probab=41.18  E-value=11  Score=17.41  Aligned_cols=36  Identities=17%  Similarity=0.238  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHCCCCE-EEEECCCCCCCEEEEECCEEE
Q ss_conf             999999998619963-995079988727898889799
Q gi|254780165|r   11 KKLERYLKRVFGSGI-AVQSRENQSDSVEVLMNSEFI   46 (71)
Q Consensus        11 ~klq~yLr~~F~~~i-~v~~r~~~~DSaEV~i~~Efi   46 (71)
                      .-++..|..+|.+.| .|.-.|....+-||+++++-|
T Consensus        20 ~wlaqeLl~tF~~~i~evsL~P~~~G~FeV~v~g~li   56 (86)
T d2fa8a1          20 GWMAQEILQTFASDIGEVSLIPSTGGLFEITVDGTII   56 (86)
T ss_dssp             HHHHHHHHHHHGGGCSEEEEEEECTTCEEEEETTEEE
T ss_pred             HHHHHHHHHHCCCCCCEEEEEECCCEEEEEEECCEEE
T ss_conf             9999999986776676199998899179999899999


No 3  
>d1ej0a_ c.66.1.2 (A:) RNA methyltransferase FtsJ {Escherichia coli [TaxId: 562]}
Probab=36.40  E-value=12  Score=17.21  Aligned_cols=34  Identities=15%  Similarity=0.240  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCCCCCCEEEEE
Q ss_conf             9999999999986199639950799887278988
Q gi|254780165|r    8 DEIKKLERYLKRVFGSGIAVQSRENQSDSVEVLM   41 (71)
Q Consensus         8 ~Ei~klq~yLr~~F~~~i~v~~r~~~~DSaEV~i   41 (71)
                      .+...+-..|++.|..=..++|......|.|+|+
T Consensus       140 ~~~~~l~~~l~~~F~~V~~~KP~aSR~~SsE~Yl  173 (180)
T d1ej0a_         140 EGFDEYLREIRSLFTKVKVRKPDSSRARSREVYI  173 (180)
T ss_dssp             TTHHHHHHHHHHHEEEEEEECCTTSCTTCCEEEE
T ss_pred             CCHHHHHHHHHHHCCEEEEECCCCCCCCCCEEEE
T ss_conf             5689999999842398999888886657865999


No 4  
>d1r7ma2 d.95.2.1 (A:121-225) DNA endonuclease I-SceI {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=33.66  E-value=17  Score=16.37  Aligned_cols=28  Identities=18%  Similarity=0.229  Sum_probs=22.0

Q ss_pred             EECHHHHHHHHHHHHHHCCCCEEEEECC
Q ss_conf             4589999999999998619963995079
Q gi|254780165|r    4 RMRADEIKKLERYLKRVFGSGIAVQSRE   31 (71)
Q Consensus         4 ~M~~~Ei~klq~yLr~~F~~~i~v~~r~   31 (71)
                      +.+.+|..+|+..|+.+||-+-.+.++.
T Consensus        46 ~Ft~~e~~~L~~~L~~kf~l~~~i~~~~   73 (105)
T d1r7ma2          46 SFTFEEVEYLVKGLRNKFQLNCYVKINK   73 (105)
T ss_dssp             TSCHHHHHHHHHHHHHHHCCCEEEEEET
T ss_pred             CCCHHHHHHHHHHHHHHHCCEEEEEECC
T ss_conf             9999999999999998739458999549


No 5  
>d1c52a_ a.3.1.1 (A:) Cytochrome c552 {Thermus thermophilus [TaxId: 274]}
Probab=32.25  E-value=13  Score=17.00  Aligned_cols=21  Identities=14%  Similarity=0.427  Sum_probs=18.4

Q ss_pred             EECHHHHHHHHHHHHHHCCCC
Q ss_conf             458999999999999861996
Q gi|254780165|r    4 RMRADEIKKLERYLKRVFGSG   24 (71)
Q Consensus         4 ~M~~~Ei~klq~yLr~~F~~~   24 (71)
                      .++..||..|=+|+|.+|||.
T Consensus        74 ~LsD~eI~av~~YIr~~~gn~   94 (131)
T d1c52a_          74 QLKDEEIAAVLNHIATAWGDA   94 (131)
T ss_dssp             TSCHHHHHHHHHHHHHTTSTG
T ss_pred             CCCHHHHHHHHHHHHHHCCCC
T ss_conf             799999999999999873887


No 6  
>d1plqa1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=25.27  E-value=24  Score=15.50  Aligned_cols=43  Identities=12%  Similarity=0.375  Sum_probs=32.8

Q ss_pred             EEECCCCCCCEEEEECC--EEEEEEEEECCCCCEEEEEEEEEEECC
Q ss_conf             95079988727898889--799999843467825789984544113
Q gi|254780165|r   27 VQSRENQSDSVEVLMNS--EFIGLVYRNDDEEEISYHFDMSILEDD   70 (71)
Q Consensus        27 v~~r~~~~DSaEV~i~~--EfiGvi~~D~eeGe~sY~f~MtILd~D   70 (71)
                      +.++.+++|+..++.++  ..+.+.+.+.+.+ ....|+|..+|.|
T Consensus        78 Ilk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~-~~~~f~l~Lidid  122 (126)
T d1plqa1          78 ILRCGNNTDTLTLIADNTPDSIILLFEDTKKD-RIAEYSLKLMDID  122 (126)
T ss_dssp             HTTCSTTTSEEEEEECSSCSEEEEEEECSSSS-CEEEEEEECBCCC
T ss_pred             HHHHCCCCCEEEEEEECCCCEEEEEEECCCCC-EEEEEEEEEECCC
T ss_conf             98536899889999908998899999728887-8999999601347


No 7  
>d1u7ba1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Human (Homo sapiens) [TaxId: 9606]}
Probab=23.55  E-value=26  Score=15.31  Aligned_cols=43  Identities=14%  Similarity=0.363  Sum_probs=31.8

Q ss_pred             EEECCCCCCCEEEEECC--EEEEEEEEECCCCCEEEEEEEEEEECC
Q ss_conf             95079988727898889--799999843467825789984544113
Q gi|254780165|r   27 VQSRENQSDSVEVLMNS--EFIGLVYRNDDEEEISYHFDMSILEDD   70 (71)
Q Consensus        27 v~~r~~~~DSaEV~i~~--EfiGvi~~D~eeGe~sY~f~MtILd~D   70 (71)
                      +.++-+++|+.+++..+  ..+.+.+...+.+ ....|++..+|.|
T Consensus        78 Ilk~~~~~d~l~l~~~~~~d~l~i~~~~~~~~-~~~~f~l~Lidid  122 (126)
T d1u7ba1          78 ILKCAGNEDIITLRAEDNADTLALVFEAPNQE-KVSDYEMKLMDLD  122 (126)
T ss_dssp             HHTTSCTTCEEEEEECTTCSEEEEEEECTTSS-CEEEEEEECCCCC
T ss_pred             HHHHCCCCCEEEEEEECCCCEEEEEEECCCCC-EEEEEEEECCCCC
T ss_conf             99516899789999947998899999828987-8999999760467


No 8  
>d2do1a1 a.140.2.1 (A:5-46) Nuclear protein hcc-1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=22.05  E-value=16  Score=16.47  Aligned_cols=13  Identities=38%  Similarity=0.705  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999999998
Q gi|254780165|r    7 ADEIKKLERYLKR   19 (71)
Q Consensus         7 ~~Ei~klq~yLr~   19 (71)
                      .+=|.|+|+||..
T Consensus        27 ~dli~rlqaylee   39 (42)
T d2do1a1          27 QDLIHRLQAYLEE   39 (42)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
T ss_conf             8899999999987


No 9  
>d1kn0a_ d.50.1.3 (A:) The homologous-pairing domain of Rad52 recombinase {Human (Homo sapiens) [TaxId: 9606]}
Probab=21.78  E-value=26  Score=15.34  Aligned_cols=37  Identities=14%  Similarity=0.290  Sum_probs=25.9

Q ss_pred             EEECHHHHHHHHHHHHHHCCCC-EEEEECCCCCCCEEEEE
Q ss_conf             0458999999999999861996-39950799887278988
Q gi|254780165|r    3 VRMRADEIKKLERYLKRVFGSG-IAVQSRENQSDSVEVLM   41 (71)
Q Consensus         3 i~M~~~Ei~klq~yLr~~F~~~-i~v~~r~~~~DSaEV~i   41 (71)
                      ..-+..|++.||.-|.+.|++. |+-++.+  .-+.--||
T Consensus         5 ~~~~~~~~~~lq~~L~k~~~~e~Is~R~g~--gg~~~~YI   42 (184)
T d1kn0a_           5 CQYTAEEYQAIQKALRQRLGPEYISSRMAG--GGQKVCYI   42 (184)
T ss_dssp             CCCCHHHHHHHHHHTTCCBCTTTEEEEECS--SSCEEEEE
T ss_pred             CCCCHHHHHHHHHHHHCCCCHHHHEEEECC--CCCCEEEC
T ss_conf             635899999999998451488894632379--98511304


No 10 
>d1jz8a3 b.18.1.5 (A:13-219) beta-Galactosidase {Escherichia coli [TaxId: 562]}
Probab=19.99  E-value=31  Score=14.88  Aligned_cols=32  Identities=16%  Similarity=0.441  Sum_probs=23.5

Q ss_pred             CCCCCCCEEEEECCEEEEEEEEECCCCCEEEEEEEE
Q ss_conf             799887278988897999998434678257899845
Q gi|254780165|r   30 RENQSDSVEVLMNSEFIGLVYRNDDEEEISYHFDMS   65 (71)
Q Consensus        30 r~~~~DSaEV~i~~EfiGvi~~D~eeGe~sY~f~Mt   65 (71)
                      =...+..|+|+++++++|.    -+.|=+.+.|.+|
T Consensus       131 f~gv~~~a~V~vNG~~vG~----~~gg~~pf~fDiT  162 (207)
T d1jz8a3         131 FDGVNSAFHLWCNGRWVGY----GQDSRLPSEFDLS  162 (207)
T ss_dssp             ESCEESEEEEEETTEEEEE----EECTTSCEEEECT
T ss_pred             ECCCCEEEEEEECCEEEEE----ECCCCCCEEEECH
T ss_conf             6552557899999999987----5178767799283


Done!