Query         gi|254780965|ref|YP_003065378.1| hypothetical protein CLIBASIA_04330 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 229
No_of_seqs    4 out of 6
Neff          2.0 
Searched_HMMs 13730
Date          Wed Jun  1 10:57:03 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780965.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 d1q90b_ f.21.1.2 (B:) Cytochro  30.2     9.1 0.00066   16.7   1.3   54    7-80     40-93  (212)
  2 d1ppjc2 f.21.1.2 (C:15-260) Mi  28.7      11 0.00078   16.3   1.5  113    7-155    26-168 (246)
  3 d3cx5c2 f.21.1.2 (C:1-261) Mit  24.2      16  0.0011   15.3   1.6   53    7-79     39-91  (261)
  4 d1nh2d2 b.56.1.1 (D:55-121) Sm  21.9     5.1 0.00037   18.3  -1.3   21   38-58      5-25  (67)
  5 d3ovwa_ b.29.1.10 (A:) Cellobi  18.8      27   0.002   13.8   1.9   14  145-158   114-127 (400)
  6 d1st6a3 a.24.9.1 (A:253-371) V  15.3      33  0.0024   13.3   1.7   27   64-90     82-109 (119)
  7 d3c96a2 d.16.1.2 (A:183-293) M  12.0      41   0.003   12.7   2.0   56  105-160    32-108 (111)
  8 d2ff4a2 a.118.8.3 (A:105-283)   11.9      41   0.003   12.7   2.2   43   45-87     87-129 (179)
  9 d1nvpd2 b.56.1.1 (D:54-99) Sma  11.8      13 0.00094   15.8  -1.3   21   38-58      2-22  (46)
 10 d2exna1 b.165.1.1 (A:1-128) Hy  11.6      29  0.0021   13.6   0.5   11  208-218   107-117 (128)

No 1  
>d1q90b_ f.21.1.2 (B:) Cytochrome b6 subunit of the cytochrome b6f complex {Chlamydomonas reinhardtii [TaxId: 3055]}
Probab=30.17  E-value=9.1  Score=16.72  Aligned_cols=54  Identities=22%  Similarity=0.369  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEEECCCHHHHHCCCCHHHCCCCHHHHHHHHHHHCCCCHHHHH
Q ss_conf             47889999999988740357874216765210001274567631300211013357899999973388889987
Q gi|254780965|r    7 IIILLVLVGVILAFYFQQSSTPQNHLLFFSEKAVWKGDSETYFQCKRAHEFDENFDNCIITSIKKTGGTQEALR   80 (229)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~se~~vw~gd~~~~~q~~~a~~~d~~~~~Cl~~~m~~tGat~eAl~   80 (229)
                      ..++.++.|+.|+||++-+..                   .-++.-..-++|-++. ++.|.+|..||+.=-+.
T Consensus        40 ~~~iqi~TGi~L~~~Y~p~~~-------------------~A~~Sv~~I~~~v~~G-~liR~lH~~gAs~~~~~   93 (212)
T d1q90b_          40 CFLVQVATGFAMTFYYRPTVA-------------------EAFASVQYIMTDVNFG-WLIRSIHRWSASMMVLM   93 (212)
T ss_dssp             HHHHHHHHHHHHTTTCCCSTT-------------------THHHHHHHHHHTSTTH-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHCCCC-HHHCCCCCCCCHHHHHH
T ss_conf             999999999999999971003-------------------7788999985447876-52233002023589999


No 2  
>d1ppjc2 f.21.1.2 (C:15-260) Mitochondrial cytochrome b subunit, N-terminal domain {Cow (Bos taurus) [TaxId: 9913]}
Probab=28.74  E-value=11  Score=16.27  Aligned_cols=113  Identities=20%  Similarity=0.242  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEEECCCHHHHHCCCCHHHCCCCHHHHHHHHHHHCCCCHHHHHHH-HHH
Q ss_conf             4788999999998874035787421676521000127456763130021101335789999997338888998799-985
Q gi|254780965|r    7 IIILLVLVGVILAFYFQQSSTPQNHLLFFSEKAVWKGDSETYFQCKRAHEFDENFDNCIITSIKKTGGTQEALRAA-QYL   85 (229)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~se~~vw~gd~~~~~q~~~a~~~d~~~~~Cl~~~m~~tGat~eAl~aa-~~L   85 (229)
                      ..++.++.|+.|++|+.-+++                   .-+..-.--.+|-++. .+.|++|..||+-=-+.+- .++
T Consensus        26 ~~~iqiiTGi~L~~~Y~p~~~-------------------~A~~Sv~~i~~~v~~G-~~iR~~H~~gas~~~~~~~lHm~   85 (246)
T d1ppjc2          26 CLILQILTGLFLAMHYTSDTT-------------------TAFSSVTHICRDVNYG-WIIRYMHANGASMFFICLYMHVG   85 (246)
T ss_dssp             HHHHHHHHHHHHHTTCCCCTT-------------------THHHHHHHHHHHSTTH-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHH-------------------HHHHHHHHHCCCCCCC-HHHCCHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999759937-------------------9999999843745576-34401337489999999999998


Q ss_pred             HC-----C-------------------CCHHHHHHHHHCCCCCEEEEEEEEECCCCCEEEEEECCCCCEECHHHHHHHHH
Q ss_conf             10-----5-------------------74137775864177025899975533888603897527762116435127676
Q gi|254780965|r   86 EK-----Y-------------------LEPGYVSSYRKEALIGIVEVQYPYRANENSGTLLIPTVGSHIIDINDSSVHQL  141 (229)
Q Consensus        86 ~~-----~-------------------~e~gYV~sf~E~g~vdvatV~YPyRANeN~gT~Lvpt~gssiIdv~d~~la~~  141 (229)
                      .+     |                   .=.|||-.|..+.--               ++.++-+..++ ||.--..+...
T Consensus        86 r~~~~~sy~~~~~w~~G~~l~~l~m~~af~GY~Lpw~qms~w---------------a~~V~t~l~~~-iP~iG~~l~~w  149 (246)
T d1ppjc2          86 RGLYYGSYTFLETWNIGVILLLTVMATAFMGYVLPWGQMSFW---------------GATVITNLLSA-IPYIGTNLVEW  149 (246)
T ss_dssp             HHHHHTGGGSHHHHHHHHHHHHHHHHHHHHHHHTTCBHHHHH---------------HHHHHHGGGGG-STTTHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHEECCCCCCCHHHH---------------HHHHHHHHHHH-HHHHHHHHHHH
T ss_conf             888715865458999999999999999880134788513689---------------99999999999-99878877864


Q ss_pred             HC-----CCHHHHHHHHHC
Q ss_conf             30-----384379999608
Q gi|254780965|r  142 YD-----SSPIAKDFVLRN  155 (229)
Q Consensus       142 ~~-----aDPty~~fikan  155 (229)
                      +.     .+||-+.|--.|
T Consensus       150 i~GG~~v~~~TL~RFf~lH  168 (246)
T d1ppjc2         150 IWGGFSVDKATLTRFFAFH  168 (246)
T ss_dssp             HHTSSSSCHHHHHHHHHHH
T ss_pred             HCCCCCCCCCHHHHHHHHH
T ss_conf             0178607741688999999


No 3  
>d3cx5c2 f.21.1.2 (C:1-261) Mitochondrial cytochrome b subunit, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=24.24  E-value=16  Score=15.26  Aligned_cols=53  Identities=9%  Similarity=0.228  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEEECCCHHHHHCCCCHHHCCCCHHHHHHHHHHHCCCCHHHH
Q ss_conf             4788999999998874035787421676521000127456763130021101335789999997338888998
Q gi|254780965|r    7 IIILLVLVGVILAFYFQQSSTPQNHLLFFSEKAVWKGDSETYFQCKRAHEFDENFDNCIITSIKKTGGTQEAL   79 (229)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~se~~vw~gd~~~~~q~~~a~~~d~~~~~Cl~~~m~~tGat~eAl   79 (229)
                      ..++.++.|+.|++|++-+..                  +++ +.-..-++|-++ -++.|.+|..||+-=-+
T Consensus        39 ~~~iqiiTGi~L~~~Y~p~~~------------------~A~-~Sv~~i~~~v~~-Gw~iR~~H~~ga~~~~~   91 (261)
T d3cx5c2          39 CLVIQIVTGIFMAMHYSSNIE------------------LAF-SSVEHIMRDVHN-GYILRYLHANGASFFFM   91 (261)
T ss_dssp             HHHHHHHHHHHHHTTCCCSTT------------------THH-HHHHHHHHTSTT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHEECCCHH------------------HHH-HHHHHHHHHHCC-CHHHHHCCCCCHHHHHH
T ss_conf             999999999998710129828------------------999-999999745405-82642000221999999


No 4  
>d1nh2d2 b.56.1.1 (D:55-121) Small chain TOA2, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=21.85  E-value=5.1  Score=18.28  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=17.3

Q ss_pred             EEEECCCHHHHHCCCCHHHCC
Q ss_conf             000127456763130021101
Q gi|254780965|r   38 KAVWKGDSETYFQCKRAHEFD   58 (229)
Q Consensus        38 ~~vw~gd~~~~~q~~~a~~~d   58 (229)
                      +.-.||+|.|||-|.+--||=
T Consensus         5 KltfKG~L~TYRFCDnVWTFi   25 (67)
T d1nh2d2           5 KLTVKGNLDTYGFCDDVWTFI   25 (67)
T ss_dssp             EEEEEEEEEEEEEETTEEEEE
T ss_pred             EEEEEEEECCEECCCCEEEEE
T ss_conf             589976001100035377899


No 5  
>d3ovwa_ b.29.1.10 (A:) Cellobiohydrolase I (cellulase, Endoglucanase I, CBH1) {Fusarium oxysporum [TaxId: 5507]}
Probab=18.79  E-value=27  Score=13.79  Aligned_cols=14  Identities=7%  Similarity=-0.069  Sum_probs=8.8

Q ss_pred             CHHHHHHHHHCCCC
Q ss_conf             84379999608884
Q gi|254780965|r  145 SPIAKDFVLRNPGV  158 (229)
Q Consensus       145 DPty~~fikanP~i  158 (229)
                      +-+|+.|.+.+-|.
T Consensus       114 ~~~Yqmf~Llg~Ef  127 (400)
T d3ovwa_         114 KKKYEMLHLTGTEF  127 (400)
T ss_dssp             SSSBCEECCTTCEE
T ss_pred             CCCEEEEEECCCEE
T ss_conf             77357899338678


No 6  
>d1st6a3 a.24.9.1 (A:253-371) Vinculin {Chicken (Gallus gallus) [TaxId: 9031]}
Probab=15.33  E-value=33  Score=13.27  Aligned_cols=27  Identities=22%  Similarity=0.244  Sum_probs=20.1

Q ss_pred             HHHHHHHHC-CCCHHHHHHHHHHHCCCC
Q ss_conf             999999733-888899879998510574
Q gi|254780965|r   64 CIITSIKKT-GGTQEALRAAQYLEKYLE   90 (229)
Q Consensus        64 Cl~~~m~~t-Gat~eAl~aa~~L~~~~e   90 (229)
                      -|.+--++| |.||+|...|+++...+.
T Consensus        82 qLadLr~~G~G~sPeA~~lA~qi~~kL~  109 (119)
T d1st6a3          82 QLADLRARGQGATPMAMQKAQQVSQGLD  109 (119)
T ss_dssp             HHHHHTTTTCCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHH
T ss_conf             9999998389999899999999999999


No 7  
>d3c96a2 d.16.1.2 (A:183-293) Monooxygenase PhzS {Pseudomonas aeruginosa [TaxId: 287]}
Probab=11.99  E-value=41  Score=12.68  Aligned_cols=56  Identities=21%  Similarity=0.267  Sum_probs=29.3

Q ss_pred             EEEEEEEEECCCC-CEEEEE--ECCC------------CCEECHHHHHHHHHHCC-CHH---HHHHHHHCCCC--CC
Q ss_conf             5899975533888-603897--5277------------62116435127676303-843---79999608884--11
Q gi|254780965|r  105 IVEVQYPYRANEN-SGTLLI--PTVG------------SHIIDINDSSVHQLYDS-SPI---AKDFVLRNPGV--FP  160 (229)
Q Consensus       105 vatV~YPyRANeN-~gT~Lv--pt~g------------ssiIdv~d~~la~~~~a-DPt---y~~fikanP~i--~P  160 (229)
                      --.|.||.+.|+. .|..|+  +...            +---+.+..-+...+++ +|.   ..+++.++|.+  ||
T Consensus        32 ~~~V~YPi~~~~~~~G~~liN~Va~v~~~~~~~~~~~e~W~~~g~~~el~~~F~~W~~~~~di~~LI~~~~~i~~wp  108 (111)
T d3c96a2          32 SRLVAYPISARHAAEGKSLVNWVCMVPSAAVGQLDNEADWNRDGRLEDVLPFFADWDLGWFDIRDLLTRNQLILQYP  108 (111)
T ss_dssp             CEEEEEECCHHHHTTTCEEEEEEEEEEHHHHCCCCSSCCTTCBCCHHHHHHHHTTCCBTTBCHHHHHHTCSEEEEEE
T ss_pred             CEEEEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHCCCEEECC
T ss_conf             66999746899877761268999998046556788879865536999999987589974303999997182200165


No 8  
>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}
Probab=11.91  E-value=41  Score=12.66  Aligned_cols=43  Identities=16%  Similarity=0.116  Sum_probs=29.5

Q ss_pred             HHHHHCCCCHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             5676313002110133578999999733888899879998510
Q gi|254780965|r   45 SETYFQCKRAHEFDENFDNCIITSIKKTGGTQEALRAAQYLEK   87 (229)
Q Consensus        45 ~~~~~q~~~a~~~d~~~~~Cl~~~m~~tGat~eAl~aa~~L~~   87 (229)
                      +..|.+.-..+..+|+.-..+.++..+.|-..||+++-+.+..
T Consensus        87 l~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          87 IAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             9999999984985199999999999985579999999999999


No 9  
>d1nvpd2 b.56.1.1 (D:54-99) Small chain TOA2, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=11.83  E-value=13  Score=15.79  Aligned_cols=21  Identities=24%  Similarity=0.523  Sum_probs=15.4

Q ss_pred             EEEECCCHHHHHCCCCHHHCC
Q ss_conf             000127456763130021101
Q gi|254780965|r   38 KAVWKGDSETYFQCKRAHEFD   58 (229)
Q Consensus        38 ~~vw~gd~~~~~q~~~a~~~d   58 (229)
                      +.-.||.++|||-|.+--||-
T Consensus         2 k~tfKG~L~tYRfCDnVWTFi   22 (46)
T d1nvpd2           2 RVNFRGSLNTYRFCDNVWTFV   22 (46)
T ss_dssp             EEEEEEEEEEEEEETTEEEEE
T ss_pred             CEEEEEEEEEECCCCCEEEEE
T ss_conf             438978860111678587899


No 10 
>d2exna1 b.165.1.1 (A:1-128) Hypothetical protein BB0938 {Bordetella bronchiseptica [TaxId: 518]}
Probab=11.65  E-value=29  Score=13.60  Aligned_cols=11  Identities=9%  Similarity=-0.037  Sum_probs=4.7

Q ss_pred             EEEEEEEEEEE
Q ss_conf             10013566640
Q gi|254780965|r  208 FIGRKVFGIRN  218 (229)
Q Consensus       208 FIG~kV~~V~~  218 (229)
                      |.|+.+-+||.
T Consensus       107 ~LG~~~rLv~~  117 (128)
T d2exna1         107 HAGVPCRILKV  117 (128)
T ss_dssp             HTCSSEEEEEE
T ss_pred             HHCCCEEEEEE
T ss_conf             84995599997


Done!