Query         gi|254781042|ref|YP_003065455.1| succinate dehydrogenase hydrophobic membrane anchor [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 130
No_of_seqs    111 out of 586
Neff          6.7 
Searched_HMMs 13730
Date          Wed Jun  1 11:11:12 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781042.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 d1nekd_ f.21.2.2 (D:) Succinat 100.0 3.5E-31 2.5E-35  198.3  14.1  109   16-124     5-113 (113)
  2 d2bs2c1 f.21.2.1 (C:1-254) Fum  98.9 4.5E-08 3.3E-12   64.2  13.2  111   19-129   120-236 (254)
  3 d1nekc_ f.21.2.2 (C:) Succinat  98.0 8.9E-05 6.5E-09   45.1  11.5   72   25-96     27-100 (129)
  4 d1kf6c_ f.21.2.2 (C:) Fumarate  94.7   0.042 3.1E-06   29.6   6.1   65   19-83     18-85  (130)
  5 d1kf6d_ f.21.2.2 (D:) Fumarate  90.3    0.36 2.6E-05   24.2   6.0   50   49-98     47-97  (119)
  6 d1joya_ a.30.2.1 (A:) EnvZ his  50.8     1.8 0.00013   20.2   0.3   16    1-16     19-34  (67)
  7 d2c2aa1 a.30.2.1 (A:232-320) S  37.3     2.8  0.0002   19.0  -0.4   13    2-14     28-40  (89)
  8 d2ay0a1 a.43.1.11 (A:3-45) Bif  32.5     5.4  0.0004   17.4   0.5   22    8-29     12-33  (43)
  9 d1v66a_ a.140.2.1 (A:) p53 bin  17.7      27  0.0019   13.3   1.9   34    1-34     10-45  (65)
 10 d3cx5c1 f.32.1.1 (C:262-385) M  12.9      36  0.0026   12.6   2.2   65   30-97     28-92  (124)

No 1  
>d1nekd_ f.21.2.2 (D:) Succinate dehydrogenase subunit SdhD {Escherichia coli [TaxId: 562]}
Probab=99.97  E-value=3.5e-31  Score=198.29  Aligned_cols=109  Identities=23%  Similarity=0.441  Sum_probs=105.3

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             54221089999999999999999999999999628999899999994625999999999999999984048899851277
Q gi|254781042|r   16 GSAKDGTGHFIKQRFTAIANIPFIIFFIAFFIKYGDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIEDYIHY   95 (130)
Q Consensus        16 gsa~~G~~hW~~QRiSAi~L~~l~i~~i~~~~~~~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDYI~~   95 (130)
                      +.+|+|++||+.||+||++++|+++|+++.+....+.|||++.+|+++|+|++++.+++++.++|+++|+|+|+|||+|+
T Consensus         5 ~~~rsG~~~W~~qRvSAv~l~~l~~~~~~~~~~~~~~~y~~~~~~~~~~~~~il~~l~l~~~~~H~~lGl~~IieDYi~~   84 (113)
T d1nekd_           5 ALGRNGVHDFILVRATAIVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSILIHAWIGMWQVLTDYVKP   84 (113)
T ss_dssp             SSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSSCCHHHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCS
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             36556899999999999999999999999999829999999999993949999999999999999997075668995597


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             31899999999999999999999999999
Q gi|254781042|r   96 RLLKIMFLFMNSCFVLLLIIFCLFSLLKI  124 (130)
Q Consensus        96 ~~~k~~~~~~~~~~~~~~~~~~i~~i~~i  124 (130)
                      ++.|+.++.+++++++++++++++++|+|
T Consensus        85 ~~~r~~~~~~~~~~~~~~~~~~i~~lw~i  113 (113)
T d1nekd_          85 LALRLMLQLVIVVALVVYVIYGFVVVWGV  113 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             46999999999999999999999999729


No 2  
>d2bs2c1 f.21.2.1 (C:1-254) Fumarate reductase respiratory complex cytochrome b subunit, FrdC {Wolinella succinogenes [TaxId: 844]}
Probab=98.86  E-value=4.5e-08  Score=64.24  Aligned_cols=111  Identities=10%  Similarity=0.011  Sum_probs=92.3

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH-----HHH
Q ss_conf             2108999999999999999999999999962-8999899999994625999999999999999984048899-----851
Q gi|254781042|r   19 KDGTGHFIKQRFTAIANIPFIIFFIAFFIKY-GDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVII-----EDY   92 (130)
Q Consensus        19 ~~G~~hW~~QRiSAi~L~~l~i~~i~~~~~~-~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~Ii-----eDY   92 (130)
                      +..+.-|..||+|+++++++.++.++.+... .+.+|+.....+++|+...+-.+.+++..+|...|++...     .|+
T Consensus       120 ~~~t~~~~~q~~tG~ill~fi~~Hl~~~~~~~~~~~~~~~~~~~~~~~~~~fY~l~l~av~lH~~~Gl~s~~~~wG~~~~  199 (254)
T d2bs2c1         120 HGDTTLWWIQAMTGFAMFFLGSVHLYIMMTQPQTIGPVSSSFRMVSEWMWPLYLVLLFAVELHGSVGLYRLAVKWGWFDG  199 (254)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGCSTTHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             11249999999999999999999999997476678799999999470699999999999999988829999988730477


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             2773189999999999999999999999999996420
Q gi|254781042|r   93 IHYRLLKIMFLFMNSCFVLLLIIFCLFSLLKIAILGT  129 (130)
Q Consensus        93 I~~~~~k~~~~~~~~~~~~~~~~~~i~~i~~i~l~g~  129 (130)
                      ..+++.|+...........+..+++..++..-...|.
T Consensus       200 ~~~~~~R~~~~~~~~~l~~~~i~lG~~sl~~fv~~G~  236 (254)
T d2bs2c1         200 ETPDKTRANLKKLKTLMSAFLIVLGLLTFGAYVKKGL  236 (254)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             5307689999999999999999999999999999480


No 3  
>d1nekc_ f.21.2.2 (C:) Succinate dehydrogenase subunit SdhC {Escherichia coli [TaxId: 562]}
Probab=97.96  E-value=8.9e-05  Score=45.12  Aligned_cols=72  Identities=14%  Similarity=0.175  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH--HCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             99999999999999999999999--6289998999999946259999999999999999840488998512773
Q gi|254781042|r   25 FIKQRFTAIANIPFIIFFIAFFI--KYGDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIEDYIHYR   96 (130)
Q Consensus        25 W~~QRiSAi~L~~l~i~~i~~~~--~~~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDYI~~~   96 (130)
                      .+.+|+|++++......+.+.+.  ...+.+|+.+...+++++.+........+..||..-|+++.+-|.=+..
T Consensus        27 SI~HRisGv~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yH~~nGIRHL~wD~G~g~  100 (129)
T d1nekc_          27 SILHRVSGVITFVAVGILLWLLGTSLSSPEGFEQASAIMGSFFVKFIMWGILTALAYHVVVGIRHMMMDFGYLE  100 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCH
T ss_conf             99999999999999999999999984211179999999977999999999999999999985999999743023


No 4  
>d1kf6c_ f.21.2.2 (C:) Fumarate reductase subunit FrdC {Escherichia coli [TaxId: 562]}
Probab=94.66  E-value=0.042  Score=29.59  Aligned_cols=65  Identities=22%  Similarity=0.165  Sum_probs=52.2

Q ss_pred             CCHHHHHHHHH-HHHHHHHHHHHHHHHHHHHC--CCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             21089999999-99999999999999999962--8999899999994625999999999999999984
Q gi|254781042|r   19 KDGTGHFIKQR-FTAIANIPFIIFFIAFFIKY--GDAPYEQIVSVLSNVAVASIMGLGTISISVHMQL   83 (130)
Q Consensus        19 ~~G~~hW~~QR-iSAi~L~~l~i~~i~~~~~~--~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~l   83 (130)
                      |++-..+-+-| -|++....+.+.+++-...+  ++.+++.+.++.+||+.-++.++.+.++++|+.-
T Consensus        18 k~~FYr~YMlRE~T~v~~~~f~lvLl~Gl~~L~~g~~aw~~fv~flqnP~vv~lniiaLaa~L~Ha~T   85 (130)
T d1kf6c_          18 KLPFYRFYMLREGTAVPAVWFSIELIFGLFALKNGPEAWAGFVDFLQNPVIVIINLITLAAALLHTKT   85 (130)
T ss_dssp             SSHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf             68389999998873799999999999999998058789999999971849999999999999999999


No 5  
>d1kf6d_ f.21.2.2 (D:) Fumarate reductase subunit FrdD {Escherichia coli [TaxId: 562]}
Probab=90.35  E-value=0.36  Score=24.22  Aligned_cols=50  Identities=14%  Similarity=0.028  Sum_probs=43.4

Q ss_pred             CCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCHHH
Q ss_conf             28999899999994625999999999999999984048899851-277318
Q gi|254781042|r   49 YGDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIEDY-IHYRLL   98 (130)
Q Consensus        49 ~~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDY-I~~~~~   98 (130)
                      .+..|||.+.+|-.+++.+.+....++.-+||+.=-+..-.-|- ||-+..
T Consensus        47 ~~a~~y~~i~aFa~s~iG~l~ll~~i~lplWh~~HRihHglHDlkih~p~g   97 (119)
T d1kf6d_          47 GDALSYERVLAFAQSFIGRVFLFLMIVLPLWCGLHRMHHAMHDLKIHVPAG   97 (119)
T ss_dssp             TTTTSHHHHHHHHTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCTTH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCH
T ss_conf             665689999999844799999999999999999999999886630003630


No 6  
>d1joya_ a.30.2.1 (A:) EnvZ histidine kinase {Escherichia coli [TaxId: 562]}
Probab=50.84  E-value=1.8  Score=20.17  Aligned_cols=16  Identities=31%  Similarity=0.528  Sum_probs=12.7

Q ss_pred             CCCCHHHHHHHHHHCC
Q ss_conf             9860333489983055
Q gi|254781042|r    1 MDFDMRSSLGRVRGMG   16 (130)
Q Consensus         1 m~~~~~t~~~~~rglg   16 (130)
                      ..||+|||+.+.+|-.
T Consensus        19 vsHeLRTPLt~i~~~~   34 (67)
T d1joya_          19 VSHDLRTPLTRIRLAT   34 (67)
T ss_dssp             THHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             4488889999999998


No 7  
>d2c2aa1 a.30.2.1 (A:232-320) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]}
Probab=37.35  E-value=2.8  Score=19.05  Aligned_cols=13  Identities=15%  Similarity=0.542  Sum_probs=7.5

Q ss_pred             CCCHHHHHHHHHH
Q ss_conf             8603334899830
Q gi|254781042|r    2 DFDMRSSLGRVRG   14 (130)
Q Consensus         2 ~~~~~t~~~~~rg   14 (130)
                      +||+|||+..++|
T Consensus        28 sHeLRtPL~~I~~   40 (89)
T d2c2aa1          28 SHELRTPLTAIKA   40 (89)
T ss_dssp             HHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
T ss_conf             6999988999999


No 8  
>d2ay0a1 a.43.1.11 (A:3-45) Bifunctional protein putA {Escherichia coli [TaxId: 562]}
Probab=32.55  E-value=5.4  Score=17.36  Aligned_cols=22  Identities=18%  Similarity=0.394  Sum_probs=19.1

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             4899830554221089999999
Q gi|254781042|r    8 SLGRVRGMGSAKDGTGHFIKQR   29 (130)
Q Consensus         8 ~~~~~rglgsa~~G~~hW~~QR   29 (130)
                      -..|++.++..++-+.||+.-.
T Consensus        12 ~r~Ri~~lA~~~~RtpHWL~kq   33 (43)
T d2ay0a1          12 TRERIKSAATRIDRTPHWLIKQ   33 (43)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHH
T ss_conf             9999999998638987899999


No 9  
>d1v66a_ a.140.2.1 (A:) p53 binding domain of protein inhibitor of activated STAT protein 1, PIAS-1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=17.70  E-value=27  Score=13.35  Aligned_cols=34  Identities=26%  Similarity=0.370  Sum_probs=25.9

Q ss_pred             CCCCHH-HHHHHHHH-CCCCCCHHHHHHHHHHHHHH
Q ss_conf             986033-34899830-55422108999999999999
Q gi|254781042|r    1 MDFDMR-SSLGRVRG-MGSAKDGTGHFIKQRFTAIA   34 (130)
Q Consensus         1 m~~~~~-t~~~~~rg-lgsa~~G~~hW~~QRiSAi~   34 (130)
                      |.+++| +++-..=| .|..|+|.+|=+.+|..-.+
T Consensus        10 Mv~sfRVsELQ~LLg~~gr~KsGrK~eL~~RaL~LL   45 (65)
T d1v66a_          10 MVMSLRVSELQVLLGYAGRNKHGRKHELLTKALHLL   45 (65)
T ss_dssp             HHTTCCHHHHHHHHHTTCCCCCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
T ss_conf             999970899999999839987665799999999998


No 10 
>d3cx5c1 f.32.1.1 (C:262-385) Mitochondrial cytochrome b subunit, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=12.89  E-value=36  Score=12.59  Aligned_cols=65  Identities=8%  Similarity=-0.003  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
Q ss_conf             99999999999999999962899989999999462599999999999999998404889985127731
Q gi|254781042|r   30 FTAIANIPFIIFFIAFFIKYGDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIEDYIHYRL   97 (130)
Q Consensus        30 iSAi~L~~l~i~~i~~~~~~~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDYI~~~~   97 (130)
                      .-+++.....+..++.+.-.+...   .+..--+|..+....+++...+.=.|+|-+.+-+.|+--..
T Consensus        28 ~~Gvl~~~~si~il~~lP~l~~s~---~~s~~~rp~~k~~fw~fv~~fi~LtwlG~~p~e~p~~~~gq   92 (124)
T d3cx5c1          28 LLGVITMFAAILVLLVLPFTDRSV---VRGNTFKVLSKFFFFIFVFNFVLLGQIGACHVEVPYVLMGQ   92 (124)
T ss_dssp             HHHHHHHHHHHHGGGGHHHHCCCS---SSSSTTCHHHHHHHHHHHHHHHHHHHHHTSCSCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH
T ss_conf             022588999999999999972001---42021014799999999989999998047888763889999


Done!