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 33803
Date          Wed Jun  1 20:45:43 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781042.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2wdq_D Succinate dehydrogenas 100.0 2.8E-31 8.2E-36  201.1  13.4  113   12-124     3-115 (115)
  2 >2h88_D Succinate dehydrogenas  99.0 6.4E-09 1.9E-13   71.4  10.7   78   16-112     1-78  (103)
  3 >2bs2_C Quinol-fumarate reduct  98.7 4.1E-07 1.2E-11   60.9  12.4  110   19-128   104-219 (240)
  4 >2wdq_C Succinate dehydrogenas  98.3 1.3E-05 3.9E-10   52.2  11.2   80   18-97     20-101 (129)
  5 >1zoy_C Large cytochrome bindi  97.7 0.00025 7.4E-09   44.8   8.9   85   21-105     9-97  (114)
  6 >2h88_C Succinate dehydrogenas  97.6  0.0027   8E-08   38.8  12.5   85   21-105     9-97  (114)
  7 >1kf6_C Fumarate reductase 15   95.2   0.061 1.8E-06   30.9   6.1   65   18-82     17-84  (91)
  8 >1kf6_D Fumarate reductase 13   91.4    0.62 1.8E-05   25.1   6.0   53   49-101    47-100 (119)
  9 >1joy_A Protein (ENVZ_ecoli);   63.1       2 6.1E-05   22.1   0.3   26    1-26     19-45  (67)
 10 >2c2a_A Sensor histidine kinas  46.3     4.1 0.00012   20.3  -0.4   15    1-15     27-41  (89)
 11 >3a0r_A Sensor protein; four h  41.8     5.4 0.00016   19.7  -0.4   15    1-15     10-24  (65)
 12 >2ahm_A Replicase NSP7, replic  33.5      18 0.00054   16.6   1.3   30   68-97     56-85  (88)
 13 >2gpe_A Bifunctional protein P  23.6      24 0.00071   15.9   0.5   23    8-30     14-36  (52)
 14 >2hai_A Hepatitis C virus NS5B  21.7      22 0.00065   16.1  -0.1   36    3-42     29-64  (219)
 15 >3d36_A Sporulation kinase B;   21.6      19 0.00057   16.4  -0.4   14    2-15     22-35  (244)
 16 >2ay0_A Bifunctional PUTA prot  21.4      28 0.00083   15.5   0.5   22    8-29     14-35  (58)

No 1  
>>2wdq_D Succinate dehydrogenase hydrophobic membrane anchor subunit; succinate dehydrogenase activity, cell inner membrane, tricarboxylic acid cycle; HET: FAD HEM CBE; 2.40A {Escherichia coli} PDB: 1nen_D* 2acz_D* 1nek_D* 2wdr_D* 2wdv_D* (D:)
Probab=99.97  E-value=2.8e-31  Score=201.13  Aligned_cols=113  Identities=22%  Similarity=0.421  Sum_probs=110.8

Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             83055422108999999999999999999999999962899989999999462599999999999999998404889985
Q gi|254781042|r   12 VRGMGSAKDGTGHFIKQRFTAIANIPFIIFFIAFFIKYGDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIED   91 (130)
Q Consensus        12 ~rglgsa~~G~~hW~~QRiSAi~L~~l~i~~i~~~~~~~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieD   91 (130)
                      .||+||+|+|++||+.||+||++++|+++|+++.+...++.|||++.+++++|++++++.+++.+.++|+++|+|+|+||
T Consensus         3 ~r~~~~~~~G~~~W~~qRiTav~L~~l~~~~i~~~~~~~~~~y~~~~~~~~~p~~~i~~~l~l~~~~~Ha~~G~~~iieD   82 (115)
T 2wdq_D            3 SNASALGRNGVHDFILVRATAIVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSILIHAWIGMWQVLTD   82 (115)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             12204556789999999999999999999999999982999999999999494999999999999999999989999999


Q ss_pred             HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             127731899999999999999999999999999
Q gi|254781042|r   92 YIHYRLLKIMFLFMNSCFVLLLIIFCLFSLLKI  124 (130)
Q Consensus        92 YI~~~~~k~~~~~~~~~~~~~~~~~~i~~i~~i  124 (130)
                      |+|+++.|...+.++++++.+.++.++++++|+
T Consensus        83 Yv~~~~~r~~~~~~~~~~~~~~~~~g~~~i~~i  115 (115)
T 2wdq_D           83 YVKPLALRLMLQLVIVVALVVYVIYGFVVVWGV  115 (115)
T ss_dssp             HCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             837466999999999999999999999999839


No 2  
>>2h88_D Succinate dehydrogenase cytochrome B, small subunit; complex II, membrane protein, heme protein, iron sulfur protein, oxidoreductase, redox enzyme; HET: FAD BHG HEM UNL; 1.74A {Gallus gallus} PDB: 1yq4_D* 1yq3_D* 2fbw_D* 2h89_D* 1zoy_D* 1zp0_D* (D:)
Probab=98.99  E-value=6.4e-09  Score=71.42  Aligned_cols=78  Identities=14%  Similarity=0.110  Sum_probs=61.7

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         1 a~~~~gS~HW~~ER~~sv~LlpL~p~a~~-------------------~~~pv~D~~La~~l~~H~h~G~~svI~DYvp~   61 (103)
T 2h88_D            1 GSSKAASLHWTSERAVSALLLGLLPAAYL-------------------YPGPAVDYSLAAALTLHGHWGLGQVITDYVHG   61 (103)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHHHHH-------------------SCSHHHHHHHHHHHHHHHHHHHHHHHHHHCCS
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHH-------------------CCCHHHHHHHHHHHHHHHHHCCCEEEECCCCC
T ss_conf             99886036669999999999999999998-------------------01179999999999999985653433313576


Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             31899999999999999
Q gi|254781042|r   96 RLLKIMFLFMNSCFVLL  112 (130)
Q Consensus        96 ~~~k~~~~~~~~~~~~~  112 (130)
                      +...+...........+
T Consensus        62 ~~~~k~~~~a~~lls~~   78 (103)
T 2h88_D           62 DTPIKVANTGLYVLSAI   78 (103)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHH
T ss_conf             10469999999999999


No 3  
>>2bs2_C Quinol-fumarate reductase diheme cytochrome B subunit C; 2Fe-2S, 3Fe-4S, 4Fe-4S, citric acid cycle, dihaem cytochrome B; HET: FAD HEM LMT; 1.78A {Wolinella succinogenes} (C:17-256)
Probab=98.72  E-value=4.1e-07  Score=60.93  Aligned_cols=110  Identities=9%  Similarity=0.033  Sum_probs=86.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
Q ss_conf             2108999999999999999999999999962-8999899999994625999999999999999984048899851-----
Q gi|254781042|r   19 KDGTGHFIKQRFTAIANIPFIIFFIAFFIKY-GDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIEDY-----   92 (130)
Q Consensus        19 ~~G~~hW~~QRiSAi~L~~l~i~~i~~~~~~-~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDY-----   92 (130)
                      +.++--|..||+|+++++++.++.++.+... ...+|+...+.+++|....+-.+.++...+|...|++..+-|+     
T Consensus       104 ~~~~~~~~~q~itG~iLl~fli~Hl~~~~~~~~~~~~~~~~~~~~~p~~~~~Y~~~l~~l~~H~~~Gl~~~~~~~G~~~~  183 (240)
T 2bs2_C          104 HGDTTLWWIQAMTGFAMFFLGSVHLYIMMTQPQTIGPVSSSFRMVSEWMWPLYLVLLFAVELHGSVGLYRLAVKWGWFDG  183 (240)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGCSTTHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             22109999999999999999999999862266778789999999581199999999999999986409999988524346


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             277318999999999999999999999999999642
Q gi|254781042|r   93 IHYRLLKIMFLFMNSCFVLLLIIFCLFSLLKIAILG  128 (130)
Q Consensus        93 I~~~~~k~~~~~~~~~~~~~~~~~~i~~i~~i~l~g  128 (130)
                      .+.+..|........++..+..+..+.++....-.|
T Consensus       184 ~~~~~~r~~~~~~~~ii~~~f~~ipi~~l~g~i~~~  219 (240)
T 2bs2_C          184 ETPDKTRANLKKLKTLMSAFLIVLGLLTFGAYVKKG  219 (240)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             531568899999999999999999999999999818


No 4  
>>2wdq_C Succinate dehydrogenase cytochrome B556 subunit; succinate dehydrogenase activity, cell inner membrane, tricarboxylic acid cycle; HET: FAD HEM CBE; 2.40A {Escherichia coli} PDB: 1nen_C* 2acz_C* 1nek_C* 2wdr_C* 2wdv_C* (C:)
Probab=98.31  E-value=1.3e-05  Score=52.17  Aligned_cols=80  Identities=13%  Similarity=0.095  Sum_probs=68.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             221089999999999999999999999999--628999899999994625999999999999999984048899851277
Q gi|254781042|r   18 AKDGTGHFIKQRFTAIANIPFIIFFIAFFI--KYGDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIEDYIHY   95 (130)
Q Consensus        18 a~~G~~hW~~QRiSAi~L~~l~i~~i~~~~--~~~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDYI~~   95 (130)
                      ..-+.--++.+|+|+++|......+.+.+.  ...+.+|++..++++++..++....+..+..||...|+++.+-|.=+.
T Consensus        20 ~~~~~~~SIlHRiTG~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~yH~~nGiRHL~~D~g~g   99 (129)
T 2wdq_C           20 FPITAIASILHRVSGVITFVAVGILLWLLGTSLSSPEGFEQASAIMGSFFVKFIMWGILTALAYHVVVGIRHMMMDFGYL   99 (129)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             32999999999999999999999999999997223027999999997799999999999999999998399999982300


Q ss_pred             HH
Q ss_conf             31
Q gi|254781042|r   96 RL   97 (130)
Q Consensus        96 ~~   97 (130)
                      ..
T Consensus       100 ~~  101 (129)
T 2wdq_C          100 EE  101 (129)
T ss_dssp             CC
T ss_pred             HH
T ss_conf             34


No 5  
>>1zoy_C Large cytochrome binding protein, FAD-binding protein; succinate, ubiquinone oxidoreductase, mitochondrial respiratory complex II; HET: FAD HEM EPH UQ1; 2.40A {Sus scrofa} PDB: 1zp0_C* (C:27-140)
Probab=97.74  E-value=0.00025  Score=44.78  Aligned_cols=85  Identities=14%  Similarity=-0.078  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCCHHHHHHH--HHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             089999999999999999999999999628--9998999999--946259999999999999999840488998512773
Q gi|254781042|r   21 GTGHFIKQRFTAIANIPFIIFFIAFFIKYG--DAPYEQIVSV--LSNVAVASIMGLGTISISVHMQLGMQVIIEDYIHYR   96 (130)
Q Consensus        21 G~~hW~~QRiSAi~L~~l~i~~i~~~~~~~--~~~y~~~~~~--~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDYI~~~   96 (130)
                      +.--++.+|+|++++......+...+....  +.+|++..++  ++++..+........+..||+..|+|+.+-|.=.+.
T Consensus         9 t~~~SIlHRiTG~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yH~~nGiRHL~wD~g~g~   88 (114)
T 1zoy_C            9 PMAMSICHRGTGIALSAGVSLFGLSALLLPGNFESHLELVKSLCLGPTLIYTAKFGIVFPLMYHTWNGIRHLIWDLGKGL   88 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHSCSCHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             99999999999999998899999999996045068899999985161899999999999999999984999999801467


Q ss_pred             HHHHHHHHH
Q ss_conf             189999999
Q gi|254781042|r   97 LLKIMFLFM  105 (130)
Q Consensus        97 ~~k~~~~~~  105 (130)
                      ..|..-...
T Consensus        89 ~~~~~~~sg   97 (114)
T 1zoy_C           89 TIPQLTQSG   97 (114)
T ss_dssp             SHHHHHHHH
T ss_pred             CHHHHHHHH
T ss_conf             499999999


No 6  
>>2h88_C Succinate dehydrogenase cytochrome B, large subunit; complex II, membrane protein, heme protein, iron sulfur protein, oxidoreductase, redox enzyme; HET: FAD BHG HEM UNL; 1.74A {Gallus gallus} PDB: 2h89_C* 1yq3_C* 1yq4_C* 2fbw_C* (C:27-140)
Probab=97.61  E-value=0.0027  Score=38.79  Aligned_cols=85  Identities=18%  Similarity=-0.014  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCCHHHHHHH--HHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             089999999999999999999999999628--9998999999--946259999999999999999840488998512773
Q gi|254781042|r   21 GTGHFIKQRFTAIANIPFIIFFIAFFIKYG--DAPYEQIVSV--LSNVAVASIMGLGTISISVHMQLGMQVIIEDYIHYR   96 (130)
Q Consensus        21 G~~hW~~QRiSAi~L~~l~i~~i~~~~~~~--~~~y~~~~~~--~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDYI~~~   96 (130)
                      ..--++.+|+|++++......+...+....  +.+|++..+.  .+++..+........+.+||...|+|+.+-|.=.+.
T Consensus         9 t~~~SI~HRiTG~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yH~~nGiRHL~wD~g~g~   88 (114)
T 2h88_C            9 PMAMSITHRGTGVALSLGVSLFSLAALLLPEQFPHYVAVVKSLSLSPALIYSAKFALVFPLSYHTWNGIRHLVWDMGKGF   88 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             89999999999999999999999999985256688998886300231999999999999999999987999999610477


Q ss_pred             HHHHHHHHH
Q ss_conf             189999999
Q gi|254781042|r   97 LLKIMFLFM  105 (130)
Q Consensus        97 ~~k~~~~~~  105 (130)
                      ..|..-...
T Consensus        89 ~~~~~~~tg   97 (114)
T 2h88_C           89 KLSQVEQSG   97 (114)
T ss_dssp             SHHHHHHHH
T ss_pred             CHHHHHHHH
T ss_conf             699999999


No 7  
>>1kf6_C Fumarate reductase 15 kDa hydrophobic protein; respiration, fumarate reductace, succinate dehydrogenase, complex II, quinol, quinone; HET: FAD HQO CE1 1PE; 2.70A {Escherichia coli} (C:1-91)
Probab=95.19  E-value=0.061  Score=30.93  Aligned_cols=65  Identities=18%  Similarity=0.167  Sum_probs=52.2

Q ss_pred             CCCHHHH-HHHHHHHHHHHHHHHHHHHHHHHHC--CCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
Q ss_conf             2210899-9999999999999999999999962--899989999999462599999999999999998
Q gi|254781042|r   18 AKDGTGH-FIKQRFTAIANIPFIIFFIAFFIKY--GDAPYEQIVSVLSNVAVASIMGLGTISISVHMQ   82 (130)
Q Consensus        18 a~~G~~h-W~~QRiSAi~L~~l~i~~i~~~~~~--~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~   82 (130)
                      .|++-.. ....-.|++..+.+.+.+++-...+  .+.+++.+.++.+||+.-++-++.+.++++|+.
T Consensus        17 ~k~~FYr~YMlRE~T~v~~~~f~lvLl~Gl~~L~~g~~aw~~f~~fl~nPivi~lniiaL~a~L~H~~   84 (91)
T 1kf6_C           17 KKLPFYRFYMLREGTAVPAVWFSIELIFGLFALKNGPEAWAGFVDFLQNPVIVIINLITLAAALLHTK   84 (91)
T ss_dssp             GSSHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
T ss_conf             55848999999998589999999999999999806888999999998385999999999999999999


No 8  
>>1kf6_D Fumarate reductase 13 kDa hydrophobic protein; respiration, fumarate reductace, succinate dehydrogenase, complex II, quinol, quinone; HET: FAD HQO CE1 1PE; 2.70A {Escherichia coli} (D:)
Probab=91.36  E-value=0.62  Score=25.09  Aligned_cols=53  Identities=15%  Similarity=0.046  Sum_probs=45.5

Q ss_pred             CCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCHHHHHH
Q ss_conf             28999899999994625999999999999999984048899851-277318999
Q gi|254781042|r   49 YGDAPYEQIVSVLSNVAVASIMGLGTISISVHMQLGMQVIIEDY-IHYRLLKIM  101 (130)
Q Consensus        49 ~~~~~y~~~~~~~~~~~~~il~~l~~~~~~~Ha~lGl~~IieDY-I~~~~~k~~  101 (130)
                      .+..|||.+.+|-+++..+......+..-+||+-=-+..-.-|- +|.+..|..
T Consensus        47 ~~a~sy~~i~aFa~s~iG~l~ll~~i~lplWh~~HRihHglHDlkih~~~g~~~  100 (119)
T 1kf6_D           47 GDALSYERVLAFAQSFIGRVFLFLMIVLPLWCGLHRMHHAMHDLKIHVPAGKWV  100 (119)
T ss_dssp             TTTTSHHHHHHHHTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCTTHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCEECCCCCHH
T ss_conf             663589999999860899999999999999999999998775420004763147


No 9  
>>1joy_A Protein (ENVZ_ecoli); histidine kinase, sensory transduction, osmolarity sensor protein, inner membrane, phosphorylation, transferase; NMR {Escherichia coli} (A:)
Probab=63.14  E-value=2  Score=22.09  Aligned_cols=26  Identities=23%  Similarity=0.397  Sum_probs=17.7

Q ss_pred             CCCCHHHHHHHHHHC-CCCCCHHHHHH
Q ss_conf             986033348998305-54221089999
Q gi|254781042|r    1 MDFDMRSSLGRVRGM-GSAKDGTGHFI   26 (130)
Q Consensus         1 m~~~~~t~~~~~rgl-gsa~~G~~hW~   26 (130)
                      ++||+|||+..++|. .....+...++
T Consensus        19 isHeLrtPL~~i~~~~e~l~~~~~~~l   45 (67)
T 1joy_A           19 VSHDLRTPLTRIRLATEMMSEQDGYLA   45 (67)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHTHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHCCCHHHH
T ss_conf             517614648888879987023579999


No 10 
>>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl MAD, two-component systems, transferase; HET: ADP; 1.9A {Thermotoga maritima} (A:1-89)
Probab=46.29  E-value=4.1  Score=20.34  Aligned_cols=15  Identities=13%  Similarity=0.521  Sum_probs=11.4

Q ss_pred             CCCCHHHHHHHHHHC
Q ss_conf             986033348998305
Q gi|254781042|r    1 MDFDMRSSLGRVRGM   15 (130)
Q Consensus         1 m~~~~~t~~~~~rgl   15 (130)
                      ++||+|||+..+.|.
T Consensus        27 vsHelrtPL~~i~~~   41 (89)
T 2c2a_A           27 ISHELRTPLTAIKAY   41 (89)
T ss_dssp             HHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             799982899999999


No 11 
>>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transferase, two-component regulatory system; 3.80A {Thermotoga maritima} (A:130-194)
Probab=41.79  E-value=5.4  Score=19.66  Aligned_cols=15  Identities=13%  Similarity=0.490  Sum_probs=11.5

Q ss_pred             CCCCHHHHHHHHHHC
Q ss_conf             986033348998305
Q gi|254781042|r    1 MDFDMRSSLGRVRGM   15 (130)
Q Consensus         1 m~~~~~t~~~~~rgl   15 (130)
                      |+||+|||+..++|.
T Consensus        10 isHelrtPL~~I~~~   24 (65)
T 3a0r_A           10 VAHEIRNPITIIGGF   24 (65)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHH
T ss_conf             243333131499999


No 12 
>>2ahm_A Replicase NSP7, replicase polyprotein 1AB, light chain; SARS-COV, non-structural protein, super-complex, hexadecamer, viral protein; 2.40A {Sars coronavirus} (A:)
Probab=33.51  E-value=18  Score=16.59  Aligned_cols=30  Identities=13%  Similarity=0.302  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
Q ss_conf             999999999999998404889985127731
Q gi|254781042|r   68 SIMGLGTISISVHMQLGMQVIIEDYIHYRL   97 (130)
Q Consensus        68 il~~l~~~~~~~Ha~lGl~~IieDYI~~~~   97 (130)
                      -+..++.+....|+..++.+..|||+.+..
T Consensus        56 ~Ll~Ll~~lls~~~~~dl~el~d~~~~~~s   85 (88)
T 2ahm_A           56 KMVSLLSVLLSMQGAVDINRLCEEMLDNRA   85 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCC-------
T ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHCCCC
T ss_conf             999999999806544898999999965453


No 13 
>>2gpe_A Bifunctional protein PUTA; ribbon-helix-helix, DNA-binding domain, proline catabolism, proline utilization A, DNA binding protein; 1.90A {Escherichia coli} PDB: 2rbf_A* 2jxg_A 2jxh_A 2jxi_A* (A:)
Probab=23.61  E-value=24  Score=15.88  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=19.6

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             48998305542210899999999
Q gi|254781042|r    8 SLGRVRGMGSAKDGTGHFIKQRF   30 (130)
Q Consensus         8 ~~~~~rglgsa~~G~~hW~~QRi   30 (130)
                      -..|++.++..++-+.||+.-..
T Consensus        14 ~r~Rik~lA~~~~RtpHWLikqA   36 (52)
T 2gpe_A           14 TRERIKSAATRIDRTPHWLIKQA   36 (52)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             99999999986289878999999


No 14 
>>2hai_A Hepatitis C virus NS5B RNA polymerase; HCV RNA polymerase, transferase; HET: CME PFI; 1.58A {Hepatitis c virus} PDB: 1os5_A* 3frz_A* 2d3z_A* 2d3u_A* 2d41_A* 2gc8_A* 1quv_A* 2qe2_A* 2qe5_A* 3e51_A* 3bsa_A* 3bsc_A* 3br9_A* 3co9_A* 3cvk_A* 3cwj_A* 3d28_A* 3d5m_A* 3cde_A* 2zku_A ... (A:358-576)
Probab=21.68  E-value=22  Score=16.11  Aligned_cols=36  Identities=11%  Similarity=0.071  Sum_probs=26.4

Q ss_pred             CCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6033348998305542210899999999999999999999
Q gi|254781042|r    3 FDMRSSLGRVRGMGSAKDGTGHFIKQRFTAIANIPFIIFF   42 (130)
Q Consensus         3 ~~~~t~~~~~rglgsa~~G~~hW~~QRiSAi~L~~l~i~~   42 (130)
                      -|++||++|+---.+-|+.+.-|+=    -+++.+=++|.
T Consensus        29 rDp~tPLaRaawEtarh~PvnSwLG----nIimyapt~wV   64 (219)
T 2hai_A           29 RDPTTPLARAAWETARHTPVNSWLG----NIIMYAPTLWA   64 (219)
T ss_dssp             CCSHHHHHHHHHHHHSCCSBCHHHH----HHHHTTTSHHH
T ss_pred             CCCCCCHHHHHHHCCCCCCHHHHHH----HHHHHCCHHHC
T ss_conf             5888456764421358786999999----99860523404


No 15 
>>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I two-component histidine kinase, phosphoprotein; HET: ADP; 2.03A {Geobacillus stearothermophilus} (A:)
Probab=21.55  E-value=19  Score=16.44  Aligned_cols=14  Identities=29%  Similarity=0.641  Sum_probs=11.9

Q ss_pred             CCCHHHHHHHHHHC
Q ss_conf             86033348998305
Q gi|254781042|r    2 DFDMRSSLGRVRGM   15 (130)
Q Consensus         2 ~~~~~t~~~~~rgl   15 (130)
                      +||+|||+..++|.
T Consensus        22 sHelrtPL~~i~~~   35 (244)
T 3d36_A           22 SHEIRNPLTAARGF   35 (244)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99986899999999


No 16 
>>2ay0_A Bifunctional PUTA protein; ribbon-helix-helix, DNA-binding domain, proline catabolism, proline utilization A, DNA binding protein; 2.10A {Escherichia coli} (A:)
Probab=21.42  E-value=28  Score=15.48  Aligned_cols=22  Identities=18%  Similarity=0.394  Sum_probs=19.3

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        14 ~r~Rik~lA~~~~RtpHWLikq   35 (58)
T 2ay0_A           14 TRERIKSAATRIDRTPHWLIKQ   35 (58)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHH
T ss_conf             9999999999858997699999


Done!