Query         gi|254780247|ref|YP_003064660.1| 30S ribosomal protein S8 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 129
No_of_seqs    111 out of 2009
Neff          6.5 
Searched_HMMs 13730
Date          Tue May 24 05:20:55 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780247.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 d1seia_ d.140.1.1 (A:) Ribosom 100.0       0       0  293.0  14.8  127    2-129     4-130 (130)
  2 d2gy9h1 d.140.1.1 (H:3-128) Ri 100.0       0       0  286.5  12.6  125    2-128     2-126 (126)
  3 d1i6ua_ d.140.1.1 (A:) Ribosom 100.0       0       0  283.4  12.8  125    1-129     3-129 (129)
  4 d1an7a_ d.140.1.1 (A:) Ribosom 100.0       0       0  281.1  14.7  128    1-129     1-136 (136)
  5 d3brda2 b.2.5.8 (A:197-380) DN  39.4       8 0.00058   17.1   2.2   29   57-85    146-178 (184)
  6 d2esha1 a.4.5.61 (A:4-117) Hyp  18.7      28  0.0021   14.0   4.0   37   25-61     44-80  (114)
  7 d2hgca1 a.4.5.77 (A:5-82) Unch  12.3      34  0.0025   13.5   1.0   23   32-54     31-53  (78)
  8 d1a6sa_ a.61.1.4 (A:) GAG poly  11.3      43  0.0031   12.9   1.3   24   24-47     20-43  (87)
  9 d1r7ja_ a.4.5.49 (A:) Sso10a (   8.4      19  0.0014   15.0  -1.4   42    1-44      5-49  (90)
 10 d1ikop_ b.6.1.5 (P:) Ephrin-b2   7.4      65  0.0048   11.9   1.1   17   97-113   103-119 (141)

No 1  
>d1seia_ d.140.1.1 (A:) Ribosomal protein S8 {Bacillus stearothermophilus [TaxId: 1422]}
Probab=100.00  E-value=0  Score=293.05  Aligned_cols=127  Identities=39%  Similarity=0.663  Sum_probs=123.7

Q ss_pred             CHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHCCCEEEEEEEECCCCEEEEEEECCCCCCCCEECCCEEEECCC
Q ss_conf             77899997525488579978995175789999997763121001799834872047887216765430001416764612
Q gi|254780247|r    2 SCLGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLKYHNGASVIRKIDCVSKPG   81 (129)
Q Consensus         2 D~iad~lt~IrNA~~~~k~~v~ip~Skl~~~il~iL~~eGyI~~~~~~~~~~~~~~i~v~Lky~~~~~vi~~i~~iSkP~   81 (129)
                      ||||||||+||||++++|.+|.+|+||++.++|++|++||||++|++.++++.+ .++|.|+|.+++|+|+++++||+||
T Consensus         4 D~iaD~lt~IrNA~~a~k~~V~ip~Skl~~~il~vL~~eGyI~~f~~~~~~~~~-~i~v~Lk~~~~~~~i~~~~~vSkpg   82 (130)
T d1seia_           4 DPIADMLTAIRNANMVRHEKLEVPASKIKREIAEILKREGFIRDYEYIEDNKQG-ILRIFLKYGPNERVITGLKRISKPG   82 (130)
T ss_dssp             HHHHHHHHHHHHHHHTTCSEEEEECCHHHHHHHHHHHHTTSEEEEEEEESSSCE-EEEEEECBSSSSBSCCCEEECCBTT
T ss_pred             CHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCEEEEEECCCCC-EEEEEECCCCCCCCCCCCEECCCCC
T ss_conf             359999998787988699889952748999999999870610003785046774-5999912467763103426503477


Q ss_pred             CCEECCHHHCCCHHCCCCEEEEECCCCEECHHHHHHCCCCCEEEEEEC
Q ss_conf             120328111711104971899818866003799996499958999989
Q gi|254780247|r   82 RRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSVF  129 (129)
Q Consensus        82 ~r~y~~~~~l~~~~~g~G~~IiSTskGimt~~eA~~~~iGGeil~~v~  129 (129)
                      +|+|.+++++|++.+|+|++|+|||+|||||+||+++++|||+|||||
T Consensus        83 ~r~y~~~~~l~~~~~g~G~~IvSTskGimt~~eA~~~~iGGell~~Vf  130 (130)
T d1seia_          83 LRVYVKAHEVPRVLNGLGIAILSTSQGVLTDKEARQKGTGGEIIAYVI  130 (130)
T ss_dssp             BCCEECGGGCCCCCTTSCEEEEEETTEEEEHHHHHHHTCCEEEEEEEC
T ss_pred             EEEECCHHHHHHHHHHCEEEEEECCCCEEEHHHHHHHCCCCEEEEEEC
T ss_conf             478835334034552341999988997040999998099967999989


No 2  
>d2gy9h1 d.140.1.1 (H:3-128) Ribosomal protein S8 {Escherichia coli [TaxId: 562]}
Probab=100.00  E-value=0  Score=286.45  Aligned_cols=125  Identities=42%  Similarity=0.741  Sum_probs=121.0

Q ss_pred             CHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHCCCEEEEEEEECCCCEEEEEEECCCCCCCCEECCCEEEECCC
Q ss_conf             77899997525488579978995175789999997763121001799834872047887216765430001416764612
Q gi|254780247|r    2 SCLGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLKYHNGASVIRKIDCVSKPG   81 (129)
Q Consensus         2 D~iad~lt~IrNA~~~~k~~v~ip~Skl~~~il~iL~~eGyI~~~~~~~~~~~~~~i~v~Lky~~~~~vi~~i~~iSkP~   81 (129)
                      |||||||++||||+++++.+|.+|+||+++++|++|++||||++|+..++++.  .++|.|+|.+++|+|+++++||+||
T Consensus         2 D~iaD~l~~I~NA~~~~k~~v~ip~Skl~~~il~iL~~eGyI~~f~~~~~~k~--~i~i~Lky~~~k~vI~~~~~vSkp~   79 (126)
T d2gy9h1           2 DPIADMLTRIRNGQAANKAAVTMPSSKLKVAIANVLKEEGFIEDFKVEGDTKP--ELELTLKYFQGKAVVESIQRVSRPG   79 (126)
T ss_dssp             CHHHHHHHHHHHHHHTTCSEECCBCCHHHHHHHHHHHHHTSEEEEEEECSSSC--EEEEEECCCSSSCSCSCCEECSCSS
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHCCCCCCCEEECCCCC--EEEEEEECCCCCEEEECCEEEECCC
T ss_conf             81899999867488769988996074899999999976482345378238872--5999985058977772535860589


Q ss_pred             CCEECCHHHCCCHHCCCCEEEEECCCCEECHHHHHHCCCCCEEEEEE
Q ss_conf             12032811171110497189981886600379999649995899998
Q gi|254780247|r   82 RRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSV  128 (129)
Q Consensus        82 ~r~y~~~~~l~~~~~g~G~~IiSTskGimt~~eA~~~~iGGeil~~v  128 (129)
                      +|+|.++++||++++|+|++|+|||+|||||+||+++++|||+||||
T Consensus        80 ~r~y~~~~~l~~~~~g~G~~IlSTskGimt~~eA~~~~vGGelL~~V  126 (126)
T d2gy9h1          80 LRIYKRKDELPKVMAGLGIAVVSTSKGVMTDRAARQAGLGGEIICYV  126 (126)
T ss_dssp             SCCBCCTTTCCCGGGGTSCEEEEETTEEEEHHHHHHHTCCCEEEEEC
T ss_pred             CCCCCCHHHHHHCCCCEEEEEECCCCCEEEHHHHHHHCCCCEEEEEC
T ss_conf             55325633401014864699961897557799999839995899979


No 3  
>d1i6ua_ d.140.1.1 (A:) Ribosomal protein S8 {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Probab=100.00  E-value=0  Score=283.45  Aligned_cols=125  Identities=34%  Similarity=0.499  Sum_probs=118.0

Q ss_pred             CCHHHHHHHHHHHHHHCCCCEEEE-ECCHHHHHHHHHHHHCCCEEEEEEEECCCCEEEEEEECCCC-CCCCEECCCEEEE
Q ss_conf             977899997525488579978995-17578999999776312100179983487204788721676-5430001416764
Q gi|254780247|r    1 MSCLGDMLTRIRNANLRYKPSVVI-PFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDLKYH-NGASVIRKIDCVS   78 (129)
Q Consensus         1 mD~iad~lt~IrNA~~~~k~~v~i-p~Skl~~~il~iL~~eGyI~~~~~~~~~~~~~~i~v~Lky~-~~~~vi~~i~~iS   78 (129)
                      |||||||||+||||++++|.+|.+ |+||++++||+||++||||++|++.++++.+ .+.+.|+|. +++|+|++++++|
T Consensus         3 ~D~iaD~ltrIrNA~~~~~~~V~i~P~Skl~~~Il~iL~~eGyI~~~~~~~~~~~~-~i~i~L~~~~~~~~~I~~~~~vs   81 (129)
T d1i6ua_           3 MDPLANALNHISNCERVGKKVVYIKPASKLIGRVLKVMQDNGYIGEFEFIEDGRAG-IFKVELIGKINKCGAIKPRFPVK   81 (129)
T ss_dssp             CCHHHHHHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTTSSCCEEEECCSSSC-EEEEECCSCCSCEEECSSCCEEC
T ss_pred             CCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CEEEEEECCCCCCCCCCCEEEEE
T ss_conf             65799999987889985998799855648999999999877778875430246777-31578861556676432147652


Q ss_pred             CCCCCEECCHHHCCCHHCCCCEEEEECCCCEECHHHHHHCCCCCEEEEEEC
Q ss_conf             612120328111711104971899818866003799996499958999989
Q gi|254780247|r   79 KPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSVF  129 (129)
Q Consensus        79 kP~~r~y~~~~~l~~~~~g~G~~IiSTskGimt~~eA~~~~iGGeil~~v~  129 (129)
                      +|++|.|   .++|++.+|+|++|||||+|||||+||+++++|||+||+||
T Consensus        82 kp~~r~~---~~~~~~~~glGi~IlSTSkGimt~~eAr~~~vGGEiLc~V~  129 (129)
T d1i6ua_          82 KFGYEKF---EKRYLPARDFGILIVSTTQGVMSHEEAKKRGLGGRLLAYVY  129 (129)
T ss_dssp             TTCCHHH---HHHHCSSTTCCEEEEEETTEEEEHHHHHHTTCCEEEEEEEC
T ss_pred             CCCCCCH---HHCCCCCCCCEEEEEECCCCCCCHHHHHHCCCCCEEEEEEC
T ss_conf             0243432---22467889976999978966447899997499962999979


No 4  
>d1an7a_ d.140.1.1 (A:) Ribosomal protein S8 {Thermus thermophilus [TaxId: 274]}
Probab=100.00  E-value=0  Score=281.14  Aligned_cols=128  Identities=45%  Similarity=0.724  Sum_probs=118.7

Q ss_pred             CCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHCCCEEEEEEEECCCCEEEEEEEC--------CCCCCCCEEC
Q ss_conf             97789999752548857997899517578999999776312100179983487204788721--------6765430001
Q gi|254780247|r    1 MSCLGDMLTRIRNANLRYKPSVVIPFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVDL--------KYHNGASVIR   72 (129)
Q Consensus         1 mD~iad~lt~IrNA~~~~k~~v~ip~Skl~~~il~iL~~eGyI~~~~~~~~~~~~~~i~v~L--------ky~~~~~vi~   72 (129)
                      -|||||||++|+||++++|.+|.+|+||+++++|++|++||||++|++.+++.... +.+.+        +|.++.|+|+
T Consensus         1 tD~iaD~lt~IrNA~~~~k~~v~ip~Skl~~~il~iL~~eGyI~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~vi~   79 (136)
T d1an7a_           1 TDPIADMLTRIRNATRVYKESTDVPASRFKEEILRILAREGFIKGYERVDVDGKPY-LRVYLKYGPRRQGPDPRPEQVIH   79 (136)
T ss_dssp             CCHHHHHHHHHHHHHTTTCSEEEEECCHHHHHHHHHHHHTTSEEEEEEEEETTEEE-EEEEECEEEECSSSCCSEEESCC
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHCCCCCCEEEECCCCCCE-EEEEEEHHHHCCCCCCCCCCCCC
T ss_conf             97289999987749876998799616678999999999779334147713677630-46643012110367778873211


Q ss_pred             CCEEEECCCCCEECCHHHCCCHHCCCCEEEEECCCCEECHHHHHHCCCCCEEEEEEC
Q ss_conf             416764612120328111711104971899818866003799996499958999989
Q gi|254780247|r   73 KIDCVSKPGRRLYSSFKDIPQVCNGLGIMIVTTSKGVMAGHQARECKVGGEVLCSVF  129 (129)
Q Consensus        73 ~i~~iSkP~~r~y~~~~~l~~~~~g~G~~IiSTskGimt~~eA~~~~iGGeil~~v~  129 (129)
                      .++++|+||+|+|.++++||++.+|+|++|+|||+|||||+||+++++|||+|||||
T Consensus        80 ~i~~vSkP~~Rvy~~~~~l~~~~~g~G~~IlSTskGimt~~eA~~~~iGGe~L~~v~  136 (136)
T d1an7a_          80 HIRRISKPGRRVYVGVKEIPRVRRGLGIAILSTSKGVLTDREARKLGVGGELICEVW  136 (136)
T ss_dssp             CEEECSBTTBCCEECGGGCCCGGGGTSEEEEEETTEEEEHHHHHHHTCCEEEEEEEC
T ss_pred             EEEEECCCCCCCCCCCCHHHHCCCCEEEEEEECCCCEEEHHHHHHCCCCCEEEEEEC
T ss_conf             258953688533057001001249748999958987245999998099977999989


No 5  
>d3brda2 b.2.5.8 (A:197-380) DNA-binding protein LAG-1 (CSL) {Caenorhabditis elegans [TaxId: 6239]}
Probab=39.39  E-value=8  Score=17.05  Aligned_cols=29  Identities=28%  Similarity=0.512  Sum_probs=16.6

Q ss_pred             EEEEECCCCCCCC----EECCCEEEECCCCCEE
Q ss_conf             7887216765430----0014167646121203
Q gi|254780247|r   57 QLKVDLKYHNGAS----VIRKIDCVSKPGRRLY   85 (129)
Q Consensus        57 ~i~v~Lky~~~~~----vi~~i~~iSkP~~r~y   85 (129)
                      .+.+.+-|.++.-    .-++|+.|||||++.-
T Consensus       146 ~l~lk~~~~~~~~iG~F~S~~IkVISKPSKKkq  178 (184)
T d3brda2         146 DLNAQFFYGCGMEIGGFVSQRIKVISKPSKKKQ  178 (184)
T ss_dssp             CCEEEEEETTSCEEEEEECCCEEEESSCCCCC-
T ss_pred             EEEEEEEECCCCEEEEECCCCCEEEECCCCCCC
T ss_conf             557888606974277863766217707751312


No 6  
>d2esha1 a.4.5.61 (A:4-117) Hypothetical protein TM0937 {Thermotoga maritima [TaxId: 2336]}
Probab=18.66  E-value=28  Score=13.96  Aligned_cols=37  Identities=16%  Similarity=0.188  Sum_probs=25.2

Q ss_pred             ECCHHHHHHHHHHHHCCCEEEEEEEECCCCEEEEEEE
Q ss_conf             1757899999977631210017998348720478872
Q gi|254780247|r   25 PFSRLHARVLDVLKTEGYIGEYCEIDAGKGRIQLKVD   61 (129)
Q Consensus        25 p~Skl~~~il~iL~~eGyI~~~~~~~~~~~~~~i~v~   61 (129)
                      +..-.+..+|+-|.++|||.+....++++.++.-.++
T Consensus        44 ~~~gtiY~~L~rLe~~G~I~~~~~~~~g~~rk~Y~IT   80 (114)
T d2esha1          44 GHMGNIYRVLADLEESGFLSTEWDTTVSPPRKIYRIT   80 (114)
T ss_dssp             CCCCCHHHHHHHHHHTTSEEEEEECSSSSCEEEEEEC
T ss_pred             CCCCCHHHHHHHHHHCCCEEEEEECCCCCCCEEEEEC
T ss_conf             9977379999999988984998523789886799989


No 7  
>d2hgca1 a.4.5.77 (A:5-82) Uncharacterized protein YjcQ {Bacillus subtilis [TaxId: 1423]}
Probab=12.27  E-value=34  Score=13.52  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=17.2

Q ss_pred             HHHHHHHHCCCEEEEEEEECCCC
Q ss_conf             99997763121001799834872
Q gi|254780247|r   32 RVLDVLKTEGYIGEYCEIDAGKG   54 (129)
Q Consensus        32 ~il~iL~~eGyI~~~~~~~~~~~   54 (129)
                      .-+..|++||||-+.-+.|+.+.
T Consensus        31 davnflkregyiigvhysddrph   53 (78)
T d2hgca1          31 DAVNFLKREGYIIGVHYSDDRPH   53 (78)
T ss_dssp             HHHHHHHHHTSEECCEESSSSEE
T ss_pred             HHHHHHHHCCEEEEEECCCCCHH
T ss_conf             89998875375887761689708


No 8  
>d1a6sa_ a.61.1.4 (A:) GAG polyprotein M-domain {Rous sarcoma virus [TaxId: 11886]}
Probab=11.31  E-value=43  Score=12.93  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=21.0

Q ss_pred             EECCHHHHHHHHHHHHCCCEEEEE
Q ss_conf             517578999999776312100179
Q gi|254780247|r   24 IPFSRLHARVLDVLKTEGYIGEYC   47 (129)
Q Consensus        24 ip~Skl~~~il~iL~~eGyI~~~~   47 (129)
                      -|+.|-+.+++..|.+||.+.+..
T Consensus        20 spskKei~a~ls~L~~eG~l~sP~   43 (87)
T d1a6sa_          20 SPSKKEIGAMLSLLQKEGLLMSPS   43 (87)
T ss_dssp             SSCSSHHHHHHHTGGGTTCTTCGG
T ss_pred             CCCHHHHHHHHHHHHHCCCCCCCH
T ss_conf             983889999999999846858806


No 9  
>d1r7ja_ a.4.5.49 (A:) Sso10a (SSO10449) {Archaeon Sulfolobus solfataricus [TaxId: 2287]}
Probab=8.40  E-value=19  Score=14.95  Aligned_cols=42  Identities=14%  Similarity=0.185  Sum_probs=27.7

Q ss_pred             CCHHHHHHHHHHHHHHCCCCEEEEE---CCHHHHHHHHHHHHCCCEE
Q ss_conf             9778999975254885799789951---7578999999776312100
Q gi|254780247|r    1 MSCLGDMLTRIRNANLRYKPSVVIP---FSRLHARVLDVLKTEGYIG   44 (129)
Q Consensus         1 mD~iad~lt~IrNA~~~~k~~v~ip---~Skl~~~il~iL~~eGyI~   44 (129)
                      |+.++|.|..++++  ++++.....   +.....+.++-|.+.|+|.
T Consensus         5 ~eIi~DIL~~~~~g--~~kT~i~~~aNLs~~~~~kyl~~L~~~GLI~   49 (90)
T d1r7ja_           5 LEIIQAILEACKSG--SPKTRIMYGANLSYALTGRYIKMLMDLEIIR   49 (90)
T ss_dssp             HHHHHHHHHHHTTC--BCHHHHHHHHTCCHHHHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHHCC--CCCCHHHHHCCCCHHHHHHHHHHHHHCCCEE
T ss_conf             99999999997679--9820778971999999999999999888966


No 10 
>d1ikop_ b.6.1.5 (P:) Ephrin-b2 ectodomain {Mouse (Mus musculus) [TaxId: 10090]}
Probab=7.41  E-value=65  Score=11.91  Aligned_cols=17  Identities=29%  Similarity=0.485  Sum_probs=12.3

Q ss_pred             CCCEEEEECCCCEECHH
Q ss_conf             97189981886600379
Q gi|254780247|r   97 GLGIMIVTTSKGVMAGH  113 (129)
Q Consensus        97 g~G~~IiSTskGimt~~  113 (129)
                      |.-.+++|||.|-.++-
T Consensus       103 G~~YY~IstS~g~~~gl  119 (141)
T d1ikop_         103 NKDYYIISTSNGSLEGL  119 (141)
T ss_dssp             TEEEEEECCCCBSGGGT
T ss_pred             CCEEEEEECCCCCCCCC
T ss_conf             98589997688887763


Done!