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!