Query gi|254780616|ref|YP_003065029.1| F0F1 ATP synthase subunit gamma [Candidatus Liberibacter asiaticus str. psy62] Match_columns 294 No_of_seqs 111 out of 2347 Neff 7.8 Searched_HMMs 13730 Date Wed Jun 1 10:11:07 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780616.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 d2jdig1 c.49.2.1 (G:1-272) ATP 100.0 0 0 543.5 18.4 272 2-294 1-272 (272) 2 d1fs0g_ c.49.2.1 (G:) ATP synt 100.0 0 0 412.8 22.2 230 19-255 1-230 (230) 3 d1oaoc_ e.26.1.3 (C:) Bifuncti 76.1 1.4 0.00011 20.7 3.9 22 80-102 517-539 (729) 4 d1t70a_ d.159.1.9 (A:) Putativ 47.5 1.5 0.00011 20.5 -0.4 13 162-174 158-170 (255) 5 d1qw2a_ d.249.1.1 (A:) Hypothe 43.2 4 0.00029 17.9 1.2 39 81-130 32-72 (102) 6 d1u55a_ d.278.1.1 (A:) Methyl- 34.6 12 0.00085 14.9 6.2 46 61-107 108-153 (188) 7 d2pk8a1 d.274.1.1 (A:2-95) Hyp 26.3 16 0.0012 14.0 3.9 36 97-132 8-43 (94) 8 d1sfea2 c.55.7.1 (A:12-92) Ada 23.5 8.3 0.00061 15.9 0.1 13 80-92 14-26 (81) 9 d1ja1a2 c.23.5.2 (A:63-239) NA 21.8 20 0.0014 13.5 3.2 44 80-124 70-114 (177) 10 d1kxpd3 a.126.1.1 (D:405-473) 19.0 18 0.0013 13.7 1.1 19 90-108 2-20 (69) No 1 >d2jdig1 c.49.2.1 (G:1-272) ATP synthase (F1-ATPase), gamma subunit {Cow (Bos taurus) [TaxId: 9913]} Probab=100.00 E-value=0 Score=543.54 Aligned_cols=272 Identities=29% Similarity=0.454 Sum_probs=237.6 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEE Q ss_conf 88799999999875689999999999999999999999830236999999999997301575442100024433343255 Q gi|254780616|r 2 TSLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHFQEYPSPFVRGTGKDKVYLL 81 (294) Q Consensus 2 ~~lk~ik~RI~sv~~~~KITkaMkmVA~skl~ka~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (294) |||+|||+||+||++|+||||||+|||+|||||+|++++++|||+.....++.+ +.+..+...++.++ T Consensus 1 A~Lkeik~RI~Sv~~t~kITkAMkmVAasKlrkaq~~~~~~r~Y~~~~~~~~~~------------~~~~~~~~~~~~l~ 68 (272) T d2jdig1 1 ATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKPARVYGVGSLALYEK------------ADIKTPEDKKKHLI 68 (272) T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-------------------------------CC T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCC------------CCCHHCCCCCCCEE T ss_conf 986999999999879999999999999999999999998427658886886505------------32010134565116 Q ss_pred EECCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH Q ss_conf 31146424420011479999999876532038850388870403798510233320111114776640368899999765 Q gi|254780616|r 82 VICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQI 161 (294) Q Consensus 82 IvitSDrGLCG~~Ns~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l 161 (294) |||||||||||+||++|+|.+.+.+.+...++.++.++.+|+||.+++.+.+.......+.......+++..+..+...+ T Consensus 69 IvitSDrGLcG~fN~~iik~~~~~i~~~~~~~~~~~l~~~G~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 148 (272) T d2jdig1 69 IGVSSDRGLCGAIHSSVAKQMKSEAANLAAAGKEVKIIGVGDKIRSILHRTHSDQFLVTFKEVGRRPPTFGDASVIALEL 148 (272) T ss_dssp CCBCCSCCCSTTHHHHHC------------------CCCBSHHHHHHC----------CBCSCSSSCCCHHHHHHHHHHC T ss_pred EEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHCCCCEEEEEEEECCCCCCHHHHHHHHHHHH T ss_conf 99865777777764218999999988752168722898504302445553035212332200577775067789999999 Q ss_pred HHHHHCCCCCCEEEEECCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 57650678750588620113443222044204788735422110036554322479967878999998999999999999 Q gi|254780616|r 162 TSLFTSNVFDLCFFIYSEFKSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILE 241 (294) Q Consensus 162 ~~~~~~~~~d~v~iiYn~f~s~~~q~p~~~~llP~~~~~~~~~~~~~~~~~~~~Ep~~~~il~~l~~~yl~~~l~~alle 241 (294) .. ..+++|+|+|+||+|+|+++|.|..++++|+++. +.....|.|||+++++|+.|+|.|++++||+|++| T Consensus 149 ~~--~~~~~d~v~i~y~~f~~~~~q~p~~~~l~p~~~~-------~~~~~~~~~~~~~~~vl~~l~~~yl~~~ly~a~~e 219 (272) T d2jdig1 149 LN--SGYEFDEGSIIFNRFRSVISYKTEEKPIFSLDTI-------SSAESMSIYDDIDADVLRNYQEYSLANIIYYSLKE 219 (272) T ss_dssp ------------CCCCCEECSSSCEECC---------------------------------------HHHHHHHHHHHHH T ss_pred HH--HHHHCCEEEEEEECCCCCCCCCCEEECCCCCCCC-------CCCCHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 98--6642340379961245554122046416666630-------00000000134437899999999899999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 99999999999999999989999999999999998988988999998525319 Q gi|254780616|r 242 NKASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAEVV 294 (294) Q Consensus 242 s~aSE~aaRm~AM~~At~Na~~~i~~L~l~~Nk~RQ~~IT~El~EIisGaeAl 294 (294) |+||||+|||+||++|||||+||+++|+++|||+||++||+||+||||||||| T Consensus 220 s~aSE~aaRm~AM~~At~Na~eli~~L~~~yNr~RQ~~IT~El~EIv~GaeAl 272 (272) T d2jdig1 220 STTSEQSARMTAMDNASKNASEMIDKLTLTFNRTRQAVITKELIEIISGAAAL 272 (272) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 89999999999999999849999999999999999999999999999778439 No 2 >d1fs0g_ c.49.2.1 (G:) ATP synthase (F1-ATPase), gamma subunit {Escherichia coli [TaxId: 562]} Probab=100.00 E-value=0 Score=412.76 Aligned_cols=230 Identities=23% Similarity=0.419 Sum_probs=207.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHH Q ss_conf 99999999999999999999983023699999999999730157544210002443334325531146424420011479 Q gi|254780616|r 19 KITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHFQEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQI 98 (294) Q Consensus 19 KITkaMkmVA~skl~ka~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IvitSDrGLCG~~Ns~i 98 (294) ||||||||||+|||||+|++++++|||++.+.+++.++... ..+..+|++.+++.+ +.++|||||||||||+||++| T Consensus 1 KITkAMkmVAasKl~kaq~~~~~~r~Y~~~~~~~l~~l~~~--~~~~~~~~~~~~~~~-~~~~ivitSDrGLCG~~Ns~i 77 (230) T d1fs0g_ 1 KITKAMEMVAASKMRKSQDRMAASRPYAETMRKVIGHLAHG--NLEYKHPYLEDRDVK-RVGYLVVSTDRGLCGGLNINL 77 (230) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC------CCCGGGSCCCCS-EEEEEEECCSSSCSTTHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCC-EEEEEEEECCCCCCCCCCHHH T ss_conf 96788999999999999999995250999999999999833--854346433478877-189999965853445531138 Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEC Q ss_conf 99999987653203885038887040379851023332011111477664036889999976557650678750588620 Q gi|254780616|r 99 IRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYS 178 (294) Q Consensus 99 ~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l~~~~~~~~~d~v~iiYn 178 (294) +|.+.+++++...+|.++.+++||+||.+|+++++.+.+..+....+ .+++.++..|++.+++.|.++++|+|+++|| T Consensus 78 ~k~~~~~~~~~~~~~~~~~~~~vGkk~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~i~~~~~~~~~~~~~d~v~iiYn 155 (230) T d1fs0g_ 78 FKKLLAEMKTWTDKGVQCDLAMIGSKGVSFFNSVGGNVVAQVTGMGD--NPSLSELIGPVKVMLQAYDEGRLDKLYIVSN 155 (230) T ss_dssp HHHHHHHHHHHHHTTCEEEEEEESHHHHHHHHHHCCCEEEEECCCTT--CCCSHHHHHHHHHHHHHHHTTSCSCEEEEEE T ss_pred HHHHHHHHHHHHHCCCCEEEEEEEEEEHHHHHHCCCCEEEECCCCCC--CCCHHHHHHHHHHHHHHHHCCCCEEEEEEEC T ss_conf 99999987665405873168875333325777428832431246766--7458889889999999886288338999952 Q ss_pred CCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 11344322204420478873542211003655432247996787899999899999999999999999999999999 Q gi|254780616|r 179 EFKSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILENKASEVGARITAMD 255 (294) Q Consensus 179 ~f~s~~~q~p~~~~llP~~~~~~~~~~~~~~~~~~~~Ep~~~~il~~l~~~yl~~~l~~alles~aSE~aaRm~AM~ 255 (294) +|+|+++|+|+.+++||++..... ......++|+|||+++++|++|+|+|++++||+|++||.||||+|||+||+ T Consensus 156 ~f~s~~~q~p~~~~llP~~~~~~~--~~~~~~~~~~fEP~~~~vl~~l~~~yl~~~ly~allEs~aSE~aARm~AM~ 230 (230) T d1fs0g_ 156 KFINTMSQVPTISQLLPLPASDDD--DLKHKSWDYLYEPDPKALLDTLLRRYVESQVYQGVVENLASEQAARMVAMK 230 (230) T ss_dssp EEEETTEEEEEEEEEESCC---------CCCSCCCEEESCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_pred CCCCCCCCCCEEEEEECCCCCCCC--CCCCCCCCCEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 455534344122100023320012--234678885417899999999999999999999999999999999999668 No 3 >d1oaoc_ e.26.1.3 (C:) Bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase (CODH/ACS) alpha (ACS) subunit {Moorella thermoacetica [TaxId: 1525]} Probab=76.12 E-value=1.4 Score=20.68 Aligned_cols=22 Identities=27% Similarity=0.569 Sum_probs=12.3 Q ss_pred EEEECCCCH-HHHHHHHHHHHHHH Q ss_conf 553114642-44200114799999 Q gi|254780616|r 80 LLVICTAEK-GLCGGFNAQIIRFA 102 (294) Q Consensus 80 ~~IvitSDr-GLCG~~Ns~i~k~~ 102 (294) +||| |.|| ||||++|=-=.|.+ T Consensus 517 VCvV-tPeR~gLCGAisWlD~kAa 539 (729) T d1oaoc_ 517 VCIV-TPERVGLCGAVSWLDAKAS 539 (729) T ss_dssp CEEE-BTTBCCTTSCCCHHHHHHH T ss_pred EEEE-CCCCCCCCCEEECCCCHHH T ss_conf 4896-8986655450141030545 No 4 >d1t70a_ d.159.1.9 (A:) Putative phosphatase DR1281 {Deinococcus radiodurans [TaxId: 1299]} Probab=47.49 E-value=1.5 Score=20.52 Aligned_cols=13 Identities=0% Similarity=-0.079 Sum_probs=5.4 Q ss_pred HHHHHCCCCCCEE Q ss_conf 5765067875058 Q gi|254780616|r 162 TSLFTSNVFDLCF 174 (294) Q Consensus 162 ~~~~~~~~~d~v~ 174 (294) +-+|..|.+..|. T Consensus 158 ~g~~ldGrvsav~ 170 (255) T d1t70a_ 158 MGWHLAGRVAAVI 170 (255) T ss_dssp HHHHHTTSSSEEE T ss_pred HHHHHCCCEEEEE T ss_conf 8853437679998 No 5 >d1qw2a_ d.249.1.1 (A:) Hypothetical protein Ta1206 {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Probab=43.25 E-value=4 Score=17.86 Aligned_cols=39 Identities=23% Similarity=0.449 Sum_probs=25.3 Q ss_pred EEECCCCHHH--HHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHH Q ss_conf 5311464244--2001147999999987653203885038887040379851 Q gi|254780616|r 81 LVICTAEKGL--CGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLR 130 (294) Q Consensus 81 ~IvitSDrGL--CG~~Ns~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~ 130 (294) ++++++|+|+ ||.+|-..+.. + ..+...+.|=+-.+-+- T Consensus 32 Ll~i~~~~G~imCG~ldV~~~~k-------~----g~~A~rv~GV~TiedlL 72 (102) T d1qw2a_ 32 LLFIKGSKGYAMCGYLNMETSNK-------V----GDIAVRVMGVKTLDDML 72 (102) T ss_dssp EEEEECSSCEEECTTCCHHHHHH-------T----TCCEEECCSCCSHHHHH T ss_pred EEEEECCCCEEEECCCCHHHHHH-------C----CCEEEEEEEECCHHHHH T ss_conf 99998288489964334899863-------5----88059997004499984 No 6 >d1u55a_ d.278.1.1 (A:) Methyl-accepting chemotaxis protein {Thermoanaerobacter tengcongensis [TaxId: 119072]} Probab=34.58 E-value=12 Score=14.91 Aligned_cols=46 Identities=9% Similarity=0.049 Sum_probs=31.4 Q ss_pred CCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 57544210002443334325531146424420011479999999876 Q gi|254780616|r 61 HFQEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIK 107 (294) Q Consensus 61 ~~~~~~~~~~~~~~~~~~~~~IvitSDrGLCG~~Ns~i~k~~~~~i~ 107 (294) .+.+...|.+.-.......+.+...|.|||| .|-..+++.+-++.. T Consensus 108 ~yp~~~~P~f~~~~~~~~~l~l~Y~S~R~l~-~~~~Gli~g~A~~f~ 153 (188) T d1u55a_ 108 MIKGATPPRLIAKPVAKDAIEMEYVSKRKMY-DYFLGLIEGSSKFFK 153 (188) T ss_dssp TSTTCCCCBCCEEEEETTEEEEEEEETTCCH-HHHHHHHHHHHHHHT T ss_pred HCCCCCCCEEEEEECCCCEEEEEEEECCCHH-HHHHHHHHHHHHHHC T ss_conf 3889989957999878998999999579838-999999999999959 No 7 >d2pk8a1 d.274.1.1 (A:2-95) Hypothetical protein PF0899 {Pyrococcus furiosus [TaxId: 2261]} Probab=26.27 E-value=16 Score=14.02 Aligned_cols=36 Identities=19% Similarity=0.436 Sum_probs=30.0 Q ss_pred HHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCC Q ss_conf 799999998765320388503888704037985102 Q gi|254780616|r 97 QIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKE 132 (294) Q Consensus 97 ~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~ 132 (294) .++....+.+.+++.+|-+..++.+|.-++.|++.. T Consensus 8 riL~~ie~~inELk~dG~ePDiiL~G~e~~ef~~~~ 43 (94) T d2pk8a1 8 RILGEIEEKMNELKMDGFNPDIILFGREAYNFLSNL 43 (94) T ss_dssp HHHHHHHHHHHHHHHTTCCCCEEEECHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEECHHHHHHHHHH T ss_conf 999999999999986589987699748999999999 No 8 >d1sfea2 c.55.7.1 (A:12-92) Ada DNA repair protein {Escherichia coli [TaxId: 562]} Probab=23.49 E-value=8.3 Score=15.86 Aligned_cols=13 Identities=23% Similarity=0.779 Sum_probs=9.6 Q ss_pred EEEECCCCHHHHH Q ss_conf 5531146424420 Q gi|254780616|r 80 LLVICTAEKGLCG 92 (294) Q Consensus 80 ~~IvitSDrGLCG 92 (294) -+++..|++|+|+ T Consensus 14 ~llvaat~~Glc~ 26 (81) T d1sfea2 14 RCLVAESERGICA 26 (81) T ss_dssp EEEEEECSSSEEE T ss_pred EEEEEECCCCEEE T ss_conf 0899984893899 No 9 >d1ja1a2 c.23.5.2 (A:63-239) NADPH-cytochrome p450 reductase, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Probab=21.76 E-value=20 Score=13.47 Aligned_cols=44 Identities=23% Similarity=0.240 Sum_probs=18.8 Q ss_pred EEEECCCCHHHHHHHHHHHHHHHHHHHHHH-HHCCCCEEEEEEECH Q ss_conf 553114642442001147999999987653-203885038887040 Q gi|254780616|r 80 LLVICTAEKGLCGGFNAQIIRFARDRIKEF-IAEGKEIKLLIIGRK 124 (294) Q Consensus 80 ~~IvitSDrGLCG~~Ns~i~k~~~~~i~~~-~~~~~~~~l~~vGkK 124 (294) ++|+++|--|- |.+..+.-+....+.+.. .-.+..+.|+..|.+ T Consensus 70 ~~i~~~ST~g~-G~~P~n~~~F~~~L~~~~~~l~~~~yaVfGlGds 114 (177) T d1ja1a2 70 LVVFCMATYGE-GDPTDNAQDFYDWLQETDVDLTGVKFAVFGLGNK 114 (177) T ss_dssp EEEEEEEEETT-TEECGGGHHHHHHHHHCCCCCTTCEEEEEEEECS T ss_pred EEEEEEECCCC-CCCCHHHHHHHHHHHHCCCCCCCCEEEEEECCCC T ss_conf 69999824579-9987769999998873120235753788825885 No 10 >d1kxpd3 a.126.1.1 (D:405-473) Vitamin D binding protein {Human (Homo sapiens) [TaxId: 9606]} Probab=19.02 E-value=18 Score=13.66 Aligned_cols=19 Identities=16% Similarity=0.506 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 4200114799999998765 Q gi|254780616|r 90 LCGGFNAQIIRFARDRIKE 108 (294) Q Consensus 90 LCG~~Ns~i~k~~~~~i~~ 108 (294) |||.|+.+-+-..+..+.+ T Consensus 2 LC~dYse~tFte~kkkL~e 20 (69) T d1kxpd3 2 LCADYSENTFTEYKKKLAE 20 (69) T ss_dssp HTTTTTTSCHHHHHHHHHH T ss_pred CHHHHHHCCHHHHHHHHHH T ss_conf 1033312309999999999 Done!