Query gi|254780472|ref|YP_003064885.1| cytochrome o ubiquinol oxidase subunit III [Candidatus Liberibacter asiaticus str. psy62] Match_columns 210 No_of_seqs 109 out of 1772 Neff 7.0 Searched_HMMs 13730 Date Wed Jun 1 05:51:46 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780472.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 d1fftc_ f.25.1.1 (C:) Cytochro 100.0 0 0 337.5 5.1 182 26-208 3-184 (185) 2 d1m56c_ f.25.1.1 (C:) Bacteria 100.0 0 0 317.8 20.1 186 20-208 68-264 (265) 3 d1v54c_ f.25.1.1 (C:) Mitochon 100.0 0 0 318.2 19.7 185 20-208 67-258 (259) 4 d1jb0i_ f.23.17.1 (I:) Subunit 8.1 44 0.0032 10.7 2.5 18 105-122 18-35 (38) 5 d1n1ca_ a.184.1.1 (A:) TorA sp 4.3 85 0.0062 9.1 1.4 23 124-146 73-95 (207) 6 d1n4xl_ b.1.1.1 (L:) Immunoglo 4.2 87 0.0064 9.1 0.2 14 3-16 43-56 (113) 7 d1s9ua_ a.184.1.1 (A:) Putativ 3.9 97 0.007 8.8 1.9 23 124-146 73-95 (207) 8 d1xg0b_ d.184.1.1 (B:) Phycoer 3.6 1E+02 0.0076 8.6 0.2 28 4-31 3-30 (67) 9 d2i10a1 a.4.1.9 (A:10-78) Puta 3.6 1.1E+02 0.0078 8.6 0.4 14 179-192 28-41 (69) 10 d1xg0a_ d.184.1.1 (A:) Phycoer 3.2 1.2E+02 0.0087 8.3 0.2 30 4-33 3-32 (76) No 1 >d1fftc_ f.25.1.1 (C:) Cytochrome O ubiquinol oxidase, subunit III {Escherichia coli [TaxId: 562]} Probab=100.00 E-value=0 Score=337.55 Aligned_cols=182 Identities=53% Similarity=0.990 Sum_probs=172.0 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 25660268889999999999999999999427888888660000240357899999999999999999996333368877 Q gi|254780472|r 26 DHDGTYLGFWIYLMSDCLMFAVFFVTYAVLGKNYAAGPAPIDVFDISGIFVSTIVLLLSSLSCSFAMLASATKRLIHKTV 105 (210) Q Consensus 26 ~~~~~~~G~w~Fi~SE~~~Fa~lf~~y~~~~~~~~~~~~~~~~~~~~~~~~nT~iLl~SS~~~~~a~~a~~~~~~~~~~~ 105 (210) +++++++|||+||+||+|+|+++|++|++.|.+.+.+|++.+..+++.+++||.+|++||+++++|+++.++ +++++++ T Consensus 3 ~~~~~~~G~w~Fi~se~~~F~~lf~~y~~~~~~~~~~~~~~~~~~~~~~~~nT~vLl~SS~~~~~a~~~~~~-~~~~~~~ 81 (185) T d1fftc_ 3 AGGTKIFGFWIYLMSDCILFSILFATYAVLVNGTAGGPTGKDIFELPFVLVETFLLLFSSITYGMAAIAMYK-NNKSQVI 81 (185) T ss_dssp STTHHHHHHHTTHHHHTTHHHHHHHHHTTTTTTCCCSCCCCCCTTHHHHHHHHHHHGGGTTTTTSGGGTTTT-CCGGGGT T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH T ss_conf 998762658999999999999999999999967777876410124239999999999999999999999998-7889999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH Q ss_conf 65589999999998899998755431110014786016799998997999999999999999999707998304267999 Q gi|254780472|r 106 SWLLVTAFFGMIFIIMEIYEFAHLISMEAVPQRSAFLSSFFALVGLHGLHVFFGLIWLFVLVIQILKKGLISGNQRRLIC 185 (210) Q Consensus 106 ~~L~~t~~lG~~Fl~~Q~~E~~~l~~~g~~~~~~~~~S~fy~lTG~H~lHV~~Gli~L~~~~~~~~~~~~~~~~~~~~~~ 185 (210) .++..|+++|.+|+..|..||++++++|.++++|+|+|+||++||+|++||++|+++|.++.+|..+++.+++++.++|. T Consensus 82 ~~L~~t~~lG~~Fl~~q~~e~~~l~~~g~~~~~~~~~s~fy~lTGlH~lHV~~Gli~L~~~~~r~~~~~~~~~~~~~v~~ 161 (185) T d1fftc_ 82 SWLALTWLFGAGFIGMEIYEFHHLIVNGMGPDRSGFLSAFFALVGTHGLHVTSGLIWMAVLMVQIARRGLTSTNRTRIMC 161 (185) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHSSCSCCCCSTTTHHHHHHHHHTTHHHHTTHHHHHHHHHHHHTCCCTTCCCHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH T ss_conf 99999999999999988876999997166643342033399989999999999999999999999807999540068999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 98999999999999999999982 Q gi|254780472|r 186 LSMFWHFLDLIWICVFSFVYLMG 208 (210) Q Consensus 186 ~~~YWHFVdivWi~lf~llYl~g 208 (210) +++||||||++|+++|+++|++| T Consensus 162 ~~~YWHFvd~vWi~lf~~lYl~g 184 (185) T d1fftc_ 162 LSLFWHFLDVVWICVFTVVYLMG 184 (185) T ss_dssp HHHHHHHHHHHHHHHCCCCCCCC T ss_pred HHHHHHHHHHHHHHHHHHHHHCC T ss_conf 99999999999999999897049 No 2 >d1m56c_ f.25.1.1 (C:) Bacterial aa3 type cytochrome c oxidase subunit III {Rhodobacter sphaeroides [TaxId: 1063]} Probab=100.00 E-value=0 Score=317.76 Aligned_cols=186 Identities=23% Similarity=0.442 Sum_probs=162.1 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC---------CCCC-CHHH-CCCCHHHHHHHHHHHHHHHH Q ss_conf 76572025660268889999999999999999999427888---------8886-6000-02403578999999999999 Q gi|254780472|r 20 KKESCVDHDGTYLGFWIYLMSDCLMFAVFFVTYAVLGKNYA---------AGPA-PIDV-FDISGIFVSTIVLLLSSLSC 88 (210) Q Consensus 20 ~~~~~~~~~~~~~G~w~Fi~SE~~~Fa~lf~~y~~~~~~~~---------~~~~-~~~~-~~~~~~~~nT~iLl~SS~~~ 88 (210) ..|+....++.|+|||+||+||+|+|+++|++|+..|.... .+|| +... .++..+.+||.+|++||.++ T Consensus 68 G~~t~~v~~~~k~Gm~~Fi~SEvm~F~~~f~~yf~~~~~~~~~~~~~~~~~~~p~g~~~~~~~~l~l~nT~iLl~Ss~~~ 147 (265) T d1m56c_ 68 GDHTPVVRLGLRWGFILFIMSEVMFFSAWFWSFFKHALYPMGPESPIIDGIFPPEGIITFDPWHLPLINTLILLCSGCAA 147 (265) T ss_dssp TCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCTBTTTBCCCSSCTTCCCCCTTTTHHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCHHHH T ss_conf 87755531014776499999999999999999999861878888877677779875231661454889989997108999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999996333368877655899999999988999987554311100147860167999989979999999999999999 Q gi|254780472|r 89 SFAMLASATKRLIHKTVSWLLVTAFFGMIFIIMEIYEFAHLISMEAVPQRSAFLSSFFALVGLHGLHVFFGLIWLFVLVI 168 (210) Q Consensus 89 ~~a~~a~~~~~~~~~~~~~L~~t~~lG~~Fl~~Q~~E~~~l~~~g~~~~~~~~~S~fy~lTG~H~lHV~~Gli~L~~~~~ 168 (210) ++|+++.+++++++..+.++..|+++|..|+..|..||.+ .+.++++|+|+|+||++||+|++||++|+++|.++.+ T Consensus 148 ~~a~~~~~~~~~~~~~~~~L~~t~~lg~~F~~~q~~Ey~~---~~~~~~~~~~gs~ff~lTG~Hg~HV~~G~i~l~~~~~ 224 (265) T d1m56c_ 148 TWAHHALVHENNRRDVAWGLALAIALGALFTVFQAYEYSH---AAFGFAGNIYGANFFMATGFHGFHVIVGTIFLLVCLI 224 (265) T ss_dssp HHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHT---CSSCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999865205789999999999999999999999985---4788643106779999999999999999999999999 Q ss_pred HHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9970799830426799998999999999999999999982 Q gi|254780472|r 169 QILKKGLISGNQRRLICLSMFWHFLDLIWICVFSFVYLMG 208 (210) Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~YWHFVdivWi~lf~llYl~g 208 (210) |..+++++++++.++|.+++||||||+||+++|+++|++| T Consensus 225 ~~~~~~~~~~~~~~~e~~~~YWHFVDvVWi~lf~~~Yl~G 264 (265) T d1m56c_ 225 RVQRGHFTPEKHVGFEAAIWYWHFVDVVWLFLFASIYIWG 264 (265) T ss_dssp HHHTCCCCSSCCHHHHHHHHHHHHHHHHHHHHHHHHTTTC T ss_pred HHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 9972799844018999999999899989998788884228 No 3 >d1v54c_ f.25.1.1 (C:) Mitochondrial cytochrome c oxidase, subunit III {Cow (Bos taurus) [TaxId: 9913]} Probab=100.00 E-value=0 Score=318.18 Aligned_cols=185 Identities=23% Similarity=0.427 Sum_probs=163.1 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-----CCC-CHHH-CCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 765720256602688899999999999999999994278888-----886-6000-024035789999999999999999 Q gi|254780472|r 20 KKESCVDHDGTYLGFWIYLMSDCLMFAVFFVTYAVLGKNYAA-----GPA-PIDV-FDISGIFVSTIVLLLSSLSCSFAM 92 (210) Q Consensus 20 ~~~~~~~~~~~~~G~w~Fi~SE~~~Fa~lf~~y~~~~~~~~~-----~~~-~~~~-~~~~~~~~nT~iLl~SS~~~~~a~ 92 (210) .+|+....++.|+|||+||+||+|+|+++|++|+..|...+. +|| +... .+.+++++||.+|++||.++++|+ T Consensus 67 G~ht~~v~~~~~~G~~lFi~SEv~~F~~~F~ay~~~~~~~~~~~g~~~pp~~i~~~~~~~lpllnT~vLl~Ss~t~~~A~ 146 (259) T d1v54c_ 67 GHHTPAVQKGLRYGMILFIISEVLFFTGFFWAFYHSSLAPTPELGGCWPPTGIHPLNPLEVPLLNTSVLLASGVSITWAH 146 (259) T ss_dssp CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCGGGTSSSSCTTCCCCCTTSHHHHHHHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 87528776401899999999999999999999888770786433785899884026425168999999999988999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99963333688776558999999999889999875543111001478601679999899799999999999999999970 Q gi|254780472|r 93 LASATKRLIHKTVSWLLVTAFFGMIFIIMEIYEFAHLISMEAVPQRSAFLSSFFALVGLHGLHVFFGLIWLFVLVIQILK 172 (210) Q Consensus 93 ~a~~~~~~~~~~~~~L~~t~~lG~~Fl~~Q~~E~~~l~~~g~~~~~~~~~S~fy~lTG~H~lHV~~Gli~L~~~~~~~~~ 172 (210) ++.+++ ++++.+.++..|+++|.+|+.+|..||.+ .+.+++|++|+|.||++||+|++||++|++++.++..|..+ T Consensus 147 ~~~~~~-~~~~~~~~l~~t~~lg~~Fl~~q~~Ey~~---~~~~~~~~~~gS~ff~lTG~Hg~HVi~G~i~l~~~~~r~~~ 222 (259) T d1v54c_ 147 HSLMEG-DRKHMLQALFITITLGVYFTLLQASEYYE---APFTISDGVYGSTFFVATGFHGLHVIIGSTFLIVCFFRQLK 222 (259) T ss_dssp HHHHTT-BHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CSSCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT T ss_pred HHHHHC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999957-83337899999999999999999988623---67776678851399999999999999999999999999981 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 799830426799998999999999999999999982 Q gi|254780472|r 173 KGLISGNQRRLICLSMFWHFLDLIWICVFSFVYLMG 208 (210) Q Consensus 173 ~~~~~~~~~~~~~~~~YWHFVdivWi~lf~llYl~g 208 (210) ++++++++.++|.+++||||||+||+++|+++|++| T Consensus 223 ~~~~~~~~~~~e~~~~YWHFVDvVWi~lf~~vYl~G 258 (259) T d1v54c_ 223 FHFTSNHHFGFEAAAWYWHFVDVVWLFLYVSIYWWG 258 (259) T ss_dssp TCCCSSCCHHHHHHHHHHHHHHHHHHHHHHHTTTTT T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 689855115689989788588989999898898428 No 4 >d1jb0i_ f.23.17.1 (I:) Subunit VIII of photosystem I reaction centre, PsaI {Synechococcus elongatus [TaxId: 32046]} Probab=8.05 E-value=44 Score=10.65 Aligned_cols=18 Identities=39% Similarity=1.006 Sum_probs=11.8 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 765589999999998899 Q gi|254780472|r 105 VSWLLVTAFFGMIFIIME 122 (210) Q Consensus 105 ~~~L~~t~~lG~~Fl~~Q 122 (210) ..|+.-+..+|++|+... T Consensus 18 v~wl~p~vvMglLFiyIE 35 (38) T d1jb0i_ 18 VCWLMPTVVMGLLFLYIE 35 (38) T ss_dssp HHTHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHEEEE T ss_conf 999999999988851631 No 5 >d1n1ca_ a.184.1.1 (A:) TorA specific chaperone TorD {Shewanella massilia [TaxId: 76854]} Probab=4.31 E-value=85 Score=9.14 Aligned_cols=23 Identities=13% Similarity=0.283 Sum_probs=16.1 Q ss_pred HHHHHHHHCCCCCCCCCCHHHHH Q ss_conf 98755431110014786016799 Q gi|254780472|r 124 YEFAHLISMEAVPQRSAFLSSFF 146 (210) Q Consensus 124 ~E~~~l~~~g~~~~~~~~~S~fy 146 (210) .||.+++..+..+...||.|.|- T Consensus 73 ~ey~~LF~~~~~~~~~pyeS~y~ 95 (207) T d1n1ca_ 73 ADYCGLFLVGTKHSASPYASLYL 95 (207) T ss_dssp HHHHHHHTSCC--CCCCBGGGGC T ss_pred HHHHHHHCCCCCCCCCCEECEEC T ss_conf 99999838999980698523202 No 6 >d1n4xl_ b.1.1.1 (L:) Immunoglobulin light chain kappa variable domain, VL-kappa {Mouse (Mus musculus), cluster 1.1 [TaxId: 10090]} Probab=4.20 E-value=87 Score=9.06 Aligned_cols=14 Identities=36% Similarity=0.605 Sum_probs=8.6 Q ss_pred HHHCCCCCCCEEEE Q ss_conf 01201698702465 Q gi|254780472|r 3 RQKIGKSPNFSLFY 16 (210) Q Consensus 3 ~~~~~~~~~~~~~~ 16 (210) |||.|++|.+-+.. T Consensus 43 rQ~~g~~p~~l~~~ 56 (113) T d1n4xl_ 43 LQKPGQSPQLLIYK 56 (113) T ss_dssp EECTTSCCEEEEET T ss_pred ECCCCCCCEEEEEE T ss_conf 62889851799990 No 7 >d1s9ua_ a.184.1.1 (A:) Putative component of anaerobic dehydrogenases YnfI {Salmonella typhimurium [TaxId: 90371]} Probab=3.87 E-value=97 Score=8.83 Aligned_cols=23 Identities=9% Similarity=0.052 Sum_probs=15.3 Q ss_pred HHHHHHHHCCCCCCCCCCHHHHH Q ss_conf 98755431110014786016799 Q gi|254780472|r 124 YEFAHLISMEAVPQRSAFLSSFF 146 (210) Q Consensus 124 ~E~~~l~~~g~~~~~~~~~S~fy 146 (210) .||.+++..+..+...||.|.|. T Consensus 73 ~ey~~LF~g~~~~~~~pyeS~y~ 95 (207) T d1s9ua_ 73 QAWQRLFIGPYALPSPPWGSVWL 95 (207) T ss_dssp HHHHHHHTCSSCCSSCCBHHHHH T ss_pred HHHHHHHCCCCCCCCCCEEEEEE T ss_conf 99999848999986589210346 No 8 >d1xg0b_ d.184.1.1 (B:) Phycoerythrin 545 alpha-subunits {Cryptophyte (Rhodomonas sp. CS24) [TaxId: 79257]} Probab=3.62 E-value=1e+02 Score=8.63 Aligned_cols=28 Identities=18% Similarity=0.268 Sum_probs=17.8 Q ss_pred HHCCCCCCCEEEEECCCCCCCCCCCCHH Q ss_conf 1201698702465307765720256602 Q gi|254780472|r 4 QKIGKSPNFSLFYVKDKKESCVDHDGTY 31 (210) Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 (210) .|-+++|.++...++--.+...|..|.+ T Consensus 3 dk~~~APvItiFDhRGC~r~~kEYtG~k 30 (67) T d1xg0b_ 3 DKSAKAPVITIFDHRGCSRAPKEYTGAK 30 (67) T ss_dssp CSSCEEEEEEEEECTTCSSCCCSCCSCC T ss_pred CCCCCCCEEEEECCCCCCCCCCCCCCCC T ss_conf 7567787688852656667660014887 No 9 >d2i10a1 a.4.1.9 (A:10-78) Putative transcriptional regulator RHA1_ro09068 {Rhodococcus sp. [TaxId: 1831]} Probab=3.57 E-value=1.1e+02 Score=8.59 Aligned_cols=14 Identities=14% Similarity=0.114 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 42679999899999 Q gi|254780472|r 179 NQRRLICLSMFWHF 192 (210) Q Consensus 179 ~~~~~~~~~~YWHF 192 (210) ...++...++|.|| T Consensus 28 ~~agvs~~~~Y~~F 41 (69) T d2i10a1 28 KALGINPPSLYAAF 41 (69) T ss_dssp HHHTCCHHHHHHHH T ss_pred HHHCCCHHHHHHHC T ss_conf 98687862998888 No 10 >d1xg0a_ d.184.1.1 (A:) Phycoerythrin 545 alpha-subunits {Cryptophyte (Rhodomonas sp. CS24) [TaxId: 79257]} Probab=3.24 E-value=1.2e+02 Score=8.32 Aligned_cols=30 Identities=20% Similarity=0.346 Sum_probs=0.0 Q ss_pred HHCCCCCCCEEEEECCCCCCCCCCCCHHHH Q ss_conf 120169870246530776572025660268 Q gi|254780472|r 4 QKIGKSPNFSLFYVKDKKESCVDHDGTYLG 33 (210) Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G 33 (210) .|-+++|.++...++--.+...|..|.+-| T Consensus 3 dk~~~APvItiFDhRGC~r~~kEytG~kag 32 (76) T d1xg0a_ 3 DKSAKAPQITIFDHRGCSRAPKESTGGKAG 32 (76) T ss_dssp CSSCEEEEEEEEECTTCSSCCCCCCSCCCS T ss_pred CCCCCCCEEEEECCCCCCCCCCCCCCCCCC T ss_conf 756778768885266667776012487779 Done!