Query gi|254780266|ref|YP_003064679.1| 30S ribosomal protein S12 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 124 No_of_seqs 127 out of 756 Neff 3.8 Searched_HMMs 13730 Date Tue May 24 09:07:31 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780266.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 d2uubl1 b.40.4.5 (L:5-122) Rib 100.0 0 0 395.9 11.6 118 2-120 1-118 (118) 2 d1ah9a_ b.40.4.5 (A:) Translat 78.0 1.1 7.8E-05 22.6 3.7 45 30-84 7-55 (71) 3 d1hr0w_ b.40.4.5 (W:) Translat 54.9 1.1 8E-05 22.5 -0.2 37 45-85 17-57 (71) 4 d1jt8a_ b.40.4.5 (A:) Archaeal 38.2 7.7 0.00056 17.6 2.0 46 29-84 20-68 (102) 5 d1d7qa_ b.40.4.5 (A:) Translat 36.3 14 0.001 16.1 4.2 46 29-84 31-79 (143) 6 d1pb1a_ c.77.1.1 (A:) Isocitra 33.5 8.5 0.00062 17.3 1.6 17 68-84 134-153 (416) 7 d3bula2 c.23.6.1 (A:741-896) M 25.5 17 0.0012 15.6 2.0 17 59-75 5-21 (156) 8 d1q2la4 d.185.1.1 (A:24-263) P 24.4 22 0.0016 14.8 5.1 51 40-93 8-59 (240) 9 d1ju2a1 c.3.1.2 (A:1-293,A:464 22.4 9.4 0.00068 17.0 0.2 15 64-78 284-298 (351) 10 d1yrra1 b.92.1.5 (A:1-53,A:351 17.1 19 0.0014 15.3 0.8 26 58-89 4-29 (85) No 1 >d2uubl1 b.40.4.5 (L:5-122) Ribosomal protein S12 {Thermus thermophilus [TaxId: 274]} Probab=100.00 E-value=0 Score=395.87 Aligned_cols=118 Identities=69% Similarity=1.083 Sum_probs=114.6 Q ss_pred CCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEEECCCCCCCCCCCEE Q ss_conf 55023542687378646666770006862124787567518456744243288999669969999807888754646789 Q gi|254780266|r 2 PTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVV 81 (124) Q Consensus 2 pTinQlir~~Rkk~~~~~~K~~~L~~~PqkkGVclkv~~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeGhnlqehs~V 81 (124) ||||||+|++|+++. .+.++++|++|||++|||++++|++|||||||+||||+|+||||++||||||||||||||||+| T Consensus 1 PTinQL~rk~R~kk~-~k~k~~aL~~~PqkkGvc~kv~~~~PKKPNSA~RKvarVrLsng~~v~AyIPG~GhnlqEHs~V 79 (118) T d2uubl1 1 PTINQLVRKGREKVR-KKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVV 79 (118) T ss_dssp CCHHHHHHHCCCCCC-CCCSCCCTTTCSCEEEEEEEEEEECCCTTCCSCEEEEEEEETTSCEEEEECCSSCCCCCTTCEE T ss_pred CCHHHHCCCCCCCCC-CCCCCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCEEEEEECCCCCCCCCCCCEE T ss_conf 987671036888776-6788852236976043888988822688861021389999629909999818997674557889 Q ss_pred EEECCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCC Q ss_conf 995378388887547898040014433420012112561 Q gi|254780266|r 82 MLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGA 120 (124) Q Consensus 82 LvrGGrv~DlPGVry~ivRG~~D~~gv~~Rk~~RSkYG~ 120 (124) ||||||++|||||+||+|||+|||++|.+|+++|||||| T Consensus 80 LvrGGrv~DlPGVry~vvrG~~D~~~v~~Rk~~RSkYGt 118 (118) T d2uubl1 80 LIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYGT 118 (118) T ss_dssp EECCCCCTTSTTCCEEBCTTSTTCCCCTTCCSSTTTTTC T ss_pred EEECCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCCCC T ss_conf 994886666777478997231014333665326676789 No 2 >d1ah9a_ b.40.4.5 (A:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]} Probab=78.04 E-value=1.1 Score=22.56 Aligned_cols=45 Identities=22% Similarity=0.382 Sum_probs=31.3 Q ss_pred CCCEEEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEEECCCC--C--CCCCCCEEEEE Q ss_conf 2124787567518456744243288999669969999807888--7--54646789995 Q gi|254780266|r 30 QKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEG--H--NLQEHSVVMLC 84 (124) Q Consensus 30 qkkGVclkv~~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeG--h--nlqehs~VLvr 84 (124) +..|++++.. ||. --+|+|.||.++.|||||-= + .+.+.+.|+|. T Consensus 7 e~~G~V~e~l------g~~----~f~V~l~ng~~~~a~i~Gkmrk~ri~i~~GD~V~Ve 55 (71) T d1ah9a_ 7 EMQGTVLETL------PNT----MFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVE 55 (71) T ss_dssp ECCEEEEEEC------SSS----EEEEEETTSCEEEEEECSSGGGTTCCCCTTCEECCE T ss_pred EEEEEEEEEC------CCC----EEEEEECCCCEEEEECCCHHHEEEEEECCCCEEEEE T ss_conf 9999999986------998----899996799799998464343027996499999999 No 3 >d1hr0w_ b.40.4.5 (W:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]} Probab=54.91 E-value=1.1 Score=22.50 Aligned_cols=37 Identities=30% Similarity=0.536 Sum_probs=27.9 Q ss_pred CCCCCCCEEEEEEECCCCEEEEEECCCC--C--CCCCCCEEEEEC Q ss_conf 6744243288999669969999807888--7--546467899953 Q gi|254780266|r 45 KPNSALRKVIKARLTSGVEVIAYVPGEG--H--NLQEHSVVMLCG 85 (124) Q Consensus 45 KPNSA~RKvarV~Lsng~~v~ayIPGeG--h--nlqehs~VLvrG 85 (124) -||.- -+|+|.||.++.|||||-= + .+.+.|.|+|.= T Consensus 17 l~~~~----f~V~l~ng~~~~a~i~GkmRk~ri~i~~GD~V~Vel 57 (71) T d1hr0w_ 17 LPNAT----FRVKLDSGPEILAYISGKMRMHYIRILPGDRVVVEI 57 (71) T ss_dssp CTTTB----CCCEESSSCBCCCEECHHHHHTCCCCCTTCEEEEEC T ss_pred CCCCE----EEEEECCCCEEEEEECCHHHEEEEEECCCCEEEEEE T ss_conf 89989----999987999999980544321269735999999997 No 4 >d1jt8a_ b.40.4.5 (A:) Archaeal initiation factor-1a, aIF1a {Archaeon Methanococcus jannaschii [TaxId: 2190]} Probab=38.21 E-value=7.7 Score=17.56 Aligned_cols=46 Identities=17% Similarity=0.266 Sum_probs=34.6 Q ss_pred CCCCEEEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEEECCCC---CCCCCCCEEEEE Q ss_conf 62124787567518456744243288999669969999807888---754646789995 Q gi|254780266|r 29 PQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEG---HNLQEHSVVMLC 84 (124) Q Consensus 29 PqkkGVclkv~~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeG---hnlqehs~VLvr 84 (124) -|.=|+|++.+. | --+.|.+.+|.+..|.|||-- -.+...+.|||. T Consensus 20 ~e~y~~V~k~lG------~----~~~~V~c~dg~~rl~~irGK~Rk~~~I~~Gd~VlV~ 68 (102) T d1jt8a_ 20 NEILGIIEQMLG------A----SRVRVRCLDGKTRLGRIPGRLKNRIWVREGDVVIVK 68 (102) T ss_dssp CCEEEEEECSSC------S----SEEEEEEETTEEEEEECCHHHHHHHCCCSCEEEEEC T ss_pred CEEEEEEEEECC------C----CEEEEEECCCCEEEEEECCCCCEEEEECCCCEEEEE T ss_conf 889999999829------9----889999799999999984775104696499999999 No 5 >d1d7qa_ b.40.4.5 (A:) Translation initiation factor-1a, eIF1a {Human (Homo sapiens) [TaxId: 9606]} Probab=36.34 E-value=14 Score=16.07 Aligned_cols=46 Identities=11% Similarity=0.198 Sum_probs=33.9 Q ss_pred CCCCEEEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEEECCCCC---CCCCCCEEEEE Q ss_conf 621247875675184567442432889996699699998078887---54646789995 Q gi|254780266|r 29 PQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGH---NLQEHSVVMLC 84 (124) Q Consensus 29 PqkkGVclkv~~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeGh---nlqehs~VLvr 84 (124) -|.=|+|++.+.- --+.|.+.+|.+.+|.|||--. -+...+.|||- T Consensus 31 ~e~ya~V~k~lG~----------~~~~V~~~dg~~rl~~irgk~r~r~~i~~Gd~VlV~ 79 (143) T d1d7qa_ 31 GQEYAQVIKMLGN----------GRLEAMCFDGVKRLCHIRGKLRKKVWINTSDIILVG 79 (143) T ss_dssp TEEEEEEEEECSS----------SEEEEEETTTEEEEEECCSGGGGSCCCCTTCEEEEE T ss_pred CEEEEEEEEECCC----------CEEEEEECCCCEEEEEECCCCEEEEEEECCCEEEEE T ss_conf 8089999997399----------779999789999999953765147898189999994 No 6 >d1pb1a_ c.77.1.1 (A:) Isocitrate dehydrogenase, ICDH {Escherichia coli [TaxId: 562]} Probab=33.45 E-value=8.5 Score=17.29 Aligned_cols=17 Identities=12% Similarity=0.208 Sum_probs=7.2 Q ss_pred ECCCCCCCC---CCCEEEEE Q ss_conf 078887546---46789995 Q gi|254780266|r 68 VPGEGHNLQ---EHSVVMLC 84 (124) Q Consensus 68 IPGeGhnlq---ehs~VLvr 84 (124) +||.-+.+. .-+.|.|| T Consensus 134 ~pg~~spl~~~~~iD~vIvR 153 (416) T d1pb1a_ 134 YQGTPSPVKHPELTDMVIFR 153 (416) T ss_dssp CTTCCCSSSCGGGCEEEEEE T ss_pred CCCCCCCCCCCCCCCEEEEE T ss_conf 67888643455644659986 No 7 >d3bula2 c.23.6.1 (A:741-896) Methionine synthase, C-terminal domain {Escherichia coli [TaxId: 562]} Probab=25.47 E-value=17 Score=15.56 Aligned_cols=17 Identities=47% Similarity=0.667 Sum_probs=14.8 Q ss_pred CCCCEEEEEECCCCCCC Q ss_conf 69969999807888754 Q gi|254780266|r 59 TSGVEVIAYVPGEGHNL 75 (124) Q Consensus 59 sng~~v~ayIPGeGhnl 75 (124) ++|+.|++-++||.|.| T Consensus 5 ~~gkivi~tv~gD~Hdi 21 (156) T d3bula2 5 TNGKMVIATVKGDVHDI 21 (156) T ss_dssp CSCEEEEEEBTTCCCCH T ss_pred CCCEEEEEEECCCHHHH T ss_conf 69979999618870068 No 8 >d1q2la4 d.185.1.1 (A:24-263) Protease III {Escherichia coli [TaxId: 562]} Probab=24.38 E-value=22 Score=14.85 Aligned_cols=51 Identities=20% Similarity=0.227 Sum_probs=33.2 Q ss_pred ECCCCCCCCCCCEEEEEEECCCCEEEEEECCCCCCCCCCCEE-EEECCCCCCCCC Q ss_conf 518456744243288999669969999807888754646789-995378388887 Q gi|254780266|r 40 TVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVV-MLCGGRVKDLPG 93 (124) Q Consensus 40 ~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeGhnlqehs~V-LvrGGrv~DlPG 93 (124) --|.+||.+-.|..-.++|+||.+|.. +|-. ...--++. .+.+|-..|-|+ T Consensus 8 ~~~~~k~~~d~~~~~~~~L~NGl~V~~-~~~~--~~~~v~~~l~~~~Gs~~e~~~ 59 (240) T d1q2la4 8 QETIRKSDKDNRQYQAIRLDNGMVVLL-VSDP--QAVKSLSALVVPVGSLEDPEA 59 (240) T ss_dssp CSCCCCCTTCCCEEEEEEETTSCEEEE-EECT--TCSSEEEEEEESCCGGGCCGG T ss_pred CCCCCCCCCCCCCEEEEECCCCCEEEE-EECC--CCCEEEEEEEEECCCCCCCCC T ss_conf 014779988874428999289999999-9979--998799999996774210234 No 9 >d1ju2a1 c.3.1.2 (A:1-293,A:464-521) Hydroxynitrile lyase {Almond (Prunus dulcis) [TaxId: 3755]} Probab=22.42 E-value=9.4 Score=17.04 Aligned_cols=15 Identities=27% Similarity=0.255 Sum_probs=7.2 Q ss_pred EEEEECCCCCCCCCC Q ss_conf 999807888754646 Q gi|254780266|r 64 VIAYVPGEGHNLQEH 78 (124) Q Consensus 64 v~ayIPGeGhnlqeh 78 (124) +.+-.||.|.|||+| T Consensus 284 ~~~dlPgVG~NL~DH 298 (351) T d1ju2a1 284 VVLSHPYVGQCLVGK 298 (351) T ss_dssp CSEECTTTTESCBTT T ss_pred EECCCCCCCCCCCCC T ss_conf 460398756341047 No 10 >d1yrra1 b.92.1.5 (A:1-53,A:351-382) N-acetylglucosamine-6-phosphate deacetylase, NagA {Escherichia coli [TaxId: 562]} Probab=17.11 E-value=19 Score=15.30 Aligned_cols=26 Identities=31% Similarity=0.566 Sum_probs=16.0 Q ss_pred ECCCCEEEEEECCCCCCCCCCCEEEEECCCCC Q ss_conf 66996999980788875464678999537838 Q gi|254780266|r 58 LTSGVEVIAYVPGEGHNLQEHSVVMLCGGRVK 89 (124) Q Consensus 58 Lsng~~v~ayIPGeGhnlqehs~VLvrGGrv~ 89 (124) |+|++.++ |..+.+...|+|++|+.. T Consensus 4 l~n~rI~d------g~~~~~~~~i~i~~g~I~ 29 (85) T d1yrra1 4 LTQGRIFT------GHEFLDDHAVVIADGLIK 29 (85) T ss_dssp EESSEEEC------SSCEESSEEEEEETTEEE T ss_pred EEEEEEEC------CCCCEECCEEEEECCEEE T ss_conf 98369988------998574128999322999 Done!