Query gi|254780749|ref|YP_003065162.1| lipoprotein signal peptidase transmembrane [Candidatus Liberibacter asiaticus str. psy62] Match_columns 108 No_of_seqs 112 out of 1642 Neff 6.2 Searched_HMMs 33803 Date Wed Jun 1 14:10:08 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780749.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2k4z_A DSRR; ISCA/SUFA/HESB l 14.2 56 0.0017 13.9 0.6 20 53-72 42-61 (77) 2 >1stz_A Heat-inducible transcr 9.6 1.2E+02 0.0036 12.2 1.4 14 47-60 18-31 (149) 3 >1sd4_A Penicillinase represso 7.8 1.5E+02 0.0043 11.8 1.2 19 46-64 9-27 (53) 4 >3kdr_A HK97 family phage port 7.2 1.5E+02 0.0045 11.7 0.7 11 50-60 43-53 (107) 5 >1pw4_A Glycerol-3-phosphate t 6.9 1.6E+02 0.0048 11.5 9.8 51 35-91 153-203 (222) 6 >1qtq_A GLNRS, protein (glutam 6.0 99 0.0029 12.6 -0.7 21 57-79 82-102 (111) 7 >3b5d_A Multidrug transporter 5.0 2.1E+02 0.0063 10.9 4.9 10 7-16 3-12 (110) 8 >2bbk_H Methylamine dehydrogen 5.0 93 0.0027 12.8 -1.4 20 50-69 18-37 (54) 9 >3hzq_A Large-conductance mech 4.2 2.5E+02 0.0073 10.6 6.5 66 37-102 5-82 (82) 10 >1s28_A ORF1; type III chapero 4.2 2.3E+02 0.0068 10.8 0.1 18 45-62 1-18 (132) No 1 >>2k4z_A DSRR; ISCA/SUFA/HESB like fold, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Allochromatium vinosum} (A:1-41,A:90-125) Probab=14.21 E-value=56 Score=13.89 Aligned_cols=20 Identities=20% Similarity=0.429 Sum_probs=15.6 Q ss_pred HHHHHCCCCEEEEEECCCCC Q ss_conf 89763127577662368154 Q gi|254780749|r 53 HCLYGYVIDYIMIHTQTWSF 72 (108) Q Consensus 53 R~~~G~VvDfi~~~~~~~~~ 72 (108) -+..|.|+||..+.-++++| T Consensus 42 sLLeg~vlDfveie~g~~hF 61 (77) T 2k4z_A 42 SLLDQTTLDYVELEPGQFHF 61 (77) T ss_dssp HHHTTEEEEEEEEETTEEEE T ss_pred CCCCCEEEEEECCCCCCCCE T ss_conf 40597699886278872787 No 2 >>1stz_A Heat-inducible transcription repressor HRCA homolog; circe element, structural genomics, BSGC structure funded by NIH; 2.20A {Thermotoga maritima} (A:106-143,A:228-338) Probab=9.60 E-value=1.2e+02 Score=12.18 Aligned_cols=14 Identities=36% Similarity=0.672 Sum_probs=12.3 Q ss_pred HHHHHHHHHHHCCC Q ss_conf 79999989763127 Q gi|254780749|r 47 LGNVVDHCLYGYVI 60 (108) Q Consensus 47 iGNliDR~~~G~Vv 60 (108) .||++-|+.-|||. T Consensus 18 ~~~~~~~~~~~~~~ 31 (149) T 1stz_A 18 AGNLLARLTEGYVL 31 (149) T ss_dssp HHHHHHHHHTCEEE T ss_pred HHHHHHHHHHHHHH T ss_conf 99999999766674 No 3 >>1sd4_A Penicillinase repressor; BLAI, MECI, methicillin, B-lactam, DNA binding protein; 2.00A {Staphylococcus aureus} (A:74-126) Probab=7.84 E-value=1.5e+02 Score=11.78 Aligned_cols=19 Identities=5% Similarity=0.109 Sum_probs=13.8 Q ss_pred HHHHHHHHHHHHCCCCEEE Q ss_conf 8799999897631275776 Q gi|254780749|r 46 ALGNVVDHCLYGYVIDYIM 64 (108) Q Consensus 46 aiGNliDR~~~G~VvDfi~ 64 (108) ...+++||++.|.+--|+. T Consensus 9 es~~fl~r~f~Gs~~~lv~ 27 (53) T 1sd4_A 9 TAKTFLNKLYGGDXKSLVL 27 (53) T ss_dssp HHHHHHHHHHTTCHHHHHH T ss_pred HHHHHHHHHHCCCHHHHHH T ss_conf 9999999995899999999 No 4 >>3kdr_A HK97 family phage portal protein; PSI, MCSG, structural genomics, protein structure initiative; 2.90A {Corynebacterium diphtheriae} (A:130-236) Probab=7.23 E-value=1.5e+02 Score=11.70 Aligned_cols=11 Identities=45% Similarity=0.700 Sum_probs=7.6 Q ss_pred HHHHHHHHCCC Q ss_conf 99989763127 Q gi|254780749|r 50 VVDHCLYGYVI 60 (108) Q Consensus 50 liDR~~~G~Vv 60 (108) -.||++.|||. T Consensus 43 dvdriingyva 53 (107) T 3kdr_A 43 DVDRIINGYVA 53 (107) T ss_dssp HHHHHHHHHHH T ss_pred HHHHHHHHHHH T ss_conf 99999999999 No 5 >>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane, major facilitator superfamily, secondary active membrane transporter; 3.30A {Escherichia coli} (A:230-451) Probab=6.91 E-value=1.6e+02 Score=11.54 Aligned_cols=51 Identities=16% Similarity=0.137 Sum_probs=21.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999988799999897631275776623681540899999999999999999 Q gi|254780749|r 35 FDIGYILITTGALGNVVDHCLYGYVIDYIMIHTQTWSFAVFNLADLFISIGTCIIIY 91 (108) Q Consensus 35 ~~i~l~li~gGaiGNliDR~~~G~VvDfi~~~~~~~~~pvFNvAD~~I~iG~~lli~ 91 (108) ...|+....+...|.+.=-+.-|.+.|-... ++ +|-+.=+.-.++.++..+ T Consensus 153 ~~~g~~~~~~~~~g~~~~~~~~~~~~~~~g~-----~~-~~~~~~~~~~i~~~~~~~ 203 (222) T 1pw4_A 153 TAAGFTGLFGYLGGSVAASAIVGYTVDFFGW-----DG-GFMVMIGGSILAVILLIV 203 (222) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHSSCS-----HH-HHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH-----HH-HHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999998586-----99-999999999999999999 No 6 >>1qtq_A GLNRS, protein (glutaminyl-tRNA synthetase); glutamine, trnaGln, E. coli, complex, ligase/RNA complex; HET: QSI; 2.25A {Escherichia coli} (A:102-212) Probab=6.02 E-value=99 Score=12.63 Aligned_cols=21 Identities=5% Similarity=-0.039 Sum_probs=14.6 Q ss_pred HCCCCEEEEEECCCCCHHHHHHH Q ss_conf 31275776623681540899999 Q gi|254780749|r 57 GYVIDYIMIHTQTWSFAVFNLAD 79 (108) Q Consensus 57 G~VvDfi~~~~~~~~~pvFNvAD 79 (108) +.+-||+-++..+ .|+.|+|| T Consensus 82 ~~~~D~Vi~R~dg--~p~Y~laD 102 (111) T 1qtq_A 82 IVMRDPVLYRIKF--AEHHQTGN 102 (111) T ss_dssp GGGSSCEEEEECC--CCBTTTBT T ss_pred CEEECCEEEEEEC--CCCCCCCC T ss_conf 2788888989504--34553123 No 7 >>3b5d_A Multidrug transporter EMRE; helical membrane protein, multidrug resistance transporter, SMR, antiport, inner membrane, transmembrane; HET: P4P; 3.80A {Escherichia coli K12} PDB: 3b61_A 3b62_A* (A:) Probab=5.04 E-value=2.1e+02 Score=10.94 Aligned_cols=10 Identities=40% Similarity=0.494 Sum_probs=3.5 Q ss_pred HHHHHHHHHH Q ss_conf 2999999999 Q gi|254780749|r 7 PTILVSIRIL 16 (108) Q Consensus 7 ~~~~~~~~~~ 16 (108) +|++...+++ T Consensus 3 ~w~~L~~Ai~ 12 (110) T 3b5d_A 3 PYIYLGGAIL 12 (110) T ss_pred HHHHHHHHHH T ss_conf 3899999999 No 8 >>2bbk_H Methylamine dehydrogenase (heavy subunit); electron transport; HET: TRQ; 1.75A {Paracoccus denitrificans} (H:50-103) Probab=4.97 E-value=93 Score=12.77 Aligned_cols=20 Identities=20% Similarity=0.305 Sum_probs=15.1 Q ss_pred HHHHHHHHCCCCEEEEEECC Q ss_conf 99989763127577662368 Q gi|254780749|r 50 VVDHCLYGYVIDYIMIHTQT 69 (108) Q Consensus 50 liDR~~~G~VvDfi~~~~~~ 69 (108) .+||+-+|.=.||+.++=.. T Consensus 18 ~y~RiArGkR~DYvev~Dp~ 37 (54) T 2bbk_H 18 VFSRIARGERTDYVEVFDPV 37 (54) T ss_dssp EEEETTEEEEEEEEEEECTT T ss_pred CCCCCCCCCCCCEEEEEECC T ss_conf 76641014799989999999 No 9 >>3hzq_A Large-conductance mechanosensitive channel; intermediate state mechanosensitive channel osmoregulation, cell membrane, ION transport; 3.82A {Staphylococcus aureus subsp} (A:33-114) Probab=4.19 E-value=2.5e+02 Score=10.60 Aligned_cols=66 Identities=14% Similarity=0.083 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHH-----------HCCCCEEEEEECCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999887999998976-----------31275776623681540-89999999999999999999940004321 Q gi|254780749|r 37 IGYILITTGALGNVVDHCLY-----------GYVIDYIMIHTQTWSFA-VFNLADLFISIGTCIIIYDDIILQHRQKG 102 (108) Q Consensus 37 i~l~li~gGaiGNliDR~~~-----------G~VvDfi~~~~~~~~~p-vFNvAD~~I~iG~~lli~~~~~~~~~~k~ 102 (108) ++-+.++|+|.+.+.+-+.. |..-.--........|. ..|-.=.++.++.+++++-.-..+-++|+ T Consensus 5 LAVaviiG~AF~~iV~slv~~iI~PlI~~~~g~~~~~~~~~~~~i~yG~fi~aii~FlIia~viFliVk~~nk~~~k~ 82 (82) T 3hzq_A 5 LAIAVVMGAAFNKIICSLVENIIMPLIGKIFGSVDFAKEWSFWGIKYGLFIQSVIDFIIIAFALFIFVKIANTLMKKE 82 (82) T ss_dssp HHHHHHHHHHHHHHHHHHHHHTHHHHHHHSSSCSCCCTTCCCSSCCCTHHHHHHHHHHHHHHHHHHHHHHHHHSCCCC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 999999999999999999999899989998577612211120011068999999999999999999999999986169 No 10 >>1s28_A ORF1; type III chaperone; 3.00A {Pseudomonas syringae PV} (A:) Probab=4.19 E-value=2.3e+02 Score=10.77 Aligned_cols=18 Identities=39% Similarity=0.587 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHCCCCE Q ss_conf 887999998976312757 Q gi|254780749|r 45 GALGNVVDHCLYGYVIDY 62 (108) Q Consensus 45 GaiGNliDR~~~G~VvDf 62 (108) ||.-|-.||+.+|--.|| T Consensus 1 ~~~kn~Fd~lvd~l~K~Y 18 (132) T 1s28_A 1 GAXKNSFDRLIDGLAKDY 18 (132) T ss_dssp CHHHHHHHHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHHC T ss_conf 905778999999999755 Done!