Query gi|254780511|ref|YP_003064924.1| flagellar biosynthesis protein FliR [Candidatus Liberibacter asiaticus str. psy62] Match_columns 248 No_of_seqs 114 out of 860 Neff 6.8 Searched_HMMs 39220 Date Sun May 29 23:09:32 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780511.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PRK12772 bifunctional flagella 100.0 0 0 400.1 32.7 241 4-245 2-242 (609) 2 PRK12780 fliR flagellar biosyn 100.0 0 0 394.0 33.4 246 1-246 1-247 (250) 3 PRK05701 fliR flagellar biosyn 100.0 0 0 392.5 32.4 242 4-247 3-244 (250) 4 pfam01311 Bac_export_1 Bacteri 100.0 0 0 385.3 32.5 240 6-247 4-245 (249) 5 TIGR01400 fliR flagellar biosy 100.0 0 0 384.5 30.4 237 10-247 2-241 (248) 6 COG1684 FliR Flagellar biosynt 100.0 0 0 373.3 29.9 241 4-247 7-247 (258) 7 TIGR01401 fliR_like_III type I 100.0 0 0 335.7 29.5 240 5-244 4-251 (262) 8 COG4791 EscT Type III secretor 100.0 0 0 306.1 26.8 243 2-246 3-246 (259) 9 PRK05700 fliQ flagellar biosyn 95.9 0.098 2.5E-06 28.1 11.8 79 168-247 3-81 (89) 10 pfam01313 Bac_export_3 Bacteri 95.8 0.11 2.8E-06 27.9 10.6 75 170-245 2-76 (76) 11 PRK09617 type III secretion sy 95.6 0.06 1.5E-06 29.4 7.0 76 146-223 204-286 (305) 12 PRK12781 fliQ flagellar biosyn 95.5 0.14 3.6E-06 27.2 11.6 78 169-247 4-81 (88) 13 PRK12797 type III secretion sy 95.4 0.15 3.9E-06 27.0 12.5 55 167-223 142-196 (215) 14 PRK06010 fliQ flagellar biosyn 95.4 0.16 4.2E-06 26.8 11.7 77 169-246 4-80 (88) 15 PRK12796 spaP surface presenta 95.0 0.16 4.1E-06 26.9 7.5 72 168-243 143-214 (219) 16 COG1987 FliQ Flagellar biosynt 94.9 0.22 5.7E-06 26.0 11.7 78 169-247 4-81 (89) 17 PRK12783 fliP flagellar biosyn 94.5 0.28 7.2E-06 25.4 13.7 55 167-223 179-233 (252) 18 PRK05699 fliP flagellar biosyn 94.5 0.29 7.3E-06 25.4 13.1 66 167-236 171-236 (245) 19 PRK12430 type III secretion sy 94.5 0.29 7.3E-06 25.4 12.5 69 167-239 305-373 (379) 20 TIGR01402 fliQ flagellar biosy 93.7 0.41 1E-05 24.5 11.6 79 168-247 3-81 (88) 21 COG1338 FliP Flagellar biosynt 88.2 1.5 3.8E-05 21.1 12.4 54 168-223 176-229 (248) 22 TIGR01103 fliP flagellar biosy 84.4 2.4 6.1E-05 19.9 8.4 71 71-153 132-202 (202) 23 COG4790 EscR Type III secretor 78.9 3.8 9.7E-05 18.7 8.7 52 169-223 142-194 (214) 24 pfam05799 COX5C Cytochrome c o 53.4 11 0.00027 16.1 2.3 19 73-91 15-33 (62) 25 COG5110 RPN1 26S proteasome re 41.0 9.8 0.00025 16.3 0.6 20 196-215 661-680 (881) 26 TIGR01102 yscR type III secret 31.6 29 0.00074 13.5 7.3 85 136-223 96-195 (209) 27 COG4794 EscS Type III secretor 22.7 42 0.0011 12.5 10.9 74 169-243 4-77 (89) 28 KOG0508 consensus 21.2 45 0.0012 12.3 4.1 61 88-158 85-145 (615) No 1 >PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional Probab=100.00 E-value=0 Score=400.15 Aligned_cols=241 Identities=19% Similarity=0.348 Sum_probs=228.6 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83699999999999999999998552788862889999999999999952144456000122068999999999999999 Q gi|254780511|r 4 SPEIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVH 83 (248) Q Consensus 4 ~~~~~l~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl~l 83 (248) .+-.++++|+++++|+++++..+|+||++.+|.++|+++++.+|+.++|.+... +.+.+.+...+...+++|+.+|+.+ T Consensus 2 i~~~yflaf~Lvf~Risa~~~~aPiF~~~~iP~~vKi~lal~ls~~i~p~v~~~-~~~~~~~~~~~~l~vl~E~liGl~l 80 (609) T PRK12772 2 ISAAYFTALILIFLRLFSFFSMVPIFFPKGTPVIVKVSLALIISYMLVGGIDIS-TVNTINNSTALIFYGINEILTGLIL 80 (609) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHH T ss_conf 756999999999999999999865418888859999999999999996568887-6555433599999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 99999999999999999999875422202688887530169999999999999994518999999999997555665568 Q gi|254780511|r 84 GLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIGQELN 163 (248) Q Consensus 84 G~~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~g~~~~ 163 (248) |+..+++|++++.|||++|+|+|+++++.+||.+|+|++++|++++++++++|++.||||++++++.|||+.+|+|++.. T Consensus 81 Gf~~~l~F~av~~AG~lI~~qmGlsmA~~~DP~~g~q~~vig~f~~lla~llFla~~GH~~li~al~~Sf~~iP~G~~~~ 160 (609) T PRK12772 81 GYITNLCFVCVRYAGSMMDLQVGFSMMSMFDPSSNSNTTLIERLLYWFSTVVFFIVDGHHMLIRALVESFNVIKLGAFFL 160 (609) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCCCC T ss_conf 99999999999999999998764899980488778876489999999999999996769999999999731108996545 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 57999999999999999999999999999999999999999853325489999999999999999999999999999999 Q gi|254780511|r 164 FGNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 (248) Q Consensus 164 ~~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f 243 (248) .++..+.+++.++++|..|+++|+|++++++++|+++|++||++||+|+|++|+|+|+++|+.++.+++|.+.+...+.| T Consensus 161 ~~~~~~~~~~~~~~~F~~a~~iA~Pii~~lll~dv~lGilaR~~PQmNVF~vGfPlkIlvGl~~l~i~lP~~~~~~~~~~ 240 (609) T PRK12772 161 NQESIMHVINVFIQYFVIGIKIAIPIVLIILITDLTLGLISRTVPQLNIMILGLPIKILLGLTAFVIALPLILKVLGSAF 240 (609) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 52699999999999999999999999999999999999999813688799999789999999999999899999999998 Q ss_pred HH Q ss_conf 95 Q gi|254780511|r 244 LY 245 (248) Q Consensus 244 ~~ 245 (248) -+ T Consensus 241 ~~ 242 (609) T PRK12772 241 GN 242 (609) T ss_pred HH T ss_conf 63 No 2 >PRK12780 fliR flagellar biosynthesis protein FliR; Reviewed Probab=100.00 E-value=0 Score=393.99 Aligned_cols=246 Identities=32% Similarity=0.566 Sum_probs=233.9 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC-CCCCCHHHHHHHHHHHHHH Q ss_conf 986836999999999999999999985527888628899999999999999521444560-0012206899999999999 Q gi|254780511|r 1 MTISPEIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDL-QNFVNRAYYSKLVMVELFL 79 (248) Q Consensus 1 m~~~~~~~l~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~-~~~~~~~~~~~l~l~E~~i 79 (248) ||++..+.+.++++++||+++++..+|+||++.+|.++|+++++++|+.++|.+.+..+. ..+.+...+...+++|+.+ T Consensus 1 ~~~~lp~~~l~~lLvf~Ri~~~~~~~P~f~~~~vP~~vR~~lal~la~~l~P~l~~~~~~~~~~~~~~~~~~~~~~E~~i 80 (250) T PRK12780 1 MSLPLPDSVLGVFLIFCRIGGCLMVVPGYSSARIPVQVRLFIALSVTLALTPLLLPLFRPFLEGAAPAETLLWIGSEMLT 80 (250) T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 99887799999999999999999986652777784999999999999999987354457644544279999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCC Q ss_conf 99999999999999999999999987542220268888753016999999999999999451899999999999755566 Q gi|254780511|r 80 GCVHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIG 159 (248) Q Consensus 80 Gl~lG~~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~g 159 (248) |+.+|+..|++|++++.|||++|+|+|+++++.+||++++|++++|+++++.++++|++.||||.+++++.|||+.+|+| T Consensus 81 Gl~lG~~~~l~f~a~~~AG~ii~~q~Gl~~a~~~dP~~~~~~~~l~~f~~~~~~llFl~~~gH~~li~~l~~Sf~~~P~g 160 (250) T PRK12780 81 GLLIGLLGRVFFFALETMATAVATAIGLGSIPGTPVEDTEPAPALVSLIVLAATALFFATDLHWELLRGLIASYDRIPPG 160 (250) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCC T ss_conf 99999999999999999999999987075143479878897759999999999999999786999999999976210799 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 55685799999999999999999999999999999999999999985332548999999999999999999999999999 Q gi|254780511|r 160 QELNFGNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQF 239 (248) Q Consensus 160 ~~~~~~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~ 239 (248) +....++..+.+++..+++|..|+++|+|++++++++|+++|++||++||+|+|++|+|+|+.+|+.++++++|.+..+| T Consensus 161 ~~~~~~~~~~~~~~~~~~~F~lal~lAaPvi~~~ll~nv~lGil~R~~PQlNvf~vg~P~~i~~Gl~vL~l~~p~l~~~f 240 (250) T PRK12780 161 EGFGGQAALVQLVDQLSEAFTLALRIASPFIIYSVIVNLAVGLANKLTPTIPVYFISTPFVLFGGLLLLYLLSDEMLTQF 240 (250) T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 77563789999999999999999999999999999999999999980335558999956999999999999999999999 Q ss_pred HHHHHHH Q ss_conf 9999950 Q gi|254780511|r 240 SHSFLYG 246 (248) Q Consensus 240 ~~~f~~~ 246 (248) ++.|.+- T Consensus 241 ~~~f~~~ 247 (250) T PRK12780 241 SLAYAAW 247 (250) T ss_pred HHHHHHH T ss_conf 9999999 No 3 >PRK05701 fliR flagellar biosynthesis protein FliR; Reviewed Probab=100.00 E-value=0 Score=392.46 Aligned_cols=242 Identities=30% Similarity=0.517 Sum_probs=230.9 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83699999999999999999998552788862889999999999999952144456000122068999999999999999 Q gi|254780511|r 4 SPEIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVH 83 (248) Q Consensus 4 ~~~~~l~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl~l 83 (248) ..++|+.+|++++||+++++..+|+|+++.+|.++|.++++++|+.++|.+++..+ .+.+...+...++||.++|+.+ T Consensus 3 ~~~~~~~~fllv~~Rv~~~~~~~P~f~~~~vP~~vR~~lal~ls~~l~p~v~~~~~--~~~~~~~~~~~~~~E~~iGl~l 80 (250) T PRK05701 3 QLLEWVAAFFLPFCRIGALLMTMPGFSERNIPARVKLGLALALTFAIAPLLPPVPQ--VDLFSLTALLLVLQEILIGLAL 80 (250) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC--CCCCHHHHHHHHHHHHHHHHHH T ss_conf 79999999999999999999997760777562999999999999999844877677--8851399999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 99999999999999999999875422202688887530169999999999999994518999999999997555665568 Q gi|254780511|r 84 GLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIGQELN 163 (248) Q Consensus 84 G~~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~g~~~~ 163 (248) |+.++++||+++.|||++|+|+|+++++.+||.+++|++++|+++++++.++|++.||||.+++++.|||+.||+|+... T Consensus 81 G~~~~l~f~a~~~AG~~i~~q~G~s~a~~~DP~~~~q~~~~~~~~~~~~~~lF~~~~gh~~~l~~l~~Sf~~~P~g~~~~ 160 (250) T PRK05701 81 GLVAQIIFAALQFAGQIIAMQMGLSFASMVDPTSGQQSPLLGQFLTLLALLLFLALDGHHLLIRALVDSFQTLPIGGFLL 160 (250) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 99999999999999999998754631324798777755389999999999999997719999999999987648987756 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 57999999999999999999999999999999999999999853325489999999999999999999999999999999 Q gi|254780511|r 164 FGNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 (248) Q Consensus 164 ~~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f 243 (248) .++..+.+.+.++++|..|+++|+|++++++++|+++|++||++||+|+|++|+|+|+++|++++.+++|.+.+.+++.| T Consensus 161 ~~~~~~~~~~~~~~~f~~al~lAaPi~~~~ll~~~~lG~l~R~~PQlnvf~vg~p~ki~~gl~~l~l~l~~l~~~~~~~f 240 (250) T PRK05701 161 NGNAFLLLAKALSAMFLIGLQLALPIIVALLLVNLALGLLNRAAPQLNIFVIGFPLKITVGLLILALILPALLSVFENLF 240 (250) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 68999999999999999999999899999999999999999707300089999779999999999999999999999999 Q ss_pred HHHC Q ss_conf 9504 Q gi|254780511|r 244 LYGF 247 (248) Q Consensus 244 ~~~f 247 (248) ++.+ T Consensus 241 ~~~~ 244 (250) T PRK05701 241 SEAF 244 (250) T ss_pred HHHH T ss_conf 9999 No 4 >pfam01311 Bac_export_1 Bacterial export proteins, family 1. This family includes the following members; FliR, MopE, SsaT, YopT, Hrp, HrcT and SpaR All of these members export proteins, that do not possess signal peptides, through the membrane. Although the proteins that these exporters move may be different, the exporters are thought to function in similar ways. Probab=100.00 E-value=0 Score=385.32 Aligned_cols=240 Identities=23% Similarity=0.387 Sum_probs=226.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 69999999999999999999855278886288999999999999995214445600012206899999999999999999 Q gi|254780511|r 6 EIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVHGL 85 (248) Q Consensus 6 ~~~l~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl~lG~ 85 (248) ++|+.+++++++|+++++..+|+|+++.+|.++|..+++.+|+.++|.++...+. ..+...+...++||.++|+.+|+ T Consensus 4 ~~~l~~fllv~~Rv~~~~~~~P~f~~~~iP~~vr~~lal~ls~~l~p~v~~~~~~--~~~~~~~~~~~~~E~~iGl~lG~ 81 (249) T pfam01311 4 LVLLAALFLAFVRVLALFSTLPFFSDRSLGGVVRNGVALLLALIVAPSIPNQAAP--IISEAQLILLVLKEALLGLLLGF 81 (249) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCC--CCCHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999864527886729999999999999998568766667--64268999999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCC-- Q ss_conf 999999999999999999875422202688887530169999999999999994518999999999997555665568-- Q gi|254780511|r 86 LIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIGQELN-- 163 (248) Q Consensus 86 ~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~g~~~~-- 163 (248) .++++|++++.|||++|+|+|+++++.+||++++|++++|+++++++.++|++.||||.+++++.|||+.+|+|++.+ T Consensus 82 ~~~l~f~a~~~AG~~i~~q~Gls~a~~~DP~~~~~~~~~~~l~~~~~~~lFl~~~gh~~~i~~l~~Sf~~iP~g~~~~~~ 161 (249) T pfam01311 82 FLSIPFWAFHAAGELIDNQRGATMASSFDPASGSQSSPVGQFLNQLAILLFLASGGHLLLLSALYDSYQIWPVGQFLPNM 161 (249) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCC T ss_conf 99999999999999999986676461559877875418999999999999999481999999999998655887666765 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 57999999999999999999999999999999999999999853325489999999999999999999999999999999 Q gi|254780511|r 164 FGNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 (248) Q Consensus 164 ~~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f 243 (248) ..+..+.+++..+++|..|+++|+|++++++++|+++|++||++||+|+|++|+|+|+.+|++++.+++|.+.+++++.+ T Consensus 162 ~~~~~~~~~~~~~~~F~~al~lAaPii~~~ll~~l~lGll~R~~PQlnvf~lg~pvki~~gl~~l~~~lp~~~~~~~~~~ 241 (249) T pfam01311 162 NAQAAKFLLKALSQLFSIALLLAAPVIILLLLIDLALGLLSRFAPQLNVFVLSFPIKSAVGLLLLALYLPYILPLFKEEL 241 (249) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 48999999999999999999999999999999999999999717310069989669999999999999999999999999 Q ss_pred HHHC Q ss_conf 9504 Q gi|254780511|r 244 LYGF 247 (248) Q Consensus 244 ~~~f 247 (248) ++.| T Consensus 242 ~~~f 245 (249) T pfam01311 242 SLLF 245 (249) T ss_pred HHHH T ss_conf 9998 No 5 >TIGR01400 fliR flagellar biosynthetic protein FliR; InterPro: IPR006303 These sequences represent the FliR protein of bacterial flagellar biosynthesis. It distinguishes FliR from the homologous proteins bacterial type III protein secretion systems, known by names such as YopT, EscT, and HrcT.; GO: 0015031 protein transport, 0016021 integral to membrane, 0019861 flagellum. Probab=100.00 E-value=0 Score=384.53 Aligned_cols=237 Identities=28% Similarity=0.524 Sum_probs=227.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998552788862889999999999999952144456000122068999999999999999999999 Q gi|254780511|r 10 MSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVHGLLIRV 89 (248) Q Consensus 10 ~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl~lG~~~~i 89 (248) ..++++++|++|++.++|+||+|.+|.++|..+++.+|+.++|.++...+ +.......+..++++|+.+|..+|+..++ T Consensus 2 ~~~~l~~~R~~a~l~~~P~fs~~~vP~~vR~~lal~~~~~~~p~l~~~~~-~~~~~~~~~~~~~~~E~l~G~~~G~~~~~ 80 (248) T TIGR01400 2 STFFLVFVRVGAFLMTMPFFSERLVPVRVRLYLALALTFIVLPFLPPTPG-QVNLFSLFFVLLLLQEILIGLLIGFILQL 80 (248) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 56899999999999971664234054068999999999999845100345-20011799999999999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHH-HHHHHHHHCCCCCCCCCH--H Q ss_conf 9999999999999987542220268888753016999999999999999451899999-999999755566556857--9 Q gi|254780511|r 90 YTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFY-ALVKSYGTIPIGQELNFG--N 166 (248) Q Consensus 90 ~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~-~l~~Sf~~iP~g~~~~~~--~ 166 (248) .|++++.|||++|.|+|+++|+.+||.+++|++++||++++.++++|++.||||++++ ++.|||+.+|+|+...++ + T Consensus 81 ~f~a~~~AG~~I~~~~GLg~A~~~dp~~~~~~p~~~~~l~~lall~FL~~~gh~~~i~~~l~~S~~~~P~g~~~~~~~e~ 160 (248) T TIGR01400 81 LFAAFVLAGEIISFQMGLGFASMVDPSSGEQTPVLGQILYLLALLLFLALDGHHLLILIGLVDSFKSLPVGSFFLNGSEN 160 (248) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCHH T ss_conf 99999999999998898899876312356661289999999999999984648999999999776540367666786148 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999999999999999999999999999853325489999999999999999999999999999999950 Q gi|254780511|r 167 IFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYG 246 (248) Q Consensus 167 ~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~~ 246 (248) ..+.+++..+++|..|+++|+|+++.++++|+++|++||++||+|+|++|+|+|+.+|+++++..+|.+.+.+++.++|. T Consensus 161 ~~~~~~~~~~~~F~~gl~~a~P~~~~lLl~nl~~G~~~R~~PQ~N~F~iG~Pl~~~~Gl~ll~~~~p~~~~~~~~~~~~~ 240 (248) T TIGR01400 161 LFELILKALSDMFLLGLLLALPIIAALLLINLVLGLVNRAAPQLNIFSIGFPLKILLGLILLYLILPVIASLFKKLFEEL 240 (248) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999999998799999999999999998775799999998559999999999999999999999999999 Q ss_pred C Q ss_conf 4 Q gi|254780511|r 247 F 247 (248) Q Consensus 247 f 247 (248) + T Consensus 241 ~ 241 (248) T TIGR01400 241 L 241 (248) T ss_pred H T ss_conf 9 No 6 >COG1684 FliR Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion] Probab=100.00 E-value=0 Score=373.33 Aligned_cols=241 Identities=30% Similarity=0.507 Sum_probs=231.0 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 83699999999999999999998552788862889999999999999952144456000122068999999999999999 Q gi|254780511|r 4 SPEIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVH 83 (248) Q Consensus 4 ~~~~~l~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl~l 83 (248) -.++|+.++++++||+++++.++|+|++|.+|.++|+.+++++|+.++|.+++ .+. ......+..++.+|+.+|.++ T Consensus 7 ~~~~~v~~~~l~f~Rv~afl~~~P~~s~~~IP~~vrl~lal~ls~~v~p~l~~-~p~--~~~~~~~~ll~~~EiliG~~~ 83 (258) T COG1684 7 QLEEWVLAFFLPFVRVLAFLMTMPFFSERSIPARVRLGLALALSFAVLPLLPA-VPA--PLFSLEFLLLALSEILIGLAL 83 (258) T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCC-CCC--CCCCHHHHHHHHHHHHHHHHH T ss_conf 76899999999999999999982010556553789999999999999945767-885--434488999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 99999999999999999999875422202688887530169999999999999994518999999999997555665568 Q gi|254780511|r 84 GLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIGQELN 163 (248) Q Consensus 84 G~~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~g~~~~ 163 (248) |+.+|+.|++++.|||++|.|+|+|+++.+||.+++|++++||+++..++++|++.||||++++++.|||+.+|+|+... T Consensus 84 G~~~~l~f~a~~~aG~~i~~qmGls~a~~~Dp~~~~~~~~l~~~l~~~all~fl~~dgh~~li~~l~~Sf~~~Pv~~~~~ 163 (258) T COG1684 84 GFFAQLLFAALQFAGEIISMQMGLSFATMVDPSSGEQSPLLGQFLNFLALLLFLSLDGHLLLILGLVDSFKALPVGGFFL 163 (258) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHEEECCCCCC T ss_conf 99999999999999999999872242024688788763399999999999999990775999999998732200466667 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 57999999999999999999999999999999999999999853325489999999999999999999999999999999 Q gi|254780511|r 164 FGNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 (248) Q Consensus 164 ~~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f 243 (248) +++..+.+.+..++.|..++++|+|+++.++++|+++|++||++||+|+|++|+|+|+.+|+.++++.+|.+.++++|.+ T Consensus 164 ~~~~~~~l~~~l~~~F~~~l~iAlPii~~lLlvnlalGlv~R~~PQinvf~ig~Pl~i~~Gl~lL~~~lp~i~~~~~~~~ 243 (258) T COG1684 164 NDNAFLLLAKALSAIFLIGLRLALPIIALLLLVNLALGLLNRLAPQLNVFFIGFPLKIAVGLLLLYLILPLIAPVFKHLF 243 (258) T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 74099999999999999999999899999999999999998425420068755319999999999999999999999999 Q ss_pred HHHC Q ss_conf 9504 Q gi|254780511|r 244 LYGF 247 (248) Q Consensus 244 ~~~f 247 (248) ++.+ T Consensus 244 ~~~~ 247 (258) T COG1684 244 SELF 247 (258) T ss_pred HHHH T ss_conf 9999 No 7 >TIGR01401 fliR_like_III type III secretion apparatus protein SpaR/YscT/HrcT; InterPro: IPR006304 These sequences represent members of bacterial type III secretion systems homologous to the flagellar biosynthetic protein FliR (IPR006303 from INTERPRO).; GO: 0006810 transport, 0016021 integral to membrane. Probab=100.00 E-value=0 Score=335.73 Aligned_cols=240 Identities=19% Similarity=0.306 Sum_probs=224.3 Q ss_pred CHHHHHHHHHHHHHHHH----HHHHHHHHCCCCCCH-HHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHH Q ss_conf 36999999999999999----999985527888628-8999999999999995214445600012206899999999999 Q gi|254780511|r 5 PEIIMMSLFLIVCRVGS----CIMLLPGLSMSYIPM-QVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFL 79 (248) Q Consensus 5 ~~~~l~~f~li~~Ri~~----~~~~~P~f~~~~iP~-~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~i 79 (248) -.+++.+..++.+|+.+ ++++.|+|+++.+|. .+|.+++..++..++|...+.....+...+.....++.||+.+ T Consensus 4 ~~~~L~~lal~~~R~~~fylP~f~~LP~l~~~~L~g~~~R~~V~~~l~~~~~~~~~~~~~~l~~~~~~~~~~l~~kE~~i 83 (262) T TIGR01401 4 LQELLITLALAFARILPFYLPLFLLLPFLASGSLPGGLIRNGVIVVLALPILPIVSTALLALDEEKWFSLAGLLLKEVII 83 (262) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH T ss_conf 99999999989998889899999896541035677414899999999999997546788603410289999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCC Q ss_conf 999999999999999999999999875422-2026888875301699999999999999945189999999999975556 Q gi|254780511|r 80 GCVHGLLIRVYTLGLQFTGSVISTAIGLNL-QTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPI 158 (248) Q Consensus 80 Gl~lG~~~~i~f~a~~~AG~~id~q~Gls~-a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~ 158 (248) |+.+|++..++||+++++|++||+|||.+. ++.+||.+|.|+|++|.+++++..++|++.||...+++.++|||++||+ T Consensus 84 GlllG~~l~~PFW~~~a~G~lIDnQRGAt~Ps~~~nPa~G~~tS~~g~lf~~~~~v~Fl~~GG~~~ll~~L~~SY~~wP~ 163 (262) T TIGR01401 84 GLLLGFLLALPFWIFEAVGFLIDNQRGATLPSSILNPATGVDTSPLGVLFNQFLIVIFLTSGGMELLLEALYESYRLWPL 163 (262) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH T ss_conf 99999999989999999999998664230341010666652166899999999999999986999999999999865122 Q ss_pred CCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6556--85799999999999999999999999999999999999999985332548999999999999999999999999 Q gi|254780511|r 159 GQEL--NFGNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIV 236 (248) Q Consensus 159 g~~~--~~~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~ 236 (248) .++. ......+.+.+....+...++.+|+|+++++++.|+++|++||.|||+|+|.+++|+|.+++++++.++.+.+. T Consensus 164 ~~~~P~~~~~~~~~~~~~~~~~~~~~~~la~P~i~~l~L~e~~lgLl~RfApQLNvF~LslpiKS~~a~~~Llly~~~l~ 243 (262) T TIGR01401 164 TAFLPAFSAQGLSFLLAQLDQLMALALLLAAPVIIVLLLAELALGLLSRFAPQLNVFILSLPIKSLLALLILLLYFATLL 243 (262) T ss_pred HHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 53057888415899999999999999999999999999999999999855225337778678999999999999999999 Q ss_pred HHHHHHHH Q ss_conf 99999999 Q gi|254780511|r 237 YQFSHSFL 244 (248) Q Consensus 237 ~~~~~~f~ 244 (248) .+..+... T Consensus 244 ~~~~~~~~ 251 (262) T TIGR01401 244 EEALEELL 251 (262) T ss_pred HHHHHHHH T ss_conf 99999987 No 8 >COG4791 EscT Type III secretory pathway, component EscT [Intracellular trafficking and secretion] Probab=100.00 E-value=0 Score=306.07 Aligned_cols=243 Identities=18% Similarity=0.344 Sum_probs=226.3 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 86836999999999999999999985527888628899999999999999521444560001220689999999999999 Q gi|254780511|r 2 TISPEIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGC 81 (248) Q Consensus 2 ~~~~~~~l~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl 81 (248) .+..+.++.++.+.++|..+++.+.|+++++-.+..+|.+++..++..++|.+.+..+..+ +...+..+..||+.+|+ T Consensus 3 ~~~~~~~l~~~~L~~~R~l~if~iLP~l~~~l~~~liRngi~~s~al~v~p~v~~~~~~~~--~~~~~~~L~~kEi~iG~ 80 (259) T COG4791 3 MHEIQTLLVALALLLARPLGIFSILPVLNAGLLSGLIRNGIAISLALPVLPHVLQALQILL--SAFQLAGLLLKEILIGA 80 (259) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC--CHHHHHHHHHHHHHHHH T ss_conf 0017999999999999998999989987553432244548999999998462505653346--08999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCC Q ss_conf 99999999999999999999998754222026888875301699999999999999945189999999999975556655 Q gi|254780511|r 82 VHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIGQE 161 (248) Q Consensus 82 ~lG~~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~g~~ 161 (248) ++||+..++|||.|.||+++|+|+|.++.+.+||..+.|++++|.+++++..++|++.|||+.+++.+.+||+.||+++. T Consensus 81 ~iGf~~s~pFWa~~aAG~~IDnqrG~t~~s~~np~~~~~tS~~G~ll~~f~~viF~~~GG~~~ll~~L~~Sy~~~Pl~~~ 160 (259) T COG4791 81 LIGFVASIPFWAAQAAGFIIDNQRGATILSIFNPLLGAETSPFGVLLTQFAIVIFFASGGILTLLGVLYESYESWPLGAF 160 (259) T ss_pred HHHHHHHHHHHHHHHCCCEECCCCCCHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHH T ss_conf 99999951999997355010134320444117974333246279999999999999818959999999888635730300 Q ss_pred CCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6857-999999999999999999999999999999999999999853325489999999999999999999999999999 Q gi|254780511|r 162 LNFG-NIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFS 240 (248) Q Consensus 162 ~~~~-~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~ 240 (248) .+.. ..+..+.+....++..++++|+|++.++++.|..+|++||.|||+|+|.+++|+|..++..++..+++.+.++++ T Consensus 161 ~p~~~~~~~fll~~~~~~l~~al~la~P~~iaMlLad~~lglL~R~Apqlnvf~LslpiKs~vall~l~l~~~~l~~~~~ 240 (259) T COG4791 161 YPFELSQLVFLLNEWDQILLLALVLAAPVIIAMLLADLFLGLLNRFAPQLNVFALSLPIKSAVALLLLLLYLGYLLPHFS 240 (259) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 53024689999999999999999998689999999999999999714263025645538888999999999999998899 Q ss_pred HHHHHH Q ss_conf 999950 Q gi|254780511|r 241 HSFLYG 246 (248) Q Consensus 241 ~~f~~~ 246 (248) ..-... T Consensus 241 ~~~~~~ 246 (259) T COG4791 241 LALLLT 246 (259) T ss_pred HHHHHH T ss_conf 999986 No 9 >PRK05700 fliQ flagellar biosynthesis protein FliQ; Validated Probab=95.94 E-value=0.098 Score=28.14 Aligned_cols=79 Identities=15% Similarity=0.160 Sum_probs=70.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999999999999999999999999999999998533254899999999999999999999999999999999504 Q gi|254780511|r 168 FSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYGF 247 (248) Q Consensus 168 ~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~~f 247 (248) .+.+++...+.+..++.+++|+++..+++-+..++. .++-|+|=..++|--|+..-...+.+..|-+.....+.+.+-| T Consensus 3 ~~~~i~l~~~al~~~l~ls~P~L~~alvVGl~Isi~-QA~TqIqEqTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~if 81 (89) T PRK05700 3 PESVMDLFREAMKVALMLAAPLLLVALIVGLVVSIF-QAATQINEQTLSFIPKILAVLLTLIIAGPWMLNTLLDYTRTLF 81 (89) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 889999999999999999888999999999999999-9999999989987999999999999987899999999999999 No 10 >pfam01313 Bac_export_3 Bacterial export proteins, family 3. This family includes the following members; FliQ, MopD, HrcS, Hrp, YopS and SpaQ All of these members export proteins, that do not possess signal peptides, through the membrane. Although the proteins that these exporters move may be different, the exporters are thought to function in similar ways. Probab=95.84 E-value=0.11 Score=27.88 Aligned_cols=75 Identities=17% Similarity=0.162 Sum_probs=67.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999999999985332548999999999999999999999999999999995 Q gi|254780511|r 170 SFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLY 245 (248) Q Consensus 170 ~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~ 245 (248) .+++...+.+...+.+++|.+++-+++-+..+++ .++-|+|=..++|--|+..-+..+.+..|-+.+...+...+ T Consensus 2 ~~i~l~~~al~~~l~~s~P~l~~alvVGlvIsi~-QA~TqIqEqTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~ 76 (76) T pfam01313 2 DVIDLGRQALWLVLLLSAPLLLVALVVGLVVSLF-QAATQIQEQTLSFVPKLLAVLLTLLLAGPWMLQTLLDFTRE 76 (76) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 4899999999999999988999999999999999-99999989689869999999999999878999999987529 No 11 >PRK09617 type III secretion system protein; Reviewed Probab=95.64 E-value=0.06 Score=29.39 Aligned_cols=76 Identities=20% Similarity=0.161 Sum_probs=48.7 Q ss_pred HHHHHH-HHHHCCCCCCCCC------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999-9975556655685------799999999999999999999999999999999999999985332548999999 Q gi|254780511|r 146 FYALVK-SYGTIPIGQELNF------GNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTP 218 (248) Q Consensus 146 i~~l~~-Sf~~iP~g~~~~~------~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~p 218 (248) ++.+.+ +-+.||....... --....++......|.+|+.+=.|+++.=+++-=. +++--+=.+..-.++.| T Consensus 204 l~~F~~~a~~~~p~~~~~~~~~~~l~vLiPAFvlSELktAFqIGFlIYLPFlVIDLVVAsV--LmAMGMMMlpP~~ISLP 281 (305) T PRK09617 204 IQSFYKISQKTFPPEIRDALTPSDFVIIIPAFIMGQIKNAFEIGVLIYLPFFVIDLVTANV--LVAMQMMMLSPLSISLP 281 (305) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHCCCCCCHHHHHH T ss_conf 9999998454488752235677873110579999999999999999999999999999999--99800210580465445 Q ss_pred HHHHH Q ss_conf 99999 Q gi|254780511|r 219 YLIGL 223 (248) Q Consensus 219 iki~i 223 (248) .|+++ T Consensus 282 fKLLL 286 (305) T PRK09617 282 LKLLL 286 (305) T ss_pred HHHHH T ss_conf 77778 No 12 >PRK12781 fliQ flagellar biosynthesis protein FliQ; Reviewed Probab=95.55 E-value=0.14 Score=27.21 Aligned_cols=78 Identities=13% Similarity=0.105 Sum_probs=68.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 9999999999999999999999999999999999998533254899999999999999999999999999999999504 Q gi|254780511|r 169 SSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYGF 247 (248) Q Consensus 169 ~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~~f 247 (248) +..++...+..-..+.+++|++++-+++-+..++. .++-|+|=..++|--|+..-++.+.+..|.+.+...+..++-| T Consensus 4 ~~vi~l~r~al~~~l~~s~PiL~~aL~VGl~Isif-QA~TQIQE~TLsFVPKi~av~~~l~l~g~wm~~~l~~ft~~lf 81 (88) T PRK12781 4 RDALELVRAAIWTIIVASGPAVGAAMLVGIAIALL-QALTQIQEVTLTFVPKIVVILIVMAVTGSFVGAQIYAFTEMVY 81 (88) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 89999999999999999774999999999999999-9999999999985998999999999987799999999999999 No 13 >PRK12797 type III secretion system protein; Provisional Probab=95.45 E-value=0.15 Score=27.00 Aligned_cols=55 Identities=25% Similarity=0.248 Sum_probs=42.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999999999999999999998533254899999999999 Q gi|254780511|r 167 IFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGL 223 (248) Q Consensus 167 ~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~i 223 (248) ....++......|.+|+.+=.|+++.=+++--. +++--+-.++.-.++.|.|+++ T Consensus 142 iPAF~iSELk~AF~IGFliyLPFlvIDlVVasi--LmamGMmMlpP~~ISlPfKllL 196 (215) T PRK12797 142 IPAFTLSELTRAFEIGFLLYLPFIVIDLVISNI--LLAMGMMMVSPTTISLPFKLLL 196 (215) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHCCCHHCCHHHHHHHHHHHH T ss_conf 079999999999999999999999999999999--9982010058268757788889 No 14 >PRK06010 fliQ flagellar biosynthesis protein FliQ; Reviewed Probab=95.35 E-value=0.16 Score=26.80 Aligned_cols=77 Identities=18% Similarity=0.154 Sum_probs=68.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999999999999999999853325489999999999999999999999999999999950 Q gi|254780511|r 169 SSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYG 246 (248) Q Consensus 169 ~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~~ 246 (248) +..++...+.....+.+++|.+++-+++-+..++. .++-|+|=..++|--|+..-...+.+..|-+.+...+...+- T Consensus 4 ~~vi~l~~~al~~~l~ls~P~L~valvVGl~Islf-QA~TQIqEqTLsFvPKliav~~~l~~~~pwm~~~l~~ft~~i 80 (88) T PRK06010 4 ADALDVVRDAIWTVLIASGPAVLAAMVVGVAIALF-QALTQIQEMTLTFVPKIVAIFVTLLLTLPFMGAQISAFTLRI 80 (88) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 89999999999999999876999999999999999-999999998998799999999999998889999999999999 No 15 >PRK12796 spaP surface presentation of antigens protein SpaP; Provisional Probab=95.02 E-value=0.16 Score=26.87 Aligned_cols=72 Identities=17% Similarity=0.159 Sum_probs=50.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999999999999853325489999999999999999999999999999999 Q gi|254780511|r 168 FSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 (248) Q Consensus 168 ~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f 243 (248) ...++......|.+|+.+=.|+++.=+++--. +++--+-.+..-.++.|.|+++ .++.=.+..+..-.-+.| T Consensus 143 PAF~iSEL~~AF~IGfllylPFlvIDlvVAsv--LmamGMmMlpP~~ISLPfKlll--FVlvDGW~ll~~~Lv~Sy 214 (219) T PRK12796 143 PAYALSEIKSAFKIGFYLYLPFVVVDLVVSSV--LLALGMMMMSPVTISVPIKLIL--FVAMDGWTLLSKGLILQY 214 (219) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHCCCCCCCHHHHHHHHHHHH--HHHCCHHHHHHHHHHHHH T ss_conf 89999999999999999999999999999999--9982120058058766678889--863161999999999999 No 16 >COG1987 FliQ Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion] Probab=94.90 E-value=0.22 Score=26.01 Aligned_cols=78 Identities=22% Similarity=0.183 Sum_probs=69.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 9999999999999999999999999999999999998533254899999999999999999999999999999999504 Q gi|254780511|r 169 SSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYGF 247 (248) Q Consensus 169 ~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~~f 247 (248) +.+.+...+.+...+.+++|.+.+-+++-+..++. .++-|+|=..++|-=|+..-+..+.+.-|-+..+..|.+.+-| T Consensus 4 ~~~l~i~~~ai~~~L~l~~P~ll~alvvGLvIsif-QA~TQIqEqTLsFiPKIiai~~~l~~~gpWm~~~l~dft~~if 81 (89) T COG1987 4 EDVLDIGQEAIWLVLMLSAPVLLVALVVGLVISIF-QAATQIQEQTLSFIPKIIAVFLVLILLGPWMLNQLLDFTVTIF 81 (89) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 89999999999999999998999999999999999-9999999999985998999999999975899999999999999 No 17 >PRK12783 fliP flagellar biosynthesis protein FliP; Reviewed Probab=94.48 E-value=0.28 Score=25.39 Aligned_cols=55 Identities=20% Similarity=0.310 Sum_probs=41.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999999999999999999998533254899999999999 Q gi|254780511|r 167 IFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGL 223 (248) Q Consensus 167 ~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~i 223 (248) ....++......|.+|+.+=.|+++.=+++--. +++--+=.++.-.++.|.|+++ T Consensus 179 iPAF~iSELk~AF~IGFliyLPFlvIDLVVasi--LmaMGMmMlpP~~ISLPfKLlL 233 (252) T PRK12783 179 IPAFMISELRRGFEIGFLIVLPFLVIDMIVATL--VMSMGMMMLPPTVISLPFKVLF 233 (252) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHCCCHHCCHHHHHHHHHHHH T ss_conf 489999999999999999999999999999999--9981010048167655678889 No 18 >PRK05699 fliP flagellar biosynthesis protein FliP; Reviewed Probab=94.46 E-value=0.29 Score=25.37 Aligned_cols=66 Identities=24% Similarity=0.347 Sum_probs=44.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999999999999985332548999999999999999999999999 Q gi|254780511|r 167 IFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIV 236 (248) Q Consensus 167 ~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~ 236 (248) ....++......|.+|+.+-.|+++.=+++-=. +++--+=.+....++.|.|+++ .++.=.+..+. T Consensus 171 iPAF~~SELk~AF~IGFliylPFlvIDlVVasi--LmamGMmMlpP~~ISlPfKllL--FVlvDGW~ll~ 236 (245) T PRK05699 171 VPAFVLSELKTAFQIGFLIFLPFLIIDLVVASV--LMSMGMMMLPPVIISLPFKLLL--FVLVDGWNLLV 236 (245) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHCHHCCHHHHHHHHHHHH--HHHCCHHHHHH T ss_conf 657789999999999999999999999999999--9982021148167645678889--85116199999 No 19 >PRK12430 type III secretion system protein; Provisional Probab=94.45 E-value=0.29 Score=25.36 Aligned_cols=69 Identities=23% Similarity=0.324 Sum_probs=46.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999999999999985332548999999999999999999999999999 Q gi|254780511|r 167 IFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQF 239 (248) Q Consensus 167 ~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~ 239 (248) ....++......|.+|+.+-.|+++.=+++-=. +++--+=.++.-.++.|.|+++ .++.=.+..+..-. T Consensus 305 iPAFviSELktAFqIGFLIyLPFLVIDLVVASI--LMAMGMMMlpP~~ISLPFKLLL--FVlVDGW~Lli~sL 373 (379) T PRK12430 305 LPSFITSELKTAFQIGFTIFIPFLIIDLVVASV--LMALGMMMVPPSTISLPFKLML--FVLVDGWQLLITSL 373 (379) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHCCCCCCCHHHHHHHHHHHH--HHEECCHHHHHHHH T ss_conf 978999999999999999999999999999999--9975053358046555367666--41337299999999 No 20 >TIGR01402 fliQ flagellar biosynthetic protein FliQ; InterPro: IPR006305 These sequences represent FliQ, a protein involved in biosynthesis of bacterial flagella. A related family of proteins, excluded from this model, participate in bacterial type III protein secretion systems. ; GO: 0016021 integral to membrane, 0019861 flagellum. Probab=93.70 E-value=0.41 Score=24.46 Aligned_cols=79 Identities=19% Similarity=0.124 Sum_probs=72.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999999999999999999999999999999998533254899999999999999999999999999999999504 Q gi|254780511|r 168 FSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYGF 247 (248) Q Consensus 168 ~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~~f 247 (248) .+.+++...+.....+.+++|++.+-+++=+..++. -++-|+|=..++|-=|+.+-++.+.+..|-+.+...|.+.+=| T Consensus 3 ~~~~l~l~~~a~~~~L~l~aP~L~~aL~VGLvIsIf-QA~TqIqE~TLsF~PKii~~ll~l~l~gpWM~~~l~dF~~~~f 81 (88) T TIGR01402 3 EETVLDLGREALWLTLLLSAPVLLVALVVGLVISIF-QAATQIQEQTLSFIPKIIAVLLALILLGPWMLQKLLDFTREIF 81 (88) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999989999999999999999-9987885768866989999999999985899998999999999 No 21 >COG1338 FliP Flagellar biosynthesis pathway, component FliP [Cell motility and secretion / Intracellular trafficking and secretion] Probab=88.24 E-value=1.5 Score=21.11 Aligned_cols=54 Identities=24% Similarity=0.307 Sum_probs=33.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999999999999999999999999998533254899999999999 Q gi|254780511|r 168 FSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGL 223 (248) Q Consensus 168 ~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~i 223 (248) ...++......|.+|+.+-.|+++.=+++-=.+= +--+==++.-+++.|.|+++ T Consensus 176 PAFi~sELk~aFqIGflIylPFlVIDLVVAsvLM--aMGMMMlpP~~ISLPFKill 229 (248) T COG1338 176 PAFMISELKTAFQIGFLIYLPFLVIDLVVASVLM--AMGMMMLPPVMISLPFKLLL 229 (248) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHCHHCCHHHHCCCHHHHH T ss_conf 8999999999998889999899999999999999--81122059145213355540 No 22 >TIGR01103 fliP flagellar biosynthetic protein FliP; InterPro: IPR005837 This model describes bacterial flagellar biogenesis protein fliP, which is one of the genes within the motility locus on the bacterial chromosome that is involved in structure and function of bacterial flagellum. It was demonstrated that mutants in fliP locus were non-flagellated and non-motile, while revertants were flagellated and motile. In Escherichia coli and related proteins the fliP protein probably plays a role in the transport of flagellar proteins. FliP is a protein of about 30 Kd which contains three or four transmembrane regions. Proteins evolutionary related to fliP have been found in a wide range of bacteria (mopC, hrcR, hrpW, spaP, yscR, etc.) and are involved in a variety of signal-peptide independent secretion systems. ; GO: 0009306 protein secretion, 0016020 membrane. Probab=84.40 E-value=2.4 Score=19.90 Aligned_cols=71 Identities=23% Similarity=0.284 Sum_probs=48.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHH Q ss_conf 99999999999999999999999999999999987542220268888753016999999999999999451899999999 Q gi|254780511|r 71 KLVMVELFLGCVHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALV 150 (248) Q Consensus 71 ~l~l~E~~iGl~lG~~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~ 150 (248) .-++.|+=.++=+||..-++|-.++..=.=+=..+|--| =|...-+ =| +=+++|+..||..++.+.++ T Consensus 132 AF~~sELk~AF~IGfliflPFLiiDlvVASvLMaMGMmM----LPP~~IS-LP-------FKl~LFVLVDGW~Ll~~sL~ 199 (202) T TIGR01103 132 AFILSELKTAFQIGFLIFLPFLIIDLVVASVLMAMGMMM----LPPVSIS-LP-------FKLLLFVLVDGWNLLVGSLV 199 (202) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC----CCCCHHH-HH-------HHHHHHHHHHHHHHHHHHHH T ss_conf 999999898998859999999999999999997422404----5731033-00-------68888888877899986541 Q ss_pred HHH Q ss_conf 999 Q gi|254780511|r 151 KSY 153 (248) Q Consensus 151 ~Sf 153 (248) ||| T Consensus 200 ~SF 202 (202) T TIGR01103 200 QSF 202 (202) T ss_pred CCC T ss_conf 259 No 23 >COG4790 EscR Type III secretory pathway, component EscR [Intracellular trafficking and secretion] Probab=78.91 E-value=3.8 Score=18.70 Aligned_cols=52 Identities=25% Similarity=0.345 Sum_probs=39.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999-999999998533254899999999999 Q gi|254780511|r 169 SSFVNMLQTTFMIMLRLSSPFLFFYIVF-NISIGLLNKLVPQIPIYFISTPYLIGL 223 (248) Q Consensus 169 ~~~~~~~~~~f~~al~lA~P~i~~lll~-~i~lgil~R~aPQlnvf~vg~piki~i 223 (248) ...+....+.|.+|+.+=.|+++.-+++ |+-++. -+-++....++.|.|.++ T Consensus 142 AftlseL~~AF~IGfllYLPFivIDLiISniLlAm---GMmMvSP~tIS~PfKLll 194 (214) T COG4790 142 AFTLSELTSAFKIGFLLYLPFIVIDLIISNILLAL---GMMMVSPVTISLPFKLLL 194 (214) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHCCCCEECCCHHHHH T ss_conf 87799999999999999979999999999999996---625408500141379899 No 24 >pfam05799 COX5C Cytochrome c oxidase subunit Vc (COX5C). This family consists of plant cytochrome c oxidase subunit 5c proteins. Probab=53.42 E-value=11 Score=16.07 Aligned_cols=19 Identities=26% Similarity=0.293 Sum_probs=14.9 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999 Q gi|254780511|r 73 VMVELFLGCVHGLLIRVYT 91 (248) Q Consensus 73 ~l~E~~iGl~lG~~~~i~f 91 (248) ++||+++|+.+|+...-.+ T Consensus 15 vvKEi~~G~~lgl~aGglW 33 (62) T pfam05799 15 VVKEIVIGLTLGLAAGGLW 33 (62) T ss_pred HHHHHHHHHHHHHHHCHHH T ss_conf 8999999999998614156 No 25 >COG5110 RPN1 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones] Probab=41.00 E-value=9.8 Score=16.26 Aligned_cols=20 Identities=20% Similarity=0.479 Sum_probs=17.2 Q ss_pred HHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999985332548999 Q gi|254780511|r 196 FNISIGLLNKLVPQIPIYFI 215 (248) Q Consensus 196 ~~i~lgil~R~aPQlnvf~v 215 (248) +-+++|+++-+-||||+|-. T Consensus 661 ~PLa~gils~SnPQm~vfDt 680 (881) T COG5110 661 LPLAYGILSPSNPQMNVFDT 680 (881) T ss_pred HHHHHHCCCCCCCCHHHHHH T ss_conf 77887303678962279998 No 26 >TIGR01102 yscR type III secretion apparatus protein, YscR/HrcR family; InterPro: IPR005773 This model identifies the generic virulence translocation proteins in bacteria. It derives its name:'Yop' from Yersinia enterocolitica species, where this virulence protein was identified. In bacterial pathogenesis, Yop effector proteins are translocated into the eukaryotic cells.; GO: 0015031 protein transport, 0016021 integral to membrane. Probab=31.65 E-value=29 Score=13.47 Aligned_cols=85 Identities=19% Similarity=0.188 Sum_probs=58.2 Q ss_pred HHHHCCHHHHHHHHHHHHH-HCC-------CCC--CCCCHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH Q ss_conf 9994518999999999997-555-------665--568579----99999999999999999999999999999-99999 Q gi|254780511|r 136 LWVIDFHHQVFYALVKSYG-TIP-------IGQ--ELNFGN----IFSSFVNMLQTTFMIMLRLSSPFLFFYIV-FNISI 200 (248) Q Consensus 136 F~~~ggh~~li~~l~~Sf~-~iP-------~g~--~~~~~~----~~~~~~~~~~~~f~~al~lA~P~i~~lll-~~i~l 200 (248) |+.-+-...-.+-+.+|-+ .|| -.. ....++ .....+....+.|++|+.+=.|+++.=++ .|+-+ T Consensus 96 fL~k~t~~~~~~FF~~~~~k~wPGeeteav~~~~~~~~~D~L~iL~PAF~lSEL~~AF~IGFLlYLPFIVIDLivSNiLL 175 (209) T TIGR01102 96 FLKKNTDEDEVAFFERSTQKLWPGEETEAVKEMADRLKKDSLLILLPAFTLSELTAAFKIGFLLYLPFIVIDLIVSNILL 175 (209) T ss_pred HHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 98861738999999998874148740244478996228884545766899999999888779999999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99998533254899999999999 Q gi|254780511|r 201 GLLNKLVPQIPIYFISTPYLIGL 223 (248) Q Consensus 201 gil~R~aPQlnvf~vg~piki~i 223 (248) +. =+-|+....++.|.|.++ T Consensus 176 Al---GM~MVSP~tiS~PfKLLL 195 (209) T TIGR01102 176 AL---GMMMVSPMTISLPFKLLL 195 (209) T ss_pred HH---HCCCCCHHHHHHHHHHHH T ss_conf 82---021201579999999999 No 27 >COG4794 EscS Type III secretory pathway, component EscS [Intracellular trafficking and secretion] Probab=22.74 E-value=42 Score=12.50 Aligned_cols=74 Identities=16% Similarity=0.102 Sum_probs=60.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999999999999999999853325489999999999999999999999999999999 Q gi|254780511|r 169 SSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 (248) Q Consensus 169 ~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f 243 (248) +.+++..++.+-+-+-+++|.+++--.+-+..++. .++-|++=-.++|-+|..+-...+.++-|-......+.= T Consensus 4 ~~i~~~~~qaL~liLilSlPpvivAsvvGllVslv-QA~TQiQdQTl~f~iKLl~V~~tl~lt~~Wlg~~ll~fa 77 (89) T COG4794 4 DDIVFLTSQALWLILILSLPPVIVASVVGLLVSLV-QALTQIQDQTLPFGIKLLAVSATLFLTAGWLGATLLNFA 77 (89) T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 79999999999999999611999999999999999-999999986788999999999999997077588999999 No 28 >KOG0508 consensus Probab=21.19 E-value=45 Score=12.31 Aligned_cols=61 Identities=18% Similarity=0.112 Sum_probs=46.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCC Q ss_conf 99999999999999998754222026888875301699999999999999945189999999999975556 Q gi|254780511|r 88 RVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPI 158 (248) Q Consensus 88 ~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~ 158 (248) ..+.|+...||.+==.+.=...+...|-++.++++|+-.- ..|||..+.+-+.++=.-..+ T Consensus 85 appLWaAsaAGHl~vVk~L~~~ga~VN~tT~TNStPLraA----------CfDG~leivKyLvE~gad~~I 145 (615) T KOG0508 85 APPLWAASAAGHLEVVKLLLRRGASVNDTTRTNSTPLRAA----------CFDGHLEIVKYLVEHGADPEI 145 (615) T ss_pred CCHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHH----------HHCCHHHHHHHHHHCCCCCCC T ss_conf 7355677505809999999983475455445577308888----------834606999999972899765 Done!