Query gi|254780528|ref|YP_003064941.1| chemotaxis protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 396 No_of_seqs 40 out of 42 Neff 4.5 Searched_HMMs 39220 Date Sun May 29 22:50:44 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780528.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PRK12798 chemotaxis protein; R 100.0 0 0 870.7 42.6 367 29-396 31-415 (416) 2 pfam07219 HemY_N HemY protein 81.6 2.1 5.3E-05 21.6 3.7 65 92-157 67-131 (134) 3 TIGR02795 tol_pal_ybgF tol-pal 76.8 5.3 0.00013 19.2 9.5 103 184-287 3-109 (119) 4 COG1729 Uncharacterized protei 73.7 6.4 0.00016 18.7 9.6 97 191-288 150-249 (262) 5 PHA00368 internal virion prote 72.5 4.1 0.00011 19.8 3.1 17 30-46 23-39 (1316) 6 PRK10803 hypothetical protein; 63.7 10 0.00026 17.4 10.6 104 182-286 141-248 (262) 7 PRK10747 putative protoheme IX 57.8 13 0.00034 16.8 10.5 230 89-342 94-341 (398) 8 pfam10602 RPN7 26S proteasome 57.5 13 0.00034 16.8 7.4 86 249-334 68-159 (174) 9 TIGR03345 VI_ClpV1 type VI sec 52.9 11 0.00029 17.2 2.4 49 304-352 529-592 (852) 10 TIGR03302 OM_YfiO outer membra 46.2 20 0.00052 15.7 16.8 186 110-318 33-228 (235) 11 TIGR03346 chaperone_ClpB ATP-d 44.8 21 0.00055 15.5 3.5 49 304-352 528-591 (852) 12 pfam02530 Porin_2 Porin subfam 44.4 9.6 0.00025 17.6 0.9 36 1-37 1-38 (378) 13 PRK10716 long-chain fatty acid 42.0 20 0.00051 15.7 2.3 25 1-25 3-27 (437) 14 pfam11768 DUF3312 Protein of u 41.1 24 0.00062 15.2 4.2 152 83-275 381-543 (544) 15 PRK10865 protein disaggregatio 38.8 27 0.00068 15.0 3.1 49 304-352 531-594 (857) 16 PRK00430 fis DNA-binding prote 33.0 33 0.00084 14.4 2.7 47 90-141 42-88 (98) 17 KOG3928 consensus 29.7 38 0.00096 14.1 2.1 187 137-340 137-357 (461) 18 COG3573 Predicted oxidoreducta 28.8 26 0.00065 15.1 1.1 152 91-249 227-409 (552) 19 TIGR01163 rpe ribulose-phospha 28.4 39 0.001 13.9 2.2 26 368-393 137-162 (216) 20 pfam10236 DAP3 Mitochondrial r 27.3 27 0.00068 15.0 0.9 19 320-338 178-196 (274) 21 PRK10866 outer membrane protei 25.4 45 0.0011 13.6 10.7 116 111-226 33-168 (243) 22 pfam08012 DUF1702 Protein of u 25.2 45 0.0012 13.6 6.2 139 192-346 141-296 (318) 23 TIGR01818 ntrC nitrogen regula 24.2 47 0.0012 13.5 1.8 59 73-134 399-458 (471) 24 PRK01905 DNA-binding protein F 24.0 48 0.0012 13.4 2.8 48 89-141 20-67 (77) 25 TIGR00207 fliG flagellar motor 22.3 51 0.0013 13.2 2.3 167 114-305 33-216 (346) 26 PRK11447 cellulose synthase su 21.4 54 0.0014 13.1 22.8 79 255-333 463-570 (1158) 27 pfam10037 MRP-S27 Mitochondria 21.3 47 0.0012 13.5 1.3 25 77-101 99-123 (417) 28 pfam07624 PSD2 Protein of unkn 20.8 55 0.0014 13.1 2.3 34 93-127 7-40 (76) No 1 >PRK12798 chemotaxis protein; Reviewed Probab=100.00 E-value=0 Score=870.68 Aligned_cols=367 Identities=26% Similarity=0.346 Sum_probs=346.3 Q ss_pred CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHHHHHCCCCHHHHHHHHHCCCCC Q ss_conf 77668999999999999965988999999999999989986169676056233799999897489889999998618898 Q gi|254780528|r 29 TIVPYQCVRSLQRALDEAMRGDISLQKKIPDIVKETGVQLRATHMDVFVDNRNIDAVWIYTIISQDLSVVDDLIAKDTKG 108 (396) Q Consensus 29 ~l~Py~lvRSLq~lQD~Va~Gd~sA~~~q~~Ll~~i~~~l~~a~~~vw~d~rNv~Aa~iY~lSGG~P~~lr~l~~~d~~~ 108 (396) ..+|||||||||++||+||+|||+|++|||+||++|+++|++++|+||+||||+||+|||+||||||+|||+|+++|+.| T Consensus 31 ~~~Py~lvRSLQ~lQD~ia~Gd~~A~~~qr~LL~~i~~~l~~a~~~vw~dprNv~Aaviy~lsGG~P~~l~~l~~~~~~~ 110 (416) T PRK12798 31 AREPYKLVRSLQLLQDRVAAGDHSAHEMQRFLLGTIDERLRAADPEVWDDPRNVRAALIYLLSGGNPATLRKLLARDKLG 110 (416) T ss_pred CCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCHHHHCCCCCHHHHHHHHHCCCCHHHHHHHHHCCCCC T ss_conf 33819999999999999974888899999999999869987189877278641248887785189869999999726787 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHCCCCHHCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 43269999999972698799999831267100361000138887666643219899999999999967852999998776 Q gi|254780528|r 109 YFDIAIVYALKKYFSGQLEESSKELSKIKDKDNTRGIVPYLHLLIGRAMMPFSSQQAVHFFDYVRLTSPGTFLEEIALRN 188 (396) Q Consensus 109 ~~d~~L~~g~laY~~Gr~~~a~~~L~~i~~~~lp~~lg~~laLv~a~l~~~~dp~~Al~llD~aRLlaPGTLvEEAALRR 188 (396) ++|++|++|++||+|||++++++.|++|+|+++|++|||||+|++|++|+++||++|+++||||||++|||||||||||| T Consensus 111 ~~d~~l~~g~laY~~Gr~~ea~~~L~~i~~~~lp~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRL~aPGTLvEEAALRR 190 (416) T PRK12798 111 EVDQRLADGALAYLSGRGREARKLLSGVDPETLPAELGAYLALVQGNLMAATDPATALDRLDQARLLAPGTLVEEAALRR 190 (416) T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHH T ss_conf 03299999999997698799998851378010472245779999888751368899999988999818815899999987 Q ss_pred HHHHHHC-CCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHC Q ss_conf 7887522-525899999999999720484656699999998520013577878999998578102579999999999853 Q gi|254780528|r 189 LLEITQN-EVGERAFGYIRAYVTQFHHSIYKDHFISVLLRFFLHGQLKLPDEDIVFTISFFSLEEQRAIYLKIAQNSVIS 267 (396) Q Consensus 189 si~la~~-g~~~k~~~~a~~Y~rRf~~S~YA~~F~~~f~~~~v~~~~~~~~~~l~~ils~~d~~~q~~lYL~IAR~Ali~ 267 (396) ||+|+.. |+++||+.|++||+|||+||||+||||++|+.+++++++++++++|+++|++||+++|+++||+|||+|+|+ T Consensus 191 ~i~la~~~g~~~r~~~~a~~Y~rRf~~S~Ya~~F~~~F~~~vv~~~~~~~~~~l~~ils~~d~~~qr~lYL~IAR~A~i~ 270 (416) T PRK12798 191 SLFIAAQLGDADKFEALSRNYLRRFRHSPYAGNFAQRFVLAVVRLSDRIRDERLVEILSEMDPESQRELYLRIARAALID 270 (416) T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHC T ss_conf 76999863767899999999999850680067899999999987403442879999998449687899999999999870 Q ss_pred CCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHCCHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 96479999999999631578886556899999997501789899999984399788897539999999999998530456 Q gi|254780528|r 268 GKRKIGFLAIKQLKRIIDRLDYKDLATIQLYENILNIPFVDIMSLQRSTCNIPYYSLMEQDRYLKKASEIIMSEIGKSLI 347 (396) Q Consensus 268 G~~~lA~~As~rA~~L~~~~~~~~~~ra~LY~aaa~i~s~d~~~a~~~L~~Id~~~L~~~Dr~L~~AA~~ia~~I~r~~~ 347 (396) ||+++++||++||++|+++ ++.+.+|++||+++++|+|+++++++++|++||+++|+++||+|++||++||++|+|++. T Consensus 271 Gk~~~a~~As~rA~~La~~-~~~~~~~A~LY~~aa~v~s~~~~~al~~L~~I~~~~L~~~Dr~Ll~AA~~iA~~V~r~p~ 349 (416) T PRK12798 271 GKTELARFAAERALKLAAE-DSAEATRARLYRAAALVASDDADSALEELSQIDRAKLSERDRALLDAALSVARQVRRPPD 349 (416) T ss_pred CHHHHHHHHHHHHHHHCCC-CCCCHHHHHHHHHHHCCCCCCHHHHHHHHHCCCHHHCCCCCHHHHHHHHHHHHHHCCCCC T ss_conf 4289999999999974567-887507999999987379876999999986699654790239999999999997507999 Q ss_pred CCCCCCCC-----------------CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 76744466-----------------22445444534566543057678978999999999864149 Q gi|254780528|r 348 DIDFEHIQ-----------------KDLLLDKKEPRHTNVSMGIESFIKKNRSQIESIDVLLAEAR 396 (396) Q Consensus 348 ~a~~~~~q-----------------~~~~~~~~~~~~~~~~~~~~~~v~~ar~~l~eiD~LL~~~r 396 (396) +.+.+..+ ++..+...++...+..++.++||+++|+||+|||.||++.+ T Consensus 350 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fi~~arskL~eID~lL~~~~ 415 (416) T PRK12798 350 ASSLAQASAPSTSRPRPTVADAAALEAQQGVAFTSARTSSDPDLQAFIARARSKLDEIDALLGKTG 415 (416) T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 986222457566787556676200112345555433688770199999973877999999986536 No 2 >pfam07219 HemY_N HemY protein N-terminus. This family represents the N-terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. This is a membrane protein involved in a late step of protoheme IX synthesis. Probab=81.56 E-value=2.1 Score=21.62 Aligned_cols=65 Identities=9% Similarity=-0.040 Sum_probs=47.4 Q ss_pred CCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHCCCCHHCCCCCCCHHHHHHHHHHH Q ss_conf 898899999986188984326999999997269879999983126710036100013888766664 Q gi|254780528|r 92 SQDLSVVDDLIAKDTKGYFDIAIVYALKKYFSGQLEESSKELSKIKDKDNTRGIVPYLHLLIGRAM 157 (396) Q Consensus 92 GG~P~~lr~l~~~d~~~~~d~~L~~g~laY~~Gr~~~a~~~L~~i~~~~lp~~lg~~laLv~a~l~ 157 (396) -+-|..++.-..+-......+.+.+|++++.+|+-.+|++.+.+-.. ..+...-.|+.=++++.. T Consensus 67 ~~~p~~~~~~~~~rr~~k~~~al~~Gl~a~~~Gd~~~A~k~~~ka~k-~~~~p~l~~LlaA~aA~~ 131 (134) T pfam07219 67 IRLPRRVRRYFRRRKRRRGRKALSEGLLALAEGDWALAERLARKAAE-LEDQPPLALLLAARAAQA 131 (134) T ss_pred HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-CCCCCHHHHHHHHHHHHH T ss_conf 73658999999999999999999999999978999999999999876-379935799999999988 No 3 >TIGR02795 tol_pal_ybgF tol-pal system protein YbgF; InterPro: IPR014162 Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, and a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.. Probab=76.80 E-value=5.3 Score=19.17 Aligned_cols=103 Identities=10% Similarity=0.133 Sum_probs=76.9 Q ss_pred HHHHHHHHHH-HCCCHHHHHHHHHHHHHHHCCCCCHHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHH-HHHHH Q ss_conf 9877678875-225258999999999997204846566--9999999852001357787899999857810257-99999 Q gi|254780528|r 184 IALRNLLEIT-QNEVGERAFGYIRAYVTQFHHSIYKDH--FISVLLRFFLHGQLKLPDEDIVFTISFFSLEEQR-AIYLK 259 (396) Q Consensus 184 AALRRsi~la-~~g~~~k~~~~a~~Y~rRf~~S~YA~~--F~~~f~~~~v~~~~~~~~~~l~~ils~~d~~~q~-~lYL~ 259 (396) .+.=..+... ..|+-+......++++..|+.|+|+.| ||-= -+.+..++.+.-...+..+++.-+-...+ +-.|. T Consensus 3 ~~~y~aa~~~lk~gdY~~A~~~F~~F~~~YP~S~y~pnA~YWLG-e~~y~~~~~~~A~~~f~~v~~~yp~s~KaPdALLK 81 (119) T TIGR02795 3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLG-EAYYAQGDYADAAKAFLAVVKKYPKSPKAPDALLK 81 (119) T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHH-HHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHH T ss_conf 67899999998538878999999999886879876710547999-99999733999999999998645899860689999 Q ss_pred HHHHHHHCCCHHHHHHHHHHHHHHCCCC Q ss_conf 9999985396479999999999631578 Q gi|254780528|r 260 IAQNSVISGKRKIGFLAIKQLKRIIDRL 287 (396) Q Consensus 260 IAR~Ali~G~~~lA~~As~rA~~L~~~~ 287 (396) ++....--|+.+-|+..-+++.+-=+.. T Consensus 82 lg~~~~~~g~~~~A~~~l~~V~~~YP~s 109 (119) T TIGR02795 82 LGMSLQELGDKEKAKATLQQVIKRYPGS 109 (119) T ss_pred HHHHHHHHCCHHHHHHHHHHHHHHCCCC T ss_conf 9999987289889999999998566998 No 4 >COG1729 Uncharacterized protein conserved in bacteria [Function unknown] Probab=73.66 E-value=6.4 Score=18.68 Aligned_cols=97 Identities=10% Similarity=0.125 Sum_probs=71.2 Q ss_pred HHHHCCCHHHHHHHHHHHHHHHCCCCCHHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHH-HHHHHHHHHHHHC Q ss_conf 875225258999999999997204846566--9999999852001357787899999857810257-9999999999853 Q gi|254780528|r 191 EITQNEVGERAFGYIRAYVTQFHHSIYKDH--FISVLLRFFLHGQLKLPDEDIVFTISFFSLEEQR-AIYLKIAQNSVIS 267 (396) Q Consensus 191 ~la~~g~~~k~~~~a~~Y~rRf~~S~YA~~--F~~~f~~~~v~~~~~~~~~~l~~ils~~d~~~q~-~lYL~IAR~Ali~ 267 (396) -+...|+........+.|+.+|+.|+|..| ||=- -..+..+..+.--..+..+....+..-.. +.+|.++..-.-- T Consensus 150 ~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLG-e~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l 228 (262) T COG1729 150 DLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLG-ESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRL 228 (262) T ss_pred HHHHCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHH-HHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHH T ss_conf 999838788999999999970999755602499988-9998624616799999999983899998828999999999982 Q ss_pred CCHHHHHHHHHHHHHHCCCCC Q ss_conf 964799999999996315788 Q gi|254780528|r 268 GKRKIGFLAIKQLKRIIDRLD 288 (396) Q Consensus 268 G~~~lA~~As~rA~~L~~~~~ 288 (396) |+.+-|+.--+++.+-=+..+ T Consensus 229 ~~~d~A~atl~qv~k~YP~t~ 249 (262) T COG1729 229 GNTDEACATLQQVIKRYPGTD 249 (262) T ss_pred CCHHHHHHHHHHHHHHCCCCH T ss_conf 177999999999998789977 No 5 >PHA00368 internal virion protein D Probab=72.46 E-value=4.1 Score=19.82 Aligned_cols=17 Identities=18% Similarity=0.171 Sum_probs=10.1 Q ss_pred CCHHHHHHHHHHHHHHH Q ss_conf 76689999999999999 Q gi|254780528|r 30 IVPYQCVRSLQRALDEA 46 (396) Q Consensus 30 l~Py~lvRSLq~lQD~V 46 (396) =.||.++|.+.+.-++- T Consensus 23 gvsyd~l~k~~~~es~f 39 (1316) T PHA00368 23 GVSYDLLRKVAWDESRF 39 (1316) T ss_pred CCCHHHHHHHHHHHHCC T ss_conf 98799999876533036 No 6 >PRK10803 hypothetical protein; Provisional Probab=63.69 E-value=10 Score=17.42 Aligned_cols=104 Identities=8% Similarity=0.081 Sum_probs=73.6 Q ss_pred HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHCCCCCHHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHH-HHHHH Q ss_conf 99987767887522-5258999999999997204846566--99999998520013577878999998578102-57999 Q gi|254780528|r 182 EEIALRNLLEITQN-EVGERAFGYIRAYVTQFHHSIYKDH--FISVLLRFFLHGQLKLPDEDIVFTISFFSLEE-QRAIY 257 (396) Q Consensus 182 EEAALRRsi~la~~-g~~~k~~~~a~~Y~rRf~~S~YA~~--F~~~f~~~~v~~~~~~~~~~l~~ils~~d~~~-q~~lY 257 (396) |..+-..-+.+... ++.+........|+..|+.|+|+.| ||--- ..+.....+.-...+..++...+... .-+-+ T Consensus 141 e~~~Y~~A~~Lvl~~k~y~~Ai~aF~~Fi~~yP~s~y~~nA~YWLGe-~~y~~~~~~~A~~~F~~vv~~yP~s~K~pdAl 219 (262) T PRK10803 141 ANTDYNAAIALVQDKSRQDDAIVAFQNFIKKYPDSTYQPNANYWLGQ-LNYNKGKKDDAAYYFASVVKNYPKSPKAADAM 219 (262) T ss_pred HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHH-HHHHHCCHHHHHHHHHHHHHHCCCCCCCHHHH T ss_conf 27789999999997356999999999999878799877430999999-99974378999999999998677998678999 Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHCCC Q ss_conf 99999998539647999999999963157 Q gi|254780528|r 258 LKIAQNSVISGKRKIGFLAIKQLKRIIDR 286 (396) Q Consensus 258 L~IAR~Ali~G~~~lA~~As~rA~~L~~~ 286 (396) +.++....--|+..-|+..-++...-=+. T Consensus 220 lklg~~~~~lg~~~~Ak~~l~~vi~~YP~ 248 (262) T PRK10803 220 FKVGVIMQDKGDTAKAKAVYQQVIKKYPG 248 (262) T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHCCC T ss_conf 99999999859999999999999998859 No 7 >PRK10747 putative protoheme IX biogenesis protein; Provisional Probab=57.79 E-value=13 Score=16.79 Aligned_cols=230 Identities=11% Similarity=0.019 Sum_probs=116.4 Q ss_pred HHCCCCHHHHHHHHHCCCCCCCCHHHH---HHH-HHHHCCCHHHHHHHHCCCCHHCCCCCCCHHHHHHHHHH-HHHCCHH Q ss_conf 974898899999986188984326999---999-99726987999998312671003610001388876666-4321989 Q gi|254780528|r 89 TIISQDLSVVDDLIAKDTKGYFDIAIV---YAL-KKYFSGQLEESSKELSKIKDKDNTRGIVPYLHLLIGRA-MMPFSSQ 163 (396) Q Consensus 89 ~lSGG~P~~lr~l~~~d~~~~~d~~L~---~g~-laY~~Gr~~~a~~~L~~i~~~~lp~~lg~~laLv~a~l-~~~~dp~ 163 (396) .|..||....++.+.+... +.|.+++ -++ -++-.|........|.... +..+.=.-.+.|+++.+ +.+.++. T Consensus 94 ~l~EG~~~~AeK~l~k~a~-~~~~pllnyL~AArAA~~~g~~~~rd~yL~~A~--e~~p~a~lav~lt~Ael~l~~~q~e 170 (398) T PRK10747 94 KLAEGDYQQVEKLMAKNAD-HAEQPVVNYLLAAEAAQQRGDEARANQHLERAA--ELAGNDTIPVEITRVRLQLARNENH 170 (398) T ss_pred HHHCCCHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHCCCHH T ss_conf 9877799999999986343-567748899999999998889899999999988--8589848899999999999779989 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHH----------HHHCCCCCHHHHHHHHHHHHHHC Q ss_conf 99999999999678529999987767887522-52589999999999----------97204846566999999985200 Q gi|254780528|r 164 QAVHFFDYVRLTSPGTFLEEIALRNLLEITQN-EVGERAFGYIRAYV----------TQFHHSIYKDHFISVLLRFFLHG 232 (396) Q Consensus 164 ~Al~llD~aRLlaPGTLvEEAALRRsi~la~~-g~~~k~~~~a~~Y~----------rRf~~S~YA~~F~~~f~~~~v~~ 232 (396) .|+.-++..+-..|.-- ..||-...+... ++-+.-..+....- .+...-.|.+.+.+. T Consensus 171 ~Ala~L~~L~~~~p~~~---~VL~Ll~~~y~~~~dW~aL~~LLp~L~K~~~l~~~e~~~L~~~a~~~ll~~~-------- 239 (398) T PRK10747 171 AARHGVDKLLEVTPRHP---EVLRLAEQAYIRTGAWSSLLDIIPSMAKAHVGDEEHRAMLEQQAWIGLMDQA-------- 239 (398) T ss_pred HHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH-------- T ss_conf 99999999986199999---9999999999987459999999999987579999999999999999999998-------- Q ss_pred CCCCCHHHHHHHHHHCCCHHHHHHHHHHH--HHHHHCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHH Q ss_conf 13577878999998578102579999999--9998539647999999999963157888655689999999750178989 Q gi|254780528|r 233 QLKLPDEDIVFTISFFSLEEQRAIYLKIA--QNSVISGKRKIGFLAIKQLKRIIDRLDYKDLATIQLYENILNIPFVDIM 310 (396) Q Consensus 233 ~~~~~~~~l~~ils~~d~~~q~~lYL~IA--R~Ali~G~~~lA~~As~rA~~L~~~~~~~~~~ra~LY~aaa~i~s~d~~ 310 (396) ..+.+.+.|...-..+++..+.+..+..+ +.=+-.|..+-|..-..+.+.-. -+.....+| ..+.+.|.. T Consensus 240 ~~~~~~~~L~~~W~~lp~~~r~~~~l~~~ya~~Li~~g~~~~A~~ll~~~Lkk~-----wd~~Lv~ly---~~l~~~d~~ 311 (398) T PRK10747 240 RADNGSEGLRNWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIIIDGLKRQ-----YDDRLVLPI---PRLKTNNPE 311 (398) T ss_pred HHHCCHHHHHHHHHHCCHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-----CCHHHHHHH---HHCCCCCHH T ss_conf 732347999999986899875699999999999986899689999999998618-----998999998---756779989 Q ss_pred HHHHHHHCCCHHHCCHHHHHHHHHHHHHHHHH Q ss_conf 99999843997888975399999999999985 Q gi|254780528|r 311 SLQRSTCNIPYYSLMEQDRYLKKASEIIMSEI 342 (396) Q Consensus 311 ~a~~~L~~Id~~~L~~~Dr~L~~AA~~ia~~I 342 (396) ..++.+.+-- +=.++|..|+-+-..++-.- T Consensus 312 ~~l~~~e~wl--k~~~~~~~Ll~aLGrL~~~~ 341 (398) T PRK10747 312 QLEKVLRQQI--KQVGDRPLLWSTLGQSLMKH 341 (398) T ss_pred HHHHHHHHHH--HCCCCCHHHHHHHHHHHHHH T ss_conf 9999999987--31899989999999999973 No 8 >pfam10602 RPN7 26S proteasome subunit RPN7. RPN7 (known as the non ATPase regulatory subunit 6 in higher eukaryotes) is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae to be required for structural integrity. The 26S proteasome is is involved in the ATP-dependent degradation of ubiquitinated proteins. Probab=57.54 E-value=13 Score=16.76 Aligned_cols=86 Identities=12% Similarity=0.094 Sum_probs=66.1 Q ss_pred CCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHH----- Q ss_conf 81025799999999998539647999999999963157888-655689999999750178989999998439978----- Q gi|254780528|r 249 SLEEQRAIYLKIAQNSVISGKRKIGFLAIKQLKRIIDRLDY-KDLATIQLYENILNIPFVDIMSLQRSTCNIPYY----- 322 (396) Q Consensus 249 d~~~q~~lYL~IAR~Ali~G~~~lA~~As~rA~~L~~~~~~-~~~~ra~LY~aaa~i~s~d~~~a~~~L~~Id~~----- 322 (396) -+....+++|.+-|-++.-|......--..||.++...++. ..+.+...|.|.+.+...++.+|...+-..... T Consensus 68 s~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~e~ggDw~r~nrlk~y~Gl~~l~~r~f~~AA~~fl~~~~tf~~~e 147 (174) T pfam10602 68 SLGHKIDMCLNLIRVGIFFNDWDHVSKYIEKAKSLIEKGGDWERRNRLKVYEGLALLAIRDFKEAAKLFLDSLSTFTSTE 147 (174) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCCCCCCCCCC T ss_conf 84599999999999999970099999999999856514455878988999999999971649999999963767888463 Q ss_pred HCCHHHHHHHHH Q ss_conf 889753999999 Q gi|254780528|r 323 SLMEQDRYLKKA 334 (396) Q Consensus 323 ~L~~~Dr~L~~A 334 (396) -++..|...-.. T Consensus 148 lis~~dia~Y~~ 159 (174) T pfam10602 148 LISYEDVAVYGV 159 (174) T ss_pred CCCHHHHHHHHH T ss_conf 426768899999 No 9 >TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system. Probab=52.88 E-value=11 Score=17.18 Aligned_cols=49 Identities=12% Similarity=0.092 Sum_probs=33.5 Q ss_pred HCCCCHHHHHHHHHCCCHHHCCHHHHHH-H--------------HHHHHHHHHHHCCCCCCCCC Q ss_conf 0178989999998439978889753999-9--------------99999999853045676744 Q gi|254780528|r 304 IPFVDIMSLQRSTCNIPYYSLMEQDRYL-K--------------KASEIIMSEIGKSLIDIDFE 352 (396) Q Consensus 304 i~s~d~~~a~~~L~~Id~~~L~~~Dr~L-~--------------~AA~~ia~~I~r~~~~a~~~ 352 (396) |...++.+.......||..++...+..- + +|..+|+..|+++-...+.. T Consensus 529 V~~~~ia~vvs~~tgIPv~~l~~~e~~~l~~le~~L~~~ViGQ~~Av~~v~~ai~~sraGl~d~ 592 (852) T TIGR03345 529 VDAQAVAEVVADWTGIPVGRMVRDEIEAVLSLPDRLAERVIGQDHALEAIAERIRTARAGLEDP 592 (852) T ss_pred CCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCC T ss_conf 6899999999999689878861788888886799999997284999999999999987179999 No 10 >TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795). Probab=46.20 E-value=20 Score=15.67 Aligned_cols=186 Identities=10% Similarity=-0.051 Sum_probs=121.3 Q ss_pred CCHHHHHHHHHHHCCCHHHHHHHHCCCCHHCCCCCCCHHHHHHHH-HHHHHCCHHHHHHHHHHHHHHCCCC-HHHHHHHH Q ss_conf 326999999997269879999983126710036100013888766-6643219899999999999967852-99999877 Q gi|254780528|r 110 FDIAIVYALKKYFSGQLEESSKELSKIKDKDNTRGIVPYLHLLIG-RAMMPFSSQQAVHFFDYVRLTSPGT-FLEEIALR 187 (396) Q Consensus 110 ~d~~L~~g~laY~~Gr~~~a~~~L~~i~~~~lp~~lg~~laLv~a-~l~~~~dp~~Al~llD~aRLlaPGT-LvEEAALR 187 (396) .+.---.|...+-+|+-.+|.+.|..+...+--+..+...-+-.| ......+...|+..++.---.-|+. -++.|--. T Consensus 33 ~~~lY~~a~~~~~~~~y~~A~~~fe~l~~~yp~s~~a~~A~l~~a~a~y~~~~y~~A~~~~~~Fi~~yP~~~~~~ya~y~ 112 (235) T TIGR03302 33 AEELYNEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL 112 (235) T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH T ss_conf 99999999999987899999999999998689931379999999999997643999999999999988774349999999 Q ss_pred HHHHHH-H------C-CCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHH Q ss_conf 678875-2------2-5258999999999997204846566999999985200135778789999985781025799999 Q gi|254780528|r 188 NLLEIT-Q------N-EVGERAFGYIRAYVTQFHHSIYKDHFISVLLRFFLHGQLKLPDEDIVFTISFFSLEEQRAIYLK 259 (396) Q Consensus 188 Rsi~la-~------~-g~~~k~~~~a~~Y~rRf~~S~YA~~F~~~f~~~~v~~~~~~~~~~l~~ils~~d~~~q~~lYL~ 259 (396) +.+.-- + + ....+.+..-+.++++|++|+|+.+-...+...--+... ++ +. T Consensus 113 ~a~s~~~~~~~~~rDq~~~~~A~~~f~~~i~~yP~S~ya~dA~~~i~~l~~~LA~-------------------~e--~~ 171 (235) T TIGR03302 113 RGLSNYKQIDDSDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAG-------------------KE--LY 171 (235) T ss_pred HHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH-------------------HH--HH T ss_conf 8799887366544580899999999999998889965799999999999999999-------------------99--99 Q ss_pred HHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHC Q ss_conf 99999853964799999999996315788865568999999975017898999999843 Q gi|254780528|r 260 IAQNSVISGKRKIGFLAIKQLKRIIDRLDYKDLATIQLYENILNIPFVDIMSLQRSTCN 318 (396) Q Consensus 260 IAR~Ali~G~~~lA~~As~rA~~L~~~~~~~~~~ra~LY~aaa~i~s~d~~~a~~~L~~ 318 (396) ||+-=.-.|+-.-|.--.+.+..-=++. ...+.|..+-+-+-..-+..+++..+.+. T Consensus 172 ia~~Y~k~~~y~aAi~r~~~vl~~Yp~t--~~~~eAl~~l~eay~~lg~~~~A~~~~~~ 228 (235) T TIGR03302 172 VARFYLKRGAYVAAINRFETVVENYPDT--PATEEALARLVEAYLALGLTDLAQDAAAV 228 (235) T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHHCCCHHHHHHHHHH T ss_conf 9999998417099999999999868998--51399999999999986998999999999 No 11 >TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins. Probab=44.79 E-value=21 Score=15.54 Aligned_cols=49 Identities=18% Similarity=0.205 Sum_probs=34.3 Q ss_pred HCCCCHHHHHHHHHCCCHHHCCHHHHHHH---------------HHHHHHHHHHHCCCCCCCCC Q ss_conf 01789899999984399788897539999---------------99999999853045676744 Q gi|254780528|r 304 IPFVDIMSLQRSTCNIPYYSLMEQDRYLK---------------KASEIIMSEIGKSLIDIDFE 352 (396) Q Consensus 304 i~s~d~~~a~~~L~~Id~~~L~~~Dr~L~---------------~AA~~ia~~I~r~~~~a~~~ 352 (396) |...++.+.......||..++...+..-+ +|..+|+..|+++-...+.. T Consensus 528 V~~~~ia~vvs~~tgIPv~~~~~~e~~~L~~Le~~L~~rViGQd~AI~~I~~aI~~sraGL~dp 591 (852) T TIGR03346 528 VTAEEIAEVVSRWTGIPVSKMLEGEREKLLHMEEVLHERVVGQDEAVEAVSDAIRRSRAGLSDP 591 (852) T ss_pred CCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCC T ss_conf 7999999999999688667666547999987888899897170999999999999997188889 No 12 >pfam02530 Porin_2 Porin subfamily. This family consists of porins from the alpha subdivision of Proteobacteria the members of this family are related to pfam00267. The porins form large aqueous channels in the cell membrane allowing the selective entry of hydrophilic compounds this so called 'molecular sieve' is found in the cell walls of gram negative bacteria. Probab=44.39 E-value=9.6 Score=17.61 Aligned_cols=36 Identities=28% Similarity=0.280 Sum_probs=28.4 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCCCC--CCCHHHHHH Q ss_conf 9715778999999998743432024435--776689999 Q gi|254780528|r 1 MNQKYLICTMMVAMDVFFSFATDQDLVR--TIVPYQCVR 37 (396) Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~--~l~Py~lvR 37 (396) ||-|-++--++.|+....| |++.|..= ++||.|-|| T Consensus 1 MNiKsLlLgSaaalvA~sg-A~AAD~iV~aePEpvEYVr 38 (378) T pfam02530 1 MNIKSLLLGSAAALAAVSG-AQAADAIVAAEPEPVEYVR 38 (378) T ss_pred CCHHHHHHHHHHHHHHHCC-HHHCCCCCCCCCCCCCEEE T ss_conf 9567888888999998400-2013653347877632589 No 13 >PRK10716 long-chain fatty acid outer membrane transporter; Provisional Probab=42.00 E-value=20 Score=15.69 Aligned_cols=25 Identities=24% Similarity=0.186 Sum_probs=20.5 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 9715778999999998743432024 Q gi|254780528|r 1 MNQKYLICTMMVAMDVFFSFATDQD 25 (396) Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~a~~~~ 25 (396) ||||.++-+.+||+.+.+...++.. T Consensus 3 ~~~~~~~~k~~la~~~~l~ss~a~A 27 (437) T PRK10716 3 MSQKTLFTKSALAVAVALISTQAWS 27 (437) T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 4451177899999999988503111 No 14 >pfam11768 DUF3312 Protein of unknown function (DUF3312). This is a eukaryotic family of uncharacterized proteins. Probab=41.12 E-value=24 Score=15.19 Aligned_cols=152 Identities=15% Similarity=0.201 Sum_probs=82.0 Q ss_pred HHHHHHHHCCCCHHHHHHHH---HCCCCCCCCHHHHHHHHHHHC-CCHHHHHHHHCCCCHHCCCCCCCHHHHHHHHHHHH Q ss_conf 99999897489889999998---618898432699999999726-98799999831267100361000138887666643 Q gi|254780528|r 83 DAVWIYTIISQDLSVVDDLI---AKDTKGYFDIAIVYALKKYFS-GQLEESSKELSKIKDKDNTRGIVPYLHLLIGRAMM 158 (396) Q Consensus 83 ~Aa~iY~lSGG~P~~lr~l~---~~d~~~~~d~~L~~g~laY~~-Gr~~~a~~~L~~i~~~~lp~~lg~~laLv~a~l~~ 158 (396) +..+.-.+.+|.-+++|-.+ .++..|..+ -.-+|+. ++-++|...|..++=.+....---.+..|.--++- T Consensus 381 ~~~l~L~f~~GPLavlr~~lG~~~~G~lg~~~-----L~~~yl~~~qv~eAv~iL~smnW~t~G~~C~~~L~~I~N~Llk 455 (544) T pfam11768 381 DCLLLLIFEQGPLACLRFKLGVGSRGDLGTSE-----LISKYIRLSQVEEAVNILLSMNWDTYGAMCLISLHLIANYLLR 455 (544) T ss_pred CCEEEEEECCCCEEEEEEECCCCCCCCCCHHH-----HHHHHHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH T ss_conf 41589996388769999730323467446278-----8999875143899998775178342025899999999999960 Q ss_pred H-CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH--HC---CCHHHHHHHHHHHHHHHCCCCCHHH-HHHHHHHHHHH Q ss_conf 2-1989999999999996785299999877678875--22---5258999999999997204846566-99999998520 Q gi|254780528|r 159 P-FSSQQAVHFFDYVRLTSPGTFLEEIALRNLLEIT--QN---EVGERAFGYIRAYVTQFHHSIYKDH-FISVLLRFFLH 231 (396) Q Consensus 159 ~-~dp~~Al~llD~aRLlaPGTLvEEAALRRsi~la--~~---g~~~k~~~~a~~Y~rRf~~S~YA~~-F~~~f~~~~v~ 231 (396) + -+|.+..- =|+||.- |-+ .. .-..+|.--...|.|||-|---.-+ |...|.-++.- T Consensus 456 q~L~~~RE~q--------------Le~alGs--FyaP~rPLs~~t~lEyrd~Is~laRRFFHhLLRy~rFEKAFlLAvDi 519 (544) T pfam11768 456 QRLGPEREAQ--------------LEASLGS--FYAPARPLSDETILEYRDPVSDYARRFFHHLLRYKRFEKAFLLAVDI 519 (544) T ss_pred CCCCCHHHHH--------------HHHHHHC--CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 8798057899--------------9987505--31788567778999875188899999999999888888989887604 Q ss_pred CCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCHHHHHH Q ss_conf 01357787899999857810257999999999985396479999 Q gi|254780528|r 232 GQLKLPDEDIVFTISFFSLEEQRAIYLKIAQNSVISGKRKIGFL 275 (396) Q Consensus 232 ~~~~~~~~~l~~ils~~d~~~q~~lYL~IAR~Ali~G~~~lA~~ 275 (396) ++ |++++-|-.-|+--|..++|.. T Consensus 520 g~--------------------rDLFMDihy~A~d~ge~~lA~v 543 (544) T pfam11768 520 GD--------------------RDLFMDLHYLAKDKGELALAKV 543 (544) T ss_pred CC--------------------HHHHHHHHHHHHHCCHHHHHHC T ss_conf 63--------------------7666778998872161555411 No 15 >PRK10865 protein disaggregation chaperone; Provisional Probab=38.78 E-value=27 Score=14.97 Aligned_cols=49 Identities=18% Similarity=0.209 Sum_probs=34.9 Q ss_pred HCCCCHHHHHHHHHCCCHHHCCHHHHHHH---------------HHHHHHHHHHHCCCCCCCCC Q ss_conf 01789899999984399788897539999---------------99999999853045676744 Q gi|254780528|r 304 IPFVDIMSLQRSTCNIPYYSLMEQDRYLK---------------KASEIIMSEIGKSLIDIDFE 352 (396) Q Consensus 304 i~s~d~~~a~~~L~~Id~~~L~~~Dr~L~---------------~AA~~ia~~I~r~~~~a~~~ 352 (396) |...++.+.......||-.++...+..-+ +|..+|+..|+++-...+.. T Consensus 531 V~~~~ia~vvs~~TgIPv~~l~~~e~~~L~~le~~L~~rViGQd~AI~~v~~aI~~sraGL~dp 594 (857) T PRK10865 531 VTDAEIAEVLARWTGIPVSRMLESEREKLLRMEQELHHRVIGQNEAVEAVSNAIRRSRAGLSDP 594 (857) T ss_pred CCHHHHHHHHHHHHCCCCHHCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCC T ss_conf 6899999999999689830213105899999999998785280999999999999986389999 No 16 >PRK00430 fis DNA-binding protein Fis; Provisional Probab=33.03 E-value=33 Score=14.41 Aligned_cols=47 Identities=13% Similarity=0.141 Sum_probs=32.6 Q ss_pred HCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHCCCCHHCC Q ss_conf 7489889999998618898432699999999726987999998312671003 Q gi|254780528|r 90 IISQDLSVVDDLIAKDTKGYFDIAIVYALKKYFSGQLEESSKELSKIKDKDN 141 (396) Q Consensus 90 lSGG~P~~lr~l~~~d~~~~~d~~L~~g~laY~~Gr~~~a~~~L~~i~~~~l 141 (396) |.|-+|.-|-. .+..+++++|+..+++|..|-...|.++|. |...++ T Consensus 42 L~g~~~~~ly~----~vl~evE~pLl~~vL~~t~gNqskAA~~LG-InR~TL 88 (98) T PRK00430 42 LDGQDVNDLYE----LVLAEVEAPLLDMVMQYTRGNQTRAALMLG-INRGTL 88 (98) T ss_pred CCCCCCHHHHH----HHHHHHHHHHHHHHHHHHCCCHHHHHHHHC-CCHHHH T ss_conf 49999206999----999998999999999996695999999978-778899 No 17 >KOG3928 consensus Probab=29.67 E-value=38 Score=14.07 Aligned_cols=187 Identities=14% Similarity=0.068 Sum_probs=80.1 Q ss_pred CHHCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHH----------HHHHHHHCCCHHHHHHHHH Q ss_conf 710036100013888766664321989999999999996785299999877----------6788752252589999999 Q gi|254780528|r 137 KDKDNTRGIVPYLHLLIGRAMMPFSSQQAVHFFDYVRLTSPGTFLEEIALR----------NLLEITQNEVGERAFGYIR 206 (396) Q Consensus 137 ~~~~lp~~lg~~laLv~a~l~~~~dp~~Al~llD~aRLlaPGTLvEEAALR----------Rsi~la~~g~~~k~~~~a~ 206 (396) -+.-+|..+--++-.-+-..+.-..|+.. +++.-|+..|++= +.| ++|.++ ....|+. T Consensus 137 ~~~G~p~~~~~q~~tf~ea~lLVRkpale--l~~~~r~~d~~~P----~~r~vL~Ge~GtGKSiaL~------qa~h~a~ 204 (461) T KOG3928 137 NPLGLPFKKSQQFKTFTEAVLLVRKPALE--LLLYKRLVDPMHP----VKRFVLDGEPGTGKSIALA------QAVHYAA 204 (461) T ss_pred CCCCCCHHHHHHHHHHHCCHHEECHHHHH--HHHHHHHCCCCCC----CEEEEEECCCCCCHHHHHH------HHHHHHH T ss_conf 64789567778787640004202137899--9877640365676----3589985799876205999------9999873 Q ss_pred HHHHHHCCCCCHHHHHHH----HHHHHHHCCCCCCHHHHHHHHHHCC---CHHHH-----HHHHHHHHHHHHCCCHHHHH Q ss_conf 999972048465669999----9998520013577878999998578---10257-----99999999998539647999 Q gi|254780528|r 207 AYVTQFHHSIYKDHFISV----LLRFFLHGQLKLPDEDIVFTISFFS---LEEQR-----AIYLKIAQNSVISGKRKIGF 274 (396) Q Consensus 207 ~Y~rRf~~S~YA~~F~~~----f~~~~v~~~~~~~~~~l~~ils~~d---~~~q~-----~lYL~IAR~Ali~G~~~lA~ 274 (396) .==+=-.|=||+-+|-.. +-+...++-.+.+..--.-+-.++. +-.++ +=|----+.....|++-+-. T Consensus 205 ~~~wlIlhip~a~~w~~~~~~~~y~~~~kg~~dqP~~a~~~L~~fkk~N~~~L~~~lkt~~~yvwsk~e~t~kG~pl~ei 284 (461) T KOG3928 205 DQKWLILHIPYAELWTNGRKDYSYDSDLKGLWDQPLYAKKILKNFKKTNEPALKKQLKTSKDYVWSKRESTLKGKPLVEI 284 (461) T ss_pred CCCEEEEECCCHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCHHHHHHHCCCCCEEECCCCCCCCCCCCHHH T ss_conf 17859997785787631631102455112441383689999999986262989877512444342156775678860556 Q ss_pred HHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCC----------CCHHHH--HHHHHCCCHHHCCHHHHHHHHHHHHHHH Q ss_conf 99999996315788865568999999975017----------898999--9998439978889753999999999999 Q gi|254780528|r 275 LAIKQLKRIIDRLDYKDLATIQLYENILNIPF----------VDIMSL--QRSTCNIPYYSLMEQDRYLKKASEIIMS 340 (396) Q Consensus 275 ~As~rA~~L~~~~~~~~~~ra~LY~aaa~i~s----------~d~~~a--~~~L~~Id~~~L~~~Dr~L~~AA~~ia~ 340 (396) .-.. ++. ..++.....-|.+..-+..+ |++-.. ...+..=+...++|.|-.|-..-+-+-. T Consensus 285 ~e~g----I~~-i~~a~~~vg~llrelk~~s~~~~~kVLvaID~~n~l~~~T~~k~~~~~~v~P~dl~li~~~~~~i~ 357 (461) T KOG3928 285 VETG----IAS-IKNAPDAVGILLRELKRLSVQSKVKVLVAIDNFNSLFTVTAYKSEDNKPVTPLDLTLIHLLRDIIS 357 (461) T ss_pred HHHH----HHH-HCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCHHEEEEEEECCCCCCCCCHHHHHHHHHHHHHH T ss_conf 7765----653-314567799999999975230376189997374023022111034467388154237899999870 No 18 >COG3573 Predicted oxidoreductase [General function prediction only] Probab=28.75 E-value=26 Score=15.07 Aligned_cols=152 Identities=8% Similarity=0.028 Sum_probs=78.1 Q ss_pred CCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHH--------------------HCCCCHHCCCCCCCHHHH Q ss_conf 489889999998618898432699999999726987999998--------------------312671003610001388 Q gi|254780528|r 91 ISQDLSVVDDLIAKDTKGYFDIAIVYALKKYFSGQLEESSKE--------------------LSKIKDKDNTRGIVPYLH 150 (396) Q Consensus 91 SGG~P~~lr~l~~~d~~~~~d~~L~~g~laY~~Gr~~~a~~~--------------------L~~i~~~~lp~~lg~~la 150 (396) .|||++.+|+-|.+.-.|.....++-|+-+++.||....... +.+|=|.---..|.++-. T Consensus 227 IGGnhelVRrnWP~eRlG~~Pe~m~~GVPaHVDGrmi~i~~~aGg~vIN~DRMWHYtEGirNwdPiWp~HgIRIlPGPSS 306 (552) T COG3573 227 IGGNHELVRRNWPTERLGRAPEQMLSGVPAHVDGRMIGIAVAAGGSVINPDRMWHYTEGIRNWDPIWPNHGIRILPGPSS 306 (552) T ss_pred CCCCHHHHHHCCCHHHCCCCHHHHHCCCCCCCCCHHHHHHHHHCCCEECCCCCEEHHHCCCCCCCCCCCCCEEECCCCCC T ss_conf 68888888752956550897588762886013622677888707824465311013214556787676665065468732 Q ss_pred H---HH-----HHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHCCCCCH--H Q ss_conf 8---76-----66643219899999999999967852999998776788752-252589999999999972048465--6 Q gi|254780528|r 151 L---LI-----GRAMMPFSSQQAVHFFDYVRLTSPGTFLEEIALRNLLEITQ-NEVGERAFGYIRAYVTQFHHSIYK--D 219 (396) Q Consensus 151 L---v~-----a~l~~~~dp~~Al~llD~aRLlaPGTLvEEAALRRsi~la~-~g~~~k~~~~a~~Y~rRf~~S~YA--~ 219 (396) | .. .-++-.+|.-..++..-.------=-++.++-+++|..|.. ++..|-.-.--++.++|-..-|-- . T Consensus 307 lWlDa~G~RLp~P~~PGfdtlgTL~hi~~~G~~ysWFiLt~kiI~kEFaLSGsEQNPDLTGkd~rlll~Ra~k~pPgPV~ 386 (552) T COG3573 307 LWLDAAGKRLPVPLFPGFDTLGTLKHITSTGYDYSWFILTRKIIKKEFALSGSEQNPDLTGKDLRLLLRRAGKGPPGPVQ 386 (552) T ss_pred EEECCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCEEEEEEHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCHH T ss_conf 23877788188776788522558899862589832463308888877434665559886322499999871579995188 Q ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHHHCC Q ss_conf 699999998520013577878999998578 Q gi|254780528|r 220 HFISVLLRFFLHGQLKLPDEDIVFTISFFS 249 (396) Q Consensus 220 ~F~~~f~~~~v~~~~~~~~~~l~~ils~~d 249 (396) -|++ ++++=+..+.|.++++.|. T Consensus 387 AFmd-------rGeDFvv~~~L~eLVa~MN 409 (552) T COG3573 387 AFMD-------RGEDFVVADTLRELVAGMN 409 (552) T ss_pred HHHH-------CCCCEEHHHHHHHHHHHHH T ss_conf 8876-------3763140624999999863 No 19 >TIGR01163 rpe ribulose-phosphate 3-epimerase; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5.1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Alcaligenes eutrophus two copies of the gene coding for PPE are known , one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process. Probab=28.45 E-value=39 Score=13.94 Aligned_cols=26 Identities=19% Similarity=0.388 Sum_probs=23.5 Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 66543057678978999999999864 Q gi|254780528|r 368 TNVSMGIESFIKKNRSQIESIDVLLA 393 (396) Q Consensus 368 ~~~~~~~~~~v~~ar~~l~eiD~LL~ 393 (396) -|+-+++|+||...-+||-++-.++. T Consensus 137 VnPGFgGQkFIP~~~~Kir~~R~~id 162 (216) T TIGR01163 137 VNPGFGGQKFIPETLEKIRELRKMID 162 (216) T ss_pred EECCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 60799884110578999999999998 No 20 >pfam10236 DAP3 Mitochondrial ribosomal death-associated protein 3. This is a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29). Probab=27.28 E-value=27 Score=14.95 Aligned_cols=19 Identities=16% Similarity=0.097 Sum_probs=8.0 Q ss_pred CHHHCCHHHHHHHHHHHHH Q ss_conf 9788897539999999999 Q gi|254780528|r 320 PYYSLMEQDRYLKKASEII 338 (396) Q Consensus 320 d~~~L~~~Dr~L~~AA~~i 338 (396) +....++.|-.|-..-..+ T Consensus 178 ~~~~I~~~~L~lv~~f~~~ 196 (274) T pfam10236 178 DYKPIHPHDLTLVRLFLDL 196 (274) T ss_pred CCCCCCHHHHHHHHHHHHH T ss_conf 8856578984499999998 No 21 >PRK10866 outer membrane protein assembly complex subunit YfiO; Provisional Probab=25.37 E-value=45 Score=13.61 Aligned_cols=116 Identities=13% Similarity=0.104 Sum_probs=73.0 Q ss_pred CHHHHHHHHHHHCCCHHHHHHHHCCCCHHCCCCCCCHHHHHHHH-HHHHHCCHHHHHHHHHHHHHHCCCC-HHHHHHHHH Q ss_conf 26999999997269879999983126710036100013888766-6643219899999999999967852-999998776 Q gi|254780528|r 111 DIAIVYALKKYFSGQLEESSKELSKIKDKDNTRGIVPYLHLLIG-RAMMPFSSQQAVHFFDYVRLTSPGT-FLEEIALRN 188 (396) Q Consensus 111 d~~L~~g~laY~~Gr~~~a~~~L~~i~~~~lp~~lg~~laLv~a-~l~~~~dp~~Al~llD~aRLlaPGT-LvEEAALRR 188 (396) +.---.|..++-+|+=.+|.+.|..++..+--+..+..--|-.+ ......+...|+.-+|.=--+-|.. -|+-|--.+ T Consensus 33 ~~~Y~~A~~~~~~~~y~~A~~~fe~l~~~yP~s~~A~qA~L~~ayayy~~~~y~~A~~~~~rFi~lyP~~~~v~Ya~Yl~ 112 (243) T PRK10866 33 NEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFMRLNPTHPNIDYVMYMR 112 (243) T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCHHHHHHHH T ss_conf 99999999999878999999999999986899767899999999998730778999999999998678999738999998 Q ss_pred HHH--------------HHH---C-CCHHHHHHHHHHHHHHHCCCCCHHHHHHHHH Q ss_conf 788--------------752---2-5258999999999997204846566999999 Q gi|254780528|r 189 LLE--------------ITQ---N-EVGERAFGYIRAYVTQFHHSIYKDHFISVLL 226 (396) Q Consensus 189 si~--------------la~---~-g~~~k~~~~a~~Y~rRf~~S~YA~~F~~~f~ 226 (396) .+. +-. + +..-+.+......++||++|.|+.+-..+.. T Consensus 113 gl~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~f~~li~~yP~S~Ya~dA~~r~~ 168 (243) T PRK10866 113 GLTNMALDDSALQGFFGVDRSDRDPQHARAAFSDFSKLVRGYPNSQYTTDATKRLV 168 (243) T ss_pred HHHHHHCCHHHHHHHHCCCHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH T ss_conf 89877401358888743256430769999999999999987899845899999999 No 22 >pfam08012 DUF1702 Protein of unknown function (DUF1702). This family of proteins contains many bacterial proteins that are encoded by the UnbL gene. The function of these proteins is unknown. Probab=25.25 E-value=45 Score=13.59 Aligned_cols=139 Identities=9% Similarity=-0.026 Sum_probs=84.1 Q ss_pred HHHCC-CHHHHHHHHHHHHHHH-CCCCCHH--HHHHHHHHHHHH-------CCCCCCHHHHHHHHHHCCCHHHHHHHHHH Q ss_conf 75225-2589999999999972-0484656--699999998520-------01357787899999857810257999999 Q gi|254780528|r 192 ITQNE-VGERAFGYIRAYVTQF-HHSIYKD--HFISVLLRFFLH-------GQLKLPDEDIVFTISFFSLEEQRAIYLKI 260 (396) Q Consensus 192 la~~g-~~~k~~~~a~~Y~rRf-~~S~YA~--~F~~~f~~~~v~-------~~~~~~~~~l~~ils~~d~~~q~~lYL~I 260 (396) |+.+| -+.+.++--.+|+++- ...+|.+ ...+.+...+.. +..-.+.+.+.+.++-+++.++.+||==| T Consensus 141 LalDGYGFhqaYF~t~ryV~~~~~~~~~~w~~g~~~y~~ra~DQGiGRALWFV~G~dp~~va~~I~~Fp~~Rr~DLwsGv 220 (318) T pfam08012 141 LALDGYGFHQAYFKTDRYVRGQHRERPFPWPGGPDDYAGRAVDQGIGRALWFVGGTDPDVVADLIERFPEDRRADLWSGV 220 (318) T ss_pred HHHCCCCCCCEEECCCHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHH T ss_conf 53036662302205504542226788899999963888888861414777622788889999999856832102344238 Q ss_pred HHHHHHCCCHHHHHHH------HHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHCCHHHHHHHHH Q ss_conf 9999853964799999------9999963157888655689999999750178989999998439978889753999999 Q gi|254780528|r 261 AQNSVISGKRKIGFLA------IKQLKRIIDRLDYKDLATIQLYENILNIPFVDIMSLQRSTCNIPYYSLMEQDRYLKKA 334 (396) Q Consensus 261 AR~Ali~G~~~lA~~A------s~rA~~L~~~~~~~~~~ra~LY~aaa~i~s~d~~~a~~~L~~Id~~~L~~~Dr~L~~A 334 (396) -=++.-.|--.-.-+. -+-.-.|+. ++++...+..+ +..++..-+-+...||.++.. . T Consensus 221 GLAatYAGG~~~~eL~~l~~~aG~~r~~lAQ--GaaFAa~AR~~---AG~v~~hT~~A~~vlcG~s~~-----------~ 284 (318) T pfam08012 221 GLAATYAGGADEDELRALAELAGEHRAALAQ--GAAFAAEARVR---AGLVPEHTELATRVLCGVTPA-----------E 284 (318) T ss_pred HHHHHHCCCCCHHHHHHHHHHHCHHHHHHHH--HHHHHHHHHHH---CCCCCCHHHHHHHHHHCCCHH-----------H T ss_conf 9998870699999999999972310588886--89999999997---499860289999998199899-----------9 Q ss_pred HHHHHHHHHCCC Q ss_conf 999999853045 Q gi|254780528|r 335 SEIIMSEIGKSL 346 (396) Q Consensus 335 A~~ia~~I~r~~ 346 (396) |..+.++..-.+ T Consensus 285 Aa~~~~~~~~~~ 296 (318) T pfam08012 285 AAAVTDEARPGL 296 (318) T ss_pred HHHHHHHHCCCC T ss_conf 999999744256 No 23 >TIGR01818 ntrC nitrogen regulation protein NR(I); InterPro: IPR010114 This entry represents Nitrogen regulatory protein C (NtrC), which is a bacterial enhancer-binding protein that activates the transcription of genes encoding enzymes required for nitrogen metabolism. It is phosphorylated by NtrB and interacts with sigma-54. One of the best studied examples is its activation of the gene glnA, which encodes the enzyme glutamine synthetase.. NtrC is composed of three domains , . The 124 residue N-terminal domain is homologous to receiver domains of other response regulator proteins in two-component signal transduction systems , . The 240 residue central domain of NtrC is homologous to a domain found in all activators of the sigma-54 RNA polymerase holoenzyme , . The C-terminal domain has been indicated to contain the determinants necessary for both DNA-binding and dimerization of full-length NtrC.; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0009399 nitrogen fixation, 0050906 detection of stimulus during sensory perception. Probab=24.21 E-value=47 Score=13.47 Aligned_cols=59 Identities=17% Similarity=0.162 Sum_probs=37.0 Q ss_pred HHHHCCHHHHHHHHHHHHCCCCHHH-HHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHC Q ss_conf 6760562337999998974898899-9999861889843269999999972698799999831 Q gi|254780528|r 73 MDVFVDNRNIDAVWIYTIISQDLSV-VDDLIAKDTKGYFDIAIVYALKKYFSGQLEESSKELS 134 (396) Q Consensus 73 ~~vw~d~rNv~Aa~iY~lSGG~P~~-lr~l~~~d~~~~~d~~L~~g~laY~~Gr~~~a~~~L~ 134 (396) .+.|.. .+..-+--.++.|.-.+ -..|+ ....+++|+.|+..+|+...|+..+|...|. T Consensus 399 ~~~w~~--~l~~~~~~~~~~~~~G~P~~~L~-~~~~~~~er~Ll~~AL~~T~G~~~~AA~~LG 458 (471) T TIGR01818 399 QDDWEE--ALEAWAKQALSSGKDGVPEQGLL-DEALPELERTLLEAALQHTRGRKQEAAKLLG 458 (471) T ss_pred HHHHHH--HHHHHHHHHHHCCCCCCCHHHHH-HHHHHHHHHHHHHHHHHHCCCCHHHHHHHCC T ss_conf 346999--99999999862145678816689-9999987399999999734550689998618 No 24 >PRK01905 DNA-binding protein Fis; Provisional Probab=23.99 E-value=48 Score=13.45 Aligned_cols=48 Identities=10% Similarity=0.058 Sum_probs=33.3 Q ss_pred HHCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHCCCCHHCC Q ss_conf 97489889999998618898432699999999726987999998312671003 Q gi|254780528|r 89 TIISQDLSVVDDLIAKDTKGYFDIAIVYALKKYFSGQLEESSKELSKIKDKDN 141 (396) Q Consensus 89 ~lSGG~P~~lr~l~~~d~~~~~d~~L~~g~laY~~Gr~~~a~~~L~~i~~~~l 141 (396) -|.|.+|.-+-. -+..+++++|+..++.+..|-...|.++|+ |..-++ T Consensus 20 ~L~g~~~~~ly~----~vl~evE~pLi~~vl~~~~gNQ~kAA~~LG-inR~TL 67 (77) T PRK01905 20 DLDGSNPHDVYD----MVLSCVEKPLLEVVMEQAGGNQSLAAEYLG-INRNTL 67 (77) T ss_pred HCCCCCHHHHHH----HHHHHHHHHHHHHHHHHHCCCHHHHHHHHC-CCHHHH T ss_conf 838998046999----999998999999999984594999999978-658889 No 25 >TIGR00207 fliG flagellar motor switch protein FliG; InterPro: IPR000090 The flagellar motor switch in Escherichia coli and Salmonella typhimurium regulates the direction of flagellar rotation and hence controls swimming behaviour . The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour . CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce tumbles in the swimming pattern, but no physical interactions of CheY and switch proteins have yet been demonstrated. The switch complex comprises at least three proteins - FliG, FliM and FliN. It has been shown that FliG interacts with FliM, FliM interacts with itself, and FliM interacts with FliN . Several residues within the middle third of FliG appear to be strongly involved in the FliG-FliM interaction, with residues near the N- or C-termini being less important . Such clustering suggests that FliG-FliM interaction plays a central role in switching. Analysis of the FliG, FliM and FliN sequences shows that none are especially hydrophobic or appear to be integral membrane proteins . This result is consistent with other evidence suggesting that the proteins may be peripheral to the membrane, possibly mounted on the basal body M ring , . FliG is present in about 25 copies per flagellum. This structure of the C-terminal domain is known, this domain functions specifically in motor rotation .; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 flagellin-based flagellum. Probab=22.32 E-value=51 Score=13.25 Aligned_cols=167 Identities=14% Similarity=0.150 Sum_probs=87.8 Q ss_pred HHHHHHHHHCCCHH----HHHHHHCCCCHHCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 99999997269879----99998312671003610001388876666432198999999999999678529999987767 Q gi|254780528|r 114 IVYALKKYFSGQLE----ESSKELSKIKDKDNTRGIVPYLHLLIGRAMMPFSSQQAVHFFDYVRLTSPGTFLEEIALRNL 189 (396) Q Consensus 114 L~~g~laY~~Gr~~----~a~~~L~~i~~~~lp~~lg~~laLv~a~l~~~~dp~~Al~llD~aRLlaPGTLvEEAALRRs 189 (396) .+--+.+|++-++. .....+..|+-+..+..|-=.-.+..++-++.+.- +|++|=+.-=||=||-|--=- T Consensus 33 ~~a~vfkhL~~~ei~~Ls~~i~~l~~i~~~~~~~VL~EF~~~~~~~~yi~~gg------~~YaR~lL~kaLG~e~A~~~l 106 (346) T TIGR00207 33 VSAEVFKHLSQEEIEELSAEIAKLEQIDKQQKDDVLEEFEEIAEAQEYINKGG------LDYARELLEKALGEEKAKKIL 106 (346) T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH------HHHHHHHHHHHCCHHHHHHHH T ss_conf 45578641788899999999885322348887899999999999999885063------789999988614158999999 Q ss_pred HHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHH------------HHHCCCHHHHHHH Q ss_conf 8875225258999999999997204846566999999985200135778789999------------9857810257999 Q gi|254780528|r 190 LEITQNEVGERAFGYIRAYVTQFHHSIYKDHFISVLLRFFLHGQLKLPDEDIVFT------------ISFFSLEEQRAIY 257 (396) Q Consensus 190 i~la~~g~~~k~~~~a~~Y~rRf~~S~YA~~F~~~f~~~~v~~~~~~~~~~l~~i------------ls~~d~~~q~~lY 257 (396) =-|...-+..+.|.|.+ + ..---.-|| ++.+ +++.++-| ||.+|++.|.++- T Consensus 107 ~~l~~slq~~~~f~~~~----~-~~P~~~~df--------I~~E---HPQtiAlIL~hL~~~~Aa~iLs~l~~e~~~~v~ 170 (346) T TIGR00207 107 NKLTSSLQTKPGFEFLR----K-AEPQQIADF--------IQQE---HPQTIALILSHLDPAQAAEILSLLPEEVQAEVA 170 (346) T ss_pred HHHHHHHCCCCCHHHHH----C-CCHHHHHHH--------HHCC---CHHHHHHHHHHHCHHHHHHHHHCCCHHHHHHHH T ss_conf 98887531631156763----1-586889987--------7505---867999999851830478887306856899999 Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCCCCCHHHHHHHHHHHHHC Q ss_conf 9999999853964799999999996315-78886556899999997501 Q gi|254780528|r 258 LKIAQNSVISGKRKIGFLAIKQLKRIID-RLDYKDLATIQLYENILNIP 305 (396) Q Consensus 258 L~IAR~Ali~G~~~lA~~As~rA~~L~~-~~~~~~~~ra~LY~aaa~i~ 305 (396) +|||-. ++=-+-+..-.++++.-.= ...+.+.+..-=-++++.|- T Consensus 171 ~RiA~~---g~~sP~vv~ev~~VLe~kL~s~~~~~~~~~GGv~~vaEi~ 216 (346) T TIGR00207 171 RRIAVM---GRTSPEVVKEVERVLEKKLESLTSEDYTKVGGVRAVAEII 216 (346) T ss_pred HHHHHC---CCCCHHHHHHHHHHHHHHHCCCCHHHHHHCCCHHHHHHHH T ss_conf 999850---7867899999999997762244212355416257899987 No 26 >PRK11447 cellulose synthase subunit BcsC; Provisional Probab=21.41 E-value=54 Score=13.14 Aligned_cols=79 Identities=13% Similarity=-0.061 Sum_probs=43.7 Q ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCC----------------------------CCHHHHHHHHHHHHHC- Q ss_conf 99999999998539647999999999963157888----------------------------6556899999997501- Q gi|254780528|r 255 AIYLKIAQNSVISGKRKIGFLAIKQLKRIIDRLDY----------------------------KDLATIQLYENILNIP- 305 (396) Q Consensus 255 ~lYL~IAR~Ali~G~~~lA~~As~rA~~L~~~~~~----------------------------~~~~ra~LY~aaa~i~- 305 (396) +++-.-|+.++-.|+...|.-.-+++..+.++.+= .+..-..+|.++.-.. T Consensus 463 ~~l~~qA~~~~~~Gd~~~A~~~l~qa~~~~P~dpWlR~~LAr~~~~~G~~~~A~~lM~~l~~~~p~~pe~~yA~ALyls~ 542 (1158) T PRK11447 463 DRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWITYRLAQDLWQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSG 542 (1158) T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 99999999999788999999999999971899704999999999977998899999999984499998999999999876 Q ss_pred CCCHHHHHHHHHCCCHHHCCHHHHHHHH Q ss_conf 7898999999843997888975399999 Q gi|254780528|r 306 FVDIMSLQRSTCNIPYYSLMEQDRYLKK 333 (396) Q Consensus 306 s~d~~~a~~~L~~Id~~~L~~~Dr~L~~ 333 (396) +++...++..|..||..+.++.=+.|.. T Consensus 543 ~~~~~~A~a~L~~IP~a~~t~~mr~L~~ 570 (1158) T PRK11447 543 SDRDRAALAHLNTLPRAQWNSNIQELAQ 570 (1158) T ss_pred CCCHHHHHHHHHHCCHHHCCHHHHHHHH T ss_conf 7887999999973994337978999999 No 27 >pfam10037 MRP-S27 Mitochondrial 28S ribosomal protein S27. Members of this family of small ribosomal proteins possess one of three conserved blocks of sequence found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins, leaving open the possibility that MRP-S27 might be a functional partner of GTP-binding ribosomal proteins. Probab=21.30 E-value=47 Score=13.46 Aligned_cols=25 Identities=12% Similarity=-0.110 Sum_probs=11.4 Q ss_pred CCHHHHHHHHHHHHCCCCHHHHHHH Q ss_conf 5623379999989748988999999 Q gi|254780528|r 77 VDNRNIDAVWIYTIISQDLSVVDDL 101 (396) Q Consensus 77 ~d~rNv~Aa~iY~lSGG~P~~lr~l 101 (396) .-|--.+|.|=..|.-|+|+.+=++ T Consensus 99 ll~sT~Ha~VRq~L~~~~~d~lL~~ 123 (417) T pfam10037 99 LRDSTIHAWIRQCLKYQAPDKALYT 123 (417) T ss_pred CCCCCHHHHHHHHHHCCCHHHHHHH T ss_conf 5787479999999946888889999 No 28 >pfam07624 PSD2 Protein of unknown function (DUF1585). A conserved sequence region at the C terminus of several cytochrome-like proteins in Rhodopirellula baltica. Probab=20.82 E-value=55 Score=13.06 Aligned_cols=34 Identities=18% Similarity=0.230 Sum_probs=24.5 Q ss_pred CCHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHH Q ss_conf 98899999986188984326999999997269879 Q gi|254780528|r 93 QDLSVVDDLIAKDTKGYFDIAIVYALKKYFSGQLE 127 (396) Q Consensus 93 G~P~~lr~l~~~d~~~~~d~~L~~g~laY~~Gr~~ 127 (396) -|+.-+++++..+ .+.+-+.++.-++.|+-||.. T Consensus 7 ~~~~~lk~~L~~~-~d~~~r~~~~kLl~YAlGR~l 40 (76) T pfam07624 7 EGPAELKKLLLER-KDQFARSLTEKLLTYALGRSL 40 (76) T ss_pred CCHHHHHHHHHHC-HHHHHHHHHHHHHHHHCCCCC T ss_conf 9999999999989-899999999999999808999 Done!