BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0493.0005.p (374 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C3GW83.1 C3GW83_BACTU YfiN1 478 e-133 A7Z0X5.1 A7Z0X5_BACA2 YfiN1 350 2e-94 Q97MM4.1 Q97MM4_CLOAB Predicted permease 282 5e-74 A8MJY2.1 A8MJY2_ALKOO ABC-2 type transporter 118 1e-24 P94442.1 YFIN_BACSU Putative transport permease yfiN 109 5e-22 >C3GW83.1 C3GW83_BACTU YfiN1 Length = 388 Score = 478 bits (1229), Expect = e-133, Method: Compositional matrix adjust. Identities = 235/374 (62%), Positives = 309/374 (82%), Gaps = 1/374 (0%) Query: 1 MFRNRTAVFATIAVPLILTFLFSFSQGS-SQERLYVADADHSAYSKQLMDMIQRHNQVKI 59 MFRNR A+FATI VPLILTFLFSFSQ S QE+LY+ DAD+S YS QL++MIQ H VK Sbjct: 14 MFRNRLAIFATITVPLILTFLFSFSQSSDKQEKLYLVDADNSVYSNQLIEMIQEHKNVKT 73 Query: 60 VHSDEATIKKKVDDQDIPFGLVVKQGFGSRLSSGEDLPVYFVQNYENGDGTILEEIITSE 119 ++ E +KKK+DDQDIPFGLV+++ FG+ +SSG+DL + F++NYE G G +L+++IT+E Sbjct: 74 INVTENNLKKKIDDQDIPFGLVIEKDFGNNISSGKDLKIKFIENYEKGSGILLKQLITNE 133 Query: 120 VSTLQKVIHDSQVISTELNADGSGITASVFKGINEASNLTIDDQTLSNGEKTHDNATARL 179 V TL+KVI DS+ +S EL D I ++F+GI E+S +T++D+TLSNG+K HDNATARL Sbjct: 134 VGTLKKVIGDSKYVSEELGLDDEEIAQNIFRGIKESSQITLNDKTLSNGQKEHDNATARL 193 Query: 180 IGFLVMFIWFVVIQGLRTLIDERENNTFSRLLSTPVDYKKYLLAKMTATYLFGAVHVLVI 239 IGFLVMFIWFVVIQGLRTLIDE+ENNTFSRLLSTPV+Y KY+++KM ATY+ G VHV+VI Sbjct: 194 IGFLVMFIWFVVIQGLRTLIDEKENNTFSRLLSTPVNYHKYIISKMAATYIVGIVHVIVI 253 Query: 240 LAAGKYLLKISIADNALAVGILFAAYLFALTSITMIVIPFMRNQKQFTSSASIIIAVTGM 299 + AGKYLLKI + N A+G++ + YLFAL SITMI+IPFM++QKQFTSSASIIIAV+GM Sbjct: 254 ILAGKYLLKIGMGHNVFAIGLILSVYLFALISITMIMIPFMKSQKQFTSSASIIIAVSGM 313 Query: 300 LGGSFFSMEMAPGFMRVLSRFTPESWAIQSLSAVIFDHQPMTSEWVPLAVFAGIGVVGLA 359 +GGSF+S+E+AP +M+ +S+FTPE+WAIQSL+ VIF+ P+ SE +P+ +F GIG+V L Sbjct: 314 VGGSFYSLEIAPKYMQSISKFTPEAWAIQSLNDVIFNKSPIGSELIPIGIFIGIGLVSLV 373 Query: 360 AGFLFMNRELKALR 373 +LF++RE++ L Sbjct: 374 VSYLFISREMQKLN 387 >A7Z0X5.1 A7Z0X5_BACA2 YfiN1 Length = 380 Score = 350 bits (897), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 175/371 (47%), Positives = 242/371 (65%), Gaps = 9/371 (2%) Query: 1 MFRNRTAVFATIAVPLILTFLFSFS-QGSSQERLYVADADHSAYSKQLMDMIQRHNQVKI 59 M +NR A+FATI+ PL+LT+ FSFS GS Q+ +YVAD D SAYS Q M MIQ+ +K+ Sbjct: 15 MLQNRAAIFATISAPLLLTYFFSFSADGSQQKEVYVADEDQSAYSAQFMKMIQKAGHIKV 74 Query: 60 VHSDEATIKKKVDDQDIPFGLVVKQGFGSRLSSGEDLPVYFVQNYENGDGTILEEIITSE 119 E +K KV QDI FGL++ F L SG++L V F+QN E GD + E++I + Sbjct: 75 TKVTEDVLKTKVHHQDISFGLLIGSHFEETLFSGDELNVSFIQNEEKGDAVLTEQLIAQQ 134 Query: 120 VSTLQKVIHDSQVISTELNADGSGITASVFKGINEASNLTIDDQTLSNGEKTHDNATARL 179 L+K++ D++VIS L+ DG A + K I S + +D + G + D RL Sbjct: 135 AGALKKIVRDAKVISRTLHTDGKQAAADLLKDIQGHSAVNVDRHHVYEGGQAAD----RL 190 Query: 180 IGFLVMFIWFVVIQGLRTLIDERENNTFSRLLSTPVDYKKYLLAKMTATYLFGAVHVLVI 239 IGFLVMFIWFV +Q LR+ IDE+EN+T+ RLLSTPV Y Y ++K A YLFG +H++VI Sbjct: 191 IGFLVMFIWFVAVQSLRSFIDEQENHTYDRLLSTPVSYTAYAISKFAAAYLFGLLHIIVI 250 Query: 240 LAAGKYLLKISIADNALAVGILFAAYLFALTSITMIVIPFMRNQKQFTSSASIIIAVTGM 299 LAAG ++L I AD+ A G + AA FALT++TM VIPFM++QKQFTS AS+ IAVTG+ Sbjct: 251 LAAGTFMLHIRFADHVFAAGAVLAACSFALTAVTMAVIPFMKSQKQFTSLASVFIAVTGL 310 Query: 300 LGGSFFSMEMAPGFMRVLSRFTPESWAIQSLSAVIFDHQPMTSEWVPLAVFAGIGVVGLA 359 LG +FF+++ AP +M++LS FTPE WAI + ++ + + VPL++F G L Sbjct: 311 LGEAFFTLDAAPEYMQMLSLFTPEIWAIGAFQ----NNGGGSMQIVPLSLFLAAGAASLV 366 Query: 360 AGFLFMNRELK 370 +NR +K Sbjct: 367 LSLYMINRHMK 377 >Q97MM4.1 Q97MM4_CLOAB Predicted permease Length = 391 Score = 282 bits (721), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 146/361 (40%), Positives = 235/361 (65%), Gaps = 3/361 (0%) Query: 1 MFRNRTAVFATIAVPLILTFLFSFSQGSS-QERLYVADADHSAYSKQLMDMIQRHNQVKI 59 +F NR AVFA I P++LTFL S+S S+ + +Y AD D++ S+QL++M++ ++ + + Sbjct: 14 LFNNRLAVFAIILAPILLTFLVSYSSSSNSKTNVYFADQDNTEASRQLVNMLKNNHDLNL 73 Query: 60 VHSDEATIKKKVDDQDIPFGLVVKQGFGSRLSSGEDLPVYFVQNYENGDGTILEEIITSE 119 + S E+ IK KVDD +I G+++ +GFG +L + + L + +++Y++ DG L +II S Sbjct: 74 ISSSESEIKNKVDDDNITVGVLINKGFGYKLQNNKALDITLIEDYDSVDGEKLSDIILST 133 Query: 120 VSTLQKVIHDSQVISTELNADGSGITASVFKGINEASNLTIDDQTLSNGEKTHDNATARL 179 +TLQKV DS+ IS L+++ S I+ + K IN S + + + L + + D L Sbjct: 134 ENTLQKVNLDSKSISRVLSSNESSISNKIIKKINNGSGVKLLYKNLKSSQNVEDKNAQNL 193 Query: 180 IGFLVMFIWFVVIQGLRTLIDERENNTFSRLLSTPVDYKKYLLAKMTATYLFGAVHVLVI 239 IGFL+MF+WF+VIQG RTLI+E+ENNTF+R+ TP +Y KYLL+K+ A Y+FG + + +I Sbjct: 194 IGFLLMFLWFIVIQGFRTLIEEKENNTFNRIKGTPTNYSKYLLSKIIANYIFGMIIIAII 253 Query: 240 LAAGKYLLKISIADNALAVGILFAAYLFALTSITMIVIPFMRNQKQFTSSASIIIAVTGM 299 L GKY LK I +N + + YLF++ + MI +PF++ + FT + I+ +TG+ Sbjct: 254 LIVGKYGLKSKIINNVGPEIAILSIYLFSIVGLVMIFVPFVKKHQTFTIIGAAIMVLTGL 313 Query: 300 LGGSFFSME--MAPGFMRVLSRFTPESWAIQSLSAVIFDHQPMTSEWVPLAVFAGIGVVG 357 LGGSFFSM+ P + ++S+F PE+W I+SL V+F++ + S+ + V G+VG Sbjct: 314 LGGSFFSMDELQLPKAIEIISKFMPETWGIKSLKEVVFNNLSLGSQSQTILVLGIAGIVG 373 Query: 358 L 358 L Sbjct: 374 L 374 >A8MJY2.1 A8MJY2_ALKOO ABC-2 type transporter Length = 388 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/367 (23%), Positives = 181/367 (49%), Gaps = 14/367 (3%) Query: 3 RNRTAVFATIAVPLILTFLFSFSQGSSQERLYVADADHSAYSKQLMDMIQRHNQVKIVHS 62 RN + + A P+ILTF F G ++ L + + D S YS L++ IQ+ N I Sbjct: 14 RNLSWILLMAAFPMILTFFFGGGMGRERKALPMVNEDQSVYSTMLIEEIQKSNAYDITEI 73 Query: 63 DEATIKKKVDDQDIPFGLVVKQGFGSRLSSGEDLPVYFVQNYENGDGTILEEIITSEVST 122 + ++ V +Q+ F LV+ +GF + + +++ E D L+ ++ S Sbjct: 74 ERREAERLVREQEALFSLVIPKGFMEAIEGEHKTNIMIIRSIETLDIYALQSVLNS---A 130 Query: 123 LQKVIHDSQVISTELNA-DGSGITASVFKGINE------ASNLTIDDQTLSNGEKTH--- 172 LQKV + ++++ + G ASV + +++ AS+ I + + GE T Sbjct: 131 LQKVATERKIVAAGMEILSRYGAEASVEERLSQVVSSKLASDGMITVKAKTYGEDTAGRL 190 Query: 173 DNATARLIGFLVMFIWFVVIQGLRTLIDERENNTFSRLLSTPVDYKKYLLAKMTATYLFG 232 + T+ GFL+ F + + + ++++++ ++RL+ +PV K A M ++ G Sbjct: 191 EPRTSSSAGFLLFFSMYPLTFLVGDILEDKKLLIWNRLIISPVSKIKMYSANMVFAFIVG 250 Query: 233 AVHVLVILAAGKYLLKISIADNALAVGILFAAYLFALTSITMIVIPFMRNQKQFTSSASI 292 +++++ K + I+ N + + +L + F + + +++ F++ +Q ++ A I Sbjct: 251 MAQMVLLVILNKVIFNITWTQNTMGLILLLGVFSFTVIGLGLLLSAFVKTPQQLSAIAPI 310 Query: 293 IIAVTGMLGGSFFSMEMAPG-FMRVLSRFTPESWAIQSLSAVIFDHQPMTSEWVPLAVFA 351 ++ T MLGG + +E+ + L+R TP+ WA+++ + +++ + P P+ V Sbjct: 311 VLTSTSMLGGLMWPVEIITNKVLLFLARLTPQFWAMEAFNKLMYYNAPTKDILFPVMVLF 370 Query: 352 GIGVVGL 358 IG++ L Sbjct: 371 LIGILFL 377 >P94442.1 YFIN_BACSU Putative transport permease yfiN Length = 385 Score = 109 bits (272), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 83/380 (21%), Positives = 179/380 (47%), Gaps = 15/380 (3%) Query: 1 MFRNRTAVFATIAVPLILTFLFS--FSQGSSQERLYVADADHSAYSKQLMDMIQRHNQVK 58 +F+ A PL+LTF+F S + RL + D D + S+ + ++ H+ + Sbjct: 15 IFKKPQNYLIMFAAPLLLTFVFGSMLSGNDDKVRLAIVDQDDTILSQHYIRQLKAHDDMY 74 Query: 59 IVHS-DEATIKKKVDDQDIPFGLVVKQGFGSRLSSGEDLPVYFVQNYENGDGTILEEIIT 117 + + E+ +K+ + I +V+ + F ++L G+ + F E + ++++ Sbjct: 75 VFENMSESKASEKLKQKKIAGIIVISRSFQTQLEKGKHPELIFRHGPELSEAPMVKQYAE 134 Query: 118 SEVSTLQKVIHDSQVISTELNADGSGITASVFKGINEASNLTIDDQTLSN---GEKTHDN 174 S ++TL + ++ S + +VF +E + QTLS+ G + D Sbjct: 135 SALATLNIQVTAAKTASQTAGENWKAAYKTVFAKKHEDIVPAVTRQTLSDKKEGAEASDT 194 Query: 175 ATARLIGFLVMFIWFVVIQGLRTLIDERENNTFSRLLSTPVDYKKYLLAKMTATYLFGAV 234 A+ R GF ++F+ ++ T+++ R+N +SRLL+ V + + + ++ G + Sbjct: 195 AS-RAAGFSILFVMLTMMGAAGTILEARKNGVWSRLLTASVSRAEIGAGYVLSFFVIGWI 253 Query: 235 HVLVILAAGKYLLKISIADNALAVGILFAAYLFALTSITMIVIPFMRNQKQFTSSASIII 294 ++L + +L I+ + A AV +L + +L + I +++ +R +Q + ++ + Sbjct: 254 QFGILLLSTHWLFGINWGNPA-AVIVLVSLFLLTVVGIGLMIAANVRTPEQQLAFGNLFV 312 Query: 295 AVTGMLGGSFFSMEMAPGFMRVLSRFTPESWAIQSLSAVIFDHQPMTSEWVPLAVFAGIG 354 T M+ G ++ +++ P FM+ ++ F P+ WA+ L+ +I + +T + Sbjct: 313 IATCMVSGMYWPIDIEPKFMQSIAEFLPQKWAMSGLTEIIANGARVTDILGICGILLAFA 372 Query: 355 VVGLAAGFLFMNRELKALRG 374 + AAG LKALR Sbjct: 373 AITFAAG-------LKALRA 385 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.323 0.136 0.384 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 2,012,615,206 Number of extensions: 79722634 Number of successful extensions: 240711 Number of sequences better than 1.0e-05: 439 Number of HSP's gapped: 241006 Number of HSP's successfully gapped: 439 Length of query: 374 Length of database: 3,060,696,203 Length adjustment: 137 Effective length of query: 237 Effective length of database: 1,770,017,148 Effective search space: 419494064076 Effective search space used: 419494064076 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 132 (55.5 bits)