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= 0004.0145.p (576 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309575|ref|YP_003773667.1| proline/betaine transporter pro... 596 e-171 gi|300310700|ref|YP_003774792.1| dihydrodipicolinate synthase/N-... 322 5e-89 gi|300312423|ref|YP_003776515.1| proline/betaine transporter pro... 297 2e-81 gi|300309357|ref|YP_003773449.1| major facilitator superfamily (... 296 3e-81 gi|300311827|ref|YP_003775919.1| sugar permease of the major fac... 241 1e-64 >gi|300309575|ref|YP_003773667.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 433 Score = 596 bits (1536), Expect = e-171, Method: Compositional matrix adjust. Identities = 303/345 (87%), Positives = 322/345 (93%) Query: 226 DAGGRKAALSLTILLMAAGTTLIGIAPTYEQIGLFAPLIIVVARLLQGFSAGGEMGSATA 285 D GRKAALS+TILLMA GTT+IG+APTYE IGLFAPLIIVVARLLQGFSAGGEMGSATA Sbjct: 87 DRVGRKAALSVTILLMAVGTTMIGLAPTYESIGLFAPLIIVVARLLQGFSAGGEMGSATA 146 Query: 286 FLTEYAPVRERAFYSSWIQASIGVAVLLGAAVGSYVTSSLSPEALASWGWRLPFLLGIII 345 FLTEYAP RERA+YSSWIQASIGVAVLLGAAVG++VT+SL ALASWGWRLPFLLGIII Sbjct: 147 FLTEYAPERERAYYSSWIQASIGVAVLLGAAVGTFVTASLDAAALASWGWRLPFLLGIII 206 Query: 346 GPVGYYIRHHLDETPAFLEAKDKTDSPLKEIIRNYPRETTASFSMVILWTVCTYVLLFYM 405 GPVGYYIRHHL+ETP FLE KDKTDSPLKE+IRN+PRET+ASFSMVILWTVCTYVLLFYM Sbjct: 207 GPVGYYIRHHLEETPTFLEEKDKTDSPLKEVIRNFPRETSASFSMVILWTVCTYVLLFYM 266 Query: 406 PTYSIKVLKLPQSTGFIAGMVGGLCIMVFAPVVGRIADRYGRRGLLSGAALLILLLAYPM 465 PTYS+KVLKLPQ+TGFIAGMVGGLCIMV AP+VGR+ADR GRR LLSG+A LIL+LAYPM Sbjct: 267 PTYSVKVLKLPQTTGFIAGMVGGLCIMVLAPIVGRLADRIGRRPLLSGSAALILMLAYPM 326 Query: 466 FAYINHAPGLGSLLVFQLVFGILIATYTGPILAAFSELFPAKVLSTGLSVAYNLAVTIFG 525 FAYIN AP L +LL+FQLVFG LIA YTGPILAAFSELFPAKVLSTGLSVAYNLAVTIFG Sbjct: 327 FAYINSAPSLSTLLIFQLVFGTLIAAYTGPILAAFSELFPAKVLSTGLSVAYNLAVTIFG 386 Query: 526 GFASFIITGLIAATGSTMAPAFYVMIAAAISLVGTRFVREPAYLQ 570 GFASF IT LIAATGSTMAPAFYVMIAAAIS VGTRFVREP YLQ Sbjct: 387 GFASFFITWLIAATGSTMAPAFYVMIAAAISFVGTRFVREPQYLQ 431 >gi|300310700|ref|YP_003774792.1| dihydrodipicolinate synthase/N-acetylneuraminate lyase [Herbaspirillum seropedicae SmR1] Length = 306 Score = 322 bits (825), Expect = 5e-89, Method: Compositional matrix adjust. Identities = 151/204 (74%), Positives = 179/204 (87%) Query: 9 TPVYRGVFPVAPTIFDDHGDIDLEGQRRCIDFMIDAGSDGICILANFSEQFALTDDERNA 68 TP+YRGVFPVAPTIFD +G +DLEGQ+R IDFMIDAGS+G+CILANFSEQF L+D+ER Sbjct: 3 TPLYRGVFPVAPTIFDANGKLDLEGQKRAIDFMIDAGSNGLCILANFSEQFVLSDEERVQ 62 Query: 69 LISTVLDHVAGRIPVIVTTTHFSSRICAQRSRNAQDAGAAMVMIMPPYHGATIRVGERGI 128 + +TVL+HVAGR+PVIVTTTH+ S+ICA+RSR AQDAGAAMVM+MPPYHGAT RV E+ I Sbjct: 63 VQNTVLEHVAGRVPVIVTTTHYGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVPEKQI 122 Query: 129 QEFFQTVSDAIDIPIMIQDAPVSGTMLSSTLLVKMAQEIANVSYFKIEVPQAANKLREII 188 EF++ VSDAIDIPIMIQDAPV+GT LS+ L +MA+EI VSYFKIE AA+KLR++I Sbjct: 123 YEFYKHVSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIEQVSYFKIETAGAASKLRDLI 182 Query: 189 ALGGDAIVGPWDGEEAITLMADLD 212 LGGDA+VGPWDGEEAITL+ DLD Sbjct: 183 ELGGDAVVGPWDGEEAITLIPDLD 206 >gi|300312423|ref|YP_003776515.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 427 Score = 297 bits (760), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 156/348 (44%), Positives = 226/348 (64%), Gaps = 2/348 (0%) Query: 217 GAXTLMADLDAGGRKAALSLTILLMAAGTTLIGIAPTYEQIGLFAPLIIVVARLLQGFSA 276 GA L A D GRKAAL L+I+LM GT +I P+Y IGL AP I + +++QGFSA Sbjct: 76 GAVVLGAYSDRAGRKAALMLSIMLMTVGTAMIAFMPSYASIGLLAPAGIALGKMIQGFSA 135 Query: 277 GGEMGSATAFLTEYAPVRERAFYSSWIQASIGVAVLLGAAVGSYVTSSLSPEALASWGWR 336 GGE GS+TAFL E+AP R R F+SSW AS G+++LL A G+ + + L+PE LASWGWR Sbjct: 136 GGEFGSSTAFLVEHAPHR-RGFFSSWQVASQGISLLLAALFGAVLNNMLTPEQLASWGWR 194 Query: 337 LPFLLGIIIGPVGYYIRHHLDETPAFLEAKDKTDSPLKEIIRNYPRETTASFSMVILWTV 396 +PF+ G++I P G YIR HLDE P F E+ +KT++PL++ + VI+ TV Sbjct: 195 VPFIFGLLIAPAGIYIRRHLDEAPEFKESSEKTNAPLRDTFAHQKMRLLIGAGSVIMATV 254 Query: 397 CTYVLLFYMPTYSIKVLKLPQSTGFIAGMVGGLCIMVFAPVVGRIADRYGRRGLLSGAAL 456 Y+ L Y+PTY++K L LP + F A V GL + + +P+VG ++D+ GR + ++ Sbjct: 255 SVYLSL-YIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSDKIGRTPFMITSSA 313 Query: 457 LILLLAYPMFAYINHAPGLGSLLVFQLVFGILIATYTGPILAAFSELFPAKVLSTGLSVA 516 L ++L YPMF ++ ++PG LL+ Q V G+L+ Y + A +++FP TG+S+A Sbjct: 314 LYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADIFPVATRGTGMSLA 373 Query: 517 YNLAVTIFGGFASFIITGLIAATGSTMAPAFYVMIAAAISLVGTRFVR 564 YN+AVTIFGGFA IIT LI TG ++ +++V+ A +SL+ + R Sbjct: 374 YNIAVTIFGGFAGLIITWLIDFTGDKLSVSYFVIFGAVLSLIASLSAR 421 >gi|300309357|ref|YP_003773449.1| major facilitator superfamily (MFS) transporter protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 296 bits (759), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 162/354 (45%), Positives = 223/354 (62%), Gaps = 5/354 (1%) Query: 226 DAGGRKAALSLTILLMAAGTTLIGIAPTYEQIGLFAPLIIVVARLLQGFSAGGEMGSATA 285 D GRKAA+ + I+LM +I PTY IG+ AP++IVVAR+LQGF+ GGE S+TA Sbjct: 75 DRKGRKAAMQVIIVLMTLAIAIIAFTPTYATIGIAAPIMIVVARMLQGFATGGEYSSSTA 134 Query: 286 FLTEYAPVRERAFYSSWIQASIGVAVLLGAAVGSYVTSSLSPEALASWGWRLPFLLGIII 345 FL E AP +R Y SW +AV GA +G+ VT +LSPEAL SWGWRLPF+LG++I Sbjct: 135 FLVESAPAHKRGLYGSWQLVGQCLAVFCGAGMGALVTRNLSPEALDSWGWRLPFVLGLLI 194 Query: 346 GPVGYYIRHHLDETPAFLEAKDKTD-SPLK--EIIRNYPRETTASFSMVILWTVCTYVLL 402 GPVG +IR H+ ET FLE+ +K + +P+K ++++ R S VI TV YV+L Sbjct: 195 GPVGLWIRRHMHETDDFLESANKPNAAPIKLLDVVKTNLRGVLVSMGQVINGTVAFYVVL 254 Query: 403 FYMPTYSIKVLKLPQSTGFIAGMVGGLCIMVFAPVVGRIADRYGRRGLLSGAALLILLLA 462 MPT++ K L LP F+ M+ + P G ++DR GRR +L ++L LL+ Sbjct: 255 VNMPTFANKQLGLPLDQAFMVQMIAVALLTAVIPFAGALSDRLGRRTVLLYSSLAFLLMV 314 Query: 463 YPMFAYINHAPGLGSLLVFQLVFGILIATYTGPILAAFSELFPAKVLSTGLSVAYNLAVT 522 YP+F +++ AP L LLV Q++ I+I GP+ A SE FP +V STGL+VAYNLA Sbjct: 315 YPLFVWVSAAPSLPRLLVMQVLLCIVIGANFGPMPTALSEQFPTRVRSTGLAVAYNLAAM 374 Query: 523 IFGGFASFIITGLIAATGSTMAPAFYVMIAAAISLVGTRFVRE--PAYLQRAQD 574 +FGGFA FI+T L +GS +APA+YV+ AA I + +R+ PA R + Sbjct: 375 LFGGFAPFIVTWLTKTSGSPVAPAWYVLFAACIGVSAAWAMRDQSPAAKNRQTE 428 >gi|300311827|ref|YP_003775919.1| sugar permease of the major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 241 bits (616), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 144/384 (37%), Positives = 212/384 (55%), Gaps = 10/384 (2%) Query: 198 PWDGEEAITLMADLDAGA------TGAXTLMADLDAGGRKAALSLTILLMAAGTTLIGIA 251 P D E A ++ + GA GA L A +D GR+ L +T+ LMA GT LI Sbjct: 44 PSDNEFASLMLTFMTFGAGFLMRPLGAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFV 103 Query: 252 PTYEQIGLFAPLIIVVARLLQGFSAGGEMGSATAFLTEYAPVRERAFYSSWIQASIGVAV 311 P+Y IG APL++++ RLLQGFSAG E+G + +L E A + FY SW AS VA+ Sbjct: 104 PSYATIGALAPLLVLIGRLLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAI 163 Query: 312 LLGAAVGSYVTSSLSPEALASWGWRLPFLLGIIIGPVGYYIRHHLDETPAFLEAKDK--T 369 ++ AA+G +++SL+P ++ WGWR+PF +G +I PV + IR L ET F+ K + T Sbjct: 164 IVAAAIGYLLSTSLTPAEVSGWGWRIPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPST 223 Query: 370 DSPLKEIIRNYPRETTASFSMVILWTVCTYVLLFYMPTYSIKVLKLPQSTGFIAGMVGGL 429 + +I N+ + A +V + TV Y++ Y PT+ VLKL I + GL Sbjct: 224 GQIFRSMIENW-KLVIAGMMLVSMTTVSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGL 282 Query: 430 CIMVFAPVVGRIADRYGRRGLLSGAALLILLLAYPMFAYINHAPGLGSLLVFQLVFGILI 489 ++ P++G ++DR GRR LL +L +L AYP ++ H +L+ +L L Sbjct: 283 SNFIWLPIMGALSDRVGRRPLLVTFTVLTILTAYPAVNWLVHDASFAKMLIVELWLSFLY 342 Query: 490 ATYTGPILAAFSELFPAKVLSTGLSVAYNLAVTIFGGFASFIITGLIAATGSTMAPAFYV 549 A+Y G ++ A +E+ PA V + G S+AY+LA +FGGF I TGLI T AP ++ Sbjct: 343 ASYNGAMVVALTEVMPADVRTAGFSLAYSLATAVFGGFTPAIATGLIEYTHDKAAPGIWM 402 Query: 550 MIAAAISLVGTRFV-REPAYLQRA 572 AA L+ T + R A Q A Sbjct: 403 STAAVCGLIATLILYRNKAVRQAA 426 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.324 0.139 0.409 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,680,380 Number of extensions: 68986 Number of successful extensions: 395 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 385 Number of HSP's successfully gapped: 18 Length of query: 576 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 486 Effective length of database: 1,193,720 Effective search space: 580147920 Effective search space used: 580147920 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 133 (55.8 bits)