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= 0002.0097.p (447 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312451|ref|YP_003776543.1| D-galactonate transporter prote... 876 0.0 gi|300309918|ref|YP_003774010.1| major facilitator superfamily p... 196 2e-51 gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspir... 164 2e-41 gi|300309866|ref|YP_003773958.1| major facilitator superfamily p... 154 2e-38 gi|300313658|ref|YP_003777750.1| transport transmembrane protein... 144 2e-35 >gi|300312451|ref|YP_003776543.1| D-galactonate transporter protein [Herbaspirillum seropedicae SmR1] Length = 439 Score = 876 bits (2264), Expect = 0.0, Method: Compositional matrix adjust. Identities = 437/438 (99%), Positives = 437/438 (99%) Query: 10 AGGVAKPTHVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWA 69 AG VAKPTHVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWA Sbjct: 2 AGEVAKPTHVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWA 61 Query: 70 YVLAQLPGGWLLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLA 129 YVLAQLPGGWLLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLA Sbjct: 62 YVLAQLPGGWLLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLA 121 Query: 130 EAPSFPANGRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMG 189 EAPSFPANGRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMG Sbjct: 122 EAPSFPANGRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMG 181 Query: 190 VVGIALALIWGRIIYSPKDHPRINQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQLL 249 VVGIALALIWGRIIYSPKDHPRINQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQLL Sbjct: 182 VVGIALALIWGRIIYSPKDHPRINQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQLL 241 Query: 250 SNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGG 309 SNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGG Sbjct: 242 SNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGG 301 Query: 310 LISDRLIKRGLSVTWARKIPIVGGMLLSMTMILCNYVEAQWMVVGIMALAFFGKGVGALG 369 LISDRLIKRGLSVTWARKIPIVGGMLLSMTMILCNYVEAQWMVVGIMALAFFGKGVGALG Sbjct: 302 LISDRLIKRGLSVTWARKIPIVGGMLLSMTMILCNYVEAQWMVVGIMALAFFGKGVGALG 361 Query: 370 WAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTV 429 WAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTV Sbjct: 362 WAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTV 421 Query: 430 ISYLVIVKEIKRVELKDA 447 ISYLVIVKEIKRVELKDA Sbjct: 422 ISYLVIVKEIKRVELKDA 439 >gi|300309918|ref|YP_003774010.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 196 bits (499), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 128/424 (30%), Positives = 216/424 (50%), Gaps = 17/424 (4%) Query: 18 HVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWAYVLAQLPG 77 ++ + L L + VNY DR+TLSIA ++ EL+L MG + SAFS AY +QLP Sbjct: 13 RIQVVALSFLMLAGIVNYLDRSTLSIANHSVSQELNLSASQMGLLLSAFSLAYAFSQLPI 72 Query: 78 GWLLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLAEAPSFPAN 137 G +LD+FG++ + + +WSV V + + R +GL EAP FPA Sbjct: 73 GAMLDKFGARVMLGAGMFIWSVAQLAGGFVN------NLQQFLVARVFLGLGEAPQFPAG 126 Query: 138 GRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMGVVGIALAL 197 ++V+ WF +ERG + IF ++ L P++ ++ ++ W +F +MGV+GIA+++ Sbjct: 127 AKVVSEWFAMRERGGPTGIFVASSTIGPALAPPILTILMLSFGWRMMFVIMGVLGIAVSV 186 Query: 198 IWGRIIYSPKDHPRINQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQLLSNRMLLGV 257 W + Y ++ ++ +E+ ++ D DN A + + L + R G+ Sbjct: 187 GW-YLFYRNRNEVQLTPSEVLYLAD-----DHDNDPNANAKLSWSEW-KSLFTYRTTWGM 239 Query: 258 YIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGGLISDRLIK 317 G + + + +LTW P YL ER +SI + G+V IP + G +G + G I+D L+K Sbjct: 240 LFGFMGVIYMVWLYLTWLPAYLEHERHLSIARTGWVVVIPYIFGTLGMLSSGYIADGLMK 299 Query: 318 RGLSVTWARKIPIVGGML-LSMTMILCNYVEAQWMVVGI--MALAFFGKGVGALGWAVVA 374 RG+ +RK PI G++ I Y + M + +A+AF G WA+V+ Sbjct: 300 RGMPAIRSRKWPICAGLIGAGAFTIPAAYTPSTTMAIVYISLAMAFVNMASGG-AWALVS 358 Query: 375 DTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTVISYLV 434 P+++V G + N G + G P++ G +V +T SF AL+ A + Y+ Sbjct: 359 VAIPRRLVASLGSMQNFGGYLGGSLAPVITGVVVDQTHSFVNALLISAAVAFAAALVYMF 418 Query: 435 IVKE 438 +V + Sbjct: 419 VVDK 422 >gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspirillum seropedicae SmR1] Length = 441 Score = 164 bits (414), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 121/447 (27%), Positives = 217/447 (48%), Gaps = 38/447 (8%) Query: 15 KPTHVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWAYVLAQ 74 K TH R+++ L+F+V TV ADRA L +A ++ E + G + S F +AY LAQ Sbjct: 11 KKTHFRWVVGALIFIVYTVAAADRANLGVALPFLRKEFVMSNTEAGALASIFLFAYSLAQ 70 Query: 75 LPGGWLLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLAEAPSF 134 LP G RFG +++ ++ SVFT L + TA+++ +L + RF +GLAE P Sbjct: 71 LPSGLAYTRFGIPRVFSLAMLATSVFTGL------IGTASSLLALKIFRFGLGLAEGPLP 124 Query: 135 PANGRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMGVVGIA 194 + WFP +E+GT + IF +A F VL P+ A I++ + W H+F V G+ Sbjct: 125 IGITSTINNWFPAREKGTMTGIFLAAAKFGPVLVPPVCAVIMYYWGWRHIFYFFAVPGVI 184 Query: 195 LALIWGRIIYS-PKDHPRINQAELAHIESGGGLV---DMD----------NRKVAAPSTK 240 L+++W ++ + P + P ++ EL HI G D D +R + Sbjct: 185 LSVVWLMVVKNRPSESPHVSAEELEHINDSQGAAAGQDADPAVTRDFALLDRIIRRSKVA 244 Query: 241 GRGYIRQLLSNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVC 300 + + + ++G +G + + I L W P YL+ +G SI G VA+ P V Sbjct: 245 TIETTKGVFCSWNIMGAALGYFFMTAIVNVLLAWIPTYLISVKGYSIANMGMVAAAPWVG 304 Query: 301 GFIGGVVGGLISDRLIKRGLSVTWARKIPIVGGMLLS------MTMILCNYVEAQWMVVG 354 IG ++GG ++DR +++ R+ P M++S M +IL N + Sbjct: 305 AVIGNLLGGAMTDRWLEK-------RRKP---AMMMSAFFTTIMMVILINSPADPLLYGA 354 Query: 355 IMALAFFGKGVGALGWAVVA-DTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGS 413 ++ L +G + V K++ ++ + N G + G P+ G+++ ++ S Sbjct: 355 LLLLTGILLNIGYSTYMVYPMGMTSKKVYPMACAMVNTLGQLGGACAPLAAGFLL-DSYS 413 Query: 414 FSGALVFVGINALVTVISYLVIVKEIK 440 ++ +F+ + +++ I+ L I + ++ Sbjct: 414 WNHVWIFMAVCSILCFITILTIREPVQ 440 >gi|300309866|ref|YP_003773958.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 484 Score = 154 bits (388), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 127/433 (29%), Positives = 205/433 (47%), Gaps = 60/433 (13%) Query: 15 KPTHVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWAYVLAQ 74 KPT R++++ L+F++ + ADRA IA MK E + G I S FS+AY L Q Sbjct: 38 KPTRYRWVVMGLIFLIWAIACADRANFGIALPYMKKEYGITNTEAGLIVSLFSFAYGLVQ 97 Query: 75 LPGGWLLDRFGSKKIYMWSIALWSVFTFLQAGVT-WMSTAAAVASLFLLRFMVGLAEAPS 133 +P G + R K + L+SVF L + T M T ++V L L R +GL+E P Sbjct: 98 IPVGLMYKRLSEKTTGI----LFSVFMLLTSLFTGLMGTTSSVLLLQLYRVGLGLSEGPL 153 Query: 134 FPANGRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMGVVGI 193 ++ WFP +E+GTA+ ++ +A ++ + ++ + W +F V V GI Sbjct: 154 GIGCTNVINRWFPPEEKGTATGLWIAASKLGPLIVPTVCIIVIQLWGWREIFYVFAVPGI 213 Query: 194 ALALIWGRII-YSPKDHPRINQAELAHIES-----------------GGGLVDMD----- 230 LA++W ++ SP ++ N+AE +I G + M Sbjct: 214 FLAILWFFLVTNSPSENRFCNEAERRYITQDVAAGPATATASSRAHVGAQVTPMPWLDGI 273 Query: 231 NRKVAAPSTKGRGYIRQLLSNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKA 290 NR P + +RQ+ ++ ++GV IG C+ I+ F++W P YLV +G + +K Sbjct: 274 NRTRRVPRLE---TLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVKGFASVKM 330 Query: 291 GFVASIPAVCGFIGGVVGGLISDRLIKRGLSVTWARKIPIVGGMLLS------MTMILCN 344 GF+AS P + G ++GG+ISDRL+ R+ P+ MLL MT++L Sbjct: 331 GFLASAPFIGAVAGNMLGGVISDRLLG-------GRRKPM---MLLGALGTALMTLLLVE 380 Query: 345 ------YVEAQWMVVGIM-ALAFFGKGVGALGWAVVADTAPKQIVGLSGGLFNMFGNVAG 397 Y+ A M+ G+M + F G +G A A T P G+ N G + G Sbjct: 381 APDSVLYLGAMLMLSGLMLGIGFAGYSAYPMGLATKA-TYPAAF-----GIVNSLGQIGG 434 Query: 398 ITTPIVIGYIVKE 410 P+ +G ++ Sbjct: 435 ACAPLAVGMLLDR 447 >gi|300313658|ref|YP_003777750.1| transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 144 bits (362), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 121/426 (28%), Positives = 201/426 (47%), Gaps = 54/426 (12%) Query: 32 TVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWAYVLAQLPGGWLLDRFGSKKIYM 91 V+Y DRA ++ A + + +E L P +G + S+F Y L QLPGGWL DR+GS+ + + Sbjct: 23 CVSYIDRAAITFAATQIASEFHLKPSDLGILLSSFFLGYSLLQLPGGWLADRYGSRPVIV 82 Query: 92 WSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLAEAPSFPANG-RIVAAWFPTKER 150 SI LWS+FT GVT M A +V SL ++RF+ G+ E +FPA + VA F ER Sbjct: 83 ISILLWSLFT----GVTGM--AWSVTSLVMIRFIFGVGEG-AFPAASVKGVAENFSRDER 135 Query: 151 GTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMGVVGIALALIWGRIIYSPKDHP 210 S++ S+ Y ++L L+A ++ Y W VF +G+ G+ AL++ + Sbjct: 136 PKMSSLLMSSNYIGSMLAPLLIAPLILHYGWRAVFHYIGIAGVVFALVYWFCV------- 188 Query: 211 RINQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQ-----LLSNRMLLGVYIGQYCIN 265 + P G G I + L+ ++ + + ++ Sbjct: 189 ----------------------RPVRPGVGGAGAINKQAFMALMKMPLMWQIVAVWFGLS 226 Query: 266 VITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGGLISDRLIKRGLSVTWA 325 +I TW P YL+ RG+++ G + +P + + +GG + R Sbjct: 227 IINKGLDTWMPTYLMTVRGLNLKAVGLLLPLPYIMAGLSTAIGGWVMVRFFDG------R 280 Query: 326 RKIPIVGGMLLSMTMILCNYVEAQWMVVGIMA---LAFFGKG-VGALGWAVVADTAPKQI 381 K+ ++G LL+ + C Y A V G++A LA+F K V A A+ Q+ Sbjct: 281 EKLLLIGSSLLTAVFVYCMYSAAS--VEGVIAWQCLAYFFKSFVLATCIALPTKMLQAQL 338 Query: 382 VGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTVISYLVIVKEIKR 441 VG G+ N+ G +AG +P+VIG++V ++ A F+ A +V+ L I Sbjct: 339 VGSGVGMVNLGGQLAGFISPLVIGFLVSAFANYDYAFSFLIGAAFFSVLVSLFIRTHKSD 398 Query: 442 VELKDA 447 +++ A Sbjct: 399 SQMQPA 404 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 0.327 0.140 0.434 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: 1,465,127 Number of extensions: 66086 Number of successful extensions: 431 Number of sequences better than 1.0e-08: 27 Number of HSP's gapped: 399 Number of HSP's successfully gapped: 29 Length of query: 447 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 359 Effective length of database: 1,203,190 Effective search space: 431945210 Effective search space used: 431945210 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 132 (55.5 bits)