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= 0001.3117.p (455 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... 836 0.0 gi|300309918|ref|YP_003774010.1| major facilitator superfamily p... 191 1e-49 gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspir... 162 4e-41 gi|300309866|ref|YP_003773958.1| major facilitator superfamily p... 154 2e-38 gi|300313658|ref|YP_003777750.1| transport transmembrane protein... 143 4e-35 >gi|300312451|ref|YP_003776543.1| D-galactonate transporter protein [Herbaspirillum seropedicae SmR1] Length = 439 Score = 836 bits (2160), Expect = 0.0, Method: Compositional matrix adjust. Identities = 414/438 (94%), Positives = 426/438 (97%), Gaps = 1/438 (0%) Query: 19 AGAV-KPTHIRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVTMGYIFSAFSWA 77 AG V KPTH+RYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPV MGYIFSAFSWA Sbjct: 2 AGEVAKPTHVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWA 61 Query: 78 YVLAQLPGGWLLDRFGSKTIYMWSIALWSFFTFLQAGVTWMSTGAAVVALFLLRFMVGLA 137 YVLAQLPGGWLLDRFGSK IYMWSIALWS FTFLQAGVTWMST AAV +LFLLRFMVGLA Sbjct: 62 YVLAQLPGGWLLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLA 121 Query: 138 EAPSFPANGRIVAAWYPTKERGTASAIFNSAQYFAAVIFTPLMAWIVHSYSWHHVFTVMG 197 EAPSFPANGRIVAAW+PTKERGTASAIFNSAQYFAAV+FTPLMAWIVH+YSWHHVFTVMG Sbjct: 122 EAPSFPANGRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMG 181 Query: 198 VVGILLALIWGRIIYSPKDHPRINAAELHHIESGGGLVDMDNKKVAAPSVQGKGYLRQLL 257 VVGI LALIWGRIIYSPKDHPRIN AEL HIESGGGLVDMDN+KVAAPS +G+GY+RQLL Sbjct: 182 VVGIALALIWGRIIYSPKDHPRINQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQLL 241 Query: 258 SNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGG 317 SNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGG Sbjct: 242 SNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGG 301 Query: 318 LISDRLIKSGLSVTWSRKIPIVGGMLLSMTMILCNYVQAQWLVVGIMALAFFGKGVGALG 377 LISDRLIK GLSVTW+RKIPIVGGMLLSMTMILCNYV+AQW+VVGIMALAFFGKGVGALG Sbjct: 302 LISDRLIKRGLSVTWARKIPIVGGMLLSMTMILCNYVEAQWMVVGIMALAFFGKGVGALG 361 Query: 378 WAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTV 437 WAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTV Sbjct: 362 WAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTV 421 Query: 438 ISYLVIVKEIKRVELKDA 455 ISYLVIVKEIKRVELKDA Sbjct: 422 ISYLVIVKEIKRVELKDA 439 >gi|300309918|ref|YP_003774010.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 191 bits (485), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 128/431 (29%), Positives = 219/431 (50%), Gaps = 31/431 (7%) Query: 26 HIRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVTMGYIFSAFSWAYVLAQLPG 85 I+ + L L + VNY DR+TLSIA ++ EL+L MG + SAFS AY +QLP Sbjct: 13 RIQVVALSFLMLAGIVNYLDRSTLSIANHSVSQELNLSASQMGLLLSAFSLAYAFSQLPI 72 Query: 86 GWLLDRFGSKT-----IYMWSIALWS--FFTFLQAGVTWMSTGAAVVALFLLRFMVGLAE 138 G +LD+FG++ +++WS+A + F LQ + R +GL E Sbjct: 73 GAMLDKFGARVMLGAGMFIWSVAQLAGGFVNNLQ-------------QFLVARVFLGLGE 119 Query: 139 APSFPANGRIVAAWYPTKERGTASAIFNSAQYFAAVIFTPLMAWIVHSYSWHHVFTVMGV 198 AP FPA ++V+ W+ +ERG + IF ++ + P++ ++ S+ W +F +MGV Sbjct: 120 APQFPAGAKVVSEWFAMRERGGPTGIFVASSTIGPALAPPILTILMLSFGWRMMFVIMGV 179 Query: 199 VGILLALIWGRIIYSPKDHPRINAAELHHIESGGGLVDMDNKKVAAPSVQGKGYLRQLLS 258 +GI +++ W + Y ++ ++ +E+ ++ D DN A + + + L + Sbjct: 180 LGIAVSVGW-YLFYRNRNEVQLTPSEVLYLAD-----DHDNDPNANAKLSWSEW-KSLFT 232 Query: 259 NRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGGL 318 R G+ G + + + +LTW P YL ER +SI + G+V IP + G +G + G Sbjct: 233 YRTTWGMLFGFMGVIYMVWLYLTWLPAYLEHERHLSIARTGWVVVIPYIFGTLGMLSSGY 292 Query: 319 ISDRLIKSGLSVTWSRKIPIVGGMLLSMTM-ILCNYVQAQWLVVGI--MALAFFGKGVGA 375 I+D L+K G+ SRK PI G++ + I Y + + + +A+AF G Sbjct: 293 IADGLMKRGMPAIRSRKWPICAGLIGAGAFTIPAAYTPSTTMAIVYISLAMAFVNMASGG 352 Query: 376 LGWAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALV 435 WA+V+ P+++V G + N G + G P++ G +V +T SF AL+ A Sbjct: 353 -AWALVSVAIPRRLVASLGSMQNFGGYLGGSLAPVITGVVVDQTHSFVNALLISAAVAFA 411 Query: 436 TVISYLVIVKE 446 + Y+ +V + Sbjct: 412 AALVYMFVVDK 422 >gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspirillum seropedicae SmR1] Length = 441 Score = 162 bits (411), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 120/447 (26%), Positives = 217/447 (48%), Gaps = 38/447 (8%) Query: 23 KPTHIRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVTMGYIFSAFSWAYVLAQ 82 K TH R+++ L+F+V TV ADRA L +A ++ E + G + S F +AY LAQ Sbjct: 11 KKTHFRWVVGALIFIVYTVAAADRANLGVALPFLRKEFVMSNTEAGALASIFLFAYSLAQ 70 Query: 83 LPGGWLLDRFGSKTIYMWSIALWSFFTFLQAGVTWMSTGAAVVALFLLRFMVGLAEAPSF 142 LP G RFG ++ ++ S FT L + T ++++AL + RF +GLAE P Sbjct: 71 LPSGLAYTRFGIPRVFSLAMLATSVFTGL------IGTASSLLALKIFRFGLGLAEGPLP 124 Query: 143 PANGRIVAAWYPTKERGTASAIFNSAQYFAAVIFTPLMAWIVHSYSWHHVFTVMGVVGIL 202 + W+P +E+GT + IF +A F V+ P+ A I++ + W H+F V G++ Sbjct: 125 IGITSTINNWFPAREKGTMTGIFLAAAKFGPVLVPPVCAVIMYYWGWRHIFYFFAVPGVI 184 Query: 203 LALIWGRIIYS-PKDHPRINAAELHHIESGGGLV---DMD----------NKKVAAPSVQ 248 L+++W ++ + P + P ++A EL HI G D D ++ + V Sbjct: 185 LSVVWLMVVKNRPSESPHVSAEELEHINDSQGAAAGQDADPAVTRDFALLDRIIRRSKVA 244 Query: 249 GKGYLRQLLSNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVC 308 + + + ++G +G + + I L W P YL+ +G SI G VA+ P V Sbjct: 245 TIETTKGVFCSWNIMGAALGYFFMTAIVNVLLAWIPTYLISVKGYSIANMGMVAAAPWVG 304 Query: 309 GFIGGVVGGLISDRLIKSGLSVTWSRKIPIVGGMLLS------MTMILCNYVQAQWLVVG 362 IG ++GG ++DR ++ R+ P M++S M +IL N L Sbjct: 305 AVIGNLLGGAMTDRWLE-------KRRKP---AMMMSAFFTTIMMVILINSPADPLLYGA 354 Query: 363 IMALAFFGKGVGALGWAVVA-DTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGS 421 ++ L +G + V K++ ++ + N G + G P+ G+++ ++ S Sbjct: 355 LLLLTGILLNIGYSTYMVYPMGMTSKKVYPMACAMVNTLGQLGGACAPLAAGFLL-DSYS 413 Query: 422 FSGALVFVGINALVTVISYLVIVKEIK 448 ++ +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 = 126/433 (29%), Positives = 206/433 (47%), Gaps = 60/433 (13%) Query: 23 KPTHIRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVTMGYIFSAFSWAYVLAQ 82 KPT R++++ L+F++ + ADRA IA MK E + G I S FS+AY L Q Sbjct: 38 KPTRYRWVVMGLIFLIWAIACADRANFGIALPYMKKEYGITNTEAGLIVSLFSFAYGLVQ 97 Query: 83 LPGGWLLDRFGSKTIYMWSIALWSFFTFLQAGVT-WMSTGAAVVALFLLRFMVGLAEAPS 141 +P G + R KT + L+S F L + T M T ++V+ L L R +GL+E P Sbjct: 98 IPVGLMYKRLSEKTTGI----LFSVFMLLTSLFTGLMGTTSSVLLLQLYRVGLGLSEGPL 153 Query: 142 FPANGRIVAAWYPTKERGTASAIFNSAQYFAAVIFTPLMAWIVHSYSWHHVFTVMGVVGI 201 ++ W+P +E+GTA+ ++ +A +I + ++ + W +F V V GI Sbjct: 154 GIGCTNVINRWFPPEEKGTATGLWIAASKLGPLIVPTVCIIVIQLWGWREIFYVFAVPGI 213 Query: 202 LLALIWGRII-YSPKDHPRINAAELHHIES-----------------GGGLVDMD----- 238 LA++W ++ SP ++ N AE +I G + M Sbjct: 214 FLAILWFFLVTNSPSENRFCNEAERRYITQDVAAGPATATASSRAHVGAQVTPMPWLDGI 273 Query: 239 NKKVAAPSVQGKGYLRQLLSNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKA 298 N+ P ++ LRQ+ ++ ++GV IG C+ I+ F++W P YLV +G + +K Sbjct: 274 NRTRRVPRLE---TLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVKGFASVKM 330 Query: 299 GFVASIPAVCGFIGGVVGGLISDRLIKSGLSVTWSRKIPIVGGMLLS------MTMILCN 352 GF+AS P + G ++GG+ISDRL+ R+ P+ MLL MT++L Sbjct: 331 GFLASAPFIGAVAGNMLGGVISDRLLG-------GRRKPM---MLLGALGTALMTLLLVE 380 Query: 353 ------YVQAQWLVVGIM-ALAFFGKGVGALGWAVVADTAPKQIVGLSGGLFNMFGNVAG 405 Y+ A ++ G+M + F G +G A A T P G+ N G + G Sbjct: 381 APDSVLYLGAMLMLSGLMLGIGFAGYSAYPMGLATKA-TYPAAF-----GIVNSLGQIGG 434 Query: 406 ITTPIVIGYIVKE 418 P+ +G ++ Sbjct: 435 ACAPLAVGMLLDR 447 >gi|300313658|ref|YP_003777750.1| transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 143 bits (360), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 117/421 (27%), Positives = 201/421 (47%), Gaps = 44/421 (10%) Query: 40 TVNYADRATLSIAGSAMKTELSLDPVTMGYIFSAFSWAYVLAQLPGGWLLDRFGSKTIYM 99 V+Y DRA ++ A + + +E L P +G + S+F Y L QLPGGWL DR+GS+ + + Sbjct: 23 CVSYIDRAAITFAATQIASEFHLKPSDLGILLSSFFLGYSLLQLPGGWLADRYGSRPVIV 82 Query: 100 WSIALWSFFTFLQAGVTWMSTGAAVVALFLLRFMVGLAEAPSFPANG-RIVAAWYPTKER 158 SI LWS FT GVT M+ +V +L ++RF+ G+ E +FPA + VA + ER Sbjct: 83 ISILLWSLFT----GVTGMAW--SVTSLVMIRFIFGVGEG-AFPAASVKGVAENFSRDER 135 Query: 159 GTASAIFNSAQYFAAVIFTPLMAWIVHSYSWHHVFTVMGVVGILLALIWGRIIYSPKDHP 218 S++ S+ Y +++ L+A ++ Y W VF +G+ G++ AL++ + Sbjct: 136 PKMSSLLMSSNYIGSMLAPLLIAPLILHYGWRAVFHYIGIAGVVFALVYWFCV------- 188 Query: 219 RINAAELHHIESGGGLVDMDNKKVAAPSVQGKGYLRQLLSNRMLLGVYIGQYCINVITYF 278 + G G NK+ L+ ++ + + +++I Sbjct: 189 -------RPVRPGVGGAGAINKQA----------FMALMKMPLMWQIVAVWFGLSIINKG 231 Query: 279 FLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGGLISDRLIKSGLSVTWSRKIPI 338 TW P YL+ RG+++ G + +P + + +GG + R K+ + Sbjct: 232 LDTWMPTYLMTVRGLNLKAVGLLLPLPYIMAGLSTAIGGWVMVRFFDG------REKLLL 285 Query: 339 VGGMLLSMTMILCNYVQAQWLVVGIMA---LAFFGKG-VGALGWAVVADTAPKQIVGLSG 394 +G LL+ + C Y A V G++A LA+F K V A A+ Q+VG Sbjct: 286 IGSSLLTAVFVYCMYSAAS--VEGVIAWQCLAYFFKSFVLATCIALPTKMLQAQLVGSGV 343 Query: 395 GLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTVISYLVIVKEIKRVELKD 454 G+ N+ G +AG +P+VIG++V ++ A F+ A +V+ L I +++ Sbjct: 344 GMVNLGGQLAGFISPLVIGFLVSAFANYDYAFSFLIGAAFFSVLVSLFIRTHKSDSQMQP 403 Query: 455 A 455 A Sbjct: 404 A 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 0.435 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: 1,492,741 Number of extensions: 67858 Number of successful extensions: 435 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 407 Number of HSP's successfully gapped: 24 Length of query: 455 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 367 Effective length of database: 1,203,190 Effective search space: 441570730 Effective search space used: 441570730 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)