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= 0012.0057.p (461 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... 752 0.0 gi|300309918|ref|YP_003774010.1| major facilitator superfamily p... 196 3e-51 gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspir... 176 3e-45 gi|300309866|ref|YP_003773958.1| major facilitator superfamily p... 166 4e-42 gi|300313658|ref|YP_003777750.1| transport transmembrane protein... 137 2e-33 >gi|300312451|ref|YP_003776543.1| D-galactonate transporter protein [Herbaspirillum seropedicae SmR1] Length = 439 Score = 752 bits (1941), Expect = 0.0, Method: Compositional matrix adjust. Identities = 376/446 (84%), Positives = 395/446 (88%), Gaps = 10/446 (2%) Query: 14 AKENIKPSHVRYLILFMLFIVTTVNYADRATLSIAGTSMKSELGLDPVMMGYIFSAFSWA 73 A E KP+HVRYLILF+LF+VTTVNYADRATLSIAG++MK+EL LDPVMMGYIFSAFSWA Sbjct: 2 AGEVAKPTHVRYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWA 61 Query: 74 YVLAQLPGGWLLDRFGSKKIYALSIFLWSFFTLLQGGVTWFGTAAAVVLLFLLRFMVGLA 133 YVLAQLPGGWLLDRFGSKKIY SI LWS FT LQ GVTW TAAAV LFLLRFMVGLA Sbjct: 62 YVLAQLPGGWLLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLA 121 Query: 134 EAPSFPANGRIVASWFPTAERGTASAIFNSAQYFAAVLFTPLMGWITHVYGWHHVFTVMG 193 EAPSFPANGRIVA+WFPT ERGTASAIFNSAQYFAAVLFTPLM WI H Y WHHVFTVMG Sbjct: 122 EAPSFPANGRIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMG 181 Query: 194 AFGILLTFLWIRVIHSPKDHPMINQAELQHIEQGGGLVDMDQAKTTKATAGAAASGDAGK 253 GI L +W R+I+SPKDHP INQAEL HIE GGGLVDMD K AA G+ Sbjct: 182 VVGIALALIWGRIIYSPKDHPRINQAELAHIESGGGLVDMDNRKV-------AAPSTKGR 234 Query: 254 AKWGYIKQLLSNRMLLGVYIGQYCINTITYFFLTWFPVYLVQERGMSILKAGFVASIPAV 313 GYI+QLLSNRMLLGVYIGQYCIN ITYFFLTWFPVYLVQERGMSILKAGFVASIPAV Sbjct: 235 ---GYIRQLLSNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAV 291 Query: 314 CGFIGGVVGGLISDRLIKRGNSVTMSRKIPIVGGMLLSTTMILCNYVDAQWMVVGIMAVA 373 CGFIGGVVGGLISDRLIKRG SVT +RKIPIVGGMLLS TMILCNYV+AQWMVVGIMA+A Sbjct: 292 CGFIGGVVGGLISDRLIKRGLSVTWARKIPIVGGMLLSMTMILCNYVEAQWMVVGIMALA 351 Query: 374 FFGKGVGALGWAVVADTAPKEIVGLSGGLFNTFGNIAGITTPIVIGYILKETGSFSGALI 433 FFGKGVGALGWAVVADTAPK+IVGLSGGLFN FGN+AGITTPIVIGYI+KETGSFSGAL+ Sbjct: 352 FFGKGVGALGWAVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALV 411 Query: 434 FVGANALVTVISYLVIVKEIKRVELK 459 FVG NALVTVISYLVIVKEIKRVELK Sbjct: 412 FVGINALVTVISYLVIVKEIKRVELK 437 >gi|300309918|ref|YP_003774010.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 196 bits (498), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 132/446 (29%), Positives = 215/446 (48%), Gaps = 27/446 (6%) Query: 10 ISASAKENIKPSHVRYLILFMLFIVTTVNYADRATLSIAGTSMKSELGLDPVMMGYIFSA 69 + +++ + ++ + L L + VNY DR+TLSIA S+ EL L MG + SA Sbjct: 1 MEVQKEKSPRLKRIQVVALSFLMLAGIVNYLDRSTLSIANHSVSQELNLSASQMGLLLSA 60 Query: 70 FSWAYVLAQLPGGWLLDRFGSKKIYALSIFLWSFFTLLQGGVTWFGTAAAVVLLFLLRFM 129 FS AY +QLP G +LD+FG++ + +F+WS L G V + + R Sbjct: 61 FSLAYAFSQLPIGAMLDKFGARVMLGAGMFIWSVAQLAGGFVN------NLQQFLVARVF 114 Query: 130 VGLAEAPSFPANGRIVASWFPTAERGTASAIFNSAQYFAAVLFTPLMGWITHVYGWHHVF 189 +GL EAP FPA ++V+ WF ERG + IF ++ L P++ + +GW +F Sbjct: 115 LGLGEAPQFPAGAKVVSEWFAMRERGGPTGIFVASSTIGPALAPPILTILMLSFGWRMMF 174 Query: 190 TVMGAFGILLTFLWIRVIHSPKDHPMINQAELQHIEQGGGLVDMDQAKTTKATAGAAASG 249 +MG GI ++ W + + ++ + +E+ ++ D D A Sbjct: 175 VIMGVLGIAVSVGWY-LFYRNRNEVQLTPSEVLYLAD-----DHDNDPNANA-------- 220 Query: 250 DAGKAKWGYIKQLLSNRMLLGVYIGQYCINTITYFFLTWFPVYLVQERGMSILKAGFVAS 309 K W K L + R G+ G + + + +LTW P YL ER +SI + G+V Sbjct: 221 ---KLSWSEWKSLFTYRTTWGMLFGFMGVIYMVWLYLTWLPAYLEHERHLSIARTGWVVV 277 Query: 310 IPAVCGFIGGVVGGLISDRLIKRGNSVTMSRKIPIVGGMLLSTTM-ILCNYVDAQWMVVG 368 IP + G +G + G I+D L+KRG SRK PI G++ + I Y + M + Sbjct: 278 IPYIFGTLGMLSSGYIADGLMKRGMPAIRSRKWPICAGLIGAGAFTIPAAYTPSTTMAIV 337 Query: 369 I--MAVAFFGKGVGALGWAVVADTAPKEIVGLSGGLFNTFGNIAGITTPIVIGYILKETG 426 +A+AF G WA+V+ P+ +V G + N G + G P++ G ++ +T Sbjct: 338 YISLAMAFVNMASGG-AWALVSVAIPRRLVASLGSMQNFGGYLGGSLAPVITGVVVDQTH 396 Query: 427 SFSGALIFVGANALVTVISYLVIVKE 452 SF AL+ A A + Y+ +V + Sbjct: 397 SFVNALLISAAVAFAAALVYMFVVDK 422 >gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspirillum seropedicae SmR1] Length = 441 Score = 176 bits (446), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 126/451 (27%), Positives = 221/451 (49%), Gaps = 20/451 (4%) Query: 11 SASAKENIKPSHVRYLILFMLFIVTTVNYADRATLSIAGTSMKSELGLDPVMMGYIFSAF 70 +A+ + K +H R+++ ++FIV TV ADRA L +A ++ E + G + S F Sbjct: 3 AAAIQHTKKKTHFRWVVGALIFIVYTVAAADRANLGVALPFLRKEFVMSNTEAGALASIF 62 Query: 71 SWAYVLAQLPGGWLLDRFGSKKIYALSIFLWSFFTLLQGGVTWFGTAAAVVLLFLLRFMV 130 +AY LAQLP G RFG ++++L++ S FT L GTA++++ L + RF + Sbjct: 63 LFAYSLAQLPSGLAYTRFGIPRVFSLAMLATSVFTGL------IGTASSLLALKIFRFGL 116 Query: 131 GLAEAPSFPANGRIVASWFPTAERGTASAIFNSAQYFAAVLFTPLMGWITHVYGWHHVFT 190 GLAE P + +WFP E+GT + IF +A F VL P+ I + +GW H+F Sbjct: 117 GLAEGPLPIGITSTINNWFPAREKGTMTGIFLAAAKFGPVLVPPVCAVIMYYWGWRHIFY 176 Query: 191 VMGAFGILLTFLWIRVI-HSPKDHPMINQAELQHIEQGGGLV---DMDQAKTTKATAGAA 246 G++L+ +W+ V+ + P + P ++ EL+HI G D D A T Sbjct: 177 FFAVPGVILSVVWLMVVKNRPSESPHVSAEELEHINDSQGAAAGQDADPAVTRDFALLDR 236 Query: 247 ASGDAGKAKWGYIKQLLSNRMLLGVYIGQYCINTITYFFLTWFPVYLVQERGMSILKAGF 306 + A K + + ++G +G + + I L W P YL+ +G SI G Sbjct: 237 IIRRSKVATIETTKGVFCSWNIMGAALGYFFMTAIVNVLLAWIPTYLISVKGYSIANMGM 296 Query: 307 VASIPAVCGFIGGVVGGLISDRLIKRGNSVTMSRKIPIVGGMLLSTTM--ILCNYVDAQW 364 VA+ P V IG ++GG ++DR +++ RK ++ +T M IL N Sbjct: 297 VAAAPWVGAVIGNLLGGAMTDRWLEK------RRKPAMMMSAFFTTIMMVILINSPADPL 350 Query: 365 MVVGIMAVAFFGKGVGALGWAVVA-DTAPKEIVGLSGGLFNTFGNIAGITTPIVIGYILK 423 + ++ + +G + V K++ ++ + NT G + G P+ G++L Sbjct: 351 LYGALLLLTGILLNIGYSTYMVYPMGMTSKKVYPMACAMVNTLGQLGGACAPLAAGFLL- 409 Query: 424 ETGSFSGALIFVGANALVTVISYLVIVKEIK 454 ++ S++ IF+ +++ I+ L I + ++ Sbjct: 410 DSYSWNHVWIFMAVCSILCFITILTIREPVQ 440 >gi|300309866|ref|YP_003773958.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 484 Score = 166 bits (420), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 126/432 (29%), Positives = 209/432 (48%), Gaps = 48/432 (11%) Query: 19 KPSHVRYLILFMLFIVTTVNYADRATLSIAGTSMKSELGLDPVMMGYIFSAFSWAYVLAQ 78 KP+ R++++ ++F++ + ADRA IA MK E G+ G I S FS+AY L Q Sbjct: 38 KPTRYRWVVMGLIFLIWAIACADRANFGIALPYMKKEYGITNTEAGLIVSLFSFAYGLVQ 97 Query: 79 LPGGWLLDRFGSKK---IYALSIFLWSFFTLLQGGVTWFGTAAAVVLLFLLRFMVGLAEA 135 +P G + R K ++++ + L S FT L GT ++V+LL L R +GL+E Sbjct: 98 IPVGLMYKRLSEKTTGILFSVFMLLTSLFTGL------MGTTSSVLLLQLYRVGLGLSEG 151 Query: 136 PSFPANGRIVASWFPTAERGTASAIFNSAQYFAAVLFTPLMGWITHVYGWHHVFTVMGAF 195 P ++ WFP E+GTA+ ++ +A ++ + + ++GW +F V Sbjct: 152 PLGIGCTNVINRWFPPEEKGTATGLWIAASKLGPLIVPTVCIIVIQLWGWREIFYVFAVP 211 Query: 196 GILLTFLWI-RVIHSPKDHPMINQAELQHIEQGGGLVDMDQAKTTKATAGAAASG----- 249 GI L LW V +SP ++ N+AE ++I Q +++A GA + Sbjct: 212 GIFLAILWFFLVTNSPSENRFCNEAERRYITQDVAAGPATATASSRAHVGAQVTPMPWLD 271 Query: 250 ----DAGKAKWGYIKQLLSNRMLLGVYIGQYCINTITYFFLTWFPVYLVQERGMSILKAG 305 + ++Q+ ++ ++GV IG C+ I+ F++W P YLV +G + +K G Sbjct: 272 GINRTRRVPRLETLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVKGFASVKMG 331 Query: 306 FVASIPAVCGFIGGVVGGLISDRLIKRGNSVTMSRKIPIVGGMLLST------TMILCN- 358 F+AS P + G ++GG+ISDRL+ R+ P+ MLL T++L Sbjct: 332 FLASAPFIGAVAGNMLGGVISDRLLG-------GRRKPM---MLLGALGTALMTLLLVEA 381 Query: 359 -----YVDAQWMVVGIM-AVAFFGKGVGALGWAVVADTAPKEIVGLSGGLFNTFGNIAGI 412 Y+ A M+ G+M + F G +G A A T P G+ N+ G I G Sbjct: 382 PDSVLYLGAMLMLSGLMLGIGFAGYSAYPMGLATKA-TYPAAF-----GIVNSLGQIGGA 435 Query: 413 TTPIVIGYILKE 424 P+ +G +L Sbjct: 436 CAPLAVGMLLDR 447 >gi|300313658|ref|YP_003777750.1| transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 137 bits (345), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 117/430 (27%), Positives = 192/430 (44%), Gaps = 54/430 (12%) Query: 36 TVNYADRATLSIAGTSMKSELGLDPVMMGYIFSAFSWAYVLAQLPGGWLLDRFGSKKIYA 95 V+Y DRA ++ A T + SE L P +G + S+F Y L QLPGGWL DR+GS+ + Sbjct: 23 CVSYIDRAAITFAATQIASEFHLKPSDLGILLSSFFLGYSLLQLPGGWLADRYGSRPVIV 82 Query: 96 LSIFLWSFFTLLQGGVTWFGTAAAVVLLFLLRFMVGLAEAPSFPANG-RIVASWFPTAER 154 +SI LWS FT GVT G A +V L ++RF+ G+ E +FPA + VA F ER Sbjct: 83 ISILLWSLFT----GVT--GMAWSVTSLVMIRFIFGVGEG-AFPAASVKGVAENFSRDER 135 Query: 155 GTASAIFNSAQYFAAVLFTPLMGWITHVYGWHHVFTVMGAFGILLTFLWIRVIHSPKDHP 214 S++ S+ Y ++L L+ + YGW VF +G G++ ++ + + Sbjct: 136 PKMSSLLMSSNYIGSMLAPLLIAPLILHYGWRAVFHYIGIAGVVFALVYWFCVRPVRP-- 193 Query: 215 MINQAELQHIEQGGGLVDMDQAKTTKATAGAAASGDAGKAKWGYIKQLLSNRMLLGVYIG 274 G +G K + + ++ ++ V+ G Sbjct: 194 -----------------------------GVGGAGAINKQAFMALMKMPLMWQIVAVWFG 224 Query: 275 QYCINTITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGGLISDRLIKRGN 334 IN TW P YL+ RG+++ G + +P + + +GG + R Sbjct: 225 LSIINK---GLDTWMPTYLMTVRGLNLKAVGLLLPLPYIMAGLSTAIGGWVMVRFFDG-- 279 Query: 335 SVTMSRKIPIVGGMLLSTTMILCNYVDAQWMVVGIMA----VAFFGKGVGALGWAVVADT 390 K+ ++G LL+ + C Y A V G++A FF V A A+ Sbjct: 280 ----REKLLLIGSSLLTAVFVYCMYSAAS--VEGVIAWQCLAYFFKSFVLATCIALPTKM 333 Query: 391 APKEIVGLSGGLFNTFGNIAGITTPIVIGYILKETGSFSGALIFVGANALVTVISYLVIV 450 ++VG G+ N G +AG +P+VIG+++ ++ A F+ A +V+ L I Sbjct: 334 LQAQLVGSGVGMVNLGGQLAGFISPLVIGFLVSAFANYDYAFSFLIGAAFFSVLVSLFIR 393 Query: 451 KEIKRVELKP 460 +++P Sbjct: 394 THKSDSQMQP 403 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 0.326 0.140 0.432 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: 1,354,847 Number of extensions: 56799 Number of successful extensions: 435 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 395 Number of HSP's successfully gapped: 27 Length of query: 461 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 373 Effective length of database: 1,203,190 Effective search space: 448789870 Effective search space used: 448789870 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)