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= 0001.1093.p (401 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313658|ref|YP_003777750.1| transport transmembrane protein... 612 e-176 gi|300309906|ref|YP_003773998.1| major facilitator superfamily p... 273 2e-74 gi|300312451|ref|YP_003776543.1| D-galactonate transporter prote... 140 3e-34 gi|300309918|ref|YP_003774010.1| major facilitator superfamily p... 134 1e-32 gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspir... 132 6e-32 >gi|300313658|ref|YP_003777750.1| transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 612 bits (1577), Expect = e-176, Method: Compositional matrix adjust. Identities = 292/379 (77%), Positives = 339/379 (89%), Gaps = 1/379 (0%) Query: 21 GWCISYIDRAAITFAATHIASEFHLKPSDLGLLLSSFFLGYSLLQLPGGWLADRFGSRPV 80 GWC+SYIDRAAITFAAT IASEFHLKPSDLG+LLSSFFLGYSLLQLPGGWLADR+GSRPV Sbjct: 21 GWCVSYIDRAAITFAATQIASEFHLKPSDLGILLSSFFLGYSLLQLPGGWLADRYGSRPV 80 Query: 81 IVISILMWSLFTGLTGMAWSITSLVVIRFFFGIGEGSFPAASIKGVAEHFDKGERPKMSS 140 IVISIL+WSLFTG+TGMAWS+TSLV+IRF FG+GEG+FPAAS+KGVAE+F + ERPKMSS Sbjct: 81 IVISILLWSLFTGVTGMAWSVTSLVMIRFIFGVGEGAFPAASVKGVAENFSRDERPKMSS 140 Query: 141 VLMSSNYIGSMLAPVIIAPLILHFGWRNVFHYIGIVGIIFAVAYWLCVRPLSERTDGGKR 200 +LMSSNYIGSMLAP++IAPLILH+GWR VFHYIGI G++FA+ YW CVRP+ GG Sbjct: 141 LLMSSNYIGSMLAPLLIAPLILHYGWRAVFHYIGIAGVVFALVYWFCVRPVRPGV-GGAG 199 Query: 201 PVNSKTISELMRLPLMWQLVAVWFGLSVVNKGLDSWMPTYLMTVRGLDLKAVGLLLPLPY 260 +N + LM++PLMWQ+VAVWFGLS++NKGLD+WMPTYLMTVRGL+LKAVGLLLPLPY Sbjct: 200 AINKQAFMALMKMPLMWQIVAVWFGLSIINKGLDTWMPTYLMTVRGLNLKAVGLLLPLPY 259 Query: 261 VMAGISTAIGGWLMMRFFNGRERVMLVVSSALTAIFVYFMYVASDVTGVIIFQCLAYFFK 320 +MAG+STAIGGW+M+RFF+GRE+++L+ SS LTA+FVY MY A+ V GVI +QCLAYFFK Sbjct: 260 IMAGLSTAIGGWVMVRFFDGREKLLLIGSSLLTAVFVYCMYSAASVEGVIAWQCLAYFFK 319 Query: 321 SFVLAACFALPTKILDTRLIGSSVGMVNLGGQAAGFISPLVIGILVSAFSNYDYAFAFLI 380 SFVLA C ALPTK+L +L+GS VGMVNLGGQ AGFISPLVIG LVSAF+NYDYAF+FLI Sbjct: 320 SFVLATCIALPTKMLQAQLVGSGVGMVNLGGQLAGFISPLVIGFLVSAFANYDYAFSFLI 379 Query: 381 SAAIFSVVVSFFIRTEKSQ 399 AA FSV+VS FIRT KS Sbjct: 380 GAAFFSVLVSLFIRTHKSD 398 >gi|300309906|ref|YP_003773998.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 414 Score = 273 bits (698), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 147/389 (37%), Positives = 234/389 (60%), Gaps = 1/389 (0%) Query: 7 TRIYKYAVLALLYLGWCISYIDRAAITFAATHIASEFHLKPSDLGLLLSSFFLGYSLLQL 66 TR K L+ L+L W + Y DR ++ A I+ EF L G++LS+F++ Y+L+QL Sbjct: 6 TRAQKMICLSALFLAWAVGYADRIVMSTAIIPISKEFALDAQQAGMVLSAFYVSYALMQL 65 Query: 67 PGGWLADRFGSRPVIVISILMWSLFTGLTGMAWSITSLVVIRFFFGIGEGSFPAASIKGV 126 GGWL+DR+GSR V+V+ ++ WSLFTGLT MAWS SL++IRF FG GEG F AS V Sbjct: 66 MGGWLSDRYGSRIVVVMCVVAWSLFTGLTSMAWSFASLLLIRFLFGAGEGCFSPASSVTV 125 Query: 127 AEHFDKGERPKMSSVLMSSNYIGSMLAPVIIAPLILHFGWRNVFHYIGIVGIIFAVAYWL 186 AE F + ER + S L+S+ ++G+ + ++A +++ GWR FH + VG+I A WL Sbjct: 126 AEVFPQQERARAKSFLISTVFLGNAVGSGMVALTVVYLGWRGTFHILAFVGMIVAAILWL 185 Query: 187 CVRPLSERTDGGKRPVNSKTISELMRLPLMWQLVAVWFGLSVVNKGLDSWMPTYLMTVRG 246 +R + EL++ P +L A+WF S+V G+ SWMP++L+ V Sbjct: 186 ALRSGMAAQQARSAARPKNQLRELVKNPTALRLTAIWFCTSIVYIGMISWMPSFLLKVYQ 245 Query: 247 LDLKAVGLLLPLPYVMAGISTAIGGWLMMRFFNGRERVMLVVSSALTAIFVYFMYVASDV 306 +DL +G+ +PY++A + T + GWL+ + GRE+ ++ + A+F+ M + + Sbjct: 246 IDLLHIGIASAIPYLLAFLGTNVVGWLLDKHGKGREKYFMMGGALACAVFLALMISTTVI 305 Query: 307 TGVIIFQCLAYFFKSFVLAACFALPTKILDTRLIGSSVGMVNLGGQAAGFISPLVIGILV 366 ++++ L +FV A F++P K + LIGS+ G++N GGQ AG I+P+V+G L+ Sbjct: 306 ELLVVYWTLCLLSFNFVYATVFSVPLKHFPSHLIGSATGLMNFGGQLAGSIAPVVMGSLI 365 Query: 367 SAFSN-YDYAFAFLISAAIFSVVVSFFIR 394 AF+ Y AF FL+ +A+ S +++ R Sbjct: 366 VAFNGAYLAAFWFLVGSAMMSFLIAMTWR 394 >gi|300312451|ref|YP_003776543.1| D-galactonate transporter protein [Herbaspirillum seropedicae SmR1] Length = 439 Score = 140 bits (352), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 117/424 (27%), Positives = 207/424 (48%), Gaps = 43/424 (10%) Query: 11 KYAVLALLYLGWCISYIDRAAITFAATHIASEFHLKPSDLGLLLSSFFLGYSLLQLPGGW 70 +Y +L LL++ ++Y DRA ++ A + + +E L P +G + S+F Y L QLPGGW Sbjct: 12 RYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWAYVLAQLPGGW 71 Query: 71 LADRFGSRPVIVISILMWSLFTGL-TGMAW-----SITSLVVIRFFFGIGEG-SFPAASI 123 L DRFGS+ + + SI +WS+FT L G+ W ++ SL ++RF G+ E SFPA Sbjct: 72 LLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLAEAPSFPANG- 130 Query: 124 KGVAEHFDKGERPKMSSVLMSSNYIGSMLAPVIIAPLILHFGWRNVFHYIGIVGIIFAVA 183 + VA F ER S++ S+ Y ++L ++A ++ + W +VF +G+VGI A+ Sbjct: 131 RIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMGVVGIALALI 190 Query: 184 YWLCVRPLSE------------RTDGGKRPVNSKTISE--------LMRLPLMWQLVAVW 223 + + + + GG ++++ ++ + +L L+ V+ Sbjct: 191 WGRIIYSPKDHPRINQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQLLSNRMLLGVY 250 Query: 224 FG---LSVVNKGLDSWMPTYLMTVRGLDLKAVGLLLPLPYVMAGISTAIGGWLMMRFFNG 280 G ++V+ +W P YL+ RG+ + G + +P V I +GG + R Sbjct: 251 IGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGGLISDRLIKR 310 Query: 281 ------RERVMLVVSSALTAIFVYFMYVASD--VTGVIIFQCLAYFFKSFVLAACFALPT 332 ++ +V L+ + YV + V G++ LA+F K V A +A+ Sbjct: 311 GLSVTWARKIPIVGGMLLSMTMILCNYVEAQWMVVGIM---ALAFFGKG-VGALGWAVVA 366 Query: 333 KILDTRLIGSSVGMVNLGGQAAGFISPLVIGILVSAFSNYDYAFAFLISAAIFSVVVSFF 392 +++G S G+ N+ G AG +P+VIG +V ++ A F+ A+ +V+ Sbjct: 367 DTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTVISYLV 426 Query: 393 IRTE 396 I E Sbjct: 427 IVKE 430 >gi|300309918|ref|YP_003774010.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 113/399 (28%), Positives = 191/399 (47%), Gaps = 28/399 (7%) Query: 8 RIYKYAVLAL--LYLGWCISYIDRAAITFAATHIASEFHLKPSDLGLLLSSFFLGYSLLQ 65 R+ + V+AL L L ++Y+DR+ ++ A ++ E +L S +GLLLS+F L Y+ Q Sbjct: 10 RLKRIQVVALSFLMLAGIVNYLDRSTLSIANHSVSQELNLSASQMGLLLSAFSLAYAFSQ 69 Query: 66 LPGGWLADRFGSRPVIVISILMWSLFTGLTGMAWSITSLVVIRFFFGIGEG-SFPAASIK 124 LP G + D+FG+R ++ + +WS+ G ++ +V R F G+GE FPA + K Sbjct: 70 LPIGAMLDKFGARVMLGAGMFIWSVAQLAGGFVNNLQQFLVARVFLGLGEAPQFPAGA-K 128 Query: 125 GVAEHFDKGERPKMSSVLMSSNYIGSMLAPVIIAPLILHFGWRNVFHYIGIVGIIFAVAY 184 V+E F ER + + ++S+ IG LAP I+ L+L FGWR +F +G++GI +V + Sbjct: 129 VVSEWFAMRERGGPTGIFVASSTIGPALAPPILTILMLSFGWRMMFVIMGVLGIAVSVGW 188 Query: 185 WLCVRPLSE-----------RTDGGKRPVNSKTIS-----ELMRLPLMWQLVAVWFGLSV 228 +L R +E D P + +S L W ++ + G+ Sbjct: 189 YLFYRNRNEVQLTPSEVLYLADDHDNDPNANAKLSWSEWKSLFTYRTTWGMLFGFMGVIY 248 Query: 229 VNKGLDSWMPTYLMTVRGLDLKAVGLLLPLPYVMAGISTAIGGW----LMMRFFNG-RER 283 + +W+P YL R L + G ++ +PY+ + G+ LM R R R Sbjct: 249 MVWLYLTWLPAYLEHERHLSIARTGWVVVIPYIFGTLGMLSSGYIADGLMKRGMPAIRSR 308 Query: 284 VMLVVSSALTA-IFVYFMYVASDVTGVIIFQCLAYFFKSFVLAACFALPTKILDTRLIGS 342 + + + A F T I++ LA F + +AL + + RL+ S Sbjct: 309 KWPICAGLIGAGAFTIPAAYTPSTTMAIVYISLAMAFVNMASGGAWALVSVAIPRRLVAS 368 Query: 343 SVGMVNLGGQAAGFISPLVIGILVSAFSNYDYAFAFLIS 381 M N GG G ++P++ G++V + + A LIS Sbjct: 369 LGSMQNFGGYLGGSLAPVITGVVVD--QTHSFVNALLIS 405 >gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspirillum seropedicae SmR1] Length = 441 Score = 132 bits (331), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 103/423 (24%), Positives = 193/423 (45%), Gaps = 39/423 (9%) Query: 10 YKYAVLALLYLGWCISYIDRAAITFAATHIASEFHLKPSDLGLLLSSFFLGYSLLQLPGG 69 +++ V AL+++ + ++ DRA + A + EF + ++ G L S F YSL QLP G Sbjct: 15 FRWVVGALIFIVYTVAAADRANLGVALPFLRKEFVMSNTEAGALASIFLFAYSLAQLPSG 74 Query: 70 WLADRFGSRPVIVISILMWSLFTGLTGMAWSITSLVVIRFFFGIGEGSFPAASIKGVAEH 129 RFG V +++L S+FTGL G A S+ +L + RF G+ EG P + Sbjct: 75 LAYTRFGIPRVFSLAMLATSVFTGLIGTASSLLALKIFRFGLGLAEGPLPIGITSTINNW 134 Query: 130 FDKGERPKMSSVLMSSNYIGSMLAPVIIAPLILHFGWRNVFHYIGIVGIIFAVAYWLCV- 188 F E+ M+ + +++ G +L P + A ++ ++GWR++F++ + G+I +V + + V Sbjct: 135 FPAREKGTMTGIFLAAAKFGPVLVPPVCAVIMYYWGWRHIFYFFAVPGVILSVVWLMVVK 194 Query: 189 -RPL---------------SERTDGGK-----------------RPVNSKTISELMRLPL 215 RP S+ G+ R TI + Sbjct: 195 NRPSESPHVSAEELEHINDSQGAAAGQDADPAVTRDFALLDRIIRRSKVATIETTKGVFC 254 Query: 216 MWQLVAV---WFGLSVVNKGLDSWMPTYLMTVRGLDLKAVGLLLPLPYVMAGISTAIGGW 272 W ++ +F ++ + L +W+PTYL++V+G + +G++ P+V A I +GG Sbjct: 255 SWNIMGAALGYFFMTAIVNVLLAWIPTYLISVKGYSIANMGMVAAAPWVGAVIGNLLGGA 314 Query: 273 LMMRFFNGRERVMLVVSSALTAI-FVYFMYVASDVTGVIIFQCLAYFFKSFVLAACFALP 331 + R+ R + +++S+ T I V + +D L + + P Sbjct: 315 MTDRWLEKRRKPAMMMSAFFTTIMMVILINSPADPLLYGALLLLTGILLNIGYSTYMVYP 374 Query: 332 TKILDTRLIGSSVGMVNLGGQAAGFISPLVIGILVSAFSNYDYAFAFLISAAIFSVVVSF 391 + ++ + MVN GQ G +PL G L+ ++S +++ + F+ +I + Sbjct: 375 MGMTSKKVYPMACAMVNTLGQLGGACAPLAAGFLLDSYS-WNHVWIFMAVCSILCFITIL 433 Query: 392 FIR 394 IR Sbjct: 434 TIR 436 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 0.330 0.143 0.443 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: 1,161,513 Number of extensions: 47612 Number of successful extensions: 321 Number of sequences better than 1.0e-08: 33 Number of HSP's gapped: 282 Number of HSP's successfully gapped: 36 Length of query: 401 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 314 Effective length of database: 1,207,925 Effective search space: 379288450 Effective search space used: 379288450 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 (21.8 bits) S2: 132 (55.5 bits)