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= 0001.1167.p (408 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... 706 0.0 gi|300309906|ref|YP_003773998.1| major facilitator superfamily p... 276 3e-75 gi|300312451|ref|YP_003776543.1| D-galactonate transporter prote... 154 1e-38 gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspir... 134 1e-32 gi|300309918|ref|YP_003774010.1| major facilitator superfamily p... 125 5e-30 >gi|300313658|ref|YP_003777750.1| transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 706 bits (1822), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/408 (88%), Positives = 388/408 (95%), Gaps = 4/408 (0%) Query: 1 MEAAITKSKGEGKYKYLVLVLLYLGWCVSYIDRAAITFAATQIASEFHLNPSDLGLLLSS 60 M+AA+ K GKYKYLVLVLLYLGWCVSYIDRAAITFAATQIASEFHL PSDLG+LLSS Sbjct: 1 MDAAVRK----GKYKYLVLVLLYLGWCVSYIDRAAITFAATQIASEFHLKPSDLGILLSS 56 Query: 61 FFLGYSLLQLPGGWLADRYGSRPVIVVSILMWSIFTGVTGMAWSVTSLVVIRFVFGVGEG 120 FFLGYSLLQLPGGWLADRYGSRPVIV+SIL+WS+FTGVTGMAWSVTSLV+IRF+FGVGEG Sbjct: 57 FFLGYSLLQLPGGWLADRYGSRPVIVISILLWSLFTGVTGMAWSVTSLVMIRFIFGVGEG 116 Query: 121 AFPAASIKGVAENFAREERPKISSLLISSNYIGSMLAPLLIAPLILHFGWRNVFHTIGIA 180 AFPAAS+KGVAENF+R+ERPK+SSLL+SSNYIGSMLAPLLIAPLILH+GWR VFH IGIA Sbjct: 117 AFPAASVKGVAENFSRDERPKMSSLLMSSNYIGSMLAPLLIAPLILHYGWRAVFHYIGIA 176 Query: 181 GLVFALVYWFCVRPVKPGLDGPKAINKAAFAALLKMPLMWKIVAVWFGLSIINKGLDSWM 240 G+VFALVYWFCVRPV+PG+ G AINK AF AL+KMPLMW+IVAVWFGLSIINKGLD+WM Sbjct: 177 GVVFALVYWFCVRPVRPGVGGAGAINKQAFMALMKMPLMWQIVAVWFGLSIINKGLDTWM 236 Query: 241 PTYLMTVRGLNLKTVGLLLPLPYIMAGLSTAIGGWVMVRFFDGREKLLLIASSLLTAVFV 300 PTYLMTVRGLNLK VGLLLPLPYIMAGLSTAIGGWVMVRFFDGREKLLLI SSLLTAVFV Sbjct: 237 PTYLMTVRGLNLKAVGLLLPLPYIMAGLSTAIGGWVMVRFFDGREKLLLIGSSLLTAVFV 296 Query: 301 YCMYTASSVEGVIAWQCLAYFFKSFVLATCIALPTKLLQAQLVGSGVGMVNLGGQLAGFI 360 YCMY+A+SVEGVIAWQCLAYFFKSFVLATCIALPTK+LQAQLVGSGVGMVNLGGQLAGFI Sbjct: 297 YCMYSAASVEGVIAWQCLAYFFKSFVLATCIALPTKMLQAQLVGSGVGMVNLGGQLAGFI 356 Query: 361 SPLVIGFLVSAFANYDYAFGFLISAALFSVVVSLFIRTSKTSAQMQPA 408 SPLVIGFLVSAFANYDYAF FLI AA FSV+VSLFIRT K+ +QMQPA Sbjct: 357 SPLVIGFLVSAFANYDYAFSFLIGAAFFSVLVSLFIRTHKSDSQMQPA 404 >gi|300309906|ref|YP_003773998.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 414 Score = 276 bits (705), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 150/399 (37%), Positives = 243/399 (60%), Gaps = 7/399 (1%) Query: 1 MEAAITKSKGEGKYKYLVLVLLYLGWCVSYIDRAAITFAATQIASEFHLNPSDLGLLLSS 60 M A T+++ K + L L+L W V Y DR ++ A I+ EF L+ G++LS+ Sbjct: 1 MPMATTRAQ-----KMICLSALFLAWAVGYADRIVMSTAIIPISKEFALDAQQAGMVLSA 55 Query: 61 FFLGYSLLQLPGGWLADRYGSRPVIVVSILMWSIFTGVTGMAWSVTSLVVIRFVFGVGEG 120 F++ Y+L+QL GGWL+DRYGSR V+V+ ++ WS+FTG+T MAWS SL++IRF+FG GEG Sbjct: 56 FYVSYALMQLMGGWLSDRYGSRIVVVMCVVAWSLFTGLTSMAWSFASLLLIRFLFGAGEG 115 Query: 121 AFPAASIKGVAENFAREERPKISSLLISSNYIGSMLAPLLIAPLILHFGWRNVFHTIGIA 180 F AS VAE F ++ER + S LIS+ ++G+ + ++A +++ GWR FH + Sbjct: 116 CFSPASSVTVAEVFPQQERARAKSFLISTVFLGNAVGSGMVALTVVYLGWRGTFHILAFV 175 Query: 181 GLVFALVYWFCVRP-VKPGLDGPKAINKAAFAALLKMPLMWKIVAVWFGLSIINKGLDSW 239 G++ A + W +R + A K L+K P ++ A+WF SI+ G+ SW Sbjct: 176 GMIVAAILWLALRSGMAAQQARSAARPKNQLRELVKNPTALRLTAIWFCTSIVYIGMISW 235 Query: 240 MPTYLMTVRGLNLKTVGLLLPLPYIMAGLSTAIGGWVMVRFFDGREKLLLIASSLLTAVF 299 MP++L+ V ++L +G+ +PY++A L T + GW++ + GREK ++ +L AVF Sbjct: 236 MPSFLLKVYQIDLLHIGIASAIPYLLAFLGTNVVGWLLDKHGKGREKYFMMGGALACAVF 295 Query: 300 VYCMYTASSVEGVIAWQCLAYFFKSFVLATCIALPTKLLQAQLVGSGVGMVNLGGQLAGF 359 + M + + +E ++ + L +FV AT ++P K + L+GS G++N GGQLAG Sbjct: 296 LALMISTTVIELLVVYWTLCLLSFNFVYATVFSVPLKHFPSHLIGSATGLMNFGGQLAGS 355 Query: 360 ISPLVIGFLVSAFAN-YDYAFGFLISAALFSVVVSLFIR 397 I+P+V+G L+ AF Y AF FL+ +A+ S ++++ R Sbjct: 356 IAPVVMGSLIVAFNGAYLAAFWFLVGSAMMSFLIAMTWR 394 >gi|300312451|ref|YP_003776543.1| D-galactonate transporter protein [Herbaspirillum seropedicae SmR1] Length = 439 Score = 154 bits (390), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 126/437 (28%), Positives = 216/437 (49%), Gaps = 52/437 (11%) Query: 15 KYLVLVLLYLGWCVSYIDRAAITFAATQIASEFHLNPSDLGLLLSSFFLGYSLLQLPGGW 74 +YL+L LL++ V+Y DRA ++ A + + +E L+P +G + S+F Y L QLPGGW Sbjct: 12 RYLILFLLFVVTTVNYADRATLSIAGSAMKTELSLDPVMMGYIFSAFSWAYVLAQLPGGW 71 Query: 75 LADRYGSRPVIVVSILMWSIFT----GVTGM--AWSVTSLVVIRFVFGVGEG-AFPAASI 127 L DR+GS+ + + SI +WS+FT GVT M A +V SL ++RF+ G+ E +FPA Sbjct: 72 LLDRFGSKKIYMWSIALWSVFTFLQAGVTWMSTAAAVASLFLLRFMVGLAEAPSFPANG- 130 Query: 128 KGVAENFAREERPKISSLLISSNYIGSMLAPLLIAPLILHFGWRNVFHTIGIAGLVFALV 187 + VA F +ER S++ S+ Y ++L L+A ++ + W +VF +G+ G+ AL+ Sbjct: 131 RIVAAWFPTKERGTASAIFNSAQYFAAVLFTPLMAWIVHTYSWHHVFTVMGVVGIALALI 190 Query: 188 YWFCVRPVKPGLDGPKAINKAAFA----------------------------ALLKMPLM 219 + + K D P+ IN+A A LL ++ Sbjct: 191 WGRIIYSPK---DHPR-INQAELAHIESGGGLVDMDNRKVAAPSTKGRGYIRQLLSNRML 246 Query: 220 WKIVAVWFGLSIINKGLDSWMPTYLMTVRGLNLKTVGLLLPLPYIMAGLSTAIGGWVMVR 279 + + +++I +W P YL+ RG+++ G + +P + + +GG + R Sbjct: 247 LGVYIGQYCINVITYFFLTWFPVYLVQERGMSILKAGFVASIPAVCGFIGGVVGGLISDR 306 Query: 280 FFDG------REKLLLIASSLLTAVFVYCMYTASS--VEGVIAWQCLAYFFKSFVLATCI 331 K+ ++ LL+ + C Y + V G++A LA+F K V A Sbjct: 307 LIKRGLSVTWARKIPIVGGMLLSMTMILCNYVEAQWMVVGIMA---LAFFGKG-VGALGW 362 Query: 332 ALPTKLLQAQLVGSGVGMVNLGGQLAGFISPLVIGFLVSAFANYDYAFGFLISAALFSVV 391 A+ Q+VG G+ N+ G +AG +P+VIG++V ++ A F+ AL +V+ Sbjct: 363 AVVADTAPKQIVGLSGGLFNMFGNVAGITTPIVIGYIVKETGSFSGALVFVGINALVTVI 422 Query: 392 VSLFIRTSKTSAQMQPA 408 L I +++ A Sbjct: 423 SYLVIVKEIKRVELKDA 439 >gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspirillum seropedicae SmR1] Length = 441 Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 105/436 (24%), Positives = 207/436 (47%), Gaps = 44/436 (10%) Query: 3 AAITKSKGEGKYKYLVLVLLYLGWCVSYIDRAAITFAATQIASEFHLNPSDLGLLLSSFF 62 AAI +K + ++++V L+++ + V+ DRA + A + EF ++ ++ G L S F Sbjct: 4 AAIQHTKKKTHFRWVVGALIFIVYTVAAADRANLGVALPFLRKEFVMSNTEAGALASIFL 63 Query: 63 LGYSLLQLPGGWLADRYGSRPVIVVSILMWSIFTGVTGMAWSVTSLVVIRFVFGVGEGAF 122 YSL QLP G R+G V +++L S+FTG+ G A S+ +L + RF G+ EG Sbjct: 64 FAYSLAQLPSGLAYTRFGIPRVFSLAMLATSVFTGLIGTASSLLALKIFRFGLGLAEGPL 123 Query: 123 PAASIKGVAENFAREERPKISSLLISSNYIGSMLAPLLIAPLILHFGWRNVFHTIGIAGL 182 P + F E+ ++ + +++ G +L P + A ++ ++GWR++F+ + G+ Sbjct: 124 PIGITSTINNWFPAREKGTMTGIFLAAAKFGPVLVPPVCAVIMYYWGWRHIFYFFAVPGV 183 Query: 183 VFALVYWFCVRPVKP----------------------GLDGPKAINKAAFAALLKMPLMW 220 + ++V W V +P G D A+ + FA L ++ Sbjct: 184 ILSVV-WLMVVKNRPSESPHVSAEELEHINDSQGAAAGQDADPAVTR-DFALLDRIIRRS 241 Query: 221 KIVAV------------------WFGLSIINKGLDSWMPTYLMTVRGLNLKTVGLLLPLP 262 K+ + +F ++ I L +W+PTYL++V+G ++ +G++ P Sbjct: 242 KVATIETTKGVFCSWNIMGAALGYFFMTAIVNVLLAWIPTYLISVKGYSIANMGMVAAAP 301 Query: 263 YIMAGLSTAIGGWVMVRFFDGREKLLLIASSLLTAV-FVYCMYTASSVEGVIAWQCLAYF 321 ++ A + +GG + R+ + R K ++ S+ T + V + + + A L Sbjct: 302 WVGAVIGNLLGGAMTDRWLEKRRKPAMMMSAFFTTIMMVILINSPADPLLYGALLLLTGI 361 Query: 322 FKSFVLATCIALPTKLLQAQLVGSGVGMVNLGGQLAGFISPLVIGFLVSAFANYDYAFGF 381 + +T + P + ++ MVN GQL G +PL GFL+ ++ ++++ + F Sbjct: 362 LLNIGYSTYMVYPMGMTSKKVYPMACAMVNTLGQLGGACAPLAAGFLLDSY-SWNHVWIF 420 Query: 382 LISAALFSVVVSLFIR 397 + ++ + L IR Sbjct: 421 MAVCSILCFITILTIR 436 >gi|300309918|ref|YP_003774010.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 125 bits (315), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 111/409 (27%), Positives = 194/409 (47%), Gaps = 29/409 (7%) Query: 1 MEAAITKSKGEGKYKYLVLVLLYLGWCVSYIDRAAITFAATQIASEFHLNPSDLGLLLSS 60 ME KS + + + L L L V+Y+DR+ ++ A ++ E +L+ S +GLLLS+ Sbjct: 1 MEVQKEKSPRLKRIQVVALSFLMLAGIVNYLDRSTLSIANHSVSQELNLSASQMGLLLSA 60 Query: 61 FFLGYSLLQLPGGWLADRYGSRPVIVVSILMWSIFTGVTGMAWSVTSLVVIRFVFGVGEG 120 F L Y+ QLP G + D++G+R ++ + +WS+ G ++ +V R G+GE Sbjct: 61 FSLAYAFSQLPIGAMLDKFGARVMLGAGMFIWSVAQLAGGFVNNLQQFLVARVFLGLGEA 120 Query: 121 -AFPAASIKGVAENFAREERPKISSLLISSNYIGSMLAPLLIAPLILHFGWRNVFHTIGI 179 FPA + K V+E FA ER + + ++S+ IG LAP ++ L+L FGWR +F +G+ Sbjct: 121 PQFPAGA-KVVSEWFAMRERGGPTGIFVASSTIGPALAPPILTILMLSFGWRMMFVIMGV 179 Query: 180 AGLVFALVYWFCVRP--------------VKPGLDGPKAINK---AAFAALLKMPLMWKI 222 G+ ++ ++ R + P A K + + +L W + Sbjct: 180 LGIAVSVGWYLFYRNRNEVQLTPSEVLYLADDHDNDPNANAKLSWSEWKSLFTYRTTWGM 239 Query: 223 VAVWFGLSIINKGLDSWMPTYLMTVRGLNLKTVGLLLPLPYIMAGLSTAIGGWV----MV 278 + + G+ + +W+P YL R L++ G ++ +PYI L G++ M Sbjct: 240 LFGFMGVIYMVWLYLTWLPAYLEHERHLSIARTGWVVVIPYIFGTLGMLSSGYIADGLMK 299 Query: 279 RFFDG-REKLLLIASSLL--TAVFVYCMYTASSVEGVIAWQCLAYFFKSFVLATCIALPT 335 R R + I + L+ A + YT S+ ++ + LA F + AL + Sbjct: 300 RGMPAIRSRKWPICAGLIGAGAFTIPAAYTPSTTMAIV-YISLAMAFVNMASGGAWALVS 358 Query: 336 KLLQAQLVGSGVGMVNLGGQLAGFISPLVIGFLVSAFANYDYAFGFLIS 384 + +LV S M N GG L G ++P++ G +V + + LIS Sbjct: 359 VAIPRRLVASLGSMQNFGGYLGGSLAPVITGVVVD--QTHSFVNALLIS 405 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 0.328 0.141 0.438 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: 1,130,167 Number of extensions: 44776 Number of successful extensions: 324 Number of sequences better than 1.0e-08: 32 Number of HSP's gapped: 301 Number of HSP's successfully gapped: 35 Length of query: 408 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 321 Effective length of database: 1,207,925 Effective search space: 387743925 Effective search space used: 387743925 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)