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= 0001.1131.p (453 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310645|ref|YP_003774737.1| major facilitator superfamily b... 759 0.0 gi|300310449|ref|YP_003774541.1| 4-hydroxybenzoate transporter t... 236 4e-63 gi|300310481|ref|YP_003774573.1| major facilitator superfamily p... 167 2e-42 gi|300310615|ref|YP_003774707.1| major facilitator superfamily p... 130 2e-31 gi|300310666|ref|YP_003774758.1| major facilitator superfamily p... 115 8e-27 >gi|300310645|ref|YP_003774737.1| major facilitator superfamily benzoate permease [Herbaspirillum seropedicae SmR1] Length = 455 Score = 759 bits (1961), Expect = 0.0, Method: Compositional matrix adjust. Identities = 407/433 (93%), Positives = 416/433 (96%) Query: 1 MKNQEVSQIIDGAGFTRFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKHWSLSPVQAGA 60 MK +VSQIIDGA FT+FHWMVMCLCALLLVFDGYDLFIYGAVLPVLMK WSLSPVQAGA Sbjct: 1 MKTLDVSQIIDGARFTKFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKEWSLSPVQAGA 60 Query: 61 LGSYALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFSSTPNEFGVYRFLAG 120 LGSYALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGF+++P EFGVYRFLAG Sbjct: 61 LGSYALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFATSPTEFGVYRFLAG 120 Query: 121 LGCGGLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFFA 180 LGCGGLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFFA Sbjct: 121 LGCGGLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFFA 180 Query: 181 AAVPLVLLPLILWKLPESVGFLLRAGRQEQARAMLAQVAPHLRIDADTQLVQADAKGAGA 240 AAVPLVLLP+ILWKLPESVGFLLR GR EQARAML QV P RI DTQLVQAD KGAGA Sbjct: 181 AAVPLVLLPVILWKLPESVGFLLRQGRLEQARAMLTQVDPQARIATDTQLVQADVKGAGA 240 Query: 241 PMLDLFKQDRPVGTLMIWIAFFCCLLMVYALGSWLPKLMASAGYSLGSSLSFLLALNFGG 300 PML LFKQDR VGTLMIW++FFCCLLMVYALGSWLPKLMASAGYSLGSSLSFLLALNFGG Sbjct: 241 PMLHLFKQDRAVGTLMIWVSFFCCLLMVYALGSWLPKLMASAGYSLGSSLSFLLALNFGG 300 Query: 301 VVGAIGGGWLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTPVLYLLIIVAGATTIGTQIL 360 VVGAIGGGWLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTPVLYLLIIVAGATTIGTQIL Sbjct: 301 VVGAIGGGWLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTPVLYLLIIVAGATTIGTQIL 360 Query: 361 LYANTAQFYPLASRSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFLVFAIPGLVA 420 LYANTAQFYPLA RSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFLVFAIPGLVA Sbjct: 361 LYANTAQFYPLAIRSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFLVFAIPGLVA 420 Query: 421 ALAMGIFMLRYRH 433 ALAMG+FMLRYRH Sbjct: 421 ALAMGLFMLRYRH 433 >gi|300310449|ref|YP_003774541.1| 4-hydroxybenzoate transporter transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 447 Score = 236 bits (601), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 148/425 (34%), Positives = 246/425 (57%), Gaps = 7/425 (1%) Query: 5 EVSQIIDGAGFTRFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKHWSLSPVQAGALGSY 64 V Q+++ F F + ++ LC L L+ DG+D+ G V P ++ W +S G + Sbjct: 13 HVDQVVEQGRFGAFQFGLLLLCGLCLIIDGFDVQAMGYVAPAIIADWGVSKASLGPVFGA 72 Query: 65 ALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFSSTPNEFGVYRFLAGLGCG 124 LFGM+ G+ + P+ DR GR+ + +S + F++ + +T ++ V RF+ G G G Sbjct: 73 GLFGMLLGSLVLTPVGDRYGRRPVLILSTLFFALCMLATPMVTTLDQLLVLRFITGFGLG 132 Query: 125 GLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFFA-AAV 183 +MPNA+AL+ E++P R T + ++ G+++G + ++P +GW ++F+ AV Sbjct: 133 SIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIPAYGWHAVFWVGGAV 192 Query: 184 PLVL-LPLILWKLPESVGFLL--RAGRQEQARAMLAQVAPHLRIDADTQLVQADAKGAGA 240 PLVL L +++W LPES+ FL+ R R + AR L ++ P++ ID T++V + K G Sbjct: 193 PLVLGLAMLVW-LPESIQFLVLHRRPRTQVAR-WLRKLDPNIVIDDKTEVVVKETKAEGM 250 Query: 241 PMLDLFKQDRPVGTLMIWIAFFCCLLMVYALGSWLPKLMASAGYSLGSSLSFLLALNFGG 300 P+ LF+ R T+++W+ F L+ +Y L +WLP L+ AGYS ++ +L GG Sbjct: 251 PVAALFRDGRAGVTVLLWLISFMNLINLYFLSNWLPTLIRDAGYSTSMAVLIGTSLQVGG 310 Query: 301 VVGAIGGGWLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTP-VLYLLIIVAGATTIGTQI 359 V+G + G RF +V+ S F + ++IAL+G + P +L++ +IVAG +G Q Sbjct: 311 VIGTLSLGRFIQRFGFTRVLGSCFLLACLSIALIGKLATVPALLFVAVIVAGFCIVGGQP 370 Query: 360 LLYANTAQFYPLASRSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFLVFAIPGLV 419 + A FYP RSTG+GWA G+GR G++VGP++GG L+A FL A+P L+ Sbjct: 371 AVNALAGTFYPTTLRSTGIGWALGIGRIGSVVGPVIGGQLIALQWTNASLFLAAAVPALI 430 Query: 420 AALAM 424 +AL + Sbjct: 431 SALTI 435 >gi|300310481|ref|YP_003774573.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 460 Score = 167 bits (422), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 125/400 (31%), Positives = 194/400 (48%), Gaps = 5/400 (1%) Query: 2 KNQEVSQIIDGAGFTRFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKHWSLSPVQAGAL 61 + ++ +++D F+ F +V+CL AL +V DG+D + G +P L+K W ++ Sbjct: 10 QTVDIGRMLDDGVFSGFQKLVVCLAALSIVMDGFDGQLIGFAIPSLIKEWGITRNAFAPA 69 Query: 62 GSYALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFSSTPNEFGVYRFLAGL 121 + L GM G+ G ADR GR+ + S +F V+T L FS + RF AGL Sbjct: 70 VAAGLVGMGIGSAFAGLFADRFGRRMAIIGSVFVFGVATSLIAFSPDVTTIAILRFCAGL 129 Query: 122 GCGGLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFFAA 181 G GG +P++ + E++P R R+ V LGG+L +LP++GW+ +F Sbjct: 130 GIGGALPSSTTMTAEFSPARRRTLAVTATIVCVPLGGMLAGLFANAVLPHYGWRGLFLIG 189 Query: 182 AVPLVLLPLILW-KLPESVGFLLRA-GRQEQARAMLAQVAPHLRIDADTQLVQADAKGAG 239 + V ++LW +PES +L R R ++ R +L +++ + D + A Sbjct: 190 GLLPVAFSVLLWFVIPESPRYLARHPHRWDELRRLLQRMSRPVSADTGFADAREQAIETR 249 Query: 240 APMLDLFKQDRPVGTLMIWIAFFCCLLMVYALGSWLPKLMASAGYSLGSSLSFLLALNFG 299 A LF + T+ +W+AFF LL VY+ SWLP ++A G S + + L A NFG Sbjct: 250 AGFGALFASGQARDTMALWVAFFMNLLAVYSAFSWLPTMLAGEGLSPSVAGAGLTAYNFG 309 Query: 300 GVVGAIGGGWLGDRF--TLPKVVVSF-FTVGTVAIALLGFNSPTPVLYLLIIVAGATTIG 356 GV GA+ RF LP ++ T + + L S T +L + I + G Sbjct: 310 GVFGALLCALFITRFGSRLPMLLCCLAATASALFLRSLDVASQTTLLVVGIGLHGLFVNA 369 Query: 357 TQILLYANTAQFYPLASRSTGLGWASGVGRSGAIVGPLLG 396 Q +YA A YP R+TG A GR GAI+ G Sbjct: 370 VQSTMYALCAYIYPTQVRATGTAAALAFGRLGAILSAFAG 409 >gi|300310615|ref|YP_003774707.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 478 Score = 130 bits (327), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 120/434 (27%), Positives = 200/434 (46%), Gaps = 20/434 (4%) Query: 10 IDGAGFTRFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKHWSLSPVQAGALGSYALFGM 69 I+ F+R+H + +FD + VLPVL+ W LS Q G L + G Sbjct: 33 IENVPFSRWHTKARIIMGSATLFDAFHALSLAFVLPVLVGLWQLSAAQIGLLIASGYLGQ 92 Query: 70 MFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFSSTPNEFGVYRFLAGLGCGGLMPN 129 + GA FG +A+R GR +++ L SV + + + + + + RFL G+G GG +P Sbjct: 93 VIGALFFGWMAERYGRVPSASVTVGLMSVLSIVCALTGSFHMLFLCRFLQGIGVGGEVPV 152 Query: 130 AVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFFAAAVPLVLLP 189 A +NE + R + + LG + A +G +++P FGW+ MF +P +L+ Sbjct: 153 AATYINELSQAHGRGKFFVLYELIFPLGLLAAAQVGAFLVPRFGWEYMFLVGGIPGILVA 212 Query: 190 LILWKLPESVGFLLRAGRQEQARAM---LAQVAPHLRIDADT------QLVQADAKGAGA 240 L++ +LPES +L+ GR + A + L P +DA T Q + A A GAG Sbjct: 213 LLITRLPESPRWLIARGRLDDAEKLIRTLEASTPKRNLDAQTDKQAIEQRINALAAGAGK 272 Query: 241 PMLDLFKQD-RPV---GTLMIWIAFFCCLLMVYALGSWLPKLMASAGY-SLGSSLSFLLA 295 +K+ PV T+++W+ + + + +WLP L + + L SL Sbjct: 273 RQRGSWKELFSPVYRGRTIIVWLLWASSYFVANGINNWLPSLYKTVYHLPLQESLRMASV 332 Query: 296 LNFGGVVGAIGGGWLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTPVLYLLIIVAGATTI 355 N +G L DR + ++ F + +ALLG ++ + + A + Sbjct: 333 SNVLSACAVLGCALLIDRVGRRRWAIASFILSGALLALLGVLKAESAWSVMFLASSAYAV 392 Query: 356 --GTQILLYANTAQFYPLASRSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFLVF 413 T +LLY T + YP R+ G G A+ R+ + P + G ++A + FL+F Sbjct: 393 MGTTTVLLYLYTPEIYPTRMRAIGTGLATSWLRAASAAAPAMVGVVLAGH-GIATVFLMF 451 Query: 414 A---IPGLVAALAM 424 A + GL+AA M Sbjct: 452 AGVTVLGLLAAWRM 465 >gi|300310666|ref|YP_003774758.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 438 Score = 115 bits (288), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 108/425 (25%), Positives = 193/425 (45%), Gaps = 4/425 (0%) Query: 5 EVSQIIDGAGFTRFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKHWSLSPVQAGALGSY 64 V Q + AG +F + + + L+ + D + G P + K + L+ QA G+ Sbjct: 7 SVEQGLQAAGVGKFQYRLFVIFGLVWLADAMQVLSIGFSAPTIAKTFGLTVPQALQTGTM 66 Query: 65 ALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFSSTPNEFGVYRFLAGLGCG 124 GM+ GAF+FG LADRIGR+ + + V+ + S F+ R L G+G G Sbjct: 67 FFVGMLLGAFVFGRLADRIGRRPVLMGAVVIDACFGVASAFAPDFTWLLALRLLTGIGVG 126 Query: 125 GLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLP--NFGWQSMFFAAA 182 G +P +M E+ P R + ++ S +++G + A L + + N W+ +FF Sbjct: 127 GTLPVDYTMMAEFLPSARRGRWLVMLESFWAIGTICLAVLALVAVSWGNDAWRVIFFVTG 186 Query: 183 VPLVLLPLILWKLPESVGFLLRAGRQEQARAMLAQVAPHLRIDADTQLVQADAKGAGAPM 242 +P ++ ++ + +PES +L R+G+ + AR +L +VA +Q + PM Sbjct: 187 LPALVGVVLRFYVPESPMYLNRSGKSDAARQVLERVAKVNGSSTPIPPLQPEVV-ERKPM 245 Query: 243 LDLFKQDRPVGTLMIWIAFFCCLLMVYALGSWLPKLMASAGYSLGSSLSFLLALNFGGVV 302 LF +L +++A+ + Y + +LP + S G+ FL+ L + Sbjct: 246 SALFSAALRRRSLSLYLAWGLISIAYYGVFVYLPVKLGSEGFGFMRGQIFLIFLALVQLP 305 Query: 303 GAIGGGWLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTPVLYLLIIVAGATTIGTQILLY 362 G + +R+ +V F + V L ++ ++ + +GT LY Sbjct: 306 GYALSAYGVERWGRKPTLVGFLVLSAVGCMLYSLGKDPMLVVGSTLLLSFSLLGTWAALY 365 Query: 363 ANTAQFYPLASRSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFL-VFAIPGLVAA 421 A T + YP R++G+G A V R G + P + +MA+ L + L F + G VA Sbjct: 366 AFTPEVYPTDLRASGMGTAGAVARFGGLFAPAIVAPVMASHFTLALAMLSAFLVAGAVAI 425 Query: 422 LAMGI 426 L + + Sbjct: 426 LCVDV 430 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 0.142 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: 1,221,493 Number of extensions: 46226 Number of successful extensions: 419 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 398 Number of HSP's successfully gapped: 26 Length of query: 453 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 365 Effective length of database: 1,203,190 Effective search space: 439164350 Effective search space used: 439164350 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)