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= 0004.0127.p (530 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... 247 2e-66 gi|300310481|ref|YP_003774573.1| major facilitator superfamily p... 148 1e-36 gi|300310449|ref|YP_003774541.1| 4-hydroxybenzoate transporter t... 138 1e-33 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 132 7e-32 gi|300310666|ref|YP_003774758.1| major facilitator superfamily p... 100 3e-22 >gi|300310645|ref|YP_003774737.1| major facilitator superfamily benzoate permease [Herbaspirillum seropedicae SmR1] Length = 455 Score = 247 bits (630), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 128/285 (44%), Positives = 183/285 (64%), Gaps = 1/285 (0%) Query: 1 MQQIDVIKLANEAKFNKFHRLILFWGVLILVLDGYDLAVVGAALPSIMKEMGVDASSAGF 60 M+ +DV ++ + A+F KFH +++ L+LV DGYDL + GA LP +MKE + AG Sbjct: 1 MKTLDVSQIIDGARFTKFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKEWSLSPVQAGA 60 Query: 61 MASSALFGMMFGAMFFGTLADKIGRPLMLAVGVGTFSVFTAAAGLAHDPISFSALRFLAG 120 + S ALFGMMFGA FG LAD+IGR +A+ FSV T +G A P F RFLAG Sbjct: 61 LGSYALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFATSPTEFGVYRFLAG 120 Query: 121 LGIGGVLPVVTAQMGEFSPVKVRARLVTLVFAGYSVGGVLVALTGKQLIESYGWQSVFFV 180 LG GG++P A M E++P ++R+ LV ++F+GYS+GGVL A G ++ ++GWQS+FF Sbjct: 121 LGCGGLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFFA 180 Query: 181 AGLPVLLIPFILKTMPESMATLHRKGRQARLAEIALKINPALRLNGNEEFILPVAERVAN 240 A +P++L+P IL +PES+ L R+GR + + +++P R+ + + + + A Sbjct: 181 AAVPLVLLPVILWKLPESVGFLLRQGRLEQARAMLTQVDPQARIATDTQLV-QADVKGAG 239 Query: 241 APVKMLFANGRGFSTLMIWVAYFTGLFMVYSLSSWLTKLMAMAGY 285 AP+ LF R TLMIWV++F L MVY+L SWL KLMA AGY Sbjct: 240 APMLHLFKQDRAVGTLMIWVSFFCCLLMVYALGSWLPKLMASAGY 284 Score = 125 bits (314), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 60/116 (51%), Positives = 88/116 (75%) Query: 392 WLGDKFNIKHVLVAFYVVGAISLTLMGFTKETWLLFAVVFVVGASTLGTQLLAYAYAGEF 451 WLGD+F + V+V+F+ VG +++ L+GF T +L+ ++ V GA+T+GTQ+L YA +F Sbjct: 309 WLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTPVLYLLIIVAGATTIGTQILLYANTAQF 368 Query: 452 YPVAIRSTGVGFASGVGRLGAIIAPVLIGALVTLKLPLEQNFLGIAVAGLIGAVAV 507 YP+AIRSTG+G+ASGVGR GAI+ P+L GAL+ LPL+ NFL A+ GL+ A+A+ Sbjct: 369 YPLAIRSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFLVFAIPGLVAALAM 424 >gi|300310481|ref|YP_003774573.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 460 Score = 148 bits (374), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 99/307 (32%), Positives = 154/307 (50%), Gaps = 5/307 (1%) Query: 2 QQIDVIKLANEAKFNKFHRLILFWGVLILVLDGYDLAVVGAALPSIMKEMGVDASSAGFM 61 Q +D+ ++ ++ F+ F +L++ L +V+DG+D ++G A+PS++KE G+ ++ Sbjct: 10 QTVDIGRMLDDGVFSGFQKLVVCLAALSIVMDGFDGQLIGFAIPSLIKEWGITRNAFAPA 69 Query: 62 ASSALFGMMFGAMFFGTLADKIGRPLMLAVGVGTFSVFTAAAGLAHDPISFSALRFLAGL 121 ++ L GM G+ F G AD+ GR + + V F V T+ + D + + LRF AGL Sbjct: 70 VAAGLVGMGIGSAFAGLFADRFGRRMAIIGSVFVFGVATSLIAFSPDVTTIAILRFCAGL 129 Query: 122 GIGGVLPVVTAQMGEFSPVKVRARLVTLVFAGYSVGGVLVALTGKQLIESYGWQSVFFVA 181 GIGG LP T EFSP + R VT +GG+L L ++ YGW+ +F + Sbjct: 130 GIGGALPSSTTMTAEFSPARRRTLAVTATIVCVPLGGMLAGLFANAVLPHYGWRGLFLIG 189 Query: 182 G-LPVLLIPFILKTMPESMATLHRKGRQARLAEIALKINPALRLNGNEEFILPVAERV-- 238 G LPV + +PES L R R E+ + R + E+ Sbjct: 190 GLLPVAFSVLLWFVIPESPRYLARHPH--RWDELRRLLQRMSRPVSADTGFADAREQAIE 247 Query: 239 ANAPVKMLFANGRGFSTLMIWVAYFTGLFMVYSLSSWLTKLMAMAGYSLGSALNFVLVFN 298 A LFA+G+ T+ +WVA+F L VYS SWL ++A G S A + +N Sbjct: 248 TRAGFGALFASGQARDTMALWVAFFMNLLAVYSAFSWLPTMLAGEGLSPSVAGAGLTAYN 307 Query: 299 FGAMAGA 305 FG + GA Sbjct: 308 FGGVFGA 314 >gi|300310449|ref|YP_003774541.1| 4-hydroxybenzoate transporter transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 447 Score = 138 bits (348), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 96/326 (29%), Positives = 163/326 (50%), Gaps = 5/326 (1%) Query: 1 MQQIDVIKLANEAKFNKFHRLILFWGVLILVLDGYDLAVVGAALPSIMKEMGVDASSAGF 60 + + V ++ + +F F +L L L++DG+D+ +G P+I+ + GV +S G Sbjct: 9 LPTVHVDQVVEQGRFGAFQFGLLLLCGLCLIIDGFDVQAMGYVAPAIIADWGVSKASLGP 68 Query: 61 MASSALFGMMFGAMFFGTLADKIGRPLMLAVGVGTFSVFTAAAGLAHDPISFSALRFLAG 120 + + LFGM+ G++ + D+ GR +L + F++ A + LRF+ G Sbjct: 69 VFGAGLFGMLLGSLVLTPVGDRYGRRPVLILSTLFFALCMLATPMVTTLDQLLVLRFITG 128 Query: 121 LGIGGVLPVVTAQMGEFSPVKVRARLVTLVFAGYSVGGVLVALTGKQLIESYGWQSVFFV 180 G+G ++P A +GEFSP R + LV G++VG LI +YGW +VF+V Sbjct: 129 FGLGSIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIPAYGWHAVFWV 188 Query: 181 AG-LPVLLIPFILKTMPESMA--TLHRKGRQARLAEIALKINPALRLNGNEEFILPVAER 237 G +P++L +L +PES+ LHR+ R ++A K++P + ++ E ++ + Sbjct: 189 GGAVPLVLGLAMLVWLPESIQFLVLHRRPRT-QVARWLRKLDPNIVIDDKTEVVVK-ETK 246 Query: 238 VANAPVKMLFANGRGFSTLMIWVAYFTGLFMVYSLSSWLTKLMAMAGYSLGSALNFVLVF 297 PV LF +GR T+++W+ F L +Y LS+WL L+ AGYS A+ Sbjct: 247 AEGMPVAALFRDGRAGVTVLLWLISFMNLINLYFLSNWLPTLIRDAGYSTSMAVLIGTSL 306 Query: 298 NFGAMAGAQPLQEVEDNLASLRILGD 323 G + G L R+LG Sbjct: 307 QVGGVIGTLSLGRFIQRFGFTRVLGS 332 Score = 72.0 bits (175), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 43/123 (34%), Positives = 67/123 (54%), Gaps = 1/123 (0%) Query: 395 DKFNIKHVLVAFYVVGAISLTLMG-FTKETWLLFAVVFVVGASTLGTQLLAYAYAGEFYP 453 +F VL + +++ +S+ L+G LLF V V G +G Q A AG FYP Sbjct: 322 QRFGFTRVLGSCFLLACLSIALIGKLATVPALLFVAVIVAGFCIVGGQPAVNALAGTFYP 381 Query: 454 VAIRSTGVGFASGVGRLGAIIAPVLIGALVTLKLPLEQNFLGIAVAGLIGAVAVMLINHD 513 +RSTG+G+A G+GR+G+++ PV+ G L+ L+ FL AV LI A+ + ++ Sbjct: 382 TTLRSTGIGWALGIGRIGSVVGPVIGGQLIALQWTNASLFLAAAVPALISALTIARLHRT 441 Query: 514 LSG 516 G Sbjct: 442 AQG 444 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 132 bits (332), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 70/84 (83%), Positives = 78/84 (92%) Query: 309 QEVEDNLASLRILGDQTRAQDDAVSASNRAARLSHVQYREGSVSYFNVIDADRTVLQQQR 368 +EVEDNLA+LRIL Q RAQD+AV+AS RAA+LSH QYREG+VSYF+VIDADRTVLQQQR Sbjct: 410 REVEDNLANLRILDQQNRAQDEAVAASARAAKLSHTQYREGAVSYFSVIDADRTVLQQQR 469 Query: 369 AAVQLDGERARSTVNLIRALGGGW 392 A+V LDGERARSTVNLIRALGGGW Sbjct: 470 ASVTLDGERARSTVNLIRALGGGW 493 >gi|300310666|ref|YP_003774758.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 438 Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/273 (30%), Positives = 137/273 (50%), Gaps = 19/273 (6%) Query: 7 IKLANEAKFNKFHRLILFWGVLILVLDGYDLAVVGAALPSIMKEMGVDASSAGFMASSAL 66 ++ A KF +RL + +G L+ + D + +G + P+I K G+ A + Sbjct: 12 LQAAGVGKFQ--YRLFVIFG-LVWLADAMQVLSIGFSAPTIAKTFGLTVPQALQTGTMFF 68 Query: 67 FGMMFGAMFFGTLADKIGRPLMLAVGVGTFSVFTAAAGLAHDPISFSALRFLAGLGIGGV 126 GM+ GA FG LAD+IGR +L V + F A+ A D ALR L G+G+GG Sbjct: 69 VGMLLGAFVFGRLADRIGRRPVLMGAVVIDACFGVASAFAPDFTWLLALRLLTGIGVGGT 128 Query: 127 LPVVTAQMGEFSPVKVRARLVTLVFAGYSVGGVLVALTGKQLIESYG---WQSVFFVAGL 183 LPV M EF P R R + ++ + +++G + +A+ + S+G W+ +FFV GL Sbjct: 129 LPVDYTMMAEFLPSARRGRWLVMLESFWAIGTICLAVLALVAV-SWGNDAWRVIFFVTGL 187 Query: 184 PVLLIPFILKTMPESMATLHRKGRQARLAEIALKINPALRLNGNEEFILPV-AERVANAP 242 P L+ + +PES L+R G+ ++ ++ ++NG+ I P+ E V P Sbjct: 188 PALVGVVLRFYVPESPMYLNRSGKSDAARQVLERVA---KVNGSSTPIPPLQPEVVERKP 244 Query: 243 VKMLFANG---RGFSTLMIW----VAYFTGLFM 268 + LF+ R S + W +AY+ G+F+ Sbjct: 245 MSALFSAALRRRSLSLYLAWGLISIAYY-GVFV 276 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 0.325 0.139 0.400 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: 1,577,460 Number of extensions: 67462 Number of successful extensions: 495 Number of sequences better than 1.0e-08: 24 Number of HSP's gapped: 498 Number of HSP's successfully gapped: 27 Length of query: 530 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 440 Effective length of database: 1,193,720 Effective search space: 525236800 Effective search space used: 525236800 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 133 (55.8 bits)