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= 0001.1163.p (396 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 669 0.0 gi|300313894|ref|YP_003777986.1| RND family efflux transporter M... 397 e-112 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 359 e-100 gi|300310851|ref|YP_003774943.1| RND family efflux transporter M... 135 7e-33 gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbas... 125 6e-30 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 669 bits (1727), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/385 (90%), Positives = 367/385 (95%), Gaps = 3/385 (0%) Query: 1 MRTSLILRPVAAV---AILSVLSACGKPPGGPPPAAGTPVLGVVTVRTQPVELHTELPGR 57 MRT I +PVAA+ AILSVLSACGKPPGG PPAAGTPVLGVVTV QPVELHTELPGR Sbjct: 1 MRTPPIPKPVAALTALAILSVLSACGKPPGGAPPAAGTPVLGVVTVHAQPVELHTELPGR 60 Query: 58 TSPYQIADVRPQVGGIIKSRSFREGSDVKAGQMLYQIDPASYRAAYDSSVAALAKAEASV 117 TSPYQIADVRPQV GIIK+RSFREGSDVKAGQ+LYQI+PASY+AAYDSSVAALAKAEASV Sbjct: 61 TSPYQIADVRPQVNGIIKARSFREGSDVKAGQVLYQINPASYQAAYDSSVAALAKAEASV 120 Query: 118 KTARLKAQRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYARVDAP 177 +TARLKA RYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYAR+DAP Sbjct: 121 RTARLKASRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYARLDAP 180 Query: 178 ISGRISKSSVTPGALVTASQTTALTTIQQLDPIYVDVTQSSTNWLDLKEALAKGQLQKSG 237 ISGRI KSSVTPGALVTA+QTTALTTIQQLDPIYVDVTQSST WL+LKEALA GQL+KSG Sbjct: 181 ISGRIGKSSVTPGALVTANQTTALTTIQQLDPIYVDVTQSSTTWLNLKEALANGQLEKSG 240 Query: 238 NGAKVRLILENGRTYAEEGRLQFSDVTVNQDTGAITLRAVFPNPKADLLPGMYVRAVLEE 297 NGAKVRL+LENGRTYA+EG LQFSDVTVNQDTGAITLRA+FPNPK DLLPGMYVRAVL+E Sbjct: 241 NGAKVRLVLENGRTYAQEGTLQFSDVTVNQDTGAITLRAIFPNPKTDLLPGMYVRAVLQE 300 Query: 298 GVRQQGLLVPQQAVSRDGAGKPQAFVVNAQGVVEQRALVTDRAIGDQWLVSSGLKEGDQL 357 GVRQQGLLVPQQAVSRDGAGKP AFVVNAQGVVEQRALVTDRAIGDQWLVSSGLKEGDQL Sbjct: 301 GVRQQGLLVPQQAVSRDGAGKPVAFVVNAQGVVEQRALVTDRAIGDQWLVSSGLKEGDQL 360 Query: 358 VVDGQQQATPGAKVKVVPWSPKATV 382 VVDGQQ+A+ GAKVKVVPW+PKA++ Sbjct: 361 VVDGQQRASAGAKVKVVPWTPKASL 385 >gi|300313894|ref|YP_003777986.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 428 Score = 397 bits (1020), Expect = e-112, Method: Compositional matrix adjust. Identities = 209/367 (56%), Positives = 269/367 (73%), Gaps = 2/367 (0%) Query: 3 TSLILRPVAAVAILSVLSACGKPPGGPPPAAGTPVLGVVTVRTQPVELHTELPGRTSPYQ 62 +S R ++ +++VL+AC + P P A V G V V+ Q L TELPGRT+ Y Sbjct: 15 SSATARLALSLILVAVLAACSRSGDQPKPTAQAEV-GYVVVKAQRQALTTELPGRTTAYL 73 Query: 63 IADVRPQVGGIIKSRSFREGSDVKAGQMLYQIDPASYRAAYDSSVAALAKAEASVKTARL 122 AD+RPQVGGII+ R F+EGS VKAGQ LYQIDPASY+AAYDS+ A+L KAEA++ +++L Sbjct: 74 AADIRPQVGGIIQKRLFKEGSTVKAGQPLYQIDPASYQAAYDSARASLLKAEATLASSKL 133 Query: 123 KAQRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYARVDAPISGRI 182 KA+RY EL I AVS+QD DDA ++L + +ADV +A VQT+ INL Y ++ +PISGRI Sbjct: 134 KAERYAELNKIDAVSKQDNDDAQSTLRQNQADVEVQKAAVQTAAINLQYTKILSPISGRI 193 Query: 183 SKSSVTPGALVTASQTTALTTIQQLDPIYVDVTQSSTNWLDLKEALAKGQLQKSG-NGAK 241 KS+VTPGALVTASQTTALTT+QQ+DPIYVDVTQS+ + L L+ LA GQ++KSG N A+ Sbjct: 194 EKSAVTPGALVTASQTTALTTVQQIDPIYVDVTQSTVDLLRLRRELASGQIRKSGENAAQ 253 Query: 242 VRLILENGRTYAEEGRLQFSDVTVNQDTGAITLRAVFPNPKADLLPGMYVRAVLEEGVRQ 301 V+++LE+G TY G+L+F+ ++V+ TG ITLRAV PNP LLPG YVRAVLEEGV Sbjct: 254 VKIVLEDGSTYERPGKLEFTGLSVDTGTGMITLRAVVPNPDGVLLPGAYVRAVLEEGVDD 313 Query: 302 QGLLVPQQAVSRDGAGKPQAFVVNAQGVVEQRALVTDRAIGDQWLVSSGLKEGDQLVVDG 361 LL PQ+AVSRD G A V+ A G V+QR + RA+G+ W VS GLKEGD+L+VDG Sbjct: 314 HALLAPQKAVSRDQTGAATALVLGADGKVQQRLVSVARAVGNNWWVSRGLKEGDKLIVDG 373 Query: 362 QQQATPG 368 Q+ G Sbjct: 374 LQKVRTG 380 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 359 bits (921), Expect = e-100, Method: Compositional matrix adjust. Identities = 199/397 (50%), Positives = 268/397 (67%), Gaps = 10/397 (2%) Query: 4 SLILRPVAAVAILSVLSACGKPP---GGP-PPAAGTPVLGVVTVRTQPVELHTELPGRTS 59 S R VAI + L ACG+ P GGP PP+ + VVT+ Q V + ELPGR Sbjct: 5 SRFTRLTMTVAIAAALVACGQKPAAQGGPMPPSE----VSVVTIAPQRVAITNELPGRVE 60 Query: 60 PYQIADVRPQVGGIIKSRSFREGSDVKAGQMLYQIDPASYRAAYDSSVAALAKAEASVKT 119 +++A VR +V GI++ R F+EGS+VK GQ+L++IDPA Y+A+ +S+ A LA+A+A++ Sbjct: 61 AFRVAQVRARVAGIVQKRVFKEGSEVKEGQVLFKIDPAQYKASLESAQATLARAQANLTQ 120 Query: 120 ARLKAQRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYARVDAPIS 179 L AQRYK LV + AVS+Q+YD+AVA+ +AEADV + +A VQT+ +NL YA V +PIS Sbjct: 121 TTLTAQRYKPLVEVNAVSKQEYDNAVAAQKQAEADVAAGKAAVQTASLNLGYATVTSPIS 180 Query: 180 GRISKSSVTPGALVTASQTTALTTIQQLDPIYVDVTQSSTNWLDLKEALAKGQLQKSG-N 238 GRI ++ VT GALV T L +QQLDP+YV+VTQSS + L L++A+A GQL+ G N Sbjct: 181 GRIGRALVTEGALVGQGDATQLALVQQLDPVYVNVTQSSADLLKLQQAMAAGQLKSVGDN 240 Query: 239 GAKVRLILENGRTYAEEGRLQFSDVTVNQDTGAITLRAVFPNPKADLLPGMYVRAVLEEG 298 A V L LENG+ Y G+L FSD++V+++TG+++LRA FPNPK LLPG YVRA +E+ Sbjct: 241 KASVTLELENGQAYPLPGKLLFSDISVDENTGSVSLRAEFPNPKRLLLPGTYVRAKIEQA 300 Query: 299 VRQQGLLVPQQAVSRDGAGKPQAFVVNAQGVVEQRALVTDRAIGDQWLVSSGLKEGDQLV 358 V +Q LLVPQQAV RD AG VVNA+ VE R + T A G+ W V GLKEGD+++ Sbjct: 301 VDEQALLVPQQAVVRD-AGGSTVMVVNAENKVEPRPVKTGGARGNNWQVLDGLKEGDRVI 359 Query: 359 VDGQQQATPGAKVKVVPWSPKATVTNASASAATSAAT 395 V+G Q+ PGA VK V W+P AS A A+ Sbjct: 360 VEGLQKVRPGATVKPVQWNPAGAPAQASGQPAKQEAS 396 >gi|300310851|ref|YP_003774943.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 466 Score = 135 bits (339), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 104/337 (30%), Positives = 159/337 (47%), Gaps = 7/337 (2%) Query: 38 LGVVTVRTQPVELHTELPGRTSPYQIADVRPQVGGIIKSRSFREGSDVKAGQMLYQIDPA 97 +GV R Q V + G +P A VR +V G + ++EG VKAG +L +IDP Sbjct: 34 VGVAKARLQDVNVFLNGLGAVTPTATATVRARVDGQLMKLHYKEGQVVKAGDLLAEIDPR 93 Query: 98 SYRAAYDSSVAALAKAEASVKTARLKAQRYKELVAIKAVSQQDYDDAVASLGEAEADVGS 157 S +AA + LA+ A + +ARL +RY+ L+A +++ Q D VA + + E V + Sbjct: 94 SLQAALTQAEGQLARDRALLASARLDLKRYQTLLAQDSIASQQVDTQVALVKQYEGTVKA 153 Query: 158 ARANVQTSRINLDYARVDAPISGRISKSSVTPGALVTASQTTALTTIQQLDPIYVDVTQS 217 NV ++R+ L + RV APISGR+ G VT S T L I QL PI + Sbjct: 154 DEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIITQLQPITAIFSIP 213 Query: 218 STNWLDLKEALAKGQLQKSGNGAKVRLILENGRTYAEEGRLQFSDVTVNQDTGAITLRAV 277 N + + L +SG + + +G L D V+ TG + L+A Sbjct: 214 EDNIPKVLQQL------QSGRKLPAQAWDREQKNKLADGVLLTIDNVVDATTGTVKLKAQ 267 Query: 278 FPNPKADLLPGMYVRAVLEEGVRQQGLLVPQQAVSRDGAGKPQAFVVNAQGVVEQRALVT 337 FPN L P +V L+ Q ++P A+ R G+ +VV V R + T Sbjct: 268 FPNTDYALFPSQFVNIRLQLNTEQGATVIPTAAIQR-GSKGLFVYVVKDDSSVTVRPVKT 326 Query: 338 DRAIGDQWLVSSGLKEGDQLVVDGQQQATPGAKVKVV 374 D +++ G+ G+ +V+DG + GAKV+ V Sbjct: 327 GPVQDDLTVITDGVSAGETVVIDGIDRLREGAKVEAV 363 >gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 125 bits (314), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 92/310 (29%), Positives = 154/310 (49%), Gaps = 12/310 (3%) Query: 66 VRPQVGGIIKSRSFREGSDVKAGQMLYQIDPASYRAAYDSSVAALAKAEASVKTARLKAQ 125 V+ ++ G ++ F+EG DVK GQ+L QID + +A + A AK A++ ARL Q Sbjct: 79 VKTRIDGQLEKVGFQEGEDVKKGQLLAQIDARALQAQLAQAEAQRAKDSATLMNARLDLQ 138 Query: 126 RYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYARVDAPISGRISKS 185 RY L + A +QQ D A + + EA V + A V +++ L Y ++APISGR+ Sbjct: 139 RYTTLRSQDAATQQQLDTQKALVAQLEAAVKTDEAQVAYAKVQLSYTTINAPISGRVGAR 198 Query: 186 SVTPGALVTASQTTALTTIQQLDPIYVDVT--QSSTNWLDLKEALAKGQLQKSGNGAKVR 243 V PG +V A+ L I Q+DPI + T + + ++ + + LQ S + Sbjct: 199 LVDPGNIVHATDANGLVVINQIDPITLVFTLPEEAVAGINRAQRAHQQPLQVSAYARDSQ 258 Query: 244 LILENGRTYAEEGRLQFSDVTVNQDTGAITLRAVFPNPKADLLPGMYVRAVLEEGVRQQG 303 +L G+L D +N G + L+A F NP L PG YV A L+ Sbjct: 259 EVLAT-------GKLVLLDNQINTTNGTVQLKARFDNPDHKLWPGQYVNARLQMRSHGNA 311 Query: 304 LLVPQQAVSRDGAGKPQAFVVNAQGVVEQRALVTDRAIGDQWLVSSG--LKEGDQLVVDG 361 L VP A+ R+ G + ++ + + + +R ++++G ++ G ++V+DG Sbjct: 312 LTVPAAAIQRNQQGT-YVYAIDQEDQARMQPVKVERIQDGIAVLAAGNAVQAGQRVVIDG 370 Query: 362 QQQATPGAKV 371 Q + PG+++ Sbjct: 371 QYKLKPGSRI 380 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 0.313 0.128 0.353 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: 1,038,074 Number of extensions: 41840 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 172 Number of HSP's successfully gapped: 13 Length of query: 396 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 309 Effective length of database: 1,207,925 Effective search space: 373248825 Effective search space used: 373248825 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 131 (55.1 bits)