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= 0001.0289.p (398 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309658|ref|YP_003773750.1| HlyD-family secretion protein [... 670 0.0 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 163 2e-41 gi|300313894|ref|YP_003777986.1| RND family efflux transporter M... 148 9e-37 gi|300310851|ref|YP_003774943.1| RND family efflux transporter M... 146 2e-36 gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 135 4e-33 >gi|300309658|ref|YP_003773750.1| HlyD-family secretion protein [Herbaspirillum seropedicae SmR1] Length = 399 Score = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/387 (96%), Positives = 378/387 (97%) Query: 1 MNTPAPLRKRFALTATVLAVIALSVGGAISVVGLSANATTAPTAAAAGAPVDVAEVVQRQ 60 M TPAPLRKRFALTATVLAVIALSVGGAISVVGLSANATTAP+AAAAGAPVDVAEVV RQ Sbjct: 1 MQTPAPLRKRFALTATVLAVIALSVGGAISVVGLSANATTAPSAAAAGAPVDVAEVVSRQ 60 Query: 61 IIDWQSYSGRIEAVDRVEVRPLVGGTLTAVHFKDGALVKKGDLLFTIDPRPYEAEVARAE 120 IIDWQSYSGRIEAVDRVEVRPLVGGTLTAVHFKDGALVKKGD+LFTIDPRPYEAEVARAE Sbjct: 61 IIDWQSYSGRIEAVDRVEVRPLVGGTLTAVHFKDGALVKKGDVLFTIDPRPYEAEVARAE 120 Query: 121 AQLAGAEARAGYTASDLARGQRLLGDNAIAKRDFEEKQNASREAVANVAAARAALRAARL 180 AQLAGAEARAGYTASDLARGQRLL DNAIAKRDFEEKQNASREA ANVAAARAALRAARL Sbjct: 121 AQLAGAEARAGYTASDLARGQRLLSDNAIAKRDFEEKQNASREASANVAAARAALRAARL 180 Query: 181 NLEYTRITAPVSGRISRAEVTVGNVVNPGAGNAPLTTLVSVAKVYASFDVDEQSFLKYVN 240 NLEYTRITAPVSGRISRAEVTVGNVVNPGA NAPLTTLVSVAKVYASFDVDEQSFLKYVN Sbjct: 181 NLEYTRITAPVSGRISRAEVTVGNVVNPGAANAPLTTLVSVAKVYASFDVDEQSFLKYVN 240 Query: 241 PARAAGTTVPVELGLANEDGYSRQGRVGSVDNRLDTASGTIRVRAIFDNADGQLVPGLYA 300 PARAAG TVPVELGLANEDGYSR+GRVGSVDNRLDTASGTIRVRAIFDNA+ QLVPGLYA Sbjct: 241 PARAAGATVPVELGLANEDGYSRKGRVGSVDNRLDTASGTIRVRAIFDNANSQLVPGLYA 300 Query: 301 RVRLGGGSPHAAVLIDEKAIGTDQDKRFVMVADKNNHASYRQVVVGAGHDGLVVIEKGLQ 360 RVRLGGG PH AVLIDEKAIGTDQDKRFVMVADK+NHA+YRQVVVGAGHDGLVVIEKGLQ Sbjct: 301 RVRLGGGEPHQAVLIDEKAIGTDQDKRFVMVADKDNHANYRQVVVGAGHDGLVVIEKGLQ 360 Query: 361 PGERIVVNGLQRIRPGDAITPTVVPMQ 387 PGERIVVNGLQRIRPGDAITPTVVPMQ Sbjct: 361 PGERIVVNGLQRIRPGDAITPTVVPMQ 387 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 163 bits (413), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 118/350 (33%), Positives = 179/350 (51%), Gaps = 16/350 (4%) Query: 45 AAAGAP-----VDVAEVVQRQIIDWQSYSGRIEAVDRVEVRPLVGGTLTAVHFKDGALVK 99 AA G P V V + +++ GR+EA +VR V G + FK+G+ VK Sbjct: 28 AAQGGPMPPSEVSVVTIAPQRVAITNELPGRVEAFRVAQVRARVAGIVQKRVFKEGSEVK 87 Query: 100 KGDLLFTIDPRPYEAEVARAEAQLAGAEARAGYTASDLARGQRLLGDNAIAKRDFEEKQN 159 +G +LF IDP Y+A + A+A LA A+A T R + L+ NA++K++++ Sbjct: 88 EGQVLFKIDPAQYKASLESAQATLARAQANLTQTTLTAQRYKPLVEVNAVSKQEYDNAVA 147 Query: 160 ASREAVANVAAARAALRAARLNLEYTRITAPVSGRISRAEVTVGNVVNPGAGNAPLTTLV 219 A ++A A+VAA +AA++ A LNL Y +T+P+SGRI RA VT G +V G G+A LV Sbjct: 148 AQKQAEADVAAGKAAVQTASLNLGYATVTSPISGRIGRALVTEGALV--GQGDATQLALV 205 Query: 220 -SVAKVYASFDVDEQSFLKYVNPARAAG-------TTVPVELGLANEDGYSRQGRVGSVD 271 + VY + LK + A AAG V L L N Y G++ D Sbjct: 206 QQLDPVYVNVTQSSADLLK-LQQAMAAGQLKSVGDNKASVTLELENGQAYPLPGKLLFSD 264 Query: 272 NRLDTASGTIRVRAIFDNADGQLVPGLYARVRLGGGSPHAAVLIDEKAIGTDQDKRFVMV 331 +D +G++ +RA F N L+PG Y R ++ A+L+ ++A+ D VMV Sbjct: 265 ISVDENTGSVSLRAEFPNPKRLLLPGTYVRAKIEQAVDEQALLVPQQAVVRDAGGSTVMV 324 Query: 332 ADKNNHASYRQVVVGAGHDGLVVIEKGLQPGERIVVNGLQRIRPGDAITP 381 + N R V G + GL+ G+R++V GLQ++RPG + P Sbjct: 325 VNAENKVEPRPVKTGGARGNNWQVLDGLKEGDRVIVEGLQKVRPGATVKP 374 >gi|300313894|ref|YP_003777986.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 428 Score = 148 bits (373), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 127/395 (32%), Positives = 197/395 (49%), Gaps = 30/395 (7%) Query: 1 MNTPAPLRKRFALTATVLAVIALSVGGAISVVGLSANATTA----PTAAAAGAPVDVAEV 56 M+ A +R T++ A +ALS+ I V L+A + + PTA A +V V Sbjct: 1 MHPTASTPRRQGRTSSATARLALSL---ILVAVLAACSRSGDQPKPTAQA-----EVGYV 52 Query: 57 V---QRQIIDWQSYSGRIEAVDRVEVRPLVGGTLTAVHFKDGALVKKGDLLFTIDPRPYE 113 V QRQ + + GR A ++RP VGG + FK+G+ VK G L+ IDP Y+ Sbjct: 53 VVKAQRQALTTE-LPGRTTAYLAADIRPQVGGIIQKRLFKEGSTVKAGQPLYQIDPASYQ 111 Query: 114 AEVARAEAQLAGAEARAGYTASDLARGQRLLGDNAIAKRDFEEKQNASREAVANVAAARA 173 A A A L AEA + R L +A++K+D ++ Q+ R+ A+V +A Sbjct: 112 AAYDSARASLLKAEATLASSKLKAERYAELNKIDAVSKQDNDDAQSTLRQNQADVEVQKA 171 Query: 174 ALRAARLNLEYTRITAPVSGRISRAEVTVGNVVNPGAGNAPLTTLVSVAKVYASFDVDEQ 233 A++ A +NL+YT+I +P+SGRI ++ VT G +V A LTT+ + +Y Sbjct: 172 AVQTAAINLQYTKILSPISGRIEKSAVTPGALVTASQTTA-LTTVQQIDPIYVDVTQSTV 230 Query: 234 SFLKY-----VNPARAAGTTVPVELGLANEDG--YSRQGRVGSVDNRLDTASGTIRVRAI 286 L+ R +G ++ + EDG Y R G++ +DT +G I +RA+ Sbjct: 231 DLLRLRRELASGQIRKSGENA-AQVKIVLEDGSTYERPGKLEFTGLSVDTGTGMITLRAV 289 Query: 287 FDNADGQLVPGLYARVRLGGGSPHAAVLIDEKAIGTDQD---KRFVMVADKNNHASYRQV 343 N DG L+PG Y R L G A+L +KA+ DQ V+ AD V Sbjct: 290 VPNPDGVLLPGAYVRAVLEEGVDDHALLAPQKAVSRDQTGAATALVLGADGKVQQRLVSV 349 Query: 344 VVGAGHDGLVVIEKGLQPGERIVVNGLQRIRPGDA 378 G++ V +GL+ G++++V+GLQ++R GDA Sbjct: 350 ARAVGNNWWV--SRGLKEGDKLIVDGLQKVRTGDA 382 >gi|300310851|ref|YP_003774943.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 466 Score = 146 bits (369), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 95/298 (31%), Positives = 149/298 (50%), Gaps = 2/298 (0%) Query: 79 VRPLVGGTLTAVHFKDGALVKKGDLLFTIDPRPYEAEVARAEAQLAGAEARAGYTASDLA 138 VR V G L +H+K+G +VK GDLL IDPR +A + +AE QLA A DL Sbjct: 62 VRARVDGQLMKLHYKEGQVVKAGDLLAEIDPRSLQAALTQAEGQLARDRALLASARLDLK 121 Query: 139 RGQRLLGDNAIAKRDFEEKQNASREAVANVAAARAALRAARLNLEYTRITAPVSGRISRA 198 R Q LL ++IA + + + ++ V A + +ARL L +TR+TAP+SGR+ Sbjct: 122 RYQTLLAQDSIASQQVDTQVALVKQYEGTVKADEGNVASARLQLSFTRVTAPISGRLGLR 181 Query: 199 EVTVGNVVNPGAGNAPLTTLVSVAKVYASFDVDEQSFLKYVNPARAAGTTVPVELGLANE 258 + VGN V N L + + + A F + E + K + + +G +P + + Sbjct: 182 QADVGNNVTTSDTNG-LVIITQLQPITAIFSIPEDNIPKVLQQLQ-SGRKLPAQAWDREQ 239 Query: 259 DGYSRQGRVGSVDNRLDTASGTIRVRAIFDNADGQLVPGLYARVRLGGGSPHAAVLIDEK 318 G + ++DN +D +GT++++A F N D L P + +RL + A +I Sbjct: 240 KNKLADGVLLTIDNVVDATTGTVKLKAQFPNTDYALFPSQFVNIRLQLNTEQGATVIPTA 299 Query: 319 AIGTDQDKRFVMVADKNNHASYRQVVVGAGHDGLVVIEKGLQPGERIVVNGLQRIRPG 376 AI FV V ++ + R V G D L VI G+ GE +V++G+ R+R G Sbjct: 300 AIQRGSKGLFVYVVKDDSSVTVRPVKTGPVQDDLTVITDGVSAGETVVIDGIDRLREG 357 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 135 bits (341), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 102/327 (31%), Positives = 166/327 (50%), Gaps = 15/327 (4%) Query: 69 GRIEAVDRVEVRPLVGGTLTAVHFKDGALVKKGDLLFTIDPRPYEAEVARAEAQLAGAEA 128 GR +VRP V G + A F++G+ VK G +L+ I+P Y+A + A LA AEA Sbjct: 59 GRTSPYQIADVRPQVNGIIKARSFREGSDVKAGQVLYQINPASYQAAYDSSVAALAKAEA 118 Query: 129 RAGYTASDLARGQRLLGDNAIAKRDFEEKQNASREAVANVAAARAALRAARLNLEYTRIT 188 +R + L+ A++++D+++ + EA A+V +ARA ++ +R+NL+Y R+ Sbjct: 119 SVRTARLKASRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYARLD 178 Query: 189 APVSGRISRAEVTVGNVVNPGAGNAPLTTLVSVAKVYASFDVDEQSFLKYVNPARA---- 244 AP+SGRI ++ VT G +V A LTT+ + +Y DV QS ++N A Sbjct: 179 APISGRIGKSSVTPGALVTANQTTA-LTTIQQLDPIY--VDV-TQSSTTWLNLKEALANG 234 Query: 245 ----AGTTVPVELGLANEDGYSRQGRVGSVDNRLDTASGTIRVRAIFDNADGQLVPGLYA 300 +G V L L N Y+++G + D ++ +G I +RAIF N L+PG+Y Sbjct: 235 QLEKSGNGAKVRLVLENGRTYAQEGTLQFSDVTVNQDTGAITLRAIFPNPKTDLLPGMYV 294 Query: 301 RVRLGGGSPHAAVLIDEKAIGTD-QDKRFVMVADKNNHASYRQVVVGAGHDGLVVIEKGL 359 R L G +L+ ++A+ D K V + R +V ++ GL Sbjct: 295 RAVLQEGVRQQGLLVPQQAVSRDGAGKPVAFVVNAQGVVEQRALVTDRAIGDQWLVSSGL 354 Query: 360 QPGERIVVNGLQRIRPGDAITPTVVPM 386 + G+++VV+G QR G + VVP Sbjct: 355 KEGDQLVVDGQQRASAGAKV--KVVPW 379 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 0.316 0.132 0.366 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: 1,100,516 Number of extensions: 42864 Number of successful extensions: 206 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 196 Number of HSP's successfully gapped: 12 Length of query: 398 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 311 Effective length of database: 1,207,925 Effective search space: 375664675 Effective search space used: 375664675 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 131 (55.1 bits)