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= 0015.0060.p (409 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312743|ref|YP_003776835.1| membrane-fusion protein [Herbas... 725 0.0 gi|300311362|ref|YP_003775454.1| HlyD family secretion, possible... 172 3e-44 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 66 4e-12 gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 65 7e-12 gi|300313894|ref|YP_003777986.1| RND family efflux transporter M... 65 1e-11 >gi|300312743|ref|YP_003776835.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 725 bits (1872), Expect = 0.0, Method: Compositional matrix adjust. Identities = 364/393 (92%), Positives = 377/393 (95%) Query: 7 MTEPHDQLPHVVPTTHAPARQKAWWSVVALVLVLGGGYALYARQSPPPAPPKPIPVKLAT 66 MTEPHD LPH+VPTTHAP RQKAWWS VALV+VLGGGY LY+RQ PPP PKPIPVKL T Sbjct: 1 MTEPHDPLPHIVPTTHAPTRQKAWWSSVALVIVLGGGYWLYSRQQPPPPAPKPIPVKLET 60 Query: 67 VAVERADLEQVVNATGNVVAQDYVDVGSKVAGQISDVEVVIGEAVKAGRLLATVAPAVQN 126 V VERADLEQVVNATGNVVAQDYVDVGSKVAGQISDV+VV+GE VKAG+LLATVAPAVQ+ Sbjct: 61 VTVERADLEQVVNATGNVVAQDYVDVGSKVAGQISDVDVVVGETVKAGKLLATVAPAVQS 120 Query: 127 SRIESNRATLARLKAELAGQNAQLDFAQLQFQRQTQLKAENATREESYESSRMNMYAAAS 186 SRIE+NRATLARLKAELAGQNAQLDFAQLQFQRQTQLKAENATREESYESSRMNMYAAA+ Sbjct: 121 SRIENNRATLARLKAELAGQNAQLDFAQLQFQRQTQLKAENATREESYESSRMNMYAAAA 180 Query: 187 RVDATNAQIQQTEAAIREDEAVQKQTRIEAPVSGTIVTLNARPGQMVSANQEVLMRIADL 246 RVDATNAQIQQTEAAIREDEAVQKQTRIEAPVSGTIVTLNARPGQMV+ANQE LMRIADL Sbjct: 181 RVDATNAQIQQTEAAIREDEAVQKQTRIEAPVSGTIVTLNARPGQMVAANQEALMRIADL 240 Query: 247 SRMTVQVPVSEEDVTRLQKGMTAYFTTPGYPGKRWSGKLRQIMLLPTDDSGRQGKKAYYT 306 SRMTVQVPV+EEDVTRLQKGMTAYFTTPGYPGKRWSGKLRQIMLLPTDDSGRQGKKA+YT Sbjct: 241 SRMTVQVPVAEEDVTRLQKGMTAYFTTPGYPGKRWSGKLRQIMLLPTDDSGRQGKKAFYT 300 Query: 307 VLFDVANPSRELMSGMSADVYFVLARAEHVPAIPRSLVTKPGMDGTQTVKVVLADGTLET 366 V FDVANPSRELMSGMSADVYFVLARAEHVP IPR+LVTKPGMDGTQTVKVVLADG LET Sbjct: 301 VFFDVANPSRELMSGMSADVYFVLARAEHVPTIPRTLVTKPGMDGTQTVKVVLADGKLET 360 Query: 367 RKIKIGIRDGERAQVLSGLKEGEQVLLPANPPA 399 RKIKIGIRD ERAQVLSGLKEGEQVLLPANP A Sbjct: 361 RKIKIGIRDNERAQVLSGLKEGEQVLLPANPAA 393 >gi|300311362|ref|YP_003775454.1| HlyD family secretion, possible efflux component [Herbaspirillum seropedicae SmR1] Length = 407 Score = 172 bits (437), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 123/375 (32%), Positives = 193/375 (51%), Gaps = 30/375 (8%) Query: 53 PPAPPKPIPVKLATVAVERADLEQVVNATGNVVAQDYVDVGSKVAGQISDVEVVIGEAVK 112 PPAPP + AT V AD++ VV A+G V A V VG++V+GQI ++V +G+ VK Sbjct: 34 PPAPPTYLS---ATARV--ADIQDVVLASGTVKAYKQVSVGAQVSGQIKSLKVALGDQVK 88 Query: 113 AGRLLATVAPAVQNSRIESNRATLARLKAELAGQNAQLDFAQLQFQRQTQLKAENATREE 172 G+L+A + Q + + S +L L+A+L + A L AQL + RQ + A +A+ E Sbjct: 89 KGQLVAEIDSLTQANALASAEFSLQNLQAQLRAKEASLKQAQLAYARQKMMLAGDASSRE 148 Query: 173 SYESSRMNMYAAASRVDATNAQIQQTEAAIREDEAVQK--QTRIEAPVSGTIVTLNARPG 230 ++ES+ + + + A AQI+ + AI+ D A TRI +P+ G +V + A+ G Sbjct: 149 NFESAEATLNTTQADIAALQAQIK--DGAIKVDTARLNLGYTRISSPIEGQVVAIVAQEG 206 Query: 231 QMVSANQE--VLMRIADLSRMTVQVPVSEEDVTRLQKGMTAYFTTPGYPGKRWSGKLRQI 288 Q V+ANQ ++++A + +T++ +SE DV R++ G +FT G P R+ LR I Sbjct: 207 QTVNANQSTPTIIKVARMDTVTIKAQISEADVVRVKPGQPVFFTILGDPDHRYRTTLRAI 266 Query: 289 MLLPTDDSGRQGK-----------------KAYYTVLFDVANPSRELMSGMSADVYFVLA 331 P DS Q YY L DV NP +L M+ V VL+ Sbjct: 267 E--PAPDSILQDDTSSSTTSITSSSSASSTAIYYNGLLDVPNPDGKLRISMTTQVNIVLS 324 Query: 332 RAEHVPAIPRSLVTKPGMDGTQTVKVVLADGTLETRKIKIGIRDGERAQVLSGLKEGEQV 391 A + +P + + DG+ TV+V+ G RK++IGI Q++ G+K GE+V Sbjct: 325 EASNALVLPSTALGAKAADGSYTVRVLDDQGQAHERKVRIGINTNALVQIVEGVKAGERV 384 Query: 392 LLPANPPAPAGDGNA 406 + P A +A Sbjct: 385 VTGTVLPGAAASSSA 399 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 66.2 bits (160), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 105/381 (27%), Positives = 159/381 (41%), Gaps = 53/381 (13%) Query: 36 LVLVLGGGYALYARQSPPPAPPKPIP---VKLATVAVERADLEQVVNATGNVVAQDYVDV 92 L + + AL A P A P+P V + T+A +R + + G V A V Sbjct: 10 LTMTVAIAAALVACGQKPAAQGGPMPPSEVSVVTIAPQRVAITNEL--PGRVEAFRVAQV 67 Query: 93 GSKVAGQISDVEVVIGEAVKAGRLLATVAPAVQNSRIESNRATLARLKAELAGQNAQLDF 152 ++VAG + G VK G++L + PA + +ES +ATLAR +A L Sbjct: 68 RARVAGIVQKRVFKEGSEVKEGQVLFKIDPAQYKASLESAQATLARAQANLTQTT----- 122 Query: 153 AQLQFQRQTQLKAENATREESYESSRMNMYAAASRVDATNAQIQQTEAAIREDEAVQKQT 212 L QR L NA ++ Y+++ A + V A A +Q A++ A Sbjct: 123 --LTAQRYKPLVEVNAVSKQEYDNAVAAQKQAEADVAAGKAAVQ--TASLNLGYAT---- 174 Query: 213 RIEAPVSGTI----VTLNARPGQMVSANQEVLMRIADLSRMTVQVPVSEEDVTRLQKGMT 268 + +P+SG I VT A GQ + L + L + V V S D+ +LQ+ M Sbjct: 175 -VTSPISGRIGRALVTEGALVGQ---GDATQLALVQQLDPVYVNVTQSSADLLKLQQAMA 230 Query: 269 A-YFTTPG---------------YPGKRWSGKLRQIMLLPTDDSGRQGKKAYYTVLFDVA 312 A + G YP GKL + +++G +A + Sbjct: 231 AGQLKSVGDNKASVTLELENGQAYP---LPGKLLFSDISVDENTGSVSLRAEFP------ 281 Query: 313 NPSRELMSGMSADVYFVLARAEHVPAIPRSLVTKPGMDGTQTVKVVLADGTLETRKIKIG 372 NP R L+ G A E +P+ V + G TV VV A+ +E R +K G Sbjct: 282 NPKRLLLPGTYVRAKIEQAVDEQALLVPQQAVVRDA--GGSTVMVVNAENKVEPRPVKTG 339 Query: 373 IRDGERAQVLSGLKEGEQVLL 393 G QVL GLKEG++V++ Sbjct: 340 GARGNNWQVLDGLKEGDRVIV 360 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 65.5 bits (158), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 87/324 (26%), Positives = 141/324 (43%), Gaps = 32/324 (9%) Query: 91 DVGSKVAGQISDVEVVIGEAVKAGRLLATVAPAVQNSRIESNRATLARLKAELAGQNAQL 150 DV +V G I G VKAG++L + PA + +S+ A LA KAE A + Sbjct: 68 DVRPQVNGIIKARSFREGSDVKAGQVLYQINPASYQAAYDSSVAALA--KAE-----ASV 120 Query: 151 DFAQLQFQRQTQLKAENATREESYESSRMNMYAAASRVDATNAQIQQTEAAIREDEAVQK 210 A+L+ R +L A A ++ Y+ + ++ A + V + A +Q + I D A Sbjct: 121 RTARLKASRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSR--INLDYA--- 175 Query: 211 QTRIEAPVSGTIVTLNARPGQMVSANQEV-LMRIADLSRMTVQVPVSEEDVTRLQKGMTA 269 R++AP+SG I + PG +V+ANQ L I L + V V S L++ + Sbjct: 176 --RLDAPISGRIGKSSVTPGALVTANQTTALTTIQQLDPIYVDVTQSSTTWLNLKEALAN 233 Query: 270 YFTTPGYPGKRWSGKLRQIMLLPTDDSGRQGKKAYYTVLFD-----------VANPSREL 318 G K +G +++L ++G + V + NP +L Sbjct: 234 -----GQLEKSGNGAKVRLVLENGRTYAQEGTLQFSDVTVNQDTGAITLRAIFPNPKTDL 288 Query: 319 MSGMSADVYFVLARAEHVPAIPRSLVTKPGMDGTQTVKVVLADGTLETRKIKIGIRDGER 378 + GM + +P+ V++ G G VV A G +E R + G++ Sbjct: 289 LPGMYVRAVLQEGVRQQGLLVPQQAVSRDGA-GKPVAFVVNAQGVVEQRALVTDRAIGDQ 347 Query: 379 AQVLSGLKEGEQVLLPANPPAPAG 402 V SGLKEG+Q+++ A AG Sbjct: 348 WLVSSGLKEGDQLVVDGQQRASAG 371 >gi|300313894|ref|YP_003777986.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 428 Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 104/409 (25%), Positives = 166/409 (40%), Gaps = 54/409 (13%) Query: 19 PTTHAPARQKAWWSV---VALVLVLGGGYALYARQSPPPAPPKPIPVKLATVAVERADLE 75 PT P RQ S +AL L+L A +R P P V V +R L Sbjct: 3 PTASTPRRQGRTSSATARLALSLILVAVLAACSRSGDQPKPTAQAEVGYVVVKAQRQAL- 61 Query: 76 QVVNATGNVVAQDYVDVGSKVAGQISDVEVVIGEAVKAGRLLATVAPAVQNSRIESNRAT 135 G A D+ +V G I G VKAG+ L + PA + +S RA+ Sbjct: 62 -TTELPGRTTAYLAADIRPQVGGIIQKRLFKEGSTVKAGQPLYQIDPASYQAAYDSARAS 120 Query: 136 LARLKAELAGQNAQLDFAQLQFQRQTQLKAENATREESYESSRMNMYAAASRVDATNAQI 195 L LKAE A L ++L+ +R +L +A ++ + ++ + + V+ A + Sbjct: 121 L--LKAE-----ATLASSKLKAERYAELNKIDAVSKQDNDDAQSTLRQNQADVEVQKAAV 173 Query: 196 QQTEAAIREDEAVQKQTRIEAPVSGTIVTLNARPGQMVSANQEV-LMRIADLSRMTVQVP 254 Q AAI + T+I +P+SG I PG +V+A+Q L + + + V V Sbjct: 174 Q--TAAIN-----LQYTKILSPISGRIEKSAVTPGALVTASQTTALTTVQQIDPIYVDVT 226 Query: 255 VSEEDVTRLQKGMTAYFTTPGYPGKRWSGKLR-------QIMLLPTDDSG--RQGKKAYY 305 S D+ RL++ + SG++R Q+ ++ D S R GK + Sbjct: 227 QSTVDLLRLRRELA-------------SGQIRKSGENAAQVKIVLEDGSTYERPGKLEFT 273 Query: 306 TVLFD-----------VANPSRELMSGMSADVYFVLARAEHVPAIPRSLVTKPGMDGTQT 354 + D V NP L+ G +H P+ V++ G T Sbjct: 274 GLSVDTGTGMITLRAVVPNPDGVLLPGAYVRAVLEEGVDDHALLAPQKAVSRD-QTGAAT 332 Query: 355 VKVVLADGTLETRKIKIGIRDGERAQVLSGLKEGEQVLLPANPPAPAGD 403 V+ ADG ++ R + + G V GLKEG+++++ GD Sbjct: 333 ALVLGADGKVQQRLVSVARAVGNNWWVSRGLKEGDKLIVDGLQKVRTGD 381 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 0.314 0.129 0.358 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: 1,052,196 Number of extensions: 38514 Number of successful extensions: 145 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 135 Number of HSP's successfully gapped: 11 Length of query: 409 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 322 Effective length of database: 1,207,925 Effective search space: 388951850 Effective search space used: 388951850 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: 42 (22.0 bits) S2: 132 (55.5 bits)