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= 0006.0033.p (375 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... 753 0.0 gi|300311362|ref|YP_003775454.1| HlyD family secretion, possible... 174 1e-44 gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbas... 64 2e-11 gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 63 4e-11 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 62 1e-10 >gi|300312743|ref|YP_003776835.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 753 bits (1945), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/375 (99%), Positives = 374/375 (99%) Query: 1 VALVIVLGGGYWLYSRQQPPPPAPKPIPVKLETVTVERADLEQVVNATGNVVAQDYVDVG 60 VALVIVLGGGYWLYSRQQPPPPAPKPIPVKLETVTVERADLEQVVNATGNVVAQDYVDVG Sbjct: 28 VALVIVLGGGYWLYSRQQPPPPAPKPIPVKLETVTVERADLEQVVNATGNVVAQDYVDVG 87 Query: 61 SKVAGQISDVDVVVGETVKAGKLLATVAPAVQSSRIENNRATLARLKAELAGQNAQLDFA 120 SKVAGQISDVDVVVGETVKAGKLLATVAPAVQSSRIENNRATLARLKAELAGQNAQLDFA Sbjct: 88 SKVAGQISDVDVVVGETVKAGKLLATVAPAVQSSRIENNRATLARLKAELAGQNAQLDFA 147 Query: 121 QLQFQRQTQLKAENATREESYESSRMNMYAAAARVDATNAQIQQTEAAIREDEAVQKQTR 180 QLQFQRQTQLKAENATREESYESSRMNMYAAAARVDATNAQIQQTEAAIREDEAVQKQTR Sbjct: 148 QLQFQRQTQLKAENATREESYESSRMNMYAAAARVDATNAQIQQTEAAIREDEAVQKQTR 207 Query: 181 IEAPVSGTIVTLNARPGQMVAANQEALMRIADLSRMTVQVPVAEEDVTRLQKGMTAYFTT 240 IEAPVSGTIVTLNARPGQMVAANQEALMRIADLSRMTVQVPVAEEDVTRLQKGMTAYFTT Sbjct: 208 IEAPVSGTIVTLNARPGQMVAANQEALMRIADLSRMTVQVPVAEEDVTRLQKGMTAYFTT 267 Query: 241 PGYPGKRWSGKLRQIMLLPTDDSGRQGKKAFYTVFFDVANPSRELMSGMSADVYFVLARA 300 PGYPGKRWSGKLRQIMLLPTDDSGRQGKKAFYTVFFDVANPSRELMSGMSADVYFVLARA Sbjct: 268 PGYPGKRWSGKLRQIMLLPTDDSGRQGKKAFYTVFFDVANPSRELMSGMSADVYFVLARA 327 Query: 301 EHVPTIPRTLVTKPGMDGTQTVKVVLADGKLETRKIKIGIRDNERAQVLSGLKEGEQVLL 360 EHVPTIPRTLVTKPGMDGTQTVKVVLADGKLETRKIKIGIRDNERAQVLSGLKEGEQVLL Sbjct: 328 EHVPTIPRTLVTKPGMDGTQTVKVVLADGKLETRKIKIGIRDNERAQVLSGLKEGEQVLL 387 Query: 361 PANPAASTAAPAARQ 375 PANPAAST APAARQ Sbjct: 388 PANPAASTVAPAARQ 402 >gi|300311362|ref|YP_003775454.1| HlyD family secretion, possible efflux component [Herbaspirillum seropedicae SmR1] Length = 407 Score = 174 bits (441), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 125/383 (32%), Positives = 198/383 (51%), Gaps = 34/383 (8%) Query: 12 WLYSRQQPPPPAPKPIPVKLETVTVERADLEQVVNATGNVVAQDYVDVGSKVAGQISDVD 71 W+ R PPAP P L + T AD++ VV A+G V A V VG++V+GQI + Sbjct: 26 WII-RSVLTPPAP---PTYL-SATARVADIQDVVLASGTVKAYKQVSVGAQVSGQIKSLK 80 Query: 72 VVVGETVKAGKLLATVAPAVQSSRIENNRATLARLKAELAGQNAQLDFAQLQFQRQTQLK 131 V +G+ VK G+L+A + Q++ + + +L L+A+L + A L AQL + RQ + Sbjct: 81 VALGDQVKKGQLVAEIDSLTQANALASAEFSLQNLQAQLRAKEASLKQAQLAYARQKMML 140 Query: 132 AENATREESYESSRMNMYAAAARVDATNAQIQQTEAAIREDEAVQK--QTRIEAPVSGTI 189 A +A+ E++ES+ + A + A AQI+ + AI+ D A TRI +P+ G + Sbjct: 141 AGDASSRENFESAEATLNTTQADIAALQAQIK--DGAIKVDTARLNLGYTRISSPIEGQV 198 Query: 190 VTLNARPGQMVAANQE--ALMRIADLSRMTVQVPVAEEDVTRLQKGMTAYFTTPGYPGKR 247 V + A+ GQ V ANQ ++++A + +T++ ++E DV R++ G +FT G P R Sbjct: 199 VAIVAQEGQTVNANQSTPTIIKVARMDTVTIKAQISEADVVRVKPGQPVFFTILGDPDHR 258 Query: 248 WSGKLRQIMLLPTDDSGRQGK-----------------KAFYTVFFDVANPSRELMSGMS 290 + LR I P DS Q +Y DV NP +L M+ Sbjct: 259 YRTTLRAIE--PAPDSILQDDTSSSTTSITSSSSASSTAIYYNGLLDVPNPDGKLRISMT 316 Query: 291 ADVYFVLARAEHVPTIPRTLVTKPGMDGTQTVKVVLADGKLETRKIKIGIRDNERAQVLS 350 V VL+ A + +P T + DG+ TV+V+ G+ RK++IGI N Q++ Sbjct: 317 TQVNIVLSEASNALVLPSTALGAKAADGSYTVRVLDDQGQAHERKVRIGINTNALVQIVE 376 Query: 351 GLKEGEQV----LLPANPAASTA 369 G+K GE+V +LP A+S+A Sbjct: 377 GVKAGERVVTGTVLPGAAASSSA 399 >gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 112/243 (46%), Gaps = 36/243 (14%) Query: 8 GGGYWLYSRQ-----QPPPPAPKPIPVKLETVTVERADLEQVVNATGNVVAQDYVDVGSK 62 G G W + ++ QP AP P+ V L +V+ DL Q + G V A V V ++ Sbjct: 25 GIGGWTHLQRASAADQPQAKAPPPVSVTL--ASVQERDLPQYLAGVGTVTANASVVVKTR 82 Query: 63 VAGQISDVDVVVGETVKAGKLLATVAPAVQSSRIENNRATLARLKAELAGQNAQLDFAQL 122 + GQ+ V GE VK G+LLA + +++ A A+ A L NA+LD Sbjct: 83 IDGQLEKVGFQEGEDVKKGQLLAQIDARALQAQLAQAEAQRAKDSATL--MNARLD---- 136 Query: 123 QFQRQTQLKAENATREESYESSRMNMYAAAARVDATNAQIQQTEAAIREDEA------VQ 176 QR T L++++A ++ ++D A + Q EAA++ DEA VQ Sbjct: 137 -LQRYTTLRSQDAATQQ--------------QLDTQKALVAQLEAAVKTDEAQVAYAKVQ 181 Query: 177 -KQTRIEAPVSGTIVTLNARPGQMV-AANQEALMRIADLSRMTVQVPVAEEDVTRLQKGM 234 T I AP+SG + PG +V A + L+ I + +T+ + EE V + + Sbjct: 182 LSYTTINAPISGRVGARLVDPGNIVHATDANGLVVINQIDPITLVFTLPEEAVAGINRAQ 241 Query: 235 TAY 237 A+ Sbjct: 242 RAH 244 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 63.2 bits (152), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 93/352 (26%), Positives = 147/352 (41%), Gaps = 32/352 (9%) Query: 31 LETVTVERADLEQVVNATGNVVAQDYVDVGSKVAGQISDVDVVVGETVKAGKLLATVAPA 90 L VTV +E G DV +V G I G VKAG++L + PA Sbjct: 41 LGVVTVHAQPVELHTELPGRTSPYQIADVRPQVNGIIKARSFREGSDVKAGQVLYQINPA 100 Query: 91 VQSSRIENNRATLARLKAELAGQNAQLDFAQLQFQRQTQLKAENATREESYESSRMNMYA 150 + +++ A LA KAE A + A+L+ R +L A A ++ Y+ + ++ Sbjct: 101 SYQAAYDSSVAALA--KAE-----ASVRTARLKASRYKELVAIKAVSQQDYDDAVASLGE 153 Query: 151 AAARVDATNAQIQQTEAAIREDEAVQKQTRIEAPVSGTIVTLNARPGQMVAANQ-EALMR 209 A A V + A +Q + I D A R++AP+SG I + PG +V ANQ AL Sbjct: 154 AEADVGSARANVQTSR--INLDYA-----RLDAPISGRIGKSSVTPGALVTANQTTALTT 206 Query: 210 IADLSRMTVQVPVAEEDVTRLQKGMTAYFTTPGYPGKRWSGKLRQIMLLPTDDSGRQGKK 269 I L + V V + L++ + G K +G +++L ++G Sbjct: 207 IQQLDPIYVDVTQSSTTWLNLKEALAN-----GQLEKSGNGAKVRLVLENGRTYAQEGTL 261 Query: 270 AFYTVFFD-----------VANPSRELMSGMSADVYFVLARAEHVPTIPRTLVTKPGMDG 318 F V + NP +L+ GM + +P+ V++ G G Sbjct: 262 QFSDVTVNQDTGAITLRAIFPNPKTDLLPGMYVRAVLQEGVRQQGLLVPQQAVSRDGA-G 320 Query: 319 TQTVKVVLADGKLETRKIKIGIRDNERAQVLSGLKEGEQVLLPANPAASTAA 370 VV A G +E R + ++ V SGLKEG+Q+++ AS A Sbjct: 321 KPVAFVVNAQGVVEQRALVTDRAIGDQWLVSSGLKEGDQLVVDGQQRASAGA 372 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 94/328 (28%), Positives = 138/328 (42%), Gaps = 40/328 (12%) Query: 49 GNVVAQDYVDVGSKVAGQISDVDVVVGETVKAGKLLATVAPAVQSSRIENNRATLARLKA 108 G V A V ++VAG + G VK G++L + PA + +E+ +ATLAR +A Sbjct: 57 GRVEAFRVAQVRARVAGIVQKRVFKEGSEVKEGQVLFKIDPAQYKASLESAQATLARAQA 116 Query: 109 ELAGQNAQLDFAQLQFQRQTQLKAENATREESYESSRMNMYAAAARVDATNAQIQQTEAA 168 L L QR L NA ++ Y+++ A A V A A +Q A+ Sbjct: 117 NLTQTT-------LTAQRYKPLVEVNAVSKQEYDNAVAAQKQAEADVAAGKAAVQ--TAS 167 Query: 169 IREDEAVQKQTRIEAPVSGTI----VTLNARPGQMVAANQEALMRIADLSRMTVQVPVAE 224 + A + +P+SG I VT A GQ A Q AL++ L + V V + Sbjct: 168 LNLGYAT-----VTSPISGRIGRALVTEGALVGQG-DATQLALVQ--QLDPVYVNVTQSS 219 Query: 225 EDVTRLQKGMTA-YFTTPGYPGKRWSGKLRQIMLLPTDDSGRQGKKAFYTVFFD------ 277 D+ +LQ+ M A + G + +L P GK F + D Sbjct: 220 ADLLKLQQAMAAGQLKSVGDNKASVTLELENGQAYPLP-----GKLLFSDISVDENTGSV 274 Query: 278 -----VANPSRELMSGMSADVYFVLARAEHVPTIPRTLVTKPGMDGTQTVKVVLADGKLE 332 NP R L+ G A E +P+ V + G TV VV A+ K+E Sbjct: 275 SLRAEFPNPKRLLLPGTYVRAKIEQAVDEQALLVPQQAVVRDA--GGSTVMVVNAENKVE 332 Query: 333 TRKIKIGIRDNERAQVLSGLKEGEQVLL 360 R +K G QVL GLKEG++V++ Sbjct: 333 PRPVKTGGARGNNWQVLDGLKEGDRVIV 360 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 0.128 0.351 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: 1,000,673 Number of extensions: 38452 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 11 Length of query: 375 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 288 Effective length of database: 1,207,925 Effective search space: 347882400 Effective search space used: 347882400 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: 131 (55.1 bits)