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= 0001.2684.p (406 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310851|ref|YP_003774943.1| RND family efflux transporter M... 288 4e-79 gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbas... 241 6e-65 gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 155 7e-39 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 154 1e-38 gi|300313894|ref|YP_003777986.1| RND family efflux transporter M... 139 4e-34 >gi|300310851|ref|YP_003774943.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 466 Score = 288 bits (738), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 159/353 (45%), Positives = 226/353 (64%), Gaps = 3/353 (0%) Query: 50 PVQAGAATTGDVPVTLTALGTVTANASVTVTSRIDGHLQAVYFTEGQYVQKGQLLAQLDT 109 PV A DV V L LG VT A+ TV +R+DG L +++ EGQ V+ G LLA++D Sbjct: 33 PVGVAKARLQDVNVFLNGLGAVTPTATATVRARVDGQLMKLHYKEGQVVKAGDLLAEIDP 92 Query: 110 RAYQAEVVQYQGTLAQSQAQLVSARQTLDRYERLFAKDSLARQDLDTQRSTVLQYQGAVQ 169 R+ QA + Q +G LA+ +A L SAR L RY+ L A+DS+A Q +DTQ + V QY+G V+ Sbjct: 93 RSLQAALTQAEGQLARDRALLASARLDLKRYQTLLAQDSIASQQVDTQVALVKQYEGTVK 152 Query: 170 AAQGQIQAAQLNIQYGRITAPVSGYVGLRLVDPGNVVHASDTTGIVTITQTHPIAVKFSI 229 A +G + +A+L + + R+TAP+SG +GLR D GN V SDT G+V ITQ PI FSI Sbjct: 153 ADEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIITQLQPITAIFSI 212 Query: 230 PQASLKSVLGPLRQGQTLPVQALEQQGTQSIASGKLMFVSNEVDTTTGSVQLKALFDNND 289 P+ ++ VL L+ G+ LP QA +++ +A G L+ + N VD TTG+V+LKA F N D Sbjct: 213 PEDNIPKVLQQLQSGRKLPAQAWDREQKNKLADGVLLTIDNVVDATTGTVKLKAQFPNTD 272 Query: 290 DALYPNQFVNVRLQVDTLKQAILVPASSVQQSDSGKYVFVVNADNTVRRQVVSTGPVTDD 349 AL+P+QFVN+RLQ++T + A ++P +++Q+ G +V+VV D++V + V TGPV DD Sbjct: 273 YALFPSQFVNIRLQLNTEQGATVIPTAAIQRGSKGLFVYVVKDDSSVTVRPVKTGPVQDD 332 Query: 350 GRIVISSGVKAGDQVVTQGIDSLTNGSKVKLVKARQVD--ASELENAPQHRMH 400 VI+ GV AG+ VV GID L G+KV+ V D A++L R H Sbjct: 333 -LTVITDGVSAGETVVIDGIDRLREGAKVEAVARGGADDPANKLTTENPERRH 384 >gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 241 bits (616), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 145/354 (40%), Positives = 217/354 (61%), Gaps = 6/354 (1%) Query: 30 GWFLSHKMGRRPFPNMDMPTPVQAGAATT--GDVPVTLTALGTVTANASVTVTSRIDGHL 87 GW + P P PV A+ D+P L +GTVTANASV V +RIDG L Sbjct: 28 GWTHLQRASAADQPQAKAPPPVSVTLASVQERDLPQYLAGVGTVTANASVVVKTRIDGQL 87 Query: 88 QAVYFTEGQYVQKGQLLAQLDTRAYQAEVVQYQGTLAQSQAQLVSARQTLDRYERLFAKD 147 + V F EG+ V+KGQLLAQ+D RA QA++ Q + A+ A L++AR L RY L ++D Sbjct: 88 EKVGFQEGEDVKKGQLLAQIDARALQAQLAQAEAQRAKDSATLMNARLDLQRYTTLRSQD 147 Query: 148 SLARQDLDTQRSTVLQYQGAVQAAQGQIQAAQLNIQYGRITAPVSGYVGLRLVDPGNVVH 207 + +Q LDTQ++ V Q + AV+ + Q+ A++ + Y I AP+SG VG RLVDPGN+VH Sbjct: 148 AATQQQLDTQKALVAQLEAAVKTDEAQVAYAKVQLSYTTINAPISGRVGARLVDPGNIVH 207 Query: 208 ASDTTGIVTITQTHPIAVKFSIPQASLKSVLGPLR-QGQTLPVQALEQQGTQSIASGKLM 266 A+D G+V I Q PI + F++P+ ++ + R Q L V A + + +A+GKL+ Sbjct: 208 ATDANGLVVINQIDPITLVFTLPEEAVAGINRAQRAHQQPLQVSAYARDSQEVLATGKLV 267 Query: 267 FVSNEVDTTTGSVQLKALFDNNDDALYPNQFVNVRLQVDTLKQAILVPASSVQQSDSGKY 326 + N+++TT G+VQLKA FDN D L+P Q+VN RLQ+ + A+ VPA+++Q++ G Y Sbjct: 268 LLDNQINTTNGTVQLKARFDNPDHKLWPGQYVNARLQMRSHGNALTVPAAAIQRNQQGTY 327 Query: 327 VFVVNADNTVRRQVVSTGPVTDDGRIVISSG--VKAGDQVVTQGIDSLTNGSKV 378 V+ ++ ++ R Q V + DG V+++G V+AG +VV G L GS++ Sbjct: 328 VYAIDQEDQARMQPVKVERI-QDGIAVLAAGNAVQAGQRVVIDGQYKLKPGSRI 380 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 155 bits (391), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 122/383 (31%), Positives = 194/383 (50%), Gaps = 18/383 (4%) Query: 8 PPVRRPLRWLLVLVVLLLLIAVGWFLSHKMGRRPFPNMDMPTPVQAGAATTGDVPVTL-T 66 PP+ +P+ L L +L +L A G P + G T PV L T Sbjct: 4 PPIPKPVAALTALAILSVLSACGKPPGGAPPAAGTPVL--------GVVTVHAQPVELHT 55 Query: 67 AL-GTVTANASVTVTSRIDGHLQAVYFTEGQYVQKGQLLAQLDTRAYQAEVVQYQGTLAQ 125 L G + V +++G ++A F EG V+ GQ+L Q++ +YQA LA+ Sbjct: 56 ELPGRTSPYQIADVRPQVNGIIKARSFREGSDVKAGQVLYQINPASYQAAYDSSVAALAK 115 Query: 126 SQAQLVSARQTLDRYERLFAKDSLARQDLDTQRSTVLQYQGAVQAAQGQIQAAQLNIQYG 185 ++A + +AR RY+ L A ++++QD D +++ + + V +A+ +Q +++N+ Y Sbjct: 116 AEASVRTARLKASRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYA 175 Query: 186 RITAPVSGYVGLRLVDPGNVVHASDTTGIVTITQTHPIAVKF---SIPQASLKSVL--GP 240 R+ AP+SG +G V PG +V A+ TT + TI Q PI V S +LK L G Sbjct: 176 RLDAPISGRIGKSSVTPGALVTANQTTALTTIQQLDPIYVDVTQSSTTWLNLKEALANGQ 235 Query: 241 L-RQGQTLPVQALEQQGTQSIASGKLMFVSNEVDTTTGSVQLKALFDNNDDALYPNQFVN 299 L + G V+ + + G G L F V+ TG++ L+A+F N L P +V Sbjct: 236 LEKSGNGAKVRLVLENGRTYAQEGTLQFSDVTVNQDTGAITLRAIFPNPKTDLLPGMYVR 295 Query: 300 VRLQVDTLKQAILVPASSVQQSDSGKYV-FVVNADNTVRRQVVSTGPVTDDGRIVISSGV 358 LQ +Q +LVP +V + +GK V FVVNA V ++ + T D + ++SSG+ Sbjct: 296 AVLQEGVRQQGLLVPQQAVSRDGAGKPVAFVVNAQGVVEQRALVTDRAIGD-QWLVSSGL 354 Query: 359 KAGDQVVTQGIDSLTNGSKVKLV 381 K GDQ+V G + G+KVK+V Sbjct: 355 KEGDQLVVDGQQRASAGAKVKVV 377 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 154 bits (390), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 117/380 (30%), Positives = 186/380 (48%), Gaps = 14/380 (3%) Query: 10 VRRPLRWLLVLVVLLLLIAVGWFLSHKMGRRPFPNMDMPTPVQAGAATTGDVPVTLTALG 69 V R R + + + L+A G + + G P + + T A T ++P G Sbjct: 4 VSRFTRLTMTVAIAAALVACGQKPAAQGGPMPPSEVSVVTIAPQRVAITNELP------G 57 Query: 70 TVTANASVTVTSRIDGHLQAVYFTEGQYVQKGQLLAQLDTRAYQAEVVQYQGTLAQSQAQ 129 V A V +R+ G +Q F EG V++GQ+L ++D Y+A + Q TLA++QA Sbjct: 58 RVEAFRVAQVRARVAGIVQKRVFKEGSEVKEGQVLFKIDPAQYKASLESAQATLARAQAN 117 Query: 130 LVSARQTLDRYERLFAKDSLARQDLDTQRSTVLQYQGAVQAAQGQIQAAQLNIQYGRITA 189 L T RY+ L +++++Q+ D + Q + V A + +Q A LN+ Y +T+ Sbjct: 118 LTQTTLTAQRYKPLVEVNAVSKQEYDNAVAAQKQAEADVAAGKAAVQTASLNLGYATVTS 177 Query: 190 PVSGYVGLRLVDPGNVVHASDTTGIVTITQTHPIAVKFSIPQASLKSVLGPLRQGQTLPV 249 P+SG +G LV G +V D T + + Q P+ V + A L + + GQ V Sbjct: 178 PISGRIGRALVTEGALVGQGDATQLALVQQLDPVYVNVTQSSADLLKLQQAMAAGQLKSV 237 Query: 250 Q------ALEQQGTQSIA-SGKLMFVSNEVDTTTGSVQLKALFDNNDDALYPNQFVNVRL 302 LE + Q+ GKL+F VD TGSV L+A F N L P +V ++ Sbjct: 238 GDNKASVTLELENGQAYPLPGKLLFSDISVDENTGSVSLRAEFPNPKRLLLPGTYVRAKI 297 Query: 303 QVDTLKQAILVPASSVQQSDSGKYVFVVNADNTVRRQVVSTGPVTDDGRIVISSGVKAGD 362 + +QA+LVP +V + G V VVNA+N V + V TG + V+ G+K GD Sbjct: 298 EQAVDEQALLVPQQAVVRDAGGSTVMVVNAENKVEPRPVKTGGARGNNWQVL-DGLKEGD 356 Query: 363 QVVTQGIDSLTNGSKVKLVK 382 +V+ +G+ + G+ VK V+ Sbjct: 357 RVIVEGLQKVRPGATVKPVQ 376 >gi|300313894|ref|YP_003777986.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 428 Score = 139 bits (350), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 97/315 (30%), Positives = 158/315 (50%), Gaps = 9/315 (2%) Query: 69 GTVTANASVTVTSRIDGHLQAVYFTEGQYVQKGQLLAQLDTRAYQAEVVQYQGTLAQSQA 128 G TA + + ++ G +Q F EG V+ GQ L Q+D +YQA + +L +++A Sbjct: 67 GRTTAYLAADIRPQVGGIIQKRLFKEGSTVKAGQPLYQIDPASYQAAYDSARASLLKAEA 126 Query: 129 QLVSARQTLDRYERLFAKDSLARQDLDTQRSTVLQYQGAVQAAQGQIQAAQLNIQYGRIT 188 L S++ +RY L D++++QD D +ST+ Q Q V+ + +Q A +N+QY +I Sbjct: 127 TLASSKLKAERYAELNKIDAVSKQDNDDAQSTLRQNQADVEVQKAAVQTAAINLQYTKIL 186 Query: 189 APVSGYVGLRLVDPGNVVHASDTTGIVTITQTHPIAVKFSIPQASLKSVLGPLRQGQ--- 245 +P+SG + V PG +V AS TT + T+ Q PI V + L + L GQ Sbjct: 187 SPISGRIEKSAVTPGALVTASQTTALTTVQQIDPIYVDVTQSTVDLLRLRRELASGQIRK 246 Query: 246 ----TLPVQALEQQGTQSIASGKLMFVSNEVDTTTGSVQLKALFDNNDDALYPNQFVNVR 301 V+ + + G+ GKL F VDT TG + L+A+ N D L P +V Sbjct: 247 SGENAAQVKIVLEDGSTYERPGKLEFTGLSVDTGTGMITLRAVVPNPDGVLLPGAYVRAV 306 Query: 302 LQVDTLKQAILVPASSVQQSDSGKY-VFVVNADNTVRRQVVSTGPVTDDGRIVISSGVKA 360 L+ A+L P +V + +G V+ AD V++++VS + V S G+K Sbjct: 307 LEEGVDDHALLAPQKAVSRDQTGAATALVLGADGKVQQRLVSVARAVGNNWWV-SRGLKE 365 Query: 361 GDQVVTQGIDSLTNG 375 GD+++ G+ + G Sbjct: 366 GDKLIVDGLQKVRTG 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 0.316 0.130 0.362 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: 1,021,656 Number of extensions: 36822 Number of successful extensions: 205 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 186 Number of HSP's successfully gapped: 12 Length of query: 406 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 319 Effective length of database: 1,207,925 Effective search space: 385328075 Effective search space used: 385328075 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 (21.7 bits) S2: 132 (55.5 bits)