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= 0001.1360.p (513 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... 743 0.0 gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbas... 270 2e-73 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 163 3e-41 gi|300309658|ref|YP_003773750.1| HlyD-family secretion protein [... 134 2e-32 gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 131 2e-31 >gi|300310851|ref|YP_003774943.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 466 Score = 743 bits (1919), Expect = 0.0, Method: Compositional matrix adjust. Identities = 381/430 (88%), Positives = 399/430 (92%), Gaps = 13/430 (3%) Query: 78 FAGPAMPVGVAVARVQNVDVFLNGLGAVTPTATATVRARVDGQLMKLYYKEGQVVKAGDL 137 F MPVGVA AR+Q+V+VFLNGLGAVTPTATATVRARVDGQLMKL+YKEGQVVKAGDL Sbjct: 27 FGPQTMPVGVAKARLQDVNVFLNGLGAVTPTATATVRARVDGQLMKLHYKEGQVVKAGDL 86 Query: 138 LAEIDPRALQAALTQAEGQLAHDRALLASARLDLKRYQTLLSQDSIASQQVDTQMALVKQ 197 LAEIDPR+LQAALTQAEGQLA DRALLASARLDLKRYQTLL+QDSIASQQVDTQ+ALVKQ Sbjct: 87 LAEIDPRSLQAALTQAEGQLARDRALLASARLDLKRYQTLLAQDSIASQQVDTQVALVKQ 146 Query: 198 YEGTVKADEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIITTLQPI 257 YEGTVKADEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIIT LQPI Sbjct: 147 YEGTVKADEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIITQLQPI 206 Query: 258 TAIFSIPEDNIPQVLQQLQSGRKLPAQAWDREQKNKLADGVLLTIDNQVDATTGTVKLKA 317 TAIFSIPEDNIP+VLQQLQSGRKLPAQAWDREQKNKLADGVLLTIDN VDATTGTVKLKA Sbjct: 207 TAIFSIPEDNIPKVLQQLQSGRKLPAQAWDREQKNKLADGVLLTIDNVVDATTGTVKLKA 266 Query: 318 QFPNTDYALFPSQFVNIRLQLKTDEGATVIPTAAIQRGAKGLFVYVVKQDNTVTVRPVKT 377 QFPNTDYALFPSQFVNIRLQL T++GATVIPTAAIQRG+KGLFVYVVK D++VTVRPVKT Sbjct: 267 QFPNTDYALFPSQFVNIRLQLNTEQGATVIPTAAIQRGSKGLFVYVVKDDSSVTVRPVKT 326 Query: 378 GTVQDDLSVITDGVKPGETVVIDGIDRLREGAKVEAVTRGGADDPANKLTTENPDARHHG 437 G VQDDL+VITDGV GETVVIDGIDRLREGAKVEAV RGGADDPANKLTTENP+ R HG Sbjct: 327 GPVQDDLTVITDGVSAGETVVIDGIDRLREGAKVEAVARGGADDPANKLTTENPE-RRHG 385 Query: 438 RRGQGG------------EAGQGGMSPEERQKRWAEINKRIDAGEFGEEIKKLPEDQRRQ 485 +RGQG + QGGMSPEERQKRWAE+NKRIDAGEFGEEIKKLPEDQRRQ Sbjct: 386 KRGQGNPGAQAGAGGDAGQGAQGGMSPEERQKRWAELNKRIDAGEFGEEIKKLPEDQRRQ 445 Query: 486 KMMELRRQRE 495 KMMELRRQRE Sbjct: 446 KMMELRRQRE 455 >gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 270 bits (690), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 158/334 (47%), Positives = 224/334 (67%), Gaps = 7/334 (2%) Query: 84 PVGVAVARVQNVDV--FLNGLGAVTPTATATVRARVDGQLMKLYYKEGQVVKAGDLLAEI 141 PV V +A VQ D+ +L G+G VT A+ V+ R+DGQL K+ ++EG+ VK G LLA+I Sbjct: 48 PVSVTLASVQERDLPQYLAGVGTVTANASVVVKTRIDGQLEKVGFQEGEDVKKGQLLAQI 107 Query: 142 DPRALQAALTQAEGQLAHDRALLASARLDLKRYQTLLSQDSIASQQVDTQMALVKQYEGT 201 D RALQA L QAE Q A D A L +ARLDL+RY TL SQD+ QQ+DTQ ALV Q E Sbjct: 108 DARALQAQLAQAEAQRAKDSATLMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAA 167 Query: 202 VKADEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIITTLQPITAIF 261 VK DE VA A++QLS+T + APISGR+G R D GN V +D NGLV+I + PIT +F Sbjct: 168 VKTDEAQVAYAKVQLSYTTINAPISGRVGARLVDPGNIVHATDANGLVVINQIDPITLVF 227 Query: 262 SIPEDNIPQVLQQLQSGRKLPAQ--AWDREQKNKLADGVLLTIDNQVDATTGTVKLKAQF 319 ++PE+ + + + Q + P Q A+ R+ + LA G L+ +DNQ++ T GTV+LKA+F Sbjct: 228 TLPEEAVAGI-NRAQRAHQQPLQVSAYARDSQEVLATGKLVLLDNQINTTNGTVQLKARF 286 Query: 320 PNTDYALFPSQFVNIRLQLKTDEGATVIPTAAIQRGAKGLFVYVVKQDNTVTVRPVKTGT 379 N D+ L+P Q+VN RLQ+++ A +P AAIQR +G +VY + Q++ ++PVK Sbjct: 287 DNPDHKLWPGQYVNARLQMRSHGNALTVPAAAIQRNQQGTYVYAIDQEDQARMQPVKVER 346 Query: 380 VQDDLSVITDG--VKPGETVVIDGIDRLREGAKV 411 +QD ++V+ G V+ G+ VVIDG +L+ G+++ Sbjct: 347 IQDGIAVLAAGNAVQAGQRVVIDGQYKLKPGSRI 380 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 163 bits (412), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 124/364 (34%), Positives = 187/364 (51%), Gaps = 13/364 (3%) Query: 70 GRRPGAGAFAGPAMPVGVAVARV--QNVDVFLNGLGAVTPTATATVRARVDGQLMKLYYK 127 G++P A GP P V+V + Q V + G V A VRARV G + K +K Sbjct: 24 GQKPAAQG--GPMPPSEVSVVTIAPQRVAITNELPGRVEAFRVAQVRARVAGIVQKRVFK 81 Query: 128 EGQVVKAGDLLAEIDPRALQAALTQAEGQLAHDRALLASARLDLKRYQTLLSQDSIASQQ 187 EG VK G +L +IDP +A+L A+ LA +A L L +RY+ L+ ++++ Q+ Sbjct: 82 EGSEVKEGQVLFKIDPAQYKASLESAQATLARAQANLTQTTLTAQRYKPLVEVNAVSKQE 141 Query: 188 VDTQMALVKQYEGTVKADEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNG 247 D +A KQ E V A + V +A L L + VT+PISGR+G G V D Sbjct: 142 YDNAVAAQKQAEADVAAGKAAVQTASLNLGYATVTSPISGRIGRALVTEGALVGQGDATQ 201 Query: 248 LVIITTLQPITAIFSIPEDNIPQVLQQLQSGRKLPAQAWDR-----EQKNKLA---DGVL 299 L ++ L P+ + ++ + LQQ + +L + ++ E +N A G L Sbjct: 202 LALVQQLDPVYVNVTQSSADLLK-LQQAMAAGQLKSVGDNKASVTLELENGQAYPLPGKL 260 Query: 300 LTIDNQVDATTGTVKLKAQFPNTDYALFPSQFVNIRLQLKTDEGATVIPTAAIQRGAKGL 359 L D VD TG+V L+A+FPN L P +V +++ DE A ++P A+ R A G Sbjct: 261 LFSDISVDENTGSVSLRAEFPNPKRLLLPGTYVRAKIEQAVDEQALLVPQQAVVRDAGGS 320 Query: 360 FVYVVKQDNTVTVRPVKTGTVQDDLSVITDGVKPGETVVIDGIDRLREGAKVEAVTRGGA 419 V VV +N V RPVKTG + + + DG+K G+ V+++G+ ++R GA V+ V A Sbjct: 321 TVMVVNAENKVEPRPVKTGGARGNNWQVLDGLKEGDRVIVEGLQKVRPGATVKPVQWNPA 380 Query: 420 DDPA 423 PA Sbjct: 381 GAPA 384 >gi|300309658|ref|YP_003773750.1| HlyD-family secretion protein [Herbaspirillum seropedicae SmR1] Length = 399 Score = 134 bits (336), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 95/298 (31%), Positives = 153/298 (51%), Gaps = 2/298 (0%) Query: 113 VRARVDGQLMKLYYKEGQVVKAGDLLAEIDPRALQAALTQAEGQLAHDRALLASARLDLK 172 VR V G L +++K+G +VK GD+L IDPR +A + +AE QLA A DL Sbjct: 79 VRPLVGGTLTAVHFKDGALVKKGDVLFTIDPRPYEAEVARAEAQLAGAEARAGYTASDLA 138 Query: 173 RYQTLLSQDSIASQQVDTQMALVKQYEGTVKADEGNVASARLQLSFTRVTAPISGRLGLR 232 R Q LLS ++IA + + + ++ V A + +ARL L +TR+TAP+SGR+ Sbjct: 139 RGQRLLSDNAIAKRDFEEKQNASREASANVAAARAALRAARLNLEYTRITAPVSGRISRA 198 Query: 233 QADVGNNVTTSDTNG-LVIITTLQPITAIFSIPEDNIPQVLQQLQ-SGRKLPAQAWDREQ 290 + VGN V N L + ++ + A F + E + + + + +G +P + + Sbjct: 199 EVTVGNVVNPGAANAPLTTLVSVAKVYASFDVDEQSFLKYVNPARAAGATVPVELGLANE 258 Query: 291 KNKLADGVLLTIDNQVDATTGTVKLKAQFPNTDYALFPSQFVNIRLQLKTDEGATVIPTA 350 G + ++DN++D +GT++++A F N + L P + +RL A +I Sbjct: 259 DGYSRKGRVGSVDNRLDTASGTIRVRAIFDNANSQLVPGLYARVRLGGGEPHQAVLIDEK 318 Query: 351 AIQRGAKGLFVYVVKQDNTVTVRPVKTGTVQDDLSVITDGVKPGETVVIDGIDRLREG 408 AI FV V +DN R V G D L VI G++PGE +V++G+ R+R G Sbjct: 319 AIGTDQDKRFVMVADKDNHANYRQVVVGAGHDGLVVIEKGLQPGERIVVNGLQRIRPG 376 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 131 bits (329), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 102/337 (30%), Positives = 160/337 (47%), Gaps = 7/337 (2%) Query: 85 VGVAVARVQNVDVFLNGLGAVTPTATATVRARVDGQLMKLYYKEGQVVKAGDLLAEIDPR 144 +GV Q V++ G +P A VR +V+G + ++EG VKAG +L +I+P Sbjct: 41 LGVVTVHAQPVELHTELPGRTSPYQIADVRPQVNGIIKARSFREGSDVKAGQVLYQINPA 100 Query: 145 ALQAALTQAEGQLAHDRALLASARLDLKRYQTLLSQDSIASQQVDTQMALVKQYEGTVKA 204 + QAA + LA A + +ARL RY+ L++ +++ Q D +A + + E V + Sbjct: 101 SYQAAYDSSVAALAKAEASVRTARLKASRYKELVAIKAVSQQDYDDAVASLGEAEADVGS 160 Query: 205 DEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIITTLQPITAIFSIP 264 NV ++R+ L + R+ APISGR+G G VT + T L I L PI + Sbjct: 161 ARANVQTSRINLDYARLDAPISGRIGKSSVTPGALVTANQTTALTTIQQLDPIYVDVTQS 220 Query: 265 ED---NIPQVL---QQLQSGRKLPAQAWDREQKNKLADGVLLTIDNQVDATTGTVKLKAQ 318 N+ + L Q +SG + + +G L D V+ TG + L+A Sbjct: 221 STTWLNLKEALANGQLEKSGNGAKVRLVLENGRTYAQEGTLQFSDVTVNQDTGAITLRAI 280 Query: 319 FPNTDYALFPSQFVNIRLQLKTDEGATVIPTAAIQR-GAKGLFVYVVKQDNTVTVRPVKT 377 FPN L P +V LQ + ++P A+ R GA +VV V R + T Sbjct: 281 FPNPKTDLLPGMYVRAVLQEGVRQQGLLVPQQAVSRDGAGKPVAFVVNAQGVVEQRALVT 340 Query: 378 GTVQDDLSVITDGVKPGETVVIDGIDRLREGAKVEAV 414 D +++ G+K G+ +V+DG R GAKV+ V Sbjct: 341 DRAIGDQWLVSSGLKEGDQLVVDGQQRASAGAKVKVV 377 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 0.132 0.379 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: 1,174,979 Number of extensions: 41214 Number of successful extensions: 160 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 148 Number of HSP's successfully gapped: 10 Length of query: 513 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 424 Effective length of database: 1,198,455 Effective search space: 508144920 Effective search space used: 508144920 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 (22.0 bits) S2: 133 (55.8 bits)