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= 0002.0411.p (376 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 229 3e-61 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 204 9e-54 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 201 7e-53 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 166 4e-42 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 75 7e-15 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 229 bits (583), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 123/343 (35%), Positives = 195/343 (56%), Gaps = 7/343 (2%) Query: 30 VGVAAPLTSPRTESGIA---AVRLAFDEANRRAIRIGGKQLVFRLLVEDDKGDAMFAAPI 86 +G A PL+ P G + V+LA EANRR +RIGGK RL+ +DD+ D A + Sbjct: 42 IGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATAEFV 101 Query: 87 AQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQIPMATTSSRFTQDGLRSIFQ-VQGH 145 A+ ++ +V+ V+GHW SG S+A A +Y AG+ Q+ + S R T IF+ + + Sbjct: 102 ARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRIFRTIPNN 161 Query: 146 DGVGAVRLAE-FVVRHLQAARIAVIEDGTAYGTDFADSFVSGVRRAGGLIVSREAISSKT 204 + +G RLA + V L+ I I+D T +G A+ F G +V R ++S KT Sbjct: 162 ESLG--RLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSVSDKT 219 Query: 205 SDFNPALNNVQKANADVIVFGGVVTQSALLARSMMRRDMNIRLVGTGGTATGLFLQLAEG 264 SDFN AL +K D+I FGG+ Q+ +LA+S+ R ++ RL+ + GT FL A Sbjct: 220 SDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLMRAGP 279 Query: 265 VQGNVWALETGVPRDRLPGWREFNDKMHSRFQGEITHYALFAYDAANVLVAAIQKAGSLD 324 LE G P+D++PGW+ F + F ++ YA+FAY+AA ++ I++AGS D Sbjct: 280 DANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIRQAGSAD 339 Query: 325 PKAVTIALHEIRYPGLTGILSFDANGALINPVYTIYRLDQGKW 367 P+ + A+H +R+ G++G ++F+ G L+ P +T+Y + +W Sbjct: 340 PERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRW 382 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 204 bits (519), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 127/381 (33%), Positives = 196/381 (51%), Gaps = 18/381 (4%) Query: 1 MKL-SILLP-----ALFLAAAAHAQSIGANEQLVLVGVAAPLTSPRTESGI---AAVRLA 51 MKL S ++P L A AA++Q ++V + PL+ P G R+A Sbjct: 1 MKLKSAIIPLTAAIGLAFAGAAYSQ------EVVKIAHVGPLSGPNAHMGKDNENGARMA 54 Query: 52 FDEANRRAIRIGGKQLVFRLLVEDDKGDAMFAAPIAQYFIRSKVVGVIGHWNSGPSIAVA 111 DE N + IGGK++ F L+ EDD D A +A + KV VIGH NSG +I + Sbjct: 55 VDELNAKGFTIGGKKVKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPAS 114 Query: 112 GLYSAAGIPQIPMATTSSRFTQDGLRSIFQVQGHDGVGAVRLAEFVVRHLQAARIAVIED 171 +YS AGIPQ+ + T+ ++TQ G ++ F+V +D L ++ V+ L +IAVI+D Sbjct: 115 KIYSDAGIPQVSPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDD 174 Query: 172 GTAYGTDFADSFVSGVRRAGGLIVSREAISSKTSDFNPALNNVQKANADVIVFGGVVTQS 231 TAYG AD F G + AGG IV + + K +DFN L +++ DV+ FGG+ Sbjct: 175 RTAYGQGVADEFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVG 234 Query: 232 ALLARSMMRRDMNIRLVGTGGTATGLFLQLAEGVQGN---VWALETGVPRDRLPGWREFN 288 + R M + ++ + +G G TG LA G+ + A GV G +F Sbjct: 235 GPMLRQMKQLGISAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFR 294 Query: 289 DKMHSRFQGEITHYALFAYDAANVLVAAIQKAGSLDPKAVTIALHEIRYPGLTGILSFDA 348 +F ++ + A +AYDA + A+ KAGS DPK L +I + G+TG+++FDA Sbjct: 295 AAYKKKFGIDVVYNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDA 354 Query: 349 NGALINPVYTIYRLDQGKWSV 369 G + + T+Y G+ ++ Sbjct: 355 KGDIKDGSLTLYTYKGGQRTL 375 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 201 bits (511), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 128/345 (37%), Positives = 182/345 (52%), Gaps = 6/345 (1%) Query: 24 NEQLVLVGVAAPLTSPRTESGIAAVRLAFDEANRRAIRIGGKQLVFRLLVEDDKGDAMFA 83 + + +G L+ P +S + +LA DEAN A + L F LL +DD G+ FA Sbjct: 27 ERKTIALGFTGRLSEPIAQSALQGAQLAIDEANALAAKRRSP-LRFELLPQDDHGNENFA 85 Query: 84 APIAQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQIPMATTSSRFTQDGLRSIFQVQ 143 IA+Y+++ KV GVIG W+S ++A A +Y +A IPQI TSS++T G R F+V Sbjct: 86 VNIARYYVKEKVAGVIGPWSSDAALATAAIYESAQIPQIGFTATSSQWTGMGNRMPFRVV 145 Query: 144 GHDGVGAVRLAEFVVRHLQAARIAVIEDGTAYGTDFADSFVSGV-RRAGGLIVSREAISS 202 G A LAE R LQ RI VI+ AY AD+ V + A + ++R + Sbjct: 146 GGTRELAATLAEVATRSLQGRRIFVIQSDAAYSRALADTLVENLGGSAQQIALARYQVGR 205 Query: 203 KTSDFNPALNNVQKANADVIVFGGVVTQSALLARSMMRRDMNIRLVGTGGTATGLFLQLA 262 +++DF+ AL + ADVIVF G+ Q+ R RL+ TGG + L L Sbjct: 206 RSTDFHAALKAAEAHQADVIVFVGLYPQARAFIDGANRTRTTARLLLTGGASN---LSLP 262 Query: 263 EGVQGNVWALETGVPRDRLPGWREFNDKMHSRFQGEITHYALFAYDAANVLVAAIQKAGS 322 ++ + LE + R P W+ RF T Y+ +AYDAA+VL AAI +AGS Sbjct: 263 APLELRLHVLEYEIARPHCPQWKVVTQTYQRRFGAAPTTYSFYAYDAASVLTAAIVQAGS 322 Query: 323 LDPKAVTIALHEIRYPGLTGILSFDANGALINPVYTIYRLDQGKW 367 + + ALH +R+ GL G LSFDA GA +P YT+ R Q +W Sbjct: 323 DNGDKIATALHRMRHAGLHGTLSFDATGANAHPRYTLLRY-QERW 366 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 166 bits (419), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 101/364 (27%), Positives = 180/364 (49%), Gaps = 14/364 (3%) Query: 6 LLPALFLAAAAHAQSIGANEQLVLVGVAAPLTSPRTESGI---AAVRLAFDEANRRAIRI 62 L+PA +A Q+V +G ++PLT P+ +G + +A + N + I + Sbjct: 17 LIPAFAMAQ---------ETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITV 67 Query: 63 GGKQLVFRLLVEDDKGDAMFAAPIAQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQI 122 GGK++ F ++ EDD+ D +AQ V ++G +NSG +I + +Y+ AGI + Sbjct: 68 GGKKIKFDVIAEDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGI-VV 126 Query: 123 PMATTSSRFTQDGLRSIFQVQGHDGVGAVRLAEFVVRHLQAARIAVIEDGTAYGTDFADS 182 ++ + TQ G ++F+V D ++A + + L+ R+AVI+D TAYG A Sbjct: 127 ATVASNPKITQQGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQE 186 Query: 183 FVSGVRRAGGLIVSREAISSKTSDFNPALNNVQKANADVIVFGGVVTQSALLARSMMRRD 242 F+ + G +VS + + K +DF L +++ D + GG Q + R M + Sbjct: 187 FIKVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLG 246 Query: 243 MNIRLVGTGGTATGLFLQL-AEGVQGNVWALETGVPRDRLPGWREFNDKMHSRFQGEITH 301 +++ L+G G + +L + + +V+ + G D+ + F+D+ ++ Sbjct: 247 VDVPLMGGDGICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAET 306 Query: 302 YALFAYDAANVLVAAIQKAGSLDPKAVTIALHEIRYPGLTGILSFDANGALINPVYTIYR 361 YA+ YD ++ A+++A S+DPK AL +I Y G+ G FDAN L T+YR Sbjct: 307 YAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYR 366 Query: 362 LDQG 365 G Sbjct: 367 FKDG 370 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 75.5 bits (184), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 74/332 (22%), Positives = 134/332 (40%), Gaps = 10/332 (3%) Query: 26 QLVLVGVAAPLTSPRTESG---IAAVRLAFDEANRRAIRIGGKQLVFRLLVEDDKGDAMF 82 + V + +A P+T + G A A ++ N G K F ++ DD + Sbjct: 27 ETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNK---FEAVMMDDACEPKQ 83 Query: 83 AAPIAQYFIRSKVVGVIGHWNSGPSIAVAGLYSAAGIPQIPMATTSSRFTQ-DGLRSIFQ 141 A +A + + VIGH SG +I + +Y G+ I + T+ + T+ + IF+ Sbjct: 84 AVAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFR 143 Query: 142 VQGHDGVGAVRLAEFVVRHLQAARIAVIEDGTAYGTDFADSFVSGVRRAGGLIVSREAIS 201 G D A +V+ L+ ++AV+ D +YG A S + + A +V E I+ Sbjct: 144 TIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGIN 203 Query: 202 SKTSDFNPALNNVQKANADVIVFGGVVTQSALLARSMMRRDMNIRLVGTGGTATGLFLQL 261 + SD++ + ++ D + FGG + L+ R + + +G G + Sbjct: 204 AGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAI 263 Query: 262 A-EGVQGNVWALETGVPRDRLPGWREFNDKMHSRFQGEITHYALFAYDAANVLVAAIQKA 320 A +G + L D P + + + + AY ++ AI A Sbjct: 264 AGPASEGMLVTLPADFAAD--PANAALVKAFAAAKRDPNGPFQMPAYSGVKIIADAIAGA 321 Query: 321 GSLDPKAVTIALHEIRYPGLTGILSFDANGAL 352 S DP+ V +H + G + +D G L Sbjct: 322 KSTDPEKVAAYIHANSFKTPIGNVEYDKKGDL 353 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 0.321 0.136 0.390 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: 1,169,563 Number of extensions: 51335 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 7 Length of query: 376 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 289 Effective length of database: 1,207,925 Effective search space: 349090325 Effective search space used: 349090325 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 131 (55.1 bits)