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= 0005.0007.p (381 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... 318 6e-88 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 223 3e-59 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 212 4e-56 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 143 3e-35 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 141 1e-34 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 318 bits (814), Expect = 6e-88, Method: Compositional matrix adjust. Identities = 152/355 (42%), Positives = 218/355 (61%) Query: 25 EDRTVLIGYAAPLTGASGSIGASLVQAAEIAVEDANRQGLHINGDKLVFKLLVQDDRSDM 84 E T+ IG+A PL+G SG +G S+ ++A+ +ANR+GL I G +L+ QDDR+D Sbjct: 36 ETATLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADP 95 Query: 85 RTGLLVADYLVKSGVVGVIGHWNSGVGIPASRIYNKAEVVQIAQATTSHAYTQQSFPTAF 144 T VA LV+ V+ V+GHW SG + A+ +Y++A V+Q+ + S T S+P F Sbjct: 96 ATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRIF 155 Query: 145 RIVPHDDENAYYTAEYVVRQLKAQRIAIIDDQTPFGNGYARQFAQSVESFKGNIVSQYGI 204 R +P+++ A Y V +L+ + I IDD+TPFG G A QFA++ +V +Y + Sbjct: 156 RTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSV 215 Query: 205 SSRTSDFNAVLKNIRQQNPDAVFFGGLDAQAGQLARELRRFGIEAPLIGVGGTVGPQFLK 264 S +TSDFNA L R+ PD +FFGGLD QAG LA+ +RR + A L+ GT+G FL Sbjct: 216 SDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLM 275 Query: 265 AAGEAGNGTIALEPGPASYKGAQWQQFDKAYKSRHGDDMGLYAPFSYDAVQVLVAAIRQA 324 AG NG + LEPGP K W+ F + Y DM LYA F+Y+A Q ++ IRQA Sbjct: 276 RAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIRQA 335 Query: 325 NSLERHRIVAAMHQVRHNGLTGPVAFDEEGNLANPVFTIYQVRNQKWTPLKTIGG 379 S + RI AMH++R G++GPVAF+EEG+L P FT+Y+V++Q+W P+ G Sbjct: 336 GSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPVARFNG 390 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 223 bits (567), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 126/370 (34%), Positives = 206/370 (55%), Gaps = 4/370 (1%) Query: 9 LLCFGAAALLSVAATAEDRTVL-IGYAAPLTGASGSIGASLVQAAEIAVEDANRQGLHIN 67 ++ AA L+ A A + V+ I + PL+G + +G A +AV++ N +G I Sbjct: 7 IIPLTAAIGLAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIG 66 Query: 68 GDKLVFKLLVQDDRSDMRTGLLVADYLVKSGVVGVIGHWNSGVGIPASRIYNKAEVVQIA 127 G K+ F+L+ +DD SD + VA LV V VIGH NSG IPAS+IY+ A + Q++ Sbjct: 67 GKKVKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQVS 126 Query: 128 QATTSHAYTQQSFPTAFRIVPHDDENAYYTAEYVVRQLKAQRIAIIDDQTPFGNGYARQF 187 + T+ YTQQ F TAFR+V +D + +Y V++L ++IA+IDD+T +G G A +F Sbjct: 127 PSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEF 186 Query: 188 AQSVESFKGNIVSQYGISSRTSDFNAVLKNIRQQNPDAVFFGGLDAQAGQLARELRRFGI 247 A+ ++ G IV + + +DFNA+L +++ + PD VFFGG+DA G + R++++ GI Sbjct: 187 AKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQLGI 246 Query: 248 EAPLIGVGGTVGPQFLKAAGE--AGNGTIALEPGPASYKGAQ-WQQFDKAYKSRHGDDMG 304 A +G G AG+ + I E G G + F AYK + G D+ Sbjct: 247 SAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDVV 306 Query: 305 LYAPFSYDAVQVLVAAIRQANSLERHRIVAAMHQVRHNGLTGPVAFDEEGNLANPVFTIY 364 A ++YDA + A+ +A S + + + + ++ H G+TG +AFD +G++ + T+Y Sbjct: 307 YNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDGSLTLY 366 Query: 365 QVRNQKWTPL 374 + + T L Sbjct: 367 TYKGGQRTLL 376 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 212 bits (540), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 115/371 (30%), Positives = 203/371 (54%), Gaps = 2/371 (0%) Query: 7 LKLLCFGAAALLSVAATAEDRTVLIGYAAPLTGASGSIGASLVQAAEIAVEDANRQGLHI 66 L ++ A + + A E + V IG+++PLTG S G +A+E N Q + + Sbjct: 8 LNIIAASLALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITV 67 Query: 67 NGDKLVFKLLVQDDRSDMRTGLLVADYLVKSGVVGVIGHWNSGVGIPASRIYNKAEVVQI 126 G K+ F ++ +DD++D ++G+ VA L GV ++G +NSGV IPASR+YN A +V + Sbjct: 68 GGKKIKFDVIAEDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIV-V 126 Query: 127 AQATTSHAYTQQSFPTAFRIVPHDDENAYYTAEYVVRQLKAQRIAIIDDQTPFGNGYARQ 186 A ++ TQQ F T FR+ D + A Y ++LK +R+A+IDD+T +G G A++ Sbjct: 127 ATVASNPKITQQGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQE 186 Query: 187 FAQSVESFKGNIVSQYGISSRTSDFNAVLKNIRQQNPDAVFFGGLDAQAGQLARELRRFG 246 F + ++ ++VS + + +DF A+L +I+ + PDAVF GG Q G + R++++ G Sbjct: 187 FIKVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLG 246 Query: 247 IEAPLIGVGGTVGPQFLKAAGEA-GNGTIALEPGPASYKGAQWQQFDKAYKSRHGDDMGL 305 ++ PL+G G P+ + G+A G + G K + + F Y+ ++ Sbjct: 247 VDVPLMGGDGICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAET 306 Query: 306 YAPFSYDAVQVLVAAIRQANSLERHRIVAAMHQVRHNGLTGPVAFDEEGNLANPVFTIYQ 365 YA YD + ++ A++QANS++ + A+ ++ + G+ G FD +L T+Y+ Sbjct: 307 YAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYR 366 Query: 366 VRNQKWTPLKT 376 ++ PL + Sbjct: 367 FKDGLPVPLTS 377 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 143 bits (360), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 119/377 (31%), Positives = 173/377 (45%), Gaps = 29/377 (7%) Query: 3 LLGFLKLLCFGAAALLSVAATAEDRTVLIGYAAPLTGASGSIGASLVQAAEIAVEDANRQ 62 L G L L F + E +T+ +G+ L S I S +Q A++A+++AN Sbjct: 10 LAGVLLLWAF-----MQAGWAQERKTIALGFTGRL---SEPIAQSALQGAQLAIDEANAL 61 Query: 63 GLHINGDKLVFKLLVQDDRSDMRTGLLVADYLVKSGVVGVIGHWNSGVGIPASRIYNKAE 122 L F+LL QDD + + +A Y VK V GVIG W+S + + IY A+ Sbjct: 62 AAK-RRSPLRFELLPQDDHGNENFAVNIARYYVKEKVAGVIGPWSSDAALATAAIYESAQ 120 Query: 123 VVQIAQATTSHAYTQQSFPTAFRIVPHDDENAYYTAEYVVRQLKAQRIAIIDDQTPFGNG 182 + QI TS +T FR+V E A AE R L+ +RI +I Sbjct: 121 IPQIGFTATSSQWTGMGNRMPFRVVGGTRELAATLAEVATRSLQGRRIFVIQSDA----A 176 Query: 183 YARQFAQS-VESFKGN----IVSQYGISSRTSDFNAVLKNIRQQNPDAVFFGGLDAQAGQ 237 Y+R A + VE+ G+ +++Y + R++DF+A LK D + F GL QA Sbjct: 177 YSRALADTLVENLGGSAQQIALARYQVGRRSTDFHAALKAAEAHQADVIVFVGLYPQARA 236 Query: 238 LARELRRFGIEAPLIGVGGTVG---PQFLKAAGEAGNGTIALEPGPASYKGAQWQQFDKA 294 R A L+ GG P L+ IA P QW+ + Sbjct: 237 FIDGANRTRTTARLLLTGGASNLSLPAPLELRLHVLEYEIARPHCP------QWKVVTQT 290 Query: 295 YKSRHGDDMGLYAPFSYDAVQVLVAAIRQANSLERHRIVAAMHQVRHNGLTGPVAFDEEG 354 Y+ R G Y+ ++YDA VL AAI QA S +I A+H++RH GL G ++FD G Sbjct: 291 YQRRFGAAPTTYSFYAYDAASVLTAAIVQAGSDNGDKIATALHRMRHAGLHGTLSFDATG 350 Query: 355 NLANPVFTI--YQVRNQ 369 A+P +T+ YQ R Q Sbjct: 351 ANAHPRYTLLRYQERWQ 367 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 141 bits (355), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 98/339 (28%), Positives = 165/339 (48%), Gaps = 5/339 (1%) Query: 27 RTVLIGYAAPLTGASGSIGASLVQAAEIAVEDANRQGLHINGDKLVFKLLVQDDRSDMRT 86 TV I A P+TGA G + A A+E N G NG+K F+ ++ DD + + Sbjct: 27 ETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG-GANGNK--FEAVMMDDACEPKQ 83 Query: 87 GLLVADYLVKSGVVGVIGHWNSGVGIPASRIYNKAEVVQIAQATTSHAYTQ-QSFPTAFR 145 + VA+ +V G+ VIGH SG IPAS IY VV I + T+ T+ + FR Sbjct: 84 AVAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFR 143 Query: 146 IVPHDDENAYYTAEYVVRQLKAQRIAIIDDQTPFGNGYARQFAQSVESFKGNIVSQYGIS 205 + DD+ A YV+ +LK +++A++ D+ +G G A ++++ K +V GI+ Sbjct: 144 TIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGIN 203 Query: 206 SRTSDFNAVLKNIRQQNPDAVFFGGLDAQAGQLARELRRFGIEAPLIGVGGTVGPQFLKA 265 + SD++A++ ++ Q D V+FGG + G + R+ R GI+A +G G Sbjct: 204 AGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAI 263 Query: 266 AGEAGNGTIALEPGPASYKGAQWQQFDKAYKSRHGDDMGLYAPFSYDAVQVLVAAIRQAN 325 AG A G + P + A ++ D G + +Y V+++ AI A Sbjct: 264 AGPASEGMLVTLPADFAADPANAALVKAFAAAKR-DPNGPFQMPAYSGVKIIADAIAGAK 322 Query: 326 SLERHRIVAAMHQVRHNGLTGPVAFDEEGNLANPVFTIY 364 S + ++ A +H G V +D++G+L + F ++ Sbjct: 323 STDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVF 361 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 0.319 0.135 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: 1,176,446 Number of extensions: 51389 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 206 Number of HSP's successfully gapped: 7 Length of query: 381 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 294 Effective length of database: 1,207,925 Effective search space: 355129950 Effective search space used: 355129950 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 (21.8 bits) S2: 131 (55.1 bits)