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= 0002.0082.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|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 222 5e-59 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 188 5e-49 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 143 2e-35 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 127 1e-30 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 89 5e-19 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 222 bits (565), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 124/363 (34%), Positives = 196/363 (53%), Gaps = 4/363 (1%) Query: 14 PVQALAQESKVFIGFLAPLSGSNQARGVSMTNGAQLAIDELNKKAIRVNNLKLVFELVPQ 73 P+ + + + IGF PLSG + G SM NG QLA+ E N++ +R+ L+ Q Sbjct: 30 PLPDRQETATLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQ 89 Query: 74 DDRFDANAGKLATDYLLKRNLAALVCH-SSTVCIATAEQVQAAGIPYISVGATNHKFTQL 132 DDR D + L+++ + A+V H +S +A A AG+ ++ A + + T + Sbjct: 90 DDRADPATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAM 149 Query: 133 GYDNTFRMFGHSEQGGILFGQYVYGDLKVDRMAVIDDKTPSGMTMADQFSEGFTKAGGLL 192 Y FR ++E G L Y L+ + IDD+TP G +A+QF+ ++ G + Sbjct: 150 SYPRIFRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQV 209 Query: 193 LGRYSVSDKTSDFNQALADIKESRADAIFWGGTHLQAAKMIVSARRLGVKTRFLNAMNGM 252 +GRYSVSDKTSDFN AL + ++ + D IF+GG QA + S RRL + R + A G Sbjct: 210 VGRYSVSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLM-ASPGT 268 Query: 253 NNQNFLAQVNGAGN-IFTLESDQQRDKLPGWKNFEKNYVARFSSSYIDVSSLRAYDAVQM 311 FL + N LE +DK+PGWK+F + Y F S +D+ ++ AY+A Q Sbjct: 269 LGLPFLMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSD-MDLYAVFAYEAAQA 327 Query: 312 AGEAIRLSNSVDPRKLIDTLHAEKFKGLSGVISFDRDGNLNDPVFTVYEAQGGGWKIVKV 371 + IR + S DP ++ + +H +F+G+SG ++F+ +G+L P FT+YE + W+ V Sbjct: 328 IIQGIRQAGSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPVAR 387 Query: 372 VKG 374 G Sbjct: 388 FNG 390 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 188 bits (478), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 126/389 (32%), Positives = 195/389 (50%), Gaps = 31/389 (7%) Query: 1 VFLLLFGFGLSVFPVQALAQESKVFIGFLAPLSGSNQARGVSMTNGAQLAIDELNKKAIR 60 + L GL+ F A +QE V I + PLSG N G NGA++A+DELN K Sbjct: 7 IIPLTAAIGLA-FAGAAYSQEV-VKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFT 64 Query: 61 VNNLKLVFELVPQDDRFDANAGKLATDYLLKRNLAALVCH-SSTVCIATAEQVQAAGIPY 119 + K+ FELV +DD D L+ + +AA++ H +S I ++ AGIP Sbjct: 65 IGGKKVKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQ 124 Query: 120 ISVGATNHKFTQLGYDNTFRMFGHSEQGGILFGQYVYGDLKVDRMAVIDDKTPSGMTMAD 179 +S ATN K+TQ G+ FR+ + Q G G+Y L ++AVIDD+T G +AD Sbjct: 125 VSPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVAD 184 Query: 180 QFSEGFTKAGGLLLGRYSVSDKTSDFNQALADIKESRADAIFWGGTHLQAAKMIVSARRL 239 +F++G AGG ++G +DK +DFN L +K + D +F+GG M+ ++L Sbjct: 185 EFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQL 244 Query: 240 GVKTRFLN------------AMNGM-NNQNFLAQVNGAGNIFTLESDQQRDKLPGWKNFE 286 G+ +F+ A +G+ ++Q A+ G D+ K G +F Sbjct: 245 GISAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGV--------DEAGKK--GMDDFR 294 Query: 287 KNYVARFSSSYIDV--SSLRAYDAVQMAGEAIRLSNSVDPRKLIDTLHAEKFKGLSGVIS 344 Y +F IDV ++ AYDA +A+ + S DP+K + L KG++GVI+ Sbjct: 295 AAYKKKFG---IDVVYNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIA 351 Query: 345 FDRDGNLNDPVFTVYEAQGGGWKIVKVVK 373 FD G++ D T+Y +GG ++ V K Sbjct: 352 FDAKGDIKDGSLTLYTYKGGQRTLLAVTK 380 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 105/361 (29%), Positives = 180/361 (49%), Gaps = 11/361 (3%) Query: 10 LSVFPVQALAQESKVF-IGFLAPLSGSNQARGVSMTNGAQLAIDELNKKAIRVNNLKLVF 68 L++ P A+AQE++V IGF +PL+G + G G +AI+ LN + I V K+ F Sbjct: 15 LALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKF 74 Query: 69 ELVPQDDRFDANAGKLATDYLLKRNLAALV-CHSSTVCIATAEQVQAAGIPYISVGATNH 127 +++ +DD+ D +G L + + A+V ++S V I + AGI +V A+N Sbjct: 75 DVIAEDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIVVATV-ASNP 133 Query: 128 KFTQLGYDNTFRMFGHSEQGGILFGQYVYGDLKVDRMAVIDDKTPSGMTMADQFSEGFTK 187 K TQ G+ FR+ Q G Y +LK R+AVIDD+T G +A +F + K Sbjct: 134 KITQQGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIK-VAK 192 Query: 188 AGGL-LLGRYSVSDKTSDFNQALADIKESRADAIFWGGTHLQAAKMIVSARRLGVKTRFL 246 A G+ ++ +DK +DF L IK + DA+F GG Q + ++LGV + Sbjct: 193 ANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLM 252 Query: 247 NAMNGMNNQNFLAQVNGAG---NIFTLESDQQRDKLPGWKNFEKNYVARFSSSYIDVSSL 303 +G+ + + ++ G +++ + DK K F Y +++ + ++ Sbjct: 253 GG-DGICSPE-MGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRP-AETYAV 309 Query: 304 RAYDAVQMAGEAIRLSNSVDPRKLIDTLHAEKFKGLSGVISFDRDGNLNDPVFTVYEAQG 363 YD + + +A++ +NSVDP++ L +KG++G FD + +L TVY + Sbjct: 310 SFYDGMMLIAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFKD 369 Query: 364 G 364 G Sbjct: 370 G 370 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 127 bits (319), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 116/373 (31%), Positives = 170/373 (45%), Gaps = 19/373 (5%) Query: 3 LLLFGFGLSVFPVQA-LAQESK-VFIGFLAPLSGSNQARGVSMTNGAQLAIDELNKKAIR 60 LLL+ F +QA AQE K + +GF LS + S GAQLAIDE N A + Sbjct: 14 LLLWAF------MQAGWAQERKTIALGFTGRLS---EPIAQSALQGAQLAIDEANALAAK 64 Query: 61 VNNLKLVFELVPQDDRFDANAGKLATDYLLKRNLAALV-CHSSTVCIATAEQVQAAGIPY 119 + L FEL+PQDD + N Y +K +A ++ SS +ATA ++A IP Sbjct: 65 RRS-PLRFELLPQDDHGNENFAVNIARYYVKEKVAGVIGPWSSDAALATAAIYESAQIPQ 123 Query: 120 ISVGATNHKFTQLGYDNTFRMFGHSEQGGILFGQYVYGDLKVDRMAVIDDKTPSGMTMAD 179 I AT+ ++T +G FR+ G + + + L+ R+ VI +AD Sbjct: 124 IGFTATSSQWTGMGNRMPFRVVGGTRELAATLAEVATRSLQGRRIFVIQSDAAYSRALAD 183 Query: 180 QFSEGF-TKAGGLLLGRYSVSDKTSDFNQALADIKESRADAIFWGGTHLQAAKMIVSARR 238 E A + L RY V +++DF+ AL + +AD I + G + QA I A R Sbjct: 184 TLVENLGGSAQQIALARYQVGRRSTDFHAALKAAEAHQADVIVFVGLYPQARAFIDGANR 243 Query: 239 LGVKTRFLNAMNGMNNQNFLAQVNGAGNIFTLESDQQRDKLPGWKNFEKNYVARFSSSYI 298 R L G +N + A + + LE + R P WK + Y RF ++ Sbjct: 244 TRTTARLL-LTGGASNLSLPAPLE--LRLHVLEYEIARPHCPQWKVVTQTYQRRFGAA-P 299 Query: 299 DVSSLRAYDAVQMAGEAIRLSNSVDPRKLIDTLHAEKFKGLSGVISFDRDGNLNDPVFTV 358 S AYDA + AI + S + K+ LH + GL G +SFD G P +T+ Sbjct: 300 TTYSFYAYDAASVLTAAIVQAGSDNGDKIATALHRMRHAGLHGTLSFDATGANAHPRYTL 359 Query: 359 YEAQGGGWKIVKV 371 Q W+ V+V Sbjct: 360 LRYQ-ERWQAVEV 371 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 89.4 bits (220), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 81/340 (23%), Positives = 144/340 (42%), Gaps = 11/340 (3%) Query: 24 VFIGFLAPLSGSNQARGVSMTNGAQLAIDELNKKAIRVNNLKLVFELVPQDDRFDANAGK 83 V I P++G+ G + GA AI+++N N FE V DD + Sbjct: 29 VKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNK---FEAVMMDDACEPKQAV 85 Query: 84 LATDYLLKRNLAALVCH-SSTVCIATAEQVQAAGIPYISVGATNHKFTQL-GYDNTFRMF 141 + ++ + + ++ H S I ++ + G+ I+ AT + T+ + FR Sbjct: 86 AVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFRTI 145 Query: 142 GHSEQGGILFGQYVYGDLKVDRMAVIDDKTPSGMTMADQFSEGFTKAGGLLLGRYSVSDK 201 G +Q G +YV LK ++AV+ DK G +A A ++ ++ Sbjct: 146 GRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGINAG 205 Query: 202 TSDFNQALADIKESRADAIFWGGTHLQAAKMIVSARRLGVKTRFLNAMNGMNNQNFLAQV 261 SD++ + +K D +++GG H + ++ AR G+K F+ G+ N++ A Sbjct: 206 DSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGP-EGVGNKDITAIA 264 Query: 262 NGA--GNIFTLESDQQRDKLPGWKNFEKNYVARFSSSYIDVSSLRAYDAVQMAGEAIRLS 319 A G + TL +D D R + + AY V++ +AI + Sbjct: 265 GPASEGMLVTLPADFAADPANAALVKAFAAAKRDPNGPF---QMPAYSGVKIIADAIAGA 321 Query: 320 NSVDPRKLIDTLHAEKFKGLSGVISFDRDGNLNDPVFTVY 359 S DP K+ +HA FK G + +D+ G+L F V+ Sbjct: 322 KSTDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVF 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 0.320 0.135 0.391 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: 1,024,515 Number of extensions: 41389 Number of successful extensions: 154 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 141 Number of HSP's successfully gapped: 6 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)