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= 0028.0023.p (606 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 1096 0.0 gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 654 0.0 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 619 e-178 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 271 1e-73 gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC t... 208 1e-54 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 1096 bits (2835), Expect = 0.0, Method: Compositional matrix adjust. Identities = 558/606 (92%), Positives = 573/606 (94%), Gaps = 10/606 (1%) Query: 1 MTAFTSHRAVLPVLFFAVVLVLPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISF 60 MTAF SHRA LP LFFA+VL LPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISF Sbjct: 1 MTAFISHRAALPALFFAIVLALPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISF 60 Query: 61 GQAAFVGIGAYTTAYLTTQFGLSPWVGLLAGIGLTGFSAFLIGTLTMRISGHYLPLSTIA 120 GQAAFVG+GAYTTAYLTTQFGLSPW+GLLAGI LT SAFLIG+LTMRISGHYLPLSTIA Sbjct: 61 GQAAFVGMGAYTTAYLTTQFGLSPWIGLLAGIALTACSAFLIGSLTMRISGHYLPLSTIA 120 Query: 121 WGLSLYYLFGNLEMLGKHDGINGIPPIAIGQFTFGNGASMYLLIWAVVILALVSVVNFLD 180 WGLSLYYLFGNLEMLGKHDGINGIP I IG FGNGASMYLLIW V+ILALVSVVNFLD Sbjct: 121 WGLSLYYLFGNLEMLGKHDGINGIPVITIGSVEFGNGASMYLLIWVVLILALVSVVNFLD 180 Query: 181 SRAGRAVRALKFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGL 240 SRAGRAVRAL+FGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGL Sbjct: 181 SRAGRAVRALRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGL 240 Query: 241 KYGIDYLLMVVVGGAGHVWGAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVI 300 KYGIDYLLMVVVGGAGHV GAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVI Sbjct: 241 KYGIDYLLMVVVGGAGHVAGAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVI 300 Query: 301 FLQFANEGLWPRLQARFGRRLPRQLPEDAAPLTQIPKPARGEVILEVEAARKQFGGLVAV 360 FLQFANEGLWPRLQARFGRR PR LP DAAPL Q+ KPARGEVIL+VEAARKQFGGLVAV Sbjct: 301 FLQFANEGLWPRLQARFGRRRPRPLPADAAPLAQMAKPARGEVILDVEAARKQFGGLVAV 360 Query: 361 NDVSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLSITSGKLNYRGQSLAGLSSREISSRG 420 N+VSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLS++SGKL YRGQSLAGLSSR+ISSRG Sbjct: 361 NNVSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLSVSSGKLLYRGQSLAGLSSRDISSRG 420 Query: 421 IARTFQHVRLVPGMSVLENAAMGAFRRGEFAPQRGILASLAGRGXISSGKARANRKEEAR 480 IARTFQHVRLVPGMSVLENAAMGAFRRG+FAPQRGILASL RANR EEAR Sbjct: 421 IARTFQHVRLVPGMSVLENAAMGAFRRGQFAPQRGILASL----------LRANRSEEAR 470 Query: 481 ILSEARRQLERVGLGDLLDRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEK 540 ILSEARRQLERVGLGDL+DRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEK Sbjct: 471 ILSEARRQLERVGLGDLVDRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEK 530 Query: 541 QALAALLDKLRGEGMAVLLVEHDMDFVMQLTDHIVVMEFGTKIAEGTPAQIQVHPAVLEA 600 +ALAALLDKLRGEGMAVLLVEHDMDFVMQLTDHIVVMEFG KIAEGTPAQIQVHPAVLEA Sbjct: 531 EALAALLDKLRGEGMAVLLVEHDMDFVMQLTDHIVVMEFGAKIAEGTPAQIQVHPAVLEA 590 Query: 601 YLGGAQ 606 YLGGAQ Sbjct: 591 YLGGAQ 596 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 654 bits (1688), Expect = 0.0, Method: Compositional matrix adjust. Identities = 351/589 (59%), Positives = 443/589 (75%), Gaps = 14/589 (2%) Query: 22 LPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGIGAYTTAYLTTQFG 81 P L P FWV +Y+GLYA+VA+GLVLLTG+ G+ SFGQAAFVG+GAYTT+YLTT G Sbjct: 19 FPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMGAYTTSYLTTVHG 78 Query: 82 LSPWVGLLAGIGLTGFSAFLIGTLTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDGI 141 +SPW+ L G+ +TG SA+++G +T+R+SGHYLPL+TIAWG+SLY+LFG ++ LGK+DGI Sbjct: 79 VSPWLTLPVGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLFGKVDFLGKYDGI 138 Query: 142 NGIPPIAIGQFTFGNGASMYLLIWAVVILALVSVVNFLDSRAGRAVRALKFGTVMPEAMG 201 +GIP + + +Y LIWA+V+ A +N LDSRAGRA+RALK G M EAMG Sbjct: 139 SGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGRAIRALKGGRSMAEAMG 198 Query: 202 VDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGGAGHVWGA 261 VDT R KI+IFV+AA+LA +SGWL+AH+Q+ VNP+PF L GI+YL +VVVGG H+WGA Sbjct: 199 VDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIEYLFIVVVGGIAHIWGA 258 Query: 262 ILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGLWPRLQARFGRRL 321 +LGAG+L +LS+ LQ LP +LG GG++E+IVFG+ L++ L++A GLWP ++A + R Sbjct: 259 LLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYAGGGLWPWVRALWLRAF 318 Query: 322 PRQ-LPEDAAPLTQIPKP---ARGEVILEVEAARKQFGGLVAVNDVSFSVKAGEIVGLIG 377 P P A T + K ARG +LEV+ K+FGGLVAVNDVSF VKAGEIVGLIG Sbjct: 319 PTAPAPLRVAHATAMDKRAAVARGAPLLEVDQINKRFGGLVAVNDVSFKVKAGEIVGLIG 378 Query: 378 PNGAGKSTTFNLVTGVLSITSGKLNYRGQSLAGLSSREISSRGIARTFQHVRLVPGMSVL 437 PNGAGKSTTFNLVTG+L + G++ + G+ +AGL +R I+ GIARTFQHVRL+PGM+VL Sbjct: 379 PNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGIARTFQHVRLLPGMTVL 438 Query: 438 ENAAMGAFRRGEFAPQRGILASLAGRGXISSGKARANRKEEARILSEARRQLERVGLGDL 497 EN A+GA R Q+G L + + R EE +L EA R L RVGL L Sbjct: 439 ENVALGAHMRS----QQGFLKNTV------NAMLHLERAEEQALLDEAARALHRVGLQHL 488 Query: 498 LDRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEKQALAALLDKLRGEGMAV 557 + AG+LALGQQRILEIARALCCDP LLLLDEPAAGLR EKQAL+ +L +LR +GM++ Sbjct: 489 MHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGMSI 548 Query: 558 LLVEHDMDFVMQLTDHIVVMEFGTKIAEGTPAQIQVHPAVLEAYLGGAQ 606 LLVEHDM+FVM+LTDHIVVMEFG KIAEGTP +I HPAV+EAYLGG + Sbjct: 549 LLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLGGIE 597 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 619 bits (1596), Expect = e-178, Method: Compositional matrix adjust. Identities = 342/588 (58%), Positives = 430/588 (73%), Gaps = 26/588 (4%) Query: 30 FWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGIGAYTTAYLTTQ---------F 80 F++TLL+ +GL ++V LGLVLLTGVAGL SFGQAAFVG+GAY +A L+ + + Sbjct: 31 FYMTLLNNIGLASLVVLGLVLLTGVAGLTSFGQAAFVGLGAYFSAALSAKVLPLPEALLW 90 Query: 81 GLSPWVGLLAGIGLTGFSAFLIGTLTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDG 140 SPW L + LT AF +G++T+++SGHYLPL TIAWG+SLY++FG LE +G G Sbjct: 91 LQSPWPALAVALVLTALLAFAVGSVTLKLSGHYLPLGTIAWGISLYFIFGTLESMGGQTG 150 Query: 141 INGIPPIAIGQFTFGNGASMYLLIWAVVILALVSVVNFLDSRAGRAVRALKFGTVMPEAM 200 ++GIP IA + +M+ LIW V+L + ++ N LDSR GRA+RALK G VM EAM Sbjct: 151 MSGIPSIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDSREGRAIRALKGGIVMAEAM 210 Query: 201 GVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGGAGHVWG 260 GV+TAR++IV+FV AAVLA +SGWLY H+Q+ VNP+PFGL +GIDYL M V+GGA HVWG Sbjct: 211 GVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLGFGIDYLFMAVLGGASHVWG 270 Query: 261 AILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGLWPRLQARFGRR 320 A+LG+ L+ VL +LQ LP VLG GNFE IVFG+ +V+ LQ + EG+WP L AR Sbjct: 271 AVLGSSLIVVLKEWLQGLLPVVLGRSGNFETIVFGLLIVVLLQRSREGIWPYL-ARLAPV 329 Query: 321 LPRQLPED--AAPLTQIPKPARGEVILEVEAARKQFGGLVAVNDVSFSVKAGEIVGLIGP 378 R+L D A L + P P EV+L+V + ++FGGLVA N++S V AGE++ LIGP Sbjct: 330 RTRRLVIDAQAEALPRRPMPTPQEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIGP 389 Query: 379 NGAGKSTTFNLVTGVLSITSGKLNYRGQSLAGLSSREISSRGIARTFQHVRLVPGMSVLE 438 NGAGKST FN ++GV + TSG + +RGQ + G SR I+ G++R+FQHVRL+P M+VLE Sbjct: 390 NGAGKSTLFNQISGVDTPTSGSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMTVLE 449 Query: 439 NAAMGAFRRGEFAPQRGILASLAGRGXISSGKARANRKEEARILSEARRQLERVGLGDLL 498 N A+GA+ RG QRG+LAS+ R +RKEEARIL+EA RQ+ERVGL + Sbjct: 450 NVAIGAYLRG----QRGVLASM----------LRLDRKEEARILAEAARQIERVGLKAQM 495 Query: 499 DRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEKQALAALLDKLRGEGMAVL 558 AG+L+LGQQRILEIARAL DP LLLLDEPAAGLRL EKQALA LL KLRGEGMA+L Sbjct: 496 YELAGALSLGQQRILEIARALAADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAIL 555 Query: 559 LVEHDMDFVMQLTDHIVVMEFGTKIAEGTPAQIQVHPAVLEAYLGGAQ 606 LVEHDMDFVM+L D IVVM+FG KIAEG PA IQ +PAVLEAYLG A Sbjct: 556 LVEHDMDFVMELVDRIVVMDFGQKIAEGLPADIQNNPAVLEAYLGVAD 603 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 271 bits (692), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 195/637 (30%), Positives = 319/637 (50%), Gaps = 71/637 (11%) Query: 22 LPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGIGAYTTAYLTTQFG 81 +P + P+++ L+ + +YAI+ GL ++ G G +S G A GIG+Y L + G Sbjct: 19 IPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYAAGVLFFKLG 78 Query: 82 LSPWVGLLAGIGLTGFSAFLIGTLTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHD-G 140 + +V + A I +T ++ +R++G YL + T+A+G + L + L + G Sbjct: 79 MPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGTIIQILINEMTFLTEGPLG 138 Query: 141 INGIPPIAIGQFTFGNGASMYLLIWAVVILALVSVVNFLDSRAGRAVRALKFGTVMPEAM 200 I P+ G + + L+ +++L+++ V L S GRA +AL+ + + M Sbjct: 139 IKLQKPMIGGDKM--SEVQFFYLVAVLMVLSMLVVHRILKSNLGRAFQALRDSPIASDCM 196 Query: 201 GVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGGAGHVWG 260 GV R K+ F+ +A LAG+SG LYA+ ++ ++P + + I +LL V++GG G Sbjct: 197 GVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTIMFLLAVIMGGRKSRIG 256 Query: 261 AILGAGLLAVLSNFLQEW---------------------------------LPGV----- 282 +++GA ++ +L + L + +P V Sbjct: 257 SLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKTKTVRGVIVPVVATIAM 316 Query: 283 ------LGTGGNFEAIVFGIALVIFLQFANEGLWPRLQARFGRRLPRQLP--------ED 328 L ++ +FG+ + + + +G+ + FGR L + +P ++ Sbjct: 317 AAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRTLFGRVLTKHVPVAQQIAGDKE 376 Query: 329 AAPLTQIPKPARGEVILEVEAARKQFGGLVAVNDVSFSVKAGEIVGLIGPNGAGKSTTFN 388 A +T G +L+V QFGGL A+N V V+ G + GLIGPNG+GKST N Sbjct: 377 RAVITTDSVKDAGATLLKVNQILMQFGGLKALNRVDLDVRKGTVHGLIGPNGSGKSTMMN 436 Query: 389 LVTGVLSITSGKLNYRGQSLAGLSSREISSRGIARTFQHVRLVPGMSVLENAAMGAFRRG 448 ++TG+ T G + Y G+ ++G I+ G+ARTFQ+V+L M+ EN +G Sbjct: 437 VLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFGEMTATENVLVGLHH-- 494 Query: 449 EFAPQRGILASLAGRGXISSGKARANRKEEARILSEARRQ--LERVGLGDLLDRPAGSLA 506 + A R + R LE VGL +L + A +L Sbjct: 495 ------------TFNSNVVDVMANTPRYVREEQAARERAAAILEFVGLANLANEEARNLP 542 Query: 507 LGQQRILEIARALCCDPALLLLDEPAAGLRLKEKQALAALLDKLRGEGMAVLLVEHDMDF 566 G+QR+LEI RAL +P+LLLLDEPAAGL + + L A++ K+R G+ ++L+EH MD Sbjct: 543 YGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHMDV 602 Query: 567 VMQLTDHIVVMEFGTKIAEGTPAQIQVHPAVLEAYLG 603 VM + D + V++FG KIAEG PAQ+Q P V+EAYLG Sbjct: 603 VMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLG 639 >gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 208 bits (529), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 112/262 (42%), Positives = 165/262 (62%), Gaps = 12/262 (4%) Query: 342 EVILEVEAARKQFGGLVAVNDVSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLSITSGKL 401 + +L++ K+FGGL A+N V +++ G+I GLIGPNGAGK+T FN++TG+ +G Sbjct: 3 QTLLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTF 62 Query: 402 NYRGQSLAGLSSREISSRGIARTFQHVRLVPGMSVLENAAMGAFRRGEFAPQRGILASLA 461 G+ + + E++ GIARTFQ++RL M+VLEN +G R ++ + ++ Sbjct: 63 ELDGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVR----TKQNVFGAVF 118 Query: 462 GRGXISSGKARANRKEEARILSEARRQLERVGLGDLLDRPAGSLALGQQRILEIARALCC 521 + +A R+EEA I ++++ L+ VG+G R A L+ G QR LEIARAL Sbjct: 119 --------RHKAAREEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALAT 170 Query: 522 DPALLLLDEPAAGLRLKEKQALAALLDKLRGEGMAVLLVEHDMDFVMQLTDHIVVMEFGT 581 DP LL LDEPAAG+ EK L LL K++ EG +LL+EHD+ +M L + I V+++G Sbjct: 171 DPQLLALDEPAAGMNATEKLGLRELLVKIQAEGKTILLIEHDVKLMMGLCNRITVLDYGK 230 Query: 582 KIAEGTPAQIQVHPAVLEAYLG 603 IAEG PA +Q +PAV+EAYLG Sbjct: 231 PIAEGVPADVQKNPAVIEAYLG 252 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 0.324 0.142 0.419 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: 1,687,247 Number of extensions: 69395 Number of successful extensions: 755 Number of sequences better than 1.0e-08: 143 Number of HSP's gapped: 595 Number of HSP's successfully gapped: 161 Length of query: 606 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 515 Effective length of database: 1,188,985 Effective search space: 612327275 Effective search space used: 612327275 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 133 (55.8 bits)