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= 0013.0089.p (654 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 1071 0.0 gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 315 1e-86 gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 308 1e-84 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 278 1e-75 gi|300309521|ref|YP_003773613.1| branched-chain amino acid ABC t... 249 5e-67 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 1072 bits (2771), Expect = 0.0, Method: Compositional matrix adjust. Identities = 561/650 (86%), Positives = 602/650 (92%) Query: 3 MNKKILLLSILGIAALAVLPLFVRNPYYLHLVETILIYAILLFGLDIVVGYTGQVSLGHA 62 MNKKILLLS+LGI ALA +P+ V NPYYLHL+ETILIYAILLFGLDIVVGYTGQVSLGHA Sbjct: 1 MNKKILLLSLLGIVALAGIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHA 60 Query: 63 GLFGIGSYTAGVLYFKLGLPFLLILPASIGVTAVFGAVLALPALRVTGPYLAMVTLAFGT 122 GLFGIGSY AGVL+FKLG+P + +PA+I VTAVFGA+LALPALRVTGPYLAMVTLAFGT Sbjct: 61 GLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGT 120 Query: 123 IIQILINEMTFLTEGPMGIKVPKPSFGGTKLDEVEFFYVVAVLMVLSLIVVHRILRSNLG 182 IIQILINEMTFLTEGP+GIK+ KP GG K+ EV+FFY+VAVLMVLS++VVHRIL+SNLG Sbjct: 121 IIQILINEMTFLTEGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMVLSMLVVHRILKSNLG 180 Query: 183 RAFQALRDSPIASDCMGVSVYRYKVYAFVISAALAGLSGCLYAYSEEYISPNTYNFELTI 242 RAFQALRDSPIASDCMGVSVYRYKVYAF+ISAALAGLSG LYAYSEEYISPNTYNFELTI Sbjct: 181 RAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTI 240 Query: 243 LFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIELFRQIATVAAVIVVLGAIGSVVKKI 302 +FLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDI LFRQIATV AVIVV+GA V +K Sbjct: 241 MFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKT 300 Query: 303 KTPREIAVPVVATVLMAGFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRAMFGRM 362 KT R + VPVVAT+ MA FSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCR +FGR+ Sbjct: 301 KTVRGVIVPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRTLFGRV 360 Query: 363 LSKRVPLAQQIAGDKTAAVITNDAVKEVGATLLKVNQVLMQFGGLKALNKVDLDVRKGTV 422 L+K VP+AQQIAGDK AVIT D+VK+ GATLLKVNQ+LMQFGGLKALN+VDLDVRKGTV Sbjct: 361 LTKHVPVAQQIAGDKERAVITTDSVKDAGATLLKVNQILMQFGGLKALNRVDLDVRKGTV 420 Query: 423 HGLIGPNGSGKSTMMNVLTGIYRPTDGAVEYDGRTITGQPPSLIALGGVARTFQNVQLFG 482 HGLIGPNGSGKSTMMNVLTGIYRPTDG VEYDGR I+G PS IALGGVARTFQNVQLFG Sbjct: 421 HGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFG 480 Query: 483 EMSATENVLVGLHHTFRSNVADVMVHSPRYLREERAARERAAAILEFVGLADLANEEARN 542 EM+ATENVLVGLHHTF SNV DVM ++PRY+REE+AARERAAAILEFVGLA+LANEEARN Sbjct: 481 EMTATENVLVGLHHTFNSNVVDVMANTPRYVREEQAARERAAAILEFVGLANLANEEARN 540 Query: 543 LPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIRDVGITIILIEHHM 602 LPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIR+ GITIILIEHHM Sbjct: 541 LPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHM 600 Query: 603 DVVMSICDTVTVLDFGQKIAEGKPAAVQADPKVIEAYLGGSAGDATPTTA 652 DVVMSICDTVTVLDFGQKIAEGKPA VQADPKVIEAYLG AGDA T+ Sbjct: 601 DVVMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLGSGAGDAHDNTS 650 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 315 bits (806), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 231/658 (35%), Positives = 349/658 (53%), Gaps = 79/658 (12%) Query: 1 MNMNKKILLLSILGIAALAVLPLFVRNPYYLHLVETILIYAILLFGLDIVVGYTGQVSLG 60 M+MNK+I L ++ + LA+ PL +++ I +YA++ GL ++ G G S G Sbjct: 1 MSMNKRIPLYAL--LVVLALFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFG 58 Query: 61 HAGLFGIGSYTAGVLYFKLGLPFLLILPASIGVTAVFGAVLALPALRVTGPYLAMVTLAF 120 A G+G+YT L G+ L LP + +T V VL LR++G YL + T+A+ Sbjct: 59 QAAFVGMGAYTTSYLTTVHGVSPWLTLPVGLFITGVSAYVLGRITLRMSGHYLPLATIAW 118 Query: 121 GTIIQILINEMTFLTEGPMGIKVPKPSFGGTKL-DEVEFFYVVAVLMVLSLIVVHRILRS 179 G + L ++ FL + +P G L E +Y++ +++ + V +L S Sbjct: 119 GISLYFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDS 178 Query: 180 NLGRAFQALRDSPIASDCMGVSVYRYKVYAFVISAALAGLSGCLYAYSEEYISPNTYNFE 239 GRA +AL+ ++ MGV RYK+ FV +A LA +SG L+A+ + ++P+ ++ Sbjct: 179 RAGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLA 238 Query: 240 LTILFLLAVIMGGRKSRIGSLIGALIV--------VMLPSLLSDIELFRQIATVAAVIVV 291 + I +L V++GG G+L+GA ++ V+LP+LL D Sbjct: 239 MGIEYLFIVVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGD---------------- 282 Query: 292 LGAIGSVVKKIKTPREIAVPVVATVLMAGFSYKLENITDWRLTIFGLMTLFVVYYLQDGI 351 G SY E+I +FGL+ + ++ Y G+ Sbjct: 283 ----------------------------GGSY--ESI------VFGLILILLLKYAGGGL 306 Query: 352 VGFCRAMFGRML-SKRVPL--AQQIAGDKTAAVITNDAVKEVGATLLKVNQVLMQFGGLK 408 + RA++ R + PL A A DK AAV GA LL+V+Q+ +FGGL Sbjct: 307 WPWVRALWLRAFPTAPAPLRVAHATAMDKRAAVAR-------GAPLLEVDQINKRFGGLV 359 Query: 409 ALNKVDLDVRKGTVHGLIGPNGSGKSTMMNVLTGIYRPTDGAVEYDGRTITGQPPSLIAL 468 A+N V V+ G + GLIGPNG+GKST N++TG+ + G V ++GR I G P IA Sbjct: 360 AVNDVSFKVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIAR 419 Query: 469 GGVARTFQNVQLFGEMSATENVLVGLH----HTFRSNVADVMVHSPRYLREERAARERAA 524 G+ARTFQ+V+L M+ ENV +G H F N + M+H R EE+A + AA Sbjct: 420 LGIARTFQHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLER--AEEQALLDEAA 477 Query: 525 AILEFVGLADLANEEARNLPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAI 584 L VGL L +E+A NL G+QR+LEI RAL +P LLLLDEPAAGL + + L + Sbjct: 478 RALHRVGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKV 537 Query: 585 IRKIRDVGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKPAAVQADPKVIEAYLGG 642 ++++R G++I+L+EH M+ VM + D + V++FG KIAEG P + P VIEAYLGG Sbjct: 538 LQELRADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLGG 595 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 308 bits (788), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 206/628 (32%), Positives = 323/628 (51%), Gaps = 59/628 (9%) Query: 21 LPLFVRNPYYLHLVETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYTAGVLYFKLG 80 LP P+++ L+ + +YAI+ GL ++ G G +S G A G+G+YT L + G Sbjct: 22 LPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGMGAYTTAYLTTQFG 81 Query: 81 LPFLLILPASIGVTAVFGAVLALPALRVTGPYLAMVTLAFGTIIQILINEMTFLTEGPMG 140 L + L A I +TA ++ +R++G YL + T+A+G + L + L + Sbjct: 82 LSPWIGLLAGIALTACSAFLIGSLTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDGI 141 Query: 141 IKVPKPSFGGTKL-DEVEFFYVVAVLMVLSLIVVHRILRSNLGRAFQALRDSPIASDCMG 199 +P + G + + + ++ V+++L+L+ V L S GRA +ALR + + MG Sbjct: 142 NGIPVITIGSVEFGNGASMYLLIWVVLILALVSVVNFLDSRAGRAVRALRFGTVMPEAMG 201 Query: 200 VSVYRYKVYAFVISAALAGLSGCLYAYSEEYISPNTYNFELTILFLLAVIMGGRKSRIGS 259 V R K+ FV +A LAG+SG LYA+ ++ ++P + + I +LL V++GG G+ Sbjct: 202 VDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGGAGHVAGA 261 Query: 260 LIGALIVVMLPSLLSDIELFRQIATVAAVIVVLGAIGSVVKKIKTPREIAVPVVATVLMA 319 ++GA ++ +L + L + + VLG G Sbjct: 262 ILGAGLLAVLSNFLQEW-----------LPGVLGTGG----------------------- 287 Query: 320 GFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRAMFGRMLSKRVPLAQQIAGDKTA 379 ++ +FG+ + + + +G+ +A FGR + +P A Sbjct: 288 ----------NFEAIVFGIALVIFLQFANEGLWPRLQARFGRRRPRPLP--------ADA 329 Query: 380 AVITNDAVKEVGATLLKVNQVLMQFGGLKALNKVDLDVRKGTVHGLIGPNGSGKSTMMNV 439 A + A G +L V QFGGL A+N V V+ G + GLIGPNG+GKST N+ Sbjct: 330 APLAQMAKPARGEVILDVEAARKQFGGLVAVNNVSFSVKAGEIVGLIGPNGAGKSTTFNL 389 Query: 440 LTGIYRPTDGAVEYDGRTITGQPPSLIALGGVARTFQNVQLFGEMSATENVLVGLHHTFR 499 +TG+ + G + Y G+++ G I+ G+ARTFQ+V+L MS EN +G R Sbjct: 390 VTGVLSVSSGKLLYRGQSLAGLSSRDISSRGIARTFQHVRLVPGMSVLENAAMGAFR--R 447 Query: 500 SNVADVMVHSPRYLREERAARER----AAAILEFVGLADLANEEARNLPYGKQRLLEIGR 555 A LR R+ R A LE VGL DL + A +L G+QR+LEI R Sbjct: 448 GQFAPQRGILASLLRANRSEEARILSEARRQLERVGLGDLVDRPAGSLALGQQRILEIAR 507 Query: 556 ALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIRDVGITIILIEHHMDVVMSICDTVTVL 615 AL +P+LLLLDEPAAGL + + L A++ K+R G+ ++L+EH MD VM + D + V+ Sbjct: 508 ALCCDPALLLLDEPAAGLRLKEKEALAALLDKLRGEGMAVLLVEHDMDFVMQLTDHIVVM 567 Query: 616 DFGQKIAEGKPAAVQADPKVIEAYLGGS 643 +FG KIAEG PA +Q P V+EAYLGG+ Sbjct: 568 EFGAKIAEGTPAQIQVHPAVLEAYLGGA 595 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 278 bits (711), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 204/625 (32%), Positives = 328/625 (52%), Gaps = 67/625 (10%) Query: 29 YYLHLVETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYTAGVLYFK-LGLPFLLIL 87 +Y+ L+ I + ++++ GL ++ G G S G A G+G+Y + L K L LP L+ Sbjct: 31 FYMTLLNNIGLASLVVLGLVLLTGVAGLTSFGQAAFVGLGAYFSAALSAKVLPLPEALLW 90 Query: 88 PAS----IGVTAVFGAVLALP----ALRVTGPYLAMVTLAFGTIIQILINEMTFLTEGPM 139 S + V V A+LA L+++G YL + T+A+G + + + + G Sbjct: 91 LQSPWPALAVALVLTALLAFAVGSVTLKLSGHYLPLGTIAWGISLYFIFGTLESMG-GQT 149 Query: 140 GIK-VPKPSFGGTKLD-EVEFFYVVAVLMVLSLIVVHRILRSNLGRAFQALRDSPIASDC 197 G+ +P +F G LD + F ++ V ++L + + +L S GRA +AL+ + ++ Sbjct: 150 GMSGIPSIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDSREGRAIRALKGGIVMAEA 209 Query: 198 MGVSVYRYKVYAFVISAALAGLSGCLYAYSEEYISPNTYNFELTILFLLAVIMGGRKSRI 257 MGV+ R ++ FVI+A LA LSG LY + + +++P+ + I +L ++GG Sbjct: 210 MGVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLGFGIDYLFMAVLGGASHVW 269 Query: 258 GSLIGALIVVMLPSLLSDIELFRQIATVAAVIVVLGAIGSVVKKIKTPREIAVPVVATVL 317 G+++G+ ++V+L L + +PVV Sbjct: 270 GAVLGSSLIVVLKEWLQGL---------------------------------LPVVL--- 293 Query: 318 MAGFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRAMFGRMLSKRVPL-AQQIAGD 376 G S E I +FGL+ + ++ ++GI + L++ P+ +++ D Sbjct: 294 --GRSGNFETI------VFGLLIVVLLQRSREGIWPY--------LARLAPVRTRRLVID 337 Query: 377 KTAAVITNDAVKEVGATLLKVNQVLMQFGGLKALNKVDLDVRKGTVHGLIGPNGSGKSTM 436 A + + +L V V +FGGL A N + L V G V LIGPNG+GKST+ Sbjct: 338 AQAEALPRRPMPTPQEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIGPNGAGKSTL 397 Query: 437 MNVLTGIYRPTDGAVEYDGRTITGQPPSLIALGGVARTFQNVQLFGEMSATENVLVGLHH 496 N ++G+ PT G+V++ G+ +TG+ IA G++R+FQ+V+L M+ ENV +G + Sbjct: 398 FNQISGVDTPTSGSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMTVLENVAIGAYL 457 Query: 497 TFRSNVADVMVHSPRYLREERAARERAAAILEFVGLADLANEEARNLPYGKQRLLEIGRA 556 + V M+ R +EE AA +E VGL E A L G+QR+LEI RA Sbjct: 458 RGQRGVLASMLRLDR--KEEARILAEAARQIERVGLKAQMYELAGALSLGQQRILEIARA 515 Query: 557 LGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIRDVGITIILIEHHMDVVMSICDTVTVLD 616 L +P LLLLDEPAAGL + + L ++RK+R G+ I+L+EH MD VM + D + V+D Sbjct: 516 LAADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLVEHDMDFVMELVDRIVVMD 575 Query: 617 FGQKIAEGKPAAVQADPKVIEAYLG 641 FGQKIAEG PA +Q +P V+EAYLG Sbjct: 576 FGQKIAEGLPADIQNNPAVLEAYLG 600 >gi|300309521|ref|YP_003773613.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 249 bits (636), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 124/249 (49%), Positives = 168/249 (67%) Query: 393 TLLKVNQVLMQFGGLKALNKVDLDVRKGTVHGLIGPNGSGKSTMMNVLTGIYRPTDGAVE 452 TLLK+ V +FGGL+ALN V + + +G ++GLIGPNG+GK+T NV+TG+Y+P G E Sbjct: 4 TLLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTFE 63 Query: 453 YDGRTITGQPPSLIALGGVARTFQNVQLFGEMSATENVLVGLHHTFRSNVADVMVHSPRY 512 DG+ + P +A G+ARTFQN++LFGEM+ ENV+VG H R NV + Sbjct: 64 LDGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVRTRQNVFGAVFRHKAA 123 Query: 513 LREERAARERAAAILEFVGLADLANEEARNLPYGKQRLLEIGRALGLNPSLLLLDEPAAG 572 EE A RE++ +L+FVG+ A AR+L YG QR LEI RAL +P LL LDEPAAG Sbjct: 124 REEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALDEPAAG 183 Query: 573 LTAPDIKELVAIIRKIRDVGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKPAAVQAD 632 + A + L ++ KI+ G TI+LIEH + ++M +C+ +TVLD+G+ IAEG PA VQ + Sbjct: 184 MNATEKLGLRELLVKIQAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPADVQKN 243 Query: 633 PKVIEAYLG 641 P VIEAYLG Sbjct: 244 PAVIEAYLG 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 0.325 0.142 0.402 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: 1,865,168 Number of extensions: 78360 Number of successful extensions: 809 Number of sequences better than 1.0e-08: 145 Number of HSP's gapped: 615 Number of HSP's successfully gapped: 156 Length of query: 654 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 563 Effective length of database: 1,188,985 Effective search space: 669398555 Effective search space used: 669398555 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 (21.6 bits) S2: 134 (56.2 bits)