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= 0031.0056.p (595 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 1177 0.0 gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 689 0.0 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 577 e-166 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 310 2e-85 gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC t... 219 7e-58 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 1177 bits (3045), Expect = 0.0, Method: Compositional matrix adjust. Identities = 593/595 (99%), Positives = 593/595 (99%) Query: 1 MNKRIPLYALLVVLALFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAF 60 MNKRIPLYALLVVLALFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAF Sbjct: 3 MNKRIPLYALLVVLALFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAF 62 Query: 61 VGMGAYTTSYLTTVHGVSPWLTLPAGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISL 120 VGMGAYTTSYLTTVHGVSPWLTLP GLFITGVSAYVLGRITLRMSGHYLPLATIAWGISL Sbjct: 63 VGMGAYTTSYLTTVHGVSPWLTLPVGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISL 122 Query: 121 YFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGR 180 YFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGR Sbjct: 123 YFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGR 182 Query: 181 AIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIE 240 AIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIE Sbjct: 183 AIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIE 242 Query: 241 YLFIVVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYA 300 YLFIVVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYA Sbjct: 243 YLFIVVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYA 302 Query: 301 GGGLWPWVRALWLRAFPTAPAPLRVAHATAMDKRTAVARGAPLLEVDQINKRFGGLVAVN 360 GGGLWPWVRALWLRAFPTAPAPLRVAHATAMDKR AVARGAPLLEVDQINKRFGGLVAVN Sbjct: 303 GGGLWPWVRALWLRAFPTAPAPLRVAHATAMDKRAAVARGAPLLEVDQINKRFGGLVAVN 362 Query: 361 DVSFKVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGI 420 DVSFKVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGI Sbjct: 363 DVSFKVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGI 422 Query: 421 ARTFQHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHR 480 ARTFQHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHR Sbjct: 423 ARTFQHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHR 482 Query: 481 VGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELR 540 VGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELR Sbjct: 483 VGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELR 542 Query: 541 ADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLGGIE 595 ADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLGGIE Sbjct: 543 ADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLGGIE 597 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 689 bits (1779), Expect = 0.0, Method: Compositional matrix adjust. Identities = 351/591 (59%), Positives = 453/591 (76%), Gaps = 5/591 (0%) Query: 5 IPLYALLVVLALFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMG 64 +P +VLAL P L P FWV +Y+GLYA+VA+GLVLLTG+ G+ SFGQAAFVGMG Sbjct: 11 LPALFFAIVLAL-PQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGMG 69 Query: 65 AYTTSYLTTVHGVSPWLTLPAGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLF 124 AYTT+YLTT G+SPW+ L AG+ +T SA+++G +T+R+SGHYLPL+TIAWG+SLY+LF Sbjct: 70 AYTTAYLTTQFGLSPWIGLLAGIALTACSAFLIGSLTMRISGHYLPLSTIAWGLSLYYLF 129 Query: 125 GKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGRAIRA 184 G ++ LGK+DGI+GIP + + ++ +Y LIW +++ A +N LDSRAGRA+RA Sbjct: 130 GNLEMLGKHDGINGIPVITIGSVEFGNGASMYLLIWVVLILALVSVVNFLDSRAGRAVRA 189 Query: 185 LKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIEYLFI 244 L+ G M EAMGVDT R KI+IFV+AA+LA +SGWL+AH+Q+ VNP+PF L GI+YL + Sbjct: 190 LRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLM 249 Query: 245 VVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYAGGGL 304 VVVGG H+ GA+LGAG+L +LS+ LQ LP +LG GG++E+IVFG+ L++ L++A GL Sbjct: 250 VVVGGAGHVAGAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGL 309 Query: 305 WPWVRALWLRAFPTAPAPLRVAHATAMDKRTAVARGAPLLEVDQINKRFGGLVAVNDVSF 364 WP ++A + R P P P A A + + ARG +L+V+ K+FGGLVAVN+VSF Sbjct: 310 WPRLQARFGRRRPR-PLP---ADAAPLAQMAKPARGEVILDVEAARKQFGGLVAVNNVSF 365 Query: 365 KVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGIARTF 424 VKAGEIVGLIGPNGAGKSTTFNLVTG+L S G++ + G+ +AGL +R I+ GIARTF Sbjct: 366 SVKAGEIVGLIGPNGAGKSTTFNLVTGVLSVSSGKLLYRGQSLAGLSSRDISSRGIARTF 425 Query: 425 QHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHRVGLQ 484 QHVRL+PGM+VLEN A+GA R Q + + ++L R+EE +L EA R L RVGL Sbjct: 426 QHVRLVPGMSVLENAAMGAFRRGQFAPQRGILASLLRANRSEEARILSEARRQLERVGLG 485 Query: 485 HLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGM 544 L+ AG+LALGQQRILEIARALCCDP LLLLDEPAAGLR EK+AL+ +L +LR +GM Sbjct: 486 DLVDRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEKEALAALLDKLRGEGM 545 Query: 545 SILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLGGIE 595 ++LLVEHDM+FVM+LTDHIVVMEFGAKIAEGTP +I HPAV+EAYLGG + Sbjct: 546 AVLLVEHDMDFVMQLTDHIVVMEFGAKIAEGTPAQIQVHPAVLEAYLGGAQ 596 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 577 bits (1488), Expect = e-166, Method: Compositional matrix adjust. Identities = 314/583 (53%), Positives = 422/583 (72%), Gaps = 28/583 (4%) Query: 25 FWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMGAYTTSYLTT---------VH 75 F++ N IGL +LV +GLVLLTG+ G+TSFGQAAFVG+GAY ++ L+ + Sbjct: 31 FYMTLLNNIGLASLVVLGLVLLTGVAGLTSFGQAAFVGLGAYFSAALSAKVLPLPEALLW 90 Query: 76 GVSPWLTLPAGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLFGKVDFLGKYDG 135 SPW L L +T + A+ +G +TL++SGHYLPL TIAWGISLYF+FG ++ +G G Sbjct: 91 LQSPWPALAVALVLTALLAFAVGSVTLKLSGHYLPLGTIAWGISLYFIFGTLESMGGQTG 150 Query: 136 ISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGRAIRALKGGRSMAEAM 195 +SGIP++ G+ L +R ++ LIW VL NLLDSR GRAIRALKGG MAEAM Sbjct: 151 MSGIPSIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDSREGRAIRALKGGIVMAEAM 210 Query: 196 GVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIEYLFIVVVGGIAHIWG 255 GV+T R +I++FV AA+LA++SGWL+ HMQR VNPSPF L GI+YLF+ V+GG +H+WG Sbjct: 211 GVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLGFGIDYLFMAVLGGASHVWG 270 Query: 256 ALLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYAGGGLWPWVRALWLRA 315 A+LG+ ++ +L + LQ LLP +LG G++E+IVFGL++++LL+ + G+WP++ L Sbjct: 271 AVLGSSLIVVLKEWLQGLLPVVLGRSGNFETIVFGLLIVVLLQRSREGIWPYLARL---- 326 Query: 316 FPTAPAPLRV------AHATAMDKRTAVARGAPLLEVDQINKRFGGLVAVNDVSFKVKAG 369 AP+R A A A+ +R +L+V + ++FGGLVA N++S KV AG Sbjct: 327 -----APVRTRRLVIDAQAEALPRRPMPTPQEVVLDVRSVTRKFGGLVANNNMSLKVMAG 381 Query: 370 EIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGIARTFQHVRL 429 E++ LIGPNGAGKST FN ++G+ + G V F G+++ G +R IA LG++R+FQHVRL Sbjct: 382 EVLALIGPNGAGKSTLFNQISGVDTPTSGSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRL 441 Query: 430 LPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHRVGLQHLMHE 489 +P MTVLENVA+GA++R Q+G L + ML L+R EE +L EAAR + RVGL+ M+E Sbjct: 442 MPRMTVLENVAIGAYLRGQRGVLAS----MLRLDRKEEARILAEAARQIERVGLKAQMYE 497 Query: 490 QAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGMSILLV 549 AG L+LGQQRILEIARAL DP LLLLDEPAAGLR EKQAL+++L++LR +GM+ILLV Sbjct: 498 LAGALSLGQQRILEIARALAADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLV 557 Query: 550 EHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLG 592 EHDM+FVMEL D IVVM+FG KIAEG P +I +PAV+EAYLG Sbjct: 558 EHDMDFVMELVDRIVVMDFGQKIAEGLPADIQNNPAVLEAYLG 600 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 310 bits (794), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 229/656 (34%), Positives = 350/656 (53%), Gaps = 81/656 (12%) Query: 1 MNKRIPLYALLVVLAL--FPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQA 58 MNK+I L +LL ++AL P++ +++ I +YA++ GL ++ G G S G A Sbjct: 1 MNKKILLLSLLGIVALAGIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHA 60 Query: 59 AFVGMGAYTTSYLTTVHGVSPWLTLPAGLFITGVSAYVLGRITLRMSGHYLPLATIAWGI 118 G+G+Y L G+ ++T+PA + +T V +L LR++G YL + T+A+G Sbjct: 61 GLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGT 120 Query: 119 SLYFLFGKVDFLGKYDGISGIPALQ-LAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSR 177 + L ++ FL +G GI + + G D E +YL+ +++ + V +L S Sbjct: 121 IIQILINEMTFLT--EGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMVLSMLVVHRILKSN 178 Query: 178 AGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAM 237 GRA +AL+ ++ MGV RYK+ F+ +A LA +SG L+A+ + ++P+ ++ + Sbjct: 179 LGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFEL 238 Query: 238 GIEYLFIVVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGDGGSYESI---------- 287 I +L V++GG G+L+GA ++ V+LP+LL D + I Sbjct: 239 TIMFLLAVIMGGRKSRIGSLIGALIV--------VMLPSLLSDIALFRQIATVLAVIVVV 290 Query: 288 ------------------------------------------VFGLILILLLKYAGGGLW 305 +FGL+ + ++ Y G+ Sbjct: 291 GAGVQVARKTKTVRGVIVPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIV 350 Query: 306 PWVRALWLRAFPTAPAPLRVAHATAMDKRTAVAR-------GAPLLEVDQINKRFGGLVA 358 + R L+ R T P VA A DK AV GA LL+V+QI +FGGL A Sbjct: 351 GFCRTLFGRVL-TKHVP--VAQQIAGDKERAVITTDSVKDAGATLLKVNQILMQFGGLKA 407 Query: 359 VNDVSFKVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARL 418 +N V V+ G + GLIGPNG+GKST N++TG+ + G V ++GR I+G AIA Sbjct: 408 LNRVDLDVRKGTVHGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALG 467 Query: 419 GIARTFQHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLER--AEEQALLDEAAR 476 G+ARTFQ+V+L MT ENV +G H F N V+ M + R EEQA + AA Sbjct: 468 GVARTFQNVQLFGEMTATENVLVGLH----HTFNSNVVDVMANTPRYVREEQAARERAAA 523 Query: 477 ALHRVGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVL 536 L VGL +L +E+A NL G+QR+LEI RAL +P LLLLDEPAAGL + + L ++ Sbjct: 524 ILEFVGLANLANEEARNLPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAII 583 Query: 537 QELRADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLG 592 +++R G++I+L+EH M+ VM + D + V++FG KIAEG P ++ P VIEAYLG Sbjct: 584 RKIREAGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLG 639 >gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 219 bits (557), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 115/252 (45%), Positives = 167/252 (66%), Gaps = 6/252 (2%) Query: 343 LLEVDQINKRFGGLVAVNDVSFKVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGF 402 LL++ ++KRFGGL A+N V ++ G+I GLIGPNGAGK+T FN++TGL G Sbjct: 5 LLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTFEL 64 Query: 403 NGRDIAGLPARAIARLGIARTFQHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHL 462 +G+ + +A+ GIARTFQ++RL MTVLENV +G H+R++Q N A+ Sbjct: 65 DGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVRTKQ----NVFGAVFRH 120 Query: 463 E--RAEEQALLDEAARALHRVGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEP 520 + R EE A+ +++ + L VG+ A +L+ G QR LEIARAL DP LL LDEP Sbjct: 121 KAAREEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALDEP 180 Query: 521 AAGLRHLEKQALSKVLQELRADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEI 580 AAG+ EK L ++L +++A+G +ILL+EHD++ +M L + I V+++G IAEG P ++ Sbjct: 181 AAGMNATEKLGLRELLVKIQAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPADV 240 Query: 581 ARHPAVIEAYLG 592 ++PAVIEAYLG Sbjct: 241 QKNPAVIEAYLG 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 0.141 0.424 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: 1,825,000 Number of extensions: 81241 Number of successful extensions: 902 Number of sequences better than 1.0e-08: 156 Number of HSP's gapped: 664 Number of HSP's successfully gapped: 175 Length of query: 595 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 504 Effective length of database: 1,188,985 Effective search space: 599248440 Effective search space used: 599248440 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: 133 (55.8 bits)