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= 0001.3902.p (596 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... 1063 0.0 gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 687 0.0 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 580 e-167 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 310 3e-85 gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC t... 224 2e-59 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 1063 bits (2750), Expect = 0.0, Method: Compositional matrix adjust. Identities = 558/595 (93%), Positives = 572/595 (96%) Query: 2 MNKRLPLYALLVVLAAFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAF 61 MNKR+PLYALLVVLA FPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAF Sbjct: 3 MNKRIPLYALLVVLALFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAF 62 Query: 62 VGMGAYTTSYLTTVHGISPWLTLPLGLLITGVSAYVLGRITLRMSGHYLPLATIAWGISL 121 VGMGAYTTSYLTTVHG+SPWLTLP+GL ITGVSAYVLGRITLRMSGHYLPLATIAWGISL Sbjct: 63 VGMGAYTTSYLTTVHGVSPWLTLPVGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISL 122 Query: 122 YFLFGKVDWLGKYDGISGIPALHVLGVDLAQERHLYYLIWAIVLAAAWISLNLLDSRAGR 181 YFLFGKVD+LGKYDGISGIPAL + G+DLA+ERHLYYLIWAIVLAAAW+SLNLLDSRAGR Sbjct: 123 YFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGR 182 Query: 182 AIRALKGGRSMAEAMGVDTGRYKILIFVLAALLAAVSGWLFAHMQRTVNPSPFSLAMGIE 241 AIRALKGGRSMAEAMGVDTGRYKILIFV AALLA+VSGWLFAHMQRTVNPSPFSLAMGIE Sbjct: 183 AIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIE 242 Query: 242 YLFIVVVGGIAHIWGALLGAAALKLLSDQLQVLLPALLGDGGSYESIVFGLILIVLLKYA 301 YLFIVVVGGIAHIWGALLGA LKLLSDQLQVLLPALLGDGGSYESIVFGLILI+LLKYA Sbjct: 243 YLFIVVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYA 302 Query: 302 RGGLWPWVRALWLRVFPPAAPPLRVATGAAMSKRQGPARGAPLLQVDQINKRFGGLVAVN 361 GGLWPWVRALWLR FP A PLRVA AM KR ARGAPLL+VDQINKRFGGLVAVN Sbjct: 303 GGGLWPWVRALWLRAFPTAPAPLRVAHATAMDKRAAVARGAPLLEVDQINKRFGGLVAVN 362 Query: 362 GVSFNVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVAFNGRDIAGLPARAIARLGI 421 VSF VKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRV FNGRDIAGLPARAIARLGI Sbjct: 363 DVSFKVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGI 422 Query: 422 ARTFQHVRLLPGMSVLENVALGAHMRSEQGFLRNTVNAMLHLERAEEQALLDEAARALHR 481 ARTFQHVRLLPGM+VLENVALGAHMRS+QGFL+NTVNAMLHLERAEEQALLDEAARALHR Sbjct: 423 ARTFQHVRLLPGMTVLENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHR 482 Query: 482 VGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELR 541 VGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELR Sbjct: 483 VGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELR 542 Query: 542 ADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIQRHPAVIEAYLGGIE 596 ADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEI RHPAVIEAYLGGIE 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 = 687 bits (1774), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/591 (59%), Positives = 449/591 (75%), Gaps = 5/591 (0%) Query: 6 LPLYALLVVLAAFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMG 65 LP +VLA P L P FWV +Y+GLYA+VA+GLVLLTG+ G+ SFGQAAFVGMG Sbjct: 11 LPALFFAIVLA-LPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGMG 69 Query: 66 AYTTSYLTTVHGISPWLTLPLGLLITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLF 125 AYTT+YLTT G+SPW+ L G+ +T SA+++G +T+R+SGHYLPL+TIAWG+SLY+LF Sbjct: 70 AYTTAYLTTQFGLSPWIGLLAGIALTACSAFLIGSLTMRISGHYLPLSTIAWGLSLYYLF 129 Query: 126 GKVDWLGKYDGISGIPALHVLGVDLAQERHLYYLIWAIVLAAAWISLNLLDSRAGRAIRA 185 G ++ LGK+DGI+GIP + + V+ +Y LIW +++ A +N LDSRAGRA+RA Sbjct: 130 GNLEMLGKHDGINGIPVITIGSVEFGNGASMYLLIWVVLILALVSVVNFLDSRAGRAVRA 189 Query: 186 LKGGRSMAEAMGVDTGRYKILIFVLAALLAAVSGWLFAHMQRTVNPSPFSLAMGIEYLFI 245 L+ G M EAMGVDT R KI+IFV AA+LA +SGWL+AH+Q+ VNP+PF L GI+YL + Sbjct: 190 LRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLM 249 Query: 246 VVVGGIAHIWGALLGAAALKLLSDQLQVLLPALLGDGGSYESIVFGLILIVLLKYARGGL 305 VVVGG H+ GA+LGA L +LS+ LQ LP +LG GG++E+IVFG+ L++ L++A GL Sbjct: 250 VVVGGAGHVAGAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGL 309 Query: 306 WPWVRALWLRVFPPAAPPLRVATGAAMSKRQGPARGAPLLQVDQINKRFGGLVAVNGVSF 365 WP ++A + R P P A A +++ PARG +L V+ K+FGGLVAVN VSF Sbjct: 310 WPRLQARFGRRRPRPLP----ADAAPLAQMAKPARGEVILDVEAARKQFGGLVAVNNVSF 365 Query: 366 NVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVAFNGRDIAGLPARAIARLGIARTF 425 +VKAGEIVGLIGPNGAGKSTTFNLVTG+L S G++ + G+ +AGL +R I+ GIARTF Sbjct: 366 SVKAGEIVGLIGPNGAGKSTTFNLVTGVLSVSSGKLLYRGQSLAGLSSRDISSRGIARTF 425 Query: 426 QHVRLLPGMSVLENVALGAHMRSEQGFLRNTVNAMLHLERAEEQALLDEAARALHRVGLQ 485 QHVRL+PGMSVLEN A+GA R + R + ++L R+EE +L EA R L RVGL Sbjct: 426 QHVRLVPGMSVLENAAMGAFRRGQFAPQRGILASLLRANRSEEARILSEARRQLERVGLG 485 Query: 486 HLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGM 545 L+ AG+LALGQQRILEIARALCCDP LLLLDEPAAGLR EK+AL+ +L +LR +GM Sbjct: 486 DLVDRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEKEALAALLDKLRGEGM 545 Query: 546 SILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIQRHPAVIEAYLGGIE 596 ++LLVEHDM+FVM+LTDHIVVMEFGAKIAEGTP +IQ 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 = 580 bits (1496), Expect = e-167, Method: Compositional matrix adjust. Identities = 316/578 (54%), Positives = 425/578 (73%), Gaps = 18/578 (3%) Query: 26 FWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMGAYTTSYLTT---------VH 76 F++ N IGL +LV +GLVLLTG+ G+TSFGQAAFVG+GAY ++ L+ + Sbjct: 31 FYMTLLNNIGLASLVVLGLVLLTGVAGLTSFGQAAFVGLGAYFSAALSAKVLPLPEALLW 90 Query: 77 GISPWLTLPLGLLITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLFGKVDWLGKYDG 136 SPW L + L++T + A+ +G +TL++SGHYLPL TIAWGISLYF+FG ++ +G G Sbjct: 91 LQSPWPALAVALVLTALLAFAVGSVTLKLSGHYLPLGTIAWGISLYFIFGTLESMGGQTG 150 Query: 137 ISGIPALHVLGVDLAQERHLYYLIWAIVLAAAWISLNLLDSRAGRAIRALKGGRSMAEAM 196 +SGIP++ LGV L +R ++ LIW VL NLLDSR GRAIRALKGG MAEAM Sbjct: 151 MSGIPSIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDSREGRAIRALKGGIVMAEAM 210 Query: 197 GVDTGRYKILIFVLAALLAAVSGWLFAHMQRTVNPSPFSLAMGIEYLFIVVVGGIAHIWG 256 GV+T R +I++FV+AA+LAA+SGWL+ HMQR VNPSPF L GI+YLF+ V+GG +H+WG Sbjct: 211 GVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLGFGIDYLFMAVLGGASHVWG 270 Query: 257 ALLGAAALKLLSDQLQVLLPALLGDGGSYESIVFGLILIVLLKYARGGLWPWVRALWLRV 316 A+LG++ + +L + LQ LLP +LG G++E+IVFGL+++VLL+ +R G+WP++ R+ Sbjct: 271 AVLGSSLIVVLKEWLQGLLPVVLGRSGNFETIVFGLLIVVLLQRSREGIWPYLA----RL 326 Query: 317 FPPAAPPLRV-ATGAAMSKRQGPARGAPLLQVDQINKRFGGLVAVNGVSFNVKAGEIVGL 375 P L + A A+ +R P +L V + ++FGGLVA N +S V AGE++ L Sbjct: 327 APVRTRRLVIDAQAEALPRRPMPTPQEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLAL 386 Query: 376 IGPNGAGKSTTFNLVTGLLHASGGRVAFNGRDIAGLPARAIARLGIARTFQHVRLLPGMS 435 IGPNGAGKST FN ++G+ + G V F G+++ G +R IA LG++R+FQHVRL+P M+ Sbjct: 387 IGPNGAGKSTLFNQISGVDTPTSGSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMT 446 Query: 436 VLENVALGAHMRSEQGFLRNTVNAMLHLERAEEQALLDEAARALHRVGLQHLMHEQAGNL 495 VLENVA+GA++R ++G L +ML L+R EE +L EAAR + RVGL+ M+E AG L Sbjct: 447 VLENVAIGAYLRGQRGVL----ASMLRLDRKEEARILAEAARQIERVGLKAQMYELAGAL 502 Query: 496 ALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGMSILLVEHDME 555 +LGQQRILEIARAL DP LLLLDEPAAGLR EKQAL+++L++LR +GM+ILLVEHDM+ Sbjct: 503 SLGQQRILEIARALAADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLVEHDMD 562 Query: 556 FVMELTDHIVVMEFGAKIAEGTPQEIQRHPAVIEAYLG 593 FVMEL D IVVM+FG KIAEG P +IQ +PAV+EAYLG Sbjct: 563 FVMELVDRIVVMDFGQKIAEGLPADIQNNPAVLEAYLG 600 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 310 bits (793), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 221/653 (33%), Positives = 349/653 (53%), Gaps = 75/653 (11%) Query: 2 MNKRLPLYALL--VVLAAFPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQA 59 MNK++ L +LL V LA P++ +++ I +YA++ GL ++ G G S G A Sbjct: 1 MNKKILLLSLLGIVALAGIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHA 60 Query: 60 AFVGMGAYTTSYLTTVHGISPWLTLPLGLLITGVSAYVLGRITLRMSGHYLPLATIAWGI 119 G+G+Y L G+ ++T+P + +T V +L LR++G YL + T+A+G Sbjct: 61 GLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGT 120 Query: 120 SLYFLFGKVDWLGKYDGISGIPALH-VLGVDLAQERHLYYLIWAIVLAAAWISLNLLDSR 178 + L ++ +L +G GI ++G D E +YL+ +++ + + +L S Sbjct: 121 IIQILINEMTFLT--EGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMVLSMLVVHRILKSN 178 Query: 179 AGRAIRALKGGRSMAEAMGVDTGRYKILIFVLAALLAAVSGWLFAHMQRTVNPSPFSLAM 238 GRA +AL+ ++ MGV RYK+ F+++A LA +SG L+A+ + ++P+ ++ + Sbjct: 179 LGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFEL 238 Query: 239 GIEYLFIVVVGGIAHIWGALLGAAALKLLSDQLQVLLPALLGDGGSYESI---------- 288 I +L V++GG G+L+GA + V+LP+LL D + I Sbjct: 239 TIMFLLAVIMGGRKSRIGSLIGAL--------IVVMLPSLLSDIALFRQIATVLAVIVVV 290 Query: 289 ------------------------------------------VFGLILIVLLKYARGGLW 306 +FGL+ + ++ Y + G+ Sbjct: 291 GAGVQVARKTKTVRGVIVPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIV 350 Query: 307 PWVRALWLRVFPPAAPPLRVATG----AAMSKRQGPARGAPLLQVDQINKRFGGLVAVNG 362 + R L+ RV P + G A ++ GA LL+V+QI +FGGL A+N Sbjct: 351 GFCRTLFGRVLTKHVPVAQQIAGDKERAVITTDSVKDAGATLLKVNQILMQFGGLKALNR 410 Query: 363 VSFNVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVAFNGRDIAGLPARAIARLGIA 422 V +V+ G + GLIGPNG+GKST N++TG+ + G V ++GR I+G AIA G+A Sbjct: 411 VDLDVRKGTVHGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVA 470 Query: 423 RTFQHVRLLPGMSVLENVALGAHMRSEQGFLRNTVNAMLHLER--AEEQALLDEAARALH 480 RTFQ+V+L M+ ENV +G H F N V+ M + R EEQA + AA L Sbjct: 471 RTFQNVQLFGEMTATENVLVGLH----HTFNSNVVDVMANTPRYVREEQAARERAAAILE 526 Query: 481 RVGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQEL 540 VGL +L +E+A NL G+QR+LEI RAL +P LLLLDEPAAGL + + L +++++ Sbjct: 527 FVGLANLANEEARNLPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKI 586 Query: 541 RADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEIQRHPAVIEAYLG 593 R G++I+L+EH M+ VM + D + V++FG KIAEG P ++Q P VIEAYLG Sbjct: 587 REAGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLG 639 >gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 224 bits (570), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 116/252 (46%), Positives = 169/252 (67%), Gaps = 6/252 (2%) Query: 344 LLQVDQINKRFGGLVAVNGVSFNVKAGEIVGLIGPNGAGKSTTFNLVTGLLHASGGRVAF 403 LL++ ++KRFGGL A+NGV ++ G+I GLIGPNGAGK+T FN++TGL G Sbjct: 5 LLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTFEL 64 Query: 404 NGRDIAGLPARAIARLGIARTFQHVRLLPGMSVLENVALGAHMRSEQGFLRNTVNAMLHL 463 +G+ + +A+ GIARTFQ++RL M+VLENV +G H+R++Q N A+ Sbjct: 65 DGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVRTKQ----NVFGAVFRH 120 Query: 464 E--RAEEQALLDEAARALHRVGLQHLMHEQAGNLALGQQRILEIARALCCDPLLLLLDEP 521 + R EE A+ +++ + L VG+ A +L+ G QR LEIARAL DP LL LDEP Sbjct: 121 KAAREEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALDEP 180 Query: 522 AAGLRHLEKQALSKVLQELRADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQEI 581 AAG+ EK L ++L +++A+G +ILL+EHD++ +M L + I V+++G IAEG P ++ Sbjct: 181 AAGMNATEKLGLRELLVKIQAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPADV 240 Query: 582 QRHPAVIEAYLG 593 Q++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 0.426 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: 1,720,106 Number of extensions: 73190 Number of successful extensions: 851 Number of sequences better than 1.0e-08: 153 Number of HSP's gapped: 623 Number of HSP's successfully gapped: 172 Length of query: 596 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 505 Effective length of database: 1,188,985 Effective search space: 600437425 Effective search space used: 600437425 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)