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= 0012.0103.p (599 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... 934 0.0 gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 677 0.0 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 639 0.0 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 271 8e-74 gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC t... 212 6e-56 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 934 bits (2413), Expect = 0.0, Method: Compositional matrix adjust. Identities = 469/585 (80%), Positives = 522/585 (89%) Query: 15 PVIVLLVVLALPFLSVPPFWITLLSYVGLYSIVALGLVMLTGVAGLTSFGQAAFVGIGAY 74 P + +VLALP L +PPFW+TLLSYVGLY+IVALGLV+LTGVAGL SFGQAAFVG+GAY Sbjct: 12 PALFFAIVLALPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGMGAY 71 Query: 75 TTAYVTTQFGLSPWIGLLAGVLITGVSALLIGAVTMRISGHFLPLSTIAWGLSLYFLFGN 134 TTAY+TTQFGLSPWIGLLAG+ +T SA LIG++TMRISGH+LPLSTIAWGLSLY+LFGN Sbjct: 72 TTAYLTTQFGLSPWIGLLAGIALTACSAFLIGSLTMRISGHYLPLSTIAWGLSLYYLFGN 131 Query: 135 LESLGKYDGIGGIPSISLFNFEFSSGKSMYVLIWVVVILALVSVKNFLNSRTGRAVRALK 194 LE LGK+DGI GIP I++ + EF +G SMY+LIWVV+ILALVSV NFL+SR GRAVRAL+ Sbjct: 132 LEMLGKHDGINGIPVITIGSVEFGNGASMYLLIWVVLILALVSVVNFLDSRAGRAVRALR 191 Query: 195 FGYVMPEAMGVNTVWLKIVIFVYAAMLAGVSGWLYAHLQHAVNPTPFGLKYGIDYLLMVV 254 FG VMPEAMGV+T LKIVIFVYAA+LAG+SGWLYAHLQ AVNPTPFGLKYGIDYLLMVV Sbjct: 192 FGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVV 251 Query: 255 VGGAGYVWGALLGAGLITLLGNFLQEWLPAVLGTGGNFEAIVFGIALVLFLQYANEGLWP 314 VGGAG+V GA+LGAGL+ +L NFLQEWLP VLGTGGNFEAIVFGIALV+FLQ+ANEGLWP Sbjct: 252 VGGAGHVAGAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGLWP 311 Query: 315 FIQARFPGRPSARAPEEAPALAHKDKPAAGDVILDVKAARKQFGGLVAVNDVSFSVKAGE 374 +QARF R P +A LA KPA G+VILDV+AARKQFGGLVAVN+VSFSVKAGE Sbjct: 312 RLQARFGRRRPRPLPADAAPLAQMAKPARGEVILDVEAARKQFGGLVAVNNVSFSVKAGE 371 Query: 375 VVGLIGPNGAGKSTTFNLVTGVLPITSGEVNYRGRSIAGLSSRQIASRGIARTFQHVRLV 434 +VGLIGPNGAGKSTTFNLVTGVL ++SG++ YRG+S+AGLSSR I+SRGIARTFQHVRLV Sbjct: 372 IVGLIGPNGAGKSTTFNLVTGVLSVSSGKLLYRGQSLAGLSSRDISSRGIARTFQHVRLV 431 Query: 435 PGMSVLENAAMGAYLRGDRAAQGGALASVLRLNRKEEDKILLEAKRQLERVGLGDMLYRP 494 PGMSVLENAAMGA+ RG A Q G LAS+LR NR EE +IL EA+RQLERVGLGD++ RP Sbjct: 432 PGMSVLENAAMGAFRRGQFAPQRGILASLLRANRSEEARILSEARRQLERVGLGDLVDRP 491 Query: 495 AGSLALGQQRILEIARALCCDPALLLLDEPAAGLRYKEKEALSELLRKLRAEGMAVLLVE 554 AGSLALGQQRILEIARALCCDPALLLLDEPAAGLR KEKEAL+ LL KLR EGMAVLLVE Sbjct: 492 AGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEKEALAALLDKLRGEGMAVLLVE 551 Query: 555 HDMDFVMQLTDHIVVMEFGTKIAEGTPAQIQVHPAVLEAYLGGVE 599 HDMDFVMQLTDHIVVMEFG KIAEGTPAQIQVHPAVLEAYLGG + Sbjct: 552 HDMDFVMQLTDHIVVMEFGAKIAEGTPAQIQVHPAVLEAYLGGAQ 596 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 677 bits (1746), Expect = 0.0, Method: Compositional matrix adjust. Identities = 350/579 (60%), Positives = 448/579 (77%), Gaps = 4/579 (0%) Query: 25 LPFLSVPPFWITLLSYVGLYSIVALGLVMLTGVAGLTSFGQAAFVGIGAYTTAYVTTQFG 84 P L P FW+ +Y+GLY++VA+GLV+LTG+ G+TSFGQAAFVG+GAYTT+Y+TT G Sbjct: 19 FPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMGAYTTSYLTTVHG 78 Query: 85 LSPWIGLLAGVLITGVSALLIGAVTMRISGHFLPLSTIAWGLSLYFLFGNLESLGKYDGI 144 +SPW+ L G+ ITGVSA ++G +T+R+SGH+LPL+TIAWG+SLYFLFG ++ LGKYDGI Sbjct: 79 VSPWLTLPVGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLFGKVDFLGKYDGI 138 Query: 145 GGIPSISLFNFEFSSGKSMYVLIWVVVILALVSVKNFLNSRTGRAVRALKFGYVMPEAMG 204 GIP++ L + + + +Y LIW +V+ A N L+SR GRA+RALK G M EAMG Sbjct: 139 SGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGRAIRALKGGRSMAEAMG 198 Query: 205 VNTVWLKIVIFVYAAMLAGVSGWLYAHLQHAVNPTPFGLKYGIDYLLMVVVGGAGYVWGA 264 V+T KI+IFV+AA+LA VSGWL+AH+Q VNP+PF L GI+YL +VVVGG ++WGA Sbjct: 199 VDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIEYLFIVVVGGIAHIWGA 258 Query: 265 LLGAGLITLLGNFLQEWLPAVLGTGGNFEAIVFGIALVLFLQYANEGLWPFIQA----RF 320 LLGAG++ LL + LQ LPA+LG GG++E+IVFG+ L+L L+YA GLWP+++A F Sbjct: 259 LLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYAGGGLWPWVRALWLRAF 318 Query: 321 PGRPSARAPEEAPALAHKDKPAAGDVILDVKAARKQFGGLVAVNDVSFSVKAGEVVGLIG 380 P P+ A A+ + A G +L+V K+FGGLVAVNDVSF VKAGE+VGLIG Sbjct: 319 PTAPAPLRVAHATAMDKRAAVARGAPLLEVDQINKRFGGLVAVNDVSFKVKAGEIVGLIG 378 Query: 381 PNGAGKSTTFNLVTGVLPITSGEVNYRGRSIAGLSSRQIASRGIARTFQHVRLVPGMSVL 440 PNGAGKSTTFNLVTG+L + G V + GR IAGL +R IA GIARTFQHVRL+PGM+VL Sbjct: 379 PNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGIARTFQHVRLLPGMTVL 438 Query: 441 ENAAMGAYLRGDRAAQGGALASVLRLNRKEEDKILLEAKRQLERVGLGDMLYRPAGSLAL 500 EN A+GA++R + + ++L L R EE +L EA R L RVGL +++ AG+LAL Sbjct: 439 ENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHRVGLQHLMHEQAGNLAL 498 Query: 501 GQQRILEIARALCCDPALLLLDEPAAGLRYKEKEALSELLRKLRAEGMAVLLVEHDMDFV 560 GQQRILEIARALCCDP LLLLDEPAAGLR+ EK+ALS++L++LRA+GM++LLVEHDM+FV Sbjct: 499 GQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGMSILLVEHDMEFV 558 Query: 561 MQLTDHIVVMEFGTKIAEGTPAQIQVHPAVLEAYLGGVE 599 M+LTDHIVVMEFG KIAEGTP +I HPAV+EAYLGG+E Sbjct: 559 MELTDHIVVMEFGAKIAEGTPQEIARHPAVIEAYLGGIE 597 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 639 bits (1647), Expect = 0.0, Method: Compositional matrix adjust. Identities = 337/574 (58%), Positives = 431/574 (75%), Gaps = 14/574 (2%) Query: 33 FWITLLSYVGLYSIVALGLVMLTGVAGLTSFGQAAFVGIGAYTTAYVTTQ---------F 83 F++TLL+ +GL S+V LGLV+LTGVAGLTSFGQAAFVG+GAY +A ++ + + Sbjct: 31 FYMTLLNNIGLASLVVLGLVLLTGVAGLTSFGQAAFVGLGAYFSAALSAKVLPLPEALLW 90 Query: 84 GLSPWIGLLAGVLITGVSALLIGAVTMRISGHFLPLSTIAWGLSLYFLFGNLESLGKYDG 143 SPW L +++T + A +G+VT+++SGH+LPL TIAWG+SLYF+FG LES+G G Sbjct: 91 LQSPWPALAVALVLTALLAFAVGSVTLKLSGHYLPLGTIAWGISLYFIFGTLESMGGQTG 150 Query: 144 IGGIPSISLFNFEFSSGKSMYVLIWVVVILALVSVKNFLNSRTGRAVRALKFGYVMPEAM 203 + GIPSI+ S ++M+ LIWV V+L + +++N L+SR GRA+RALK G VM EAM Sbjct: 151 MSGIPSIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDSREGRAIRALKGGIVMAEAM 210 Query: 204 GVNTVWLKIVIFVYAAMLAGVSGWLYAHLQHAVNPTPFGLKYGIDYLLMVVVGGAGYVWG 263 GVNT ++IV+FV AA+LA +SGWLY H+Q VNP+PFGL +GIDYL M V+GGA +VWG Sbjct: 211 GVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLGFGIDYLFMAVLGGASHVWG 270 Query: 264 ALLGAGLITLLGNFLQEWLPAVLGTGGNFEAIVFGIALVLFLQYANEGLWPFIQARFPGR 323 A+LG+ LI +L +LQ LP VLG GNFE IVFG+ +V+ LQ + EG+WP++ P R Sbjct: 271 AVLGSSLIVVLKEWLQGLLPVVLGRSGNFETIVFGLLIVVLLQRSREGIWPYLARLAPVR 330 Query: 324 PSARAPE-EAPALAHKDKPAAGDVILDVKAARKQFGGLVAVNDVSFSVKAGEVVGLIGPN 382 + +A AL + P +V+LDV++ ++FGGLVA N++S V AGEV+ LIGPN Sbjct: 331 TRRLVIDAQAEALPRRPMPTPQEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIGPN 390 Query: 383 GAGKSTTFNLVTGVLPITSGEVNYRGRSIAGLSSRQIASRGIARTFQHVRLVPGMSVLEN 442 GAGKST FN ++GV TSG V +RG+ + G SR IA G++R+FQHVRL+P M+VLEN Sbjct: 391 GAGKSTLFNQISGVDTPTSGSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMTVLEN 450 Query: 443 AAMGAYLRGDRAAQGGALASVLRLNRKEEDKILLEAKRQLERVGLGDMLYRPAGSLALGQ 502 A+GAYLRG R G LAS+LRL+RKEE +IL EA RQ+ERVGL +Y AG+L+LGQ Sbjct: 451 VAIGAYLRGQR----GVLASMLRLDRKEEARILAEAARQIERVGLKAQMYELAGALSLGQ 506 Query: 503 QRILEIARALCCDPALLLLDEPAAGLRYKEKEALSELLRKLRAEGMAVLLVEHDMDFVMQ 562 QRILEIARAL DP LLLLDEPAAGLR EK+AL+ELLRKLR EGMA+LLVEHDMDFVM+ Sbjct: 507 QRILEIARALAADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLVEHDMDFVME 566 Query: 563 LTDHIVVMEFGTKIAEGTPAQIQVHPAVLEAYLG 596 L D IVVM+FG KIAEG PA IQ +PAVLEAYLG Sbjct: 567 LVDRIVVMDFGQKIAEGLPADIQNNPAVLEAYLG 600 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 271 bits (694), Expect = 8e-74, Method: Compositional matrix adjust. Identities = 204/647 (31%), Positives = 331/647 (51%), Gaps = 62/647 (9%) Query: 4 MKNKLVLSAIAPVIVLLVVLALPFLSVPPFWITLLSYVGLYSIVALGLVMLTGVAGLTSF 63 M K++L ++ ++ L +P + P+++ L+ + +Y+I+ GL ++ G G S Sbjct: 1 MNKKILLLSLLGIVALA---GIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSL 57 Query: 64 GQAAFVGIGAYTTAYVTTQFGLSPWIGLLAGVLITGVSALLIGAVTMRISGHFLPLSTIA 123 G A GIG+Y + + G+ ++ + A + +T V ++ +R++G +L + T+A Sbjct: 58 GHAGLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLA 117 Query: 124 WGLSLYFLFGNLESLGKYDGIGGIP-SISLFNFEFSSGKSMYVLIWVVVILALVSVKNFL 182 +G + L + L +G GI + + S + L+ V+++L+++ V L Sbjct: 118 FGTIIQILINEMTFLT--EGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMVLSMLVVHRIL 175 Query: 183 NSRTGRAVRALKFGYVMPEAMGVNTVWLKIVIFVYAAMLAGVSGWLYAHLQHAVNPTPFG 242 S GRA +AL+ + + MGV+ K+ F+ +A LAG+SG LYA+ + ++P + Sbjct: 176 KSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYN 235 Query: 243 LKYGIDYLLMVVVGGAGYVWGALLGAGLITLLGNFLQEW--------------------- 281 + I +LL V++GG G+L+GA ++ +L + L + Sbjct: 236 FELTIMFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQ 295 Query: 282 ------------LPAV-----------LGTGGNFEAIVFGIALVLFLQYANEGLWPFIQA 318 +P V L ++ +FG+ + + Y +G+ F + Sbjct: 296 VARKTKTVRGVIVPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRT 355 Query: 319 RFPGR------PSAR---APEEAPALAHKDKPAAGDVILDVKAARKQFGGLVAVNDVSFS 369 F GR P A+ +E + AG +L V QFGGL A+N V Sbjct: 356 LF-GRVLTKHVPVAQQIAGDKERAVITTDSVKDAGATLLKVNQILMQFGGLKALNRVDLD 414 Query: 370 VKAGEVVGLIGPNGAGKSTTFNLVTGVLPITSGEVNYRGRSIAGLSSRQIASRGIARTFQ 429 V+ G V GLIGPNG+GKST N++TG+ T G V Y GR I+G IA G+ARTFQ Sbjct: 415 VRKGTVHGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQ 474 Query: 430 HVRLVPGMSVLENAAMGAYLRGDRAAQGGALASVLRLNRKEEDKILLEAKRQLERVGLGD 489 +V+L M+ EN +G + + +A+ R +EE A LE VGL + Sbjct: 475 NVQLFGEMTATENVLVGLHHTFNSNVVD-VMANTPRY-VREEQAARERAAAILEFVGLAN 532 Query: 490 MLYRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRYKEKEALSELLRKLRAEGMA 549 + A +L G+QR+LEI RAL +P+LLLLDEPAAGL + + L ++RK+R G+ Sbjct: 533 LANEEARNLPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGIT 592 Query: 550 VLLVEHDMDFVMQLTDHIVVMEFGTKIAEGTPAQIQVHPAVLEAYLG 596 ++L+EH MD VM + D + V++FG KIAEG PAQ+Q P V+EAYLG Sbjct: 593 IILIEHHMDVVMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLG 639 >gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 212 bits (540), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 112/251 (44%), Positives = 162/251 (64%), Gaps = 2/251 (0%) Query: 346 VILDVKAARKQFGGLVAVNDVSFSVKAGEVVGLIGPNGAGKSTTFNLVTGVLPITSGEVN 405 +L ++ K+FGGL A+N V +++ G++ GLIGPNGAGK+T FN++TG+ +G Sbjct: 4 TLLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTFE 63 Query: 406 YRGRSIAGLSSRQIASRGIARTFQHVRLVPGMSVLENAAMGAYLRGDRAAQGGALASVLR 465 G+ + + ++A GIARTFQ++RL M+VLEN +G ++R + G + Sbjct: 64 LDGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVRTKQNVFGAVFRH--K 121 Query: 466 LNRKEEDKILLEAKRQLERVGLGDMLYRPAGSLALGQQRILEIARALCCDPALLLLDEPA 525 R+EE I ++++ L+ VG+G R A L+ G QR LEIARAL DP LL LDEPA Sbjct: 122 AAREEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALDEPA 181 Query: 526 AGLRYKEKEALSELLRKLRAEGMAVLLVEHDMDFVMQLTDHIVVMEFGTKIAEGTPAQIQ 585 AG+ EK L ELL K++AEG +LL+EHD+ +M L + I V+++G IAEG PA +Q Sbjct: 182 AGMNATEKLGLRELLVKIQAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPADVQ 241 Query: 586 VHPAVLEAYLG 596 +PAV+EAYLG Sbjct: 242 KNPAVIEAYLG 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 0.141 0.416 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: 1,639,248 Number of extensions: 65404 Number of successful extensions: 713 Number of sequences better than 1.0e-08: 152 Number of HSP's gapped: 533 Number of HSP's successfully gapped: 172 Length of query: 599 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 508 Effective length of database: 1,188,985 Effective search space: 604004380 Effective search space used: 604004380 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: 41 (22.0 bits) S2: 133 (55.8 bits)