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= 0001.1646.p (655 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... 1288 0.0 gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 310 3e-85 gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 294 2e-80 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 271 1e-73 gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC t... 258 8e-70 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 1288 bits (3334), Expect = 0.0, Method: Compositional matrix adjust. Identities = 642/655 (98%), Positives = 647/655 (98%) Query: 1 MNKKILLLSLLGIVALGGIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHA 60 MNKKILLLSLLGIVAL GIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHA Sbjct: 1 MNKKILLLSLLGIVALAGIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHA 60 Query: 61 GLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGT 120 GLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGT Sbjct: 61 GLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGT 120 Query: 121 IIQILINEMTFLTEGPMGIKLHKPMIGGEKMSEVQFFYLVAALMVISMLVVHRILKSNLG 180 IIQILINEMTFLTEGP+GIKL KPMIGG+KMSEVQFFYLVA LMV+SMLVVHRILKSNLG Sbjct: 121 IIQILINEMTFLTEGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMVLSMLVVHRILKSNLG 180 Query: 181 RAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTI 240 RAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTI Sbjct: 181 RAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTI 240 Query: 241 LFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKT 300 +FLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKT Sbjct: 241 MFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKT 300 Query: 301 KTVRGVAVPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRNLFGRL 360 KTVRGV VPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCR LFGR+ Sbjct: 301 KTVRGVIVPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRTLFGRV 360 Query: 361 LTKHVPVAQQIAGDKERAVITTDSVKDQGATLLKVNQILMQFGGLKALNRVDLDVRKGTV 420 LTKHVPVAQQIAGDKERAVITTDSVKD GATLLKVNQILMQFGGLKALNRVDLDVRKGTV Sbjct: 361 LTKHVPVAQQIAGDKERAVITTDSVKDAGATLLKVNQILMQFGGLKALNRVDLDVRKGTV 420 Query: 421 HGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFG 480 HGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFG Sbjct: 421 HGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFG 480 Query: 481 EMTATENVLVGLHHTFNSNVVDVMVNTPRYVREEQAARERAAAILEFVGLANLANEEARN 540 EMTATENVLVGLHHTFNSNVVDVM NTPRYVREEQAARERAAAILEFVGLANLANEEARN Sbjct: 481 EMTATENVLVGLHHTFNSNVVDVMANTPRYVREEQAARERAAAILEFVGLANLANEEARN 540 Query: 541 LPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHM 600 LPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHM Sbjct: 541 LPYGKQRLLEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHM 600 Query: 601 DVVMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLGSGAGDAHDNPSSPAGA 655 DVVMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLGSGAGDAHDN SSPAGA Sbjct: 601 DVVMSICDTVTVLDFGQKIAEGKPAQVQADPKVIEAYLGSGAGDAHDNTSSPAGA 655 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 310 bits (793), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 223/629 (35%), Positives = 345/629 (54%), Gaps = 63/629 (10%) Query: 20 PMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYAAGVLFFKLGM 79 P++ +++ I +YA++ GL ++ G G S G A G+G+Y L G+ Sbjct: 20 PLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMGAYTTSYLTTVHGV 79 Query: 80 PIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGTIIQILINEMTFL--TEGPM 137 ++T+P + +T V +L LR++G YL + T+A+G + L ++ FL +G Sbjct: 80 SPWLTLPVGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLFGKVDFLGKYDGIS 139 Query: 138 GIKLHKPMIGGEKMSEVQFFYLVAALMVISMLVVHRILKSNLGRAFQALRDSPIASDCMG 197 GI + + G + E +YL+ A+++ + V +L S GRA +AL+ ++ MG Sbjct: 140 GIPALQ-LAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGRAIRALKGGRSMAEAMG 198 Query: 198 VSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTILFLLAVIMGGRKSRIGS 257 V RYK+ F+ +A LA +SG L+A+ + ++P+ ++ + I +L V++GG G+ Sbjct: 199 VDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIEYLFIVVVGGIAHIWGA 258 Query: 258 LIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKTKTVRGVAVPVVATIAMA 317 L+GA ++ LLSD Q+ +L ++ G Sbjct: 259 LLGAGVL----KLLSD-----QLQVLLPALLGDGG------------------------- 284 Query: 318 AFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRNLFGRLL-TKHVP--VAQQIAGD 374 SY E+I +FGL+ + ++ Y G+ + R L+ R T P VA A D Sbjct: 285 --SY--ESI------VFGLILILLLKYAGGGLWPWVRALWLRAFPTAPAPLRVAHATAMD 334 Query: 375 KERAVITTDSVKDQGATLLKVNQILMQFGGLKALNRVDLDVRKGTVHGLIGPNGSGKSTM 434 K AV +GA LL+V+QI +FGGL A+N V V+ G + GLIGPNG+GKST Sbjct: 335 KRAAV-------ARGAPLLEVDQINKRFGGLVAVNDVSFKVKAGEIVGLIGPNGAGKSTT 387 Query: 435 MNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFGEMTATENVLVGLH- 493 N++TG+ + G V ++GR I+G AIA G+ARTFQ+V+L MT ENV +G H Sbjct: 388 FNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGIARTFQHVRLLPGMTVLENVALGAHM 447 Query: 494 ---HTFNSNVVDVMVNTPRYVREEQAARERAAAILEFVGLANLANEEARNLPYGKQRLLE 550 F N V+ M++ R EEQA + AA L VGL +L +E+A NL G+QR+LE Sbjct: 448 RSQQGFLKNTVNAMLHLER--AEEQALLDEAARALHRVGLQHLMHEQAGNLALGQQRILE 505 Query: 551 IGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHMDVVMSICDTV 610 I RAL +P LLLLDEPAAGL + + L +++++R G++I+L+EH M+ VM + D + Sbjct: 506 IARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGMSILLVEHDMEFVMELTDHI 565 Query: 611 TVLDFGQKIAEGKPAQVQADPKVIEAYLG 639 V++FG KIAEG P ++ P VIEAYLG Sbjct: 566 VVMEFGAKIAEGTPQEIARHPAVIEAYLG 594 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 294 bits (752), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 197/631 (31%), Positives = 329/631 (52%), Gaps = 69/631 (10%) Query: 19 IPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYAAGVLFFKLG 78 +P + P+++ L+ + +YAI+ GL ++ G G +S G A G+G+Y L + G Sbjct: 22 LPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGMGAYTTAYLTTQFG 81 Query: 79 MPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGTIIQILINEMTFL--TEGP 136 + ++ + A IA+TA ++ +R++G YL + T+A+G + L + L +G Sbjct: 82 LSPWIGLLAGIALTACSAFLIGSLTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDGI 141 Query: 137 MGIKLHKPMIGGEKMSEVQF------FYLVAALMVISMLVVHRILKSNLGRAFQALRDSP 190 GI P+I + V+F + L+ +++++++ V L S GRA +ALR Sbjct: 142 NGI----PVI---TIGSVEFGNGASMYLLIWVVLILALVSVVNFLDSRAGRAVRALRFGT 194 Query: 191 IASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTILFLLAVIMGG 250 + + MGV R K+ F+ +A LAG+SG LYA+ ++ ++P + + I +LL V++GG Sbjct: 195 VMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGG 254 Query: 251 RKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKTKTVRGVAVPV 310 G+++GA ++ +L + L + + V+G G Sbjct: 255 AGHVAGAILGAGLLAVLSNFLQEW-----------LPGVLGTG----------------- 286 Query: 311 VATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRNLFGRLLTKHVPVAQQ 370 ++ +FG+ + + + +G+ + FGR + +P Sbjct: 287 ----------------GNFEAIVFGIALVIFLQFANEGLWPRLQARFGRRRPRPLPA--- 327 Query: 371 IAGDKERAVITTDSVKDQGATLLKVNQILMQFGGLKALNRVDLDVRKGTVHGLIGPNGSG 430 + A + + +G +L V QFGGL A+N V V+ G + GLIGPNG+G Sbjct: 328 -----DAAPLAQMAKPARGEVILDVEAARKQFGGLVAVNNVSFSVKAGEIVGLIGPNGAG 382 Query: 431 KSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFGEMTATENVLV 490 KST N++TG+ + G + Y G+ ++G I+ G+ARTFQ+V+L M+ EN + Sbjct: 383 KSTTFNLVTGVLSVSSGKLLYRGQSLAGLSSRDISSRGIARTFQHVRLVPGMSVLENAAM 442 Query: 491 GLHHTFN-SNVVDVMVNTPRYVREEQAA-RERAAAILEFVGLANLANEEARNLPYGKQRL 548 G + ++ + R R E+A A LE VGL +L + A +L G+QR+ Sbjct: 443 GAFRRGQFAPQRGILASLLRANRSEEARILSEARRQLERVGLGDLVDRPAGSLALGQQRI 502 Query: 549 LEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHMDVVMSICD 608 LEI RAL +P+LLLLDEPAAGL + + L A++ K+R G+ ++L+EH MD VM + D Sbjct: 503 LEIARALCCDPALLLLDEPAAGLRLKEKEALAALLDKLRGEGMAVLLVEHDMDFVMQLTD 562 Query: 609 TVTVLDFGQKIAEGKPAQVQADPKVIEAYLG 639 + V++FG KIAEG PAQ+Q P V+EAYLG Sbjct: 563 HIVVMEFGAKIAEGTPAQIQVHPAVLEAYLG 593 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 271 bits (692), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 204/647 (31%), Positives = 330/647 (51%), Gaps = 72/647 (11%) Query: 27 YYLHLIETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYAAGVLFFK-LGMP---IF 82 +Y+ L+ I + ++++ GL ++ G G S G A G+G+Y + L K L +P ++ Sbjct: 31 FYMTLLNNIGLASLVVLGLVLLTGVAGLTSFGQAAFVGLGAYFSAALSAKVLPLPEALLW 90 Query: 83 VTVP-AAIAVTAVFGAILALP----ALRVTGPYLAMVTLAFGTIIQILINEMTFL--TEG 135 + P A+AV V A+LA L+++G YL + T+A+G + + + + G Sbjct: 91 LQSPWPALAVALVLTALLAFAVGSVTLKLSGHYLPLGTIAWGISLYFIFGTLESMGGQTG 150 Query: 136 PMGIKLHKPMIGGEKMSEVQFFYLVAALMVISMLVVHRILKSNLGRAFQALRDSPIASDC 195 GI +G S+ F L+ +++ + + +L S GRA +AL+ + ++ Sbjct: 151 MSGIP-SIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDSREGRAIRALKGGIVMAEA 209 Query: 196 MGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTILFLLAVIMGGRKSRI 255 MGV+ R ++ F+I+A LA LSG LY + + +++P+ + I +L ++GG Sbjct: 210 MGVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLGFGIDYLFMAVLGGASHVW 269 Query: 256 GSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKTKTVRGVAVPVVATIA 315 G+++G+ ++V+L L + +PVV Sbjct: 270 GAVLGSSLIVVLKEWLQGL---------------------------------LPVV---- 292 Query: 316 MAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRNLFGRLLTKHVPVAQQIAGDK 375 L ++ +FGL+ + ++ ++GI + L + T+ + + Q Sbjct: 293 -------LGRSGNFETIVFGLLIVVLLQRSREGIWPYLARL-APVRTRRLVIDAQAEALP 344 Query: 376 ERAVITTDSVKDQGATLLKVNQILMQFGGLKALNRVDLDVRKGTVHGLIGPNGSGKSTMM 435 R + T V +L V + +FGGL A N + L V G V LIGPNG+GKST+ Sbjct: 345 RRPMPTPQEV------VLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIGPNGAGKSTLF 398 Query: 436 NVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFGEMTATENVLVGLHHT 495 N ++G+ PT G V++ G+ ++G IA G++R+FQ+V+L MT ENV +G + Sbjct: 399 NQISGVDTPTSGSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMTVLENVAIGAYLR 458 Query: 496 FNSNVVDVMVNTPRYVREEQAARERAAAILEFVGLANLANEEARNLPYGKQRLLEIGRAL 555 V+ M+ R +EE AA +E VGL E A L G+QR+LEI RAL Sbjct: 459 GQRGVLASMLRLDR--KEEARILAEAARQIERVGLKAQMYELAGALSLGQQRILEIARAL 516 Query: 556 GLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHMDVVMSICDTVTVLDF 615 +P LLLLDEPAAGL + + L ++RK+R G+ I+L+EH MD VM + D + V+DF Sbjct: 517 AADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLVEHDMDFVMELVDRIVVMDF 576 Query: 616 GQKIAEGKPAQVQADPKVIEAYLG-------SGAGDAHDNPSSPAGA 655 GQKIAEG PA +Q +P V+EAYLG GA A + + AGA Sbjct: 577 GQKIAEGLPADIQNNPAVLEAYLGVADEEADEGATAAQPDTAMAAGA 623 >gi|300310523|ref|YP_003774615.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 255 Score = 258 bits (660), Expect = 8e-70, Method: Compositional matrix adjust. Identities = 126/251 (50%), Positives = 171/251 (68%) Query: 391 TLLKVNQILMQFGGLKALNRVDLDVRKGTVHGLIGPNGSGKSTMMNVLTGIYRPTDGVVE 450 TLLK+ + +FGGL+ALN V + + +G ++GLIGPNG+GK+T NV+TG+Y+P G E Sbjct: 4 TLLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTFE 63 Query: 451 YDGRPISGNVPSAIALGGVARTFQNVQLFGEMTATENVLVGLHHTFNSNVVDVMVNTPRY 510 DG+P S + P +A G+ARTFQN++LFGEMT ENV+VG H NV + Sbjct: 64 LDGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVRTKQNVFGAVFRHKAA 123 Query: 511 VREEQAARERAAAILEFVGLANLANEEARNLPYGKQRLLEIGRALGLNPSLLLLDEPAAG 570 EE A RE++ +L+FVG+ A AR+L YG QR LEI RAL +P LL LDEPAAG Sbjct: 124 REEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALDEPAAG 183 Query: 571 LTAPDIKELVAIIRKIREAGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKPAQVQAD 630 + A + L ++ KI+ G TI+LIEH + ++M +C+ +TVLD+G+ IAEG PA VQ + Sbjct: 184 MNATEKLGLRELLVKIQAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPADVQKN 243 Query: 631 PKVIEAYLGSG 641 P VIEAYLG+G Sbjct: 244 PAVIEAYLGAG 254 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 0.400 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: 1,750,246 Number of extensions: 69151 Number of successful extensions: 757 Number of sequences better than 1.0e-08: 144 Number of HSP's gapped: 562 Number of HSP's successfully gapped: 155 Length of query: 655 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 564 Effective length of database: 1,188,985 Effective search space: 670587540 Effective search space used: 670587540 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: 134 (56.2 bits)