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= 0001.3986.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|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 1098 0.0 gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 665 0.0 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 640 0.0 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 279 5e-76 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 = 1098 bits (2841), Expect = 0.0, Method: Compositional matrix adjust. Identities = 558/596 (93%), Positives = 576/596 (96%) Query: 1 MNAFTSHRAALPVLFFAIVLALPLLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISF 60 M AF SHRAALP LFFAIVLALP LGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISF Sbjct: 1 MTAFISHRAALPALFFAIVLALPQLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISF 60 Query: 61 GQAAFVGIGAYTTAYLTTQFGLSPWIGLLAGIALTALSAFLIGALTMRISGHYLPLSTIA 120 GQAAFVG+GAYTTAYLTTQFGLSPWIGLLAGIALTA SAFLIG+LTMRISGHYLPLSTIA Sbjct: 61 GQAAFVGMGAYTTAYLTTQFGLSPWIGLLAGIALTACSAFLIGSLTMRISGHYLPLSTIA 120 Query: 121 WGLSLYYLFGNLEMLGKHDGINGIPAIAIGSVEFGNGPSMYLLIWVVVILALVSVLNFLD 180 WGLSLYYLFGNLEMLGKHDGINGIP I IGSVEFGNG SMYLLIWVV+ILALVSV+NFLD Sbjct: 121 WGLSLYYLFGNLEMLGKHDGINGIPVITIGSVEFGNGASMYLLIWVVLILALVSVVNFLD 180 Query: 181 SRAGRAVRALRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGL 240 SRAGRAVRALRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGL Sbjct: 181 SRAGRAVRALRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGL 240 Query: 241 KYGIDYLLMVVVGGAGYVWGALLGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVI 300 KYGIDYLLMVVVGGAG+V GA+LGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVI Sbjct: 241 KYGIDYLLMVVVGGAGHVAGAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVI 300 Query: 301 FLQFANEGLWPRLQARFGRRLAPRLPADAAALAQLPKPTRGEVILDVQAARKQFGGLVAV 360 FLQFANEGLWPRLQARFGRR LPADAA LAQ+ KP RGEVILDV+AARKQFGGLVAV Sbjct: 301 FLQFANEGLWPRLQARFGRRRPRPLPADAAPLAQMAKPARGEVILDVEAARKQFGGLVAV 360 Query: 361 NDVSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLSITSGKLDYRGQSLAGLSSRDIASRG 420 N+VSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLS++SGKL YRGQSLAGLSSRDI+SRG Sbjct: 361 NNVSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLSVSSGKLLYRGQSLAGLSSRDISSRG 420 Query: 421 IARTFQHVRLVPGMSVLENAAMGAFRRGEFAPQRGILASLVRGNRREEARILSEARRQLE 480 IARTFQHVRLVPGMSVLENAAMGAFRRG+FAPQRGILASL+R NR EEARILSEARRQLE Sbjct: 421 IARTFQHVRLVPGMSVLENAAMGAFRRGQFAPQRGILASLLRANRSEEARILSEARRQLE 480 Query: 481 RVGLGELMHRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEKQALAALLDKL 540 RVGLG+L+ RPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEK+ALAALLDKL Sbjct: 481 RVGLGDLVDRPAGSLALGQQRILEIARALCCDPALLLLDEPAAGLRLKEKEALAALLDKL 540 Query: 541 RGEGMAVLLVEHDMDFVMQLTDHIVVMEFGSKIAEGTPAQIQVHPAVLEAYLGGAQ 596 RGEGMAVLLVEHDMDFVMQLTDHIVVMEFG+KIAEGTPAQIQVHPAVLEAYLGGAQ Sbjct: 541 RGEGMAVLLVEHDMDFVMQLTDHIVVMEFGAKIAEGTPAQIQVHPAVLEAYLGGAQ 596 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 665 bits (1717), Expect = 0.0, Method: Compositional matrix adjust. Identities = 349/579 (60%), Positives = 447/579 (77%), Gaps = 4/579 (0%) Query: 22 LPLLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGIGAYTTAYLTTQFG 81 PLL P FWV +Y+GLYA+VA+GLVLLTG+ G+ SFGQAAFVG+GAYTT+YLTT G Sbjct: 19 FPLLPTPQFWVIQANYIGLYALVAIGLVLLTGIGGMTSFGQAAFVGMGAYTTSYLTTVHG 78 Query: 82 LSPWIGLLAGIALTALSAFLIGALTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDGI 141 +SPW+ L G+ +T +SA+++G +T+R+SGHYLPL+TIAWG+SLY+LFG ++ LGK+DGI Sbjct: 79 VSPWLTLPVGLFITGVSAYVLGRITLRMSGHYLPLATIAWGISLYFLFGKVDFLGKYDGI 138 Query: 142 NGIPAIAIGSVEFGNGPSMYLLIWVVVILALVSVLNFLDSRAGRAVRALRFGTVMPEAMG 201 +GIPA+ + ++ +Y LIW +V+ A LN LDSRAGRA+RAL+ G M EAMG Sbjct: 139 SGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDSRAGRAIRALKGGRSMAEAMG 198 Query: 202 VDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGGAGYVWGA 261 VDT R KI+IFV+AA+LA +SGWL+AH+Q+ VNP+PF L GI+YL +VVVGG ++WGA Sbjct: 199 VDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLAMGIEYLFIVVVGGIAHIWGA 258 Query: 262 LLGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGLWPRLQARFGRRL 321 LLGAG+L +LS+ LQ LP +LG GG++E+IVFG+ L++ L++A GLWP ++A + R Sbjct: 259 LLGAGVLKLLSDQLQVLLPALLGDGGSYESIVFGLILILLLKYAGGGLWPWVRALWLRAF 318 Query: 322 ----APRLPADAAALAQLPKPTRGEVILDVQAARKQFGGLVAVNDVSFSVKAGEIVGLIG 377 AP A A A+ + RG +L+V K+FGGLVAVNDVSF VKAGEIVGLIG Sbjct: 319 PTAPAPLRVAHATAMDKRAAVARGAPLLEVDQINKRFGGLVAVNDVSFKVKAGEIVGLIG 378 Query: 378 PNGAGKSTTFNLVTGVLSITSGKLDYRGQSLAGLSSRDIASRGIARTFQHVRLVPGMSVL 437 PNGAGKSTTFNLVTG+L + G++ + G+ +AGL +R IA GIARTFQHVRL+PGM+VL Sbjct: 379 PNGAGKSTTFNLVTGLLHASGGRVGFNGRDIAGLPARAIARLGIARTFQHVRLLPGMTVL 438 Query: 438 ENAAMGAFRRGEFAPQRGILASLVRGNRREEARILSEARRQLERVGLGELMHRPAGSLAL 497 EN A+GA R + + + +++ R EE +L EA R L RVGL LMH AG+LAL Sbjct: 439 ENVALGAHMRSQQGFLKNTVNAMLHLERAEEQALLDEAARALHRVGLQHLMHEQAGNLAL 498 Query: 498 GQQRILEIARALCCDPALLLLDEPAAGLRLKEKQALAALLDKLRGEGMAVLLVEHDMDFV 557 GQQRILEIARALCCDP LLLLDEPAAGLR EKQAL+ +L +LR +GM++LLVEHDM+FV Sbjct: 499 GQQRILEIARALCCDPLLLLLDEPAAGLRHLEKQALSKVLQELRADGMSILLVEHDMEFV 558 Query: 558 MQLTDHIVVMEFGSKIAEGTPAQIQVHPAVLEAYLGGAQ 596 M+LTDHIVVMEFG+KIAEGTP +I HPAV+EAYLGG + 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 = 640 bits (1651), Expect = 0.0, Method: Compositional matrix adjust. Identities = 348/579 (60%), Positives = 440/579 (75%), Gaps = 18/579 (3%) Query: 30 FWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGIGAYTTAYLTTQ---------F 80 F++TLL+ +GL ++V LGLVLLTGVAGL SFGQAAFVG+GAY +A L+ + + Sbjct: 31 FYMTLLNNIGLASLVVLGLVLLTGVAGLTSFGQAAFVGLGAYFSAALSAKVLPLPEALLW 90 Query: 81 GLSPWIGLLAGIALTALSAFLIGALTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDG 140 SPW L + LTAL AF +G++T+++SGHYLPL TIAWG+SLY++FG LE +G G Sbjct: 91 LQSPWPALAVALVLTALLAFAVGSVTLKLSGHYLPLGTIAWGISLYFIFGTLESMGGQTG 150 Query: 141 INGIPAIAIGSVEFGNGPSMYLLIWVVVILALVSVLNFLDSRAGRAVRALRFGTVMPEAM 200 ++GIP+IA V + +M+ LIWV V+L + ++ N LDSR GRA+RAL+ G VM EAM Sbjct: 151 MSGIPSIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDSREGRAIRALKGGIVMAEAM 210 Query: 201 GVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGGAGYVWG 260 GV+TAR++IV+FV AAVLA +SGWLY H+Q+ VNP+PFGL +GIDYL M V+GGA +VWG Sbjct: 211 GVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLGFGIDYLFMAVLGGASHVWG 270 Query: 261 ALLGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGLWP---RLQARF 317 A+LG+ L+ VL +LQ LP VLG GNFE IVFG+ +V+ LQ + EG+WP RL Sbjct: 271 AVLGSSLIVVLKEWLQGLLPVVLGRSGNFETIVFGLLIVVLLQRSREGIWPYLARLAPVR 330 Query: 318 GRRLAPRLPADAAALAQLPKPTRGEVILDVQAARKQFGGLVAVNDVSFSVKAGEIVGLIG 377 RRL + A A AL + P PT EV+LDV++ ++FGGLVA N++S V AGE++ LIG Sbjct: 331 TRRLV--IDAQAEALPRRPMPTPQEVVLDVRSVTRKFGGLVANNNMSLKVMAGEVLALIG 388 Query: 378 PNGAGKSTTFNLVTGVLSITSGKLDYRGQSLAGLSSRDIASRGIARTFQHVRLVPGMSVL 437 PNGAGKST FN ++GV + TSG + +RGQ + G SR IA G++R+FQHVRL+P M+VL Sbjct: 389 PNGAGKSTLFNQISGVDTPTSGSVQFRGQEVTGRGSRHIAGLGMSRSFQHVRLMPRMTVL 448 Query: 438 ENAAMGAFRRGEFAPQRGILASLVRGNRREEARILSEARRQLERVGLGELMHRPAGSLAL 497 EN A+GA+ RG QRG+LAS++R +R+EEARIL+EA RQ+ERVGL M+ AG+L+L Sbjct: 449 ENVAIGAYLRG----QRGVLASMLRLDRKEEARILAEAARQIERVGLKAQMYELAGALSL 504 Query: 498 GQQRILEIARALCCDPALLLLDEPAAGLRLKEKQALAALLDKLRGEGMAVLLVEHDMDFV 557 GQQRILEIARAL DP LLLLDEPAAGLRL EKQALA LL KLRGEGMA+LLVEHDMDFV Sbjct: 505 GQQRILEIARALAADPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLVEHDMDFV 564 Query: 558 MQLTDHIVVMEFGSKIAEGTPAQIQVHPAVLEAYLGGAQ 596 M+L D IVVM+FG KIAEG PA IQ +PAVLEAYLG A Sbjct: 565 MELVDRIVVMDFGQKIAEGLPADIQNNPAVLEAYLGVAD 603 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 279 bits (713), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 205/631 (32%), Positives = 328/631 (51%), Gaps = 69/631 (10%) Query: 22 LPLLGLPPFWVTLLSYVGLYAIVALGLVLLTGVAGLISFGQAAFVGIGAYTTAYLTTQFG 81 +P++ P+++ L+ + +YAI+ GL ++ G G +S G A GIG+Y L + G Sbjct: 19 IPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYAAGVLFFKLG 78 Query: 82 LSPWIGLLAGIALTALSAFLIGALTMRISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDGI 141 + ++ + A IA+TA+ ++ +R++G YL + T+A+G + L + L +G Sbjct: 79 MPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGTIIQILINEMTFL--TEGP 136 Query: 142 NGI----PAI---AIGSVEFGNGPSMYLLIWVVVILALVSVLNFLDSRAGRAVRALRFGT 194 GI P I + V+F + L+ V+++L+++ V L S GRA +ALR Sbjct: 137 LGIKLQKPMIGGDKMSEVQF------FYLVAVLMVLSMLVVHRILKSNLGRAFQALRDSP 190 Query: 195 VMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGG 254 + + MGV R K+ F+ +A LAG+SG LYA+ ++ ++P + + I +LL V++GG Sbjct: 191 IASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTIMFLLAVIMGG 250 Query: 255 AGYVWGALLGAGLLAVLSNFLQEW---------------------------------LPG 281 G+L+GA ++ +L + L + +P Sbjct: 251 RKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLAVIVVVGAGVQVARKTKTVRGVIVPV 310 Query: 282 V-----------LGTGGNFEAIVFGIALVIFLQFANEGLWPRLQARFGRRLAPRLPA--- 327 V L ++ +FG+ + + + +G+ + FGR L +P Sbjct: 311 VATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYLQDGIVGFCRTLFGRVLTKHVPVAQQ 370 Query: 328 -----DAAALAQLPKPTRGEVILDVQAARKQFGGLVAVNDVSFSVKAGEIVGLIGPNGAG 382 + A + G +L V QFGGL A+N V V+ G + GLIGPNG+G Sbjct: 371 IAGDKERAVITTDSVKDAGATLLKVNQILMQFGGLKALNRVDLDVRKGTVHGLIGPNGSG 430 Query: 383 KSTTFNLVTGVLSITSGKLDYRGQSLAGLSSRDIASRGIARTFQHVRLVPGMSVLENAAM 442 KST N++TG+ T G ++Y G+ ++G IA G+ARTFQ+V+L M+ EN + Sbjct: 431 KSTMMNVLTGIYRPTDGVVEYDGRPISGNVPSAIALGGVARTFQNVQLFGEMTATENVLV 490 Query: 443 GAFRRGEFAPQRGILASLVRGNRREEARILSEARRQLERVGLGELMHRPAGSLALGQQRI 502 G + ++A+ R REE A LE VGL L + A +L G+QR+ Sbjct: 491 GLHHTFN-SNVVDVMANTPR-YVREEQAARERAAAILEFVGLANLANEEARNLPYGKQRL 548 Query: 503 LEIARALCCDPALLLLDEPAAGLRLKEKQALAALLDKLRGEGMAVLLVEHDMDFVMQLTD 562 LEI RAL +P+LLLLDEPAAGL + + L A++ K+R G+ ++L+EH MD VM + D Sbjct: 549 LEIGRALGLNPSLLLLDEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHMDVVMSICD 608 Query: 563 HIVVMEFGSKIAEGTPAQIQVHPAVLEAYLG 593 + V++FG KIAEG PAQ+Q P V+EAYLG Sbjct: 609 TVTVLDFGQKIAEGKPAQVQADPKVIEAYLG 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 = 112/254 (44%), Positives = 164/254 (64%), Gaps = 6/254 (2%) Query: 342 EVILDVQAARKQFGGLVAVNDVSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLSITSGKL 401 + +L ++ K+FGGL A+N V +++ G+I GLIGPNGAGK+T FN++TG+ +G Sbjct: 3 QTLLKIRDVSKRFGGLQALNGVGITIERGQIYGLIGPNGAGKTTFFNVITGLYQPDTGTF 62 Query: 402 DYRGQSLAGLSSRDIASRGIARTFQHVRLVPGMSVLENAAMGAFRRGEFAPQRGILASLV 461 + G+ + + ++A GIARTFQ++RL M+VLEN +G R ++ + ++ Sbjct: 63 ELDGKPYSPSAPHEVAKAGIARTFQNIRLFGEMTVLENVMVGCHVR----TKQNVFGAVF 118 Query: 462 RGN--RREEARILSEARRQLERVGLGELMHRPAGSLALGQQRILEIARALCCDPALLLLD 519 R R EEA I ++++ L+ VG+G+ R A L+ G QR LEIARAL DP LL LD Sbjct: 119 RHKAAREEEAAIREKSQKLLDFVGIGQFAKRTARHLSYGDQRRLEIARALATDPQLLALD 178 Query: 520 EPAAGLRLKEKQALAALLDKLRGEGMAVLLVEHDMDFVMQLTDHIVVMEFGSKIAEGTPA 579 EPAAG+ EK L LL K++ EG +LL+EHD+ +M L + I V+++G IAEG PA Sbjct: 179 EPAAGMNATEKLGLRELLVKIQAEGKTILLIEHDVKLMMGLCNRITVLDYGKPIAEGVPA 238 Query: 580 QIQVHPAVLEAYLG 593 +Q +PAV+EAYLG Sbjct: 239 DVQKNPAVIEAYLG 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 0.419 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: 1,618,019 Number of extensions: 60696 Number of successful extensions: 731 Number of sequences better than 1.0e-08: 152 Number of HSP's gapped: 555 Number of HSP's successfully gapped: 170 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)