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= 0033.0027.p (646 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC t... 501 e-143 gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC t... 496 e-141 gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC t... 229 4e-61 gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC t... 195 1e-50 gi|300312954|ref|YP_003777046.1| amino acid ABC transporter perm... 162 9e-41 >gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 334 Score = 501 bits (1290), Expect = e-143, Method: Compositional matrix adjust. Identities = 316/334 (94%), Positives = 321/334 (96%), Gaps = 2/334 (0%) Query: 315 MKQIAHFRYTLLAAAVVLLLPLLLPSGTLATEVLVFALAALGCNLLLGYTGLMSFGQGIF 374 MKQIAHFRYTLLAAAV LLLPLLLPSGTLATEVLVFALAALGCNLLLGYTGLMSFGQGIF Sbjct: 1 MKQIAHFRYTLLAAAVALLLPLLLPSGTLATEVLVFALAALGCNLLLGYTGLMSFGQGIF 60 Query: 375 FGVGSYTTGVVLLQLKLALLPALALAALGGALVALLVGWFSIRQRGTYFVMLTLAFAQMF 434 FGVGSYT GVVLLQLKLALLPALALAALGGALVALLVGWFSIRQRGTYFVMLTLAFAQMF Sbjct: 61 FGVGSYTAGVVLLQLKLALLPALALAALGGALVALLVGWFSIRQRGTYFVMLTLAFAQMF 120 Query: 435 YFLAYTLKDVTGGDNGLLDIPRPPLSLFGITLLPTTSSWQYYTVVAILFVLVFWLLQRVV 494 YFLAYT+KDVTGGDNGLLDIPRPPL+LFG+TLLPTTSSWQYYTVVAILFVLVFWLLQRVV Sbjct: 121 YFLAYTMKDVTGGDNGLLDIPRPPLALFGLTLLPTTSSWQYYTVVAILFVLVFWLLQRVV 180 Query: 495 DSVLGKTLLAVRENEARASALGYDVRLLKLAAFVISGAVTGLAGGLHAMMTGVAPLSNIE 554 DSVLGKTLLAVRENEARASALGYDVRLLKLAAFVISGAVTGLAGGLHAMMTGVAPLSNIE Sbjct: 181 DSVLGKTLLAVRENEARASALGYDVRLLKLAAFVISGAVTGLAGGLHAMMTGVAPLSNIE 240 Query: 555 YHTSEAILVMTVIGGTGNLFASVLGASFYVLVGNWLSTLWPRWLMLLGLLLIAVSLYMQK 614 YHTSEAILVMTVIGGTGNLFASVLGASFYVLVGNWLSTLWPRWLMLLGLLLIAVSLYMQK Sbjct: 241 YHTSEAILVMTVIGGTGNLFASVLGASFYVLVGNWLSTLWPRWLMLLGLLLIAVSLYMQK 300 Query: 615 GLFGLAVKLIDAARGRKD--DAAQATTVTKEKHS 646 GLFGLA+K+IDA RG K A T TKEKHS Sbjct: 301 GLFGLAMKIIDAVRGNKGASAQAATATATKEKHS 334 >gi|300313932|ref|YP_003778024.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 496 bits (1276), Expect = e-141, Method: Compositional matrix adjust. Identities = 269/283 (95%), Positives = 274/283 (96%) Query: 1 MNIYLLQIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCYEATSRGLDF 60 MNIYLLQIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLC++ T GL F Sbjct: 1 MNIYLLQIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCFQVTDLGLGF 60 Query: 61 WWSLFIAPAAVGLFAWVVERFVLRHVYALPHHFHILFTVGMALVIQEAVISVWGPLGNNV 120 WWSL IAP VGLFAW+VERFVLRHVYALPHHFHILFTVGMALVIQEAVIS WGPLGNNV Sbjct: 61 WWSLLIAPLVVGLFAWIVERFVLRHVYALPHHFHILFTVGMALVIQEAVISTWGPLGNNV 120 Query: 121 SPPDLLQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVSL 180 +PPDLLQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVSL Sbjct: 121 APPDLLQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVSL 180 Query: 181 LGLNIQRIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVVGGLGSFWGA 240 LGLNI RIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVV+GGLGSFWGA Sbjct: 181 LGLNINRIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVIGGLGSFWGA 240 Query: 241 LIGGILVGIVQSVMSTVWSEGAHLMIYVAMAAVMLLRPNGLLG 283 LIGGILVGIVQSVMSTVWSEGAHLMIYVAMAAVMLLRPNGLLG Sbjct: 241 LIGGILVGIVQSVMSTVWSEGAHLMIYVAMAAVMLLRPNGLLG 283 >gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 628 Score = 229 bits (585), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 214/616 (34%), Positives = 314/616 (50%), Gaps = 58/616 (9%) Query: 6 LQIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCYEATSR----GLDFW 61 +Q+ NG+ F++A GLS++FG+ R VNF+HG+F++LG YL Y R +W Sbjct: 8 VQLLNGLADASAMFMVAAGLSLIFGVTRIVNFAHGSFYMLGLYLAYSLVDRLGATPWGYW 67 Query: 62 WSLFIAPAAVGLFAWVVERFVLRHVYALPHHFHILFTVGMALVIQEAVISVWGPLGNNVS 121 +L +A V +VE +LR +Y P F +L T + LVI++A + WGP ++ Sbjct: 68 AALLLAALPVAALGALVELTILRRIYRAPELFQLLATFALVLVIKDAALWYWGP--EDLF 125 Query: 122 PPDL--LQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVS 179 P L G V G P+Y L ++ + ++ LLW +L TR G+++RA ++ EM+ Sbjct: 126 GPRAPGLAGAVQVLGRRLPQYDLLLMAIGPLVFALLWLLLNRTRWGALIRAATQDREMLG 185 Query: 180 LLGLNIQRIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVVGGLGSFWG 239 LG+N +F+ VFALG AGL GAL P A+ + ++ +G AFVVVVVGG+GS G Sbjct: 186 ALGVNQAWLFTGVFALGCFLAGLGGALQGPRLPANLALDLDTIGTAFVVVVVGGMGSIGG 245 Query: 240 ALIGGILVGIVQSV---MSTVWSEGAHLMI--------YVAMAAVMLLRPNGLLGPKPPP 288 A +L+ V+++ + TV G L + ++ MA ++++RP GLLG KP Sbjct: 246 AFAAAVLIAEVKALCIALGTVSCFGIELSLSRLTLVAEFLVMAVILVVRPWGLLG-KPLA 304 Query: 289 QKPPKTGPEAALRHLTPPDVF-------CTEAFMKQIAHFRYTLLAAAVVLLLPLLLPSG 341 + EA LR + + + A F Y LP+L+ Sbjct: 305 LVRAASHHEAPLRAASQRERWAAMVLLAALLALPLLAGRFPY----------LPVLM--- 351 Query: 342 TLATEVLVFALAALGCNLLLGYTGLMSFGQGIFFGVGSYTTGVVLLQLKLALLPALALAA 401 E+LV L A + L+G G++SFG +FG+G+Y +V L+L+ +P LA Sbjct: 352 ---VEILVAVLFAASLHFLMGPGGMVSFGHAAYFGLGAYAAALVTLRLQWP-MPLAMLAG 407 Query: 402 LGGA-LVALLVGWFSIRQRGTYFVMLTLAFAQMFYFLAYTLKDVTGGDNGLLDIPRPPLS 460 G A L ALL GWF +R G Y MLTLAFAQ+ + Y D+TGG NGL+ + Sbjct: 408 AGTAMLAALLFGWFCVRLSGVYLAMLTLAFAQIVWAAIYQWDDLTGGSNGLVGLR----- 462 Query: 461 LFGITLLPTTSSWQYYTVVAILFVLVFWLLQRVVDSVLGKTLLAVRENEARASALGYDVR 520 T S YY + + L +LL+RV+ + G L A R+ RA ALG DVR Sbjct: 463 ----TAAALASPLAYYYLALLCSALGVYLLRRVIHAPFGLALRAARDASGRAQALGMDVR 518 Query: 521 LLKLAAFVISGAVTGLAGGLHAMMTGVAPLSNIEYHTSEAILVMTVIGGTGNLFASVLGA 580 L+ F ++G GLAG L A G + S LVM ++GG +L +LGA Sbjct: 519 ALQWGGFALAGLFCGLAGVLFAFSKGSISPEVAGVNRSVDGLVMVLLGGVQSLAGPLLGA 578 Query: 581 SFYVLVGNWLSTLWPR 596 S + WL L R Sbjct: 579 SVF----TWLQDLVAR 590 >gi|300314070|ref|YP_003778162.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 195 bits (495), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 103/272 (37%), Positives = 170/272 (62%), Gaps = 1/272 (0%) Query: 15 GMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCYEATSR-GLDFWWSLFIAPAAVGL 73 G Y +L++GL+++FGLL +NF+HG ++LGA+L + S GL++W L +AP VG Sbjct: 22 GSFYAMLSLGLAVIFGLLNVINFAHGTLYMLGAFLAWMGLSYLGLNYWVMLIVAPILVGA 81 Query: 74 FAWVVERFVLRHVYALPHHFHILFTVGMALVIQEAVISVWGPLGNNVSPPDLLQGVVMWG 133 F V+E+ +LR +Y L H + +L T G+ L+I+ S++G G S PDLLQG G Sbjct: 82 FGIVIEKTMLRWLYKLDHLYGLLLTFGITLMIEGIFRSIYGVSGQPYSVPDLLQGATNLG 141 Query: 134 GFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVSLLGLNIQRIFSLVF 193 V P YR +V+ + ++ W+V+E TRLG+ +RAG+E+ ++V G+N+ + +L + Sbjct: 142 FMVLPNYRAWVVVASLIVCFATWFVIEKTRLGAYLRAGTENPKLVEAFGINVPLMVTLTY 201 Query: 194 ALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVVGGLGSFWGALIGGILVGIVQSV 253 G A A AG LAAP+ P MG + F VVV+GG+GS G++I G+++G+++ + Sbjct: 202 GFGVALAAFAGVLAAPVIQVSPLMGSNLIITVFAVVVIGGMGSILGSIITGLVLGLIEGL 261 Query: 254 MSTVWSEGAHLMIYVAMAAVMLLRPNGLLGPK 285 + E + ++++ MA V+++RP GL G + Sbjct: 262 TRVFYPELSATVVFIIMAIVLMVRPAGLFGKE 293 >gi|300312954|ref|YP_003777046.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 162 bits (409), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 104/297 (35%), Positives = 165/297 (55%), Gaps = 17/297 (5%) Query: 2 NIYLLQIANGVGIGMLYFLLAVGLSIVFGLLRFVNFSHGAFFLLGAYLCYEATSRGLDFW 61 N+ Q+ N + G++ FL+A GL+++FG++ FVN +HG+FF++GAY+ FW Sbjct: 3 NLIFEQVLNSLQFGVMLFLIASGLTLIFGVMNFVNLAHGSFFMIGAYVAAVVAGASGSFW 62 Query: 62 WSLFIAPAAVGLFAWVVERFVLRHVYALPHHFHILFTVGMALVIQEAVISVWGPLGNNVS 121 L +A A +++E V R +Y H +L T L+ + V +WGP ++ Sbjct: 63 LGLLVALPATAALGFLLEWVVFRRLYQKDHMVQVLATFAFILIFNDGVRMIWGPQPLPLN 122 Query: 122 PPDLLQGVVMWGGFVYPKYRLFVIGLTAVMALLLWWVLEGTRLGSIVRAGSESTEMVSLL 181 P G V G Y YRL V+ + V+A+ L++++ TR+G VRAG+ + EMV+ + Sbjct: 123 MPAAFAGPVNLFGLPYSSYRLLVMAVGVVVAIALYFLINRTRIGMWVRAGANNLEMVTAM 182 Query: 182 GLNIQRIFSLVFALGAATAGLAGALAAPIRGADPFMGVEALGIAFVVVVVGGLGSFWGAL 241 G+NI+ +F LVF+ G A LAG + P+ MG + L +AFVVVV+GG+GS GA Sbjct: 183 GINIRLLFRLVFSFGLLLAALAGIMLGPLVAVQAGMGDDVLILAFVVVVIGGIGSVPGAA 242 Query: 242 IGGILVGIVQSV-----------------MSTVWSEGAHLMIYVAMAAVMLLRPNGL 281 IG ++VG+V ++ ++V +MIY+ M AV+ RP+GL Sbjct: 243 IGALIVGVVDTLGRSLLPQLFALFLSADAAASVGPALGSMMIYLVMIAVLFWRPSGL 299 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 0.328 0.143 0.439 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: 1,595,722 Number of extensions: 59586 Number of successful extensions: 450 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 402 Number of HSP's successfully gapped: 51 Length of query: 646 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 555 Effective length of database: 1,188,985 Effective search space: 659886675 Effective search space used: 659886675 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 134 (56.2 bits)