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= 0001.3901.p (346 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t... 566 e-163 gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC t... 315 5e-87 gi|300310682|ref|YP_003774774.1| amino acid ABC transporter perm... 288 4e-79 gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC tr... 80 3e-16 gi|300311114|ref|YP_003775206.1| branched-chain amino acid ABC t... 75 1e-14 >gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 346 Score = 567 bits (1460), Expect = e-163, Method: Compositional matrix adjust. Identities = 330/346 (95%), Positives = 339/346 (97%) Query: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR Sbjct: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 Query: 61 PGPLWLLLVLAVCAAGMQTSALLRAGQAALLPRALLETLALPLAIAALVWWAAPQQFPLP 120 PGPLWLLLVLA+CAAGMQ ++LLRAGQAALLPRALL TL +PL IAALVWWAAPQQF LP Sbjct: 61 PGPLWLLLVLALCAAGMQAASLLRAGQAALLPRALLGTLGVPLVIAALVWWAAPQQFALP 120 Query: 121 VQVLLTLLLITALGPLMYQVVFESLADASVLQLLIVSVGIHLAMTGLGLVFFGAEGFRTP 180 VQVLLTLLLITALGPLMYQVV+ES+ADASVLQLLIVSVGIHLAMTGLGLVFFGAEGFRTP Sbjct: 121 VQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAEGFRTP 180 Query: 181 AFWDERWNLAALTLSAQTVVVVAAAAALLVALWLFSGRTLYGKALRATAVNRLGARLMGI 240 AFWDERWNLA+LTLSAQTVVVVAAAAALLVALW FSGRTLYGKALRATAVNRLGARLMGI Sbjct: 181 AFWDERWNLASLTLSAQTVVVVAAAAALLVALWFFSGRTLYGKALRATAVNRLGARLMGI 240 Query: 241 STTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASFPAAAGG 300 STTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASFPAAAGG Sbjct: 241 STTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASFPAAAGG 300 Query: 301 ALLVGLLESFSSFWASDYKEVIVFMALLPILLWRSLVTPAHDEDEE 346 ALLVGLLESFSSFWASD+KEVIVF+ALLPILLWRSLV PAHDEDEE Sbjct: 301 ALLVGLLESFSSFWASDFKEVIVFLALLPILLWRSLVIPAHDEDEE 346 >gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 350 Score = 315 bits (806), Expect = 5e-87, Method: Compositional matrix adjust. Identities = 186/351 (52%), Positives = 243/351 (69%), Gaps = 7/351 (1%) Query: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 MD+SI +L DG+T G +Y L+++ALVLVF+VTR++F+PQGEFVA+GALTLA +Q GQ Sbjct: 1 MDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 Query: 61 PGPLWLLLVLAVCAAGMQTSALLRAGQAALLPRALL-----ETLALPLAIAALVWWAAPQ 115 P LLL L ++T + LR Q L L LPLAI AL Q Sbjct: 61 PATALLLLALGAVTLAVETGSALRLAQTRARLLRRLPLLLATHLGLPLAILALTRCLDLQ 120 Query: 116 QFPLPVQVLLTLLLITALGPLMYQVVFESLADASVLQLLIVSVGIHLAMTGLGLVFFGAE 175 +P Q+LL LL++ +GP++Y+V ++ LA +SVL LLIVS+G+HLAM GLGL+ FG E Sbjct: 121 ALAMPWQILLALLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE 180 Query: 176 GFRTPAFWDERWNLAALTLSAQTVVVVAAAAALLVALWLFSGRTLYGKALRATAVNRLGA 235 G T F + ++NL +S Q+V+V+ AAL+ +++F RTL GKALRATAVNRLGA Sbjct: 181 GTNTRPFTEMQFNLGESPVSGQSVIVLITVAALIAVIYVFFERTLTGKALRATAVNRLGA 240 Query: 236 RLMGISTTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASFP 295 RL+G+ AGKLSF +AA IGAL G+LI P + + Y+SGF+I LKGFV A G LAS+P Sbjct: 241 RLVGVGINQAGKLSFGMAAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASYP 300 Query: 296 AAAGGALLVGLLESFSSFWASDYKEVIVFMALLPILLWRSLVTPAHDEDEE 346 AA G++ VGL+ESFSSFWAS YKE+IVF ++PILLWRSL + H DEE Sbjct: 301 IAALGSVSVGLIESFSSFWASAYKELIVFTVIIPILLWRSLTS--HHIDEE 349 >gi|300310682|ref|YP_003774774.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 288 bits (737), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 182/352 (51%), Positives = 241/352 (68%), Gaps = 14/352 (3%) Query: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 M+ I A+L DG+TNG +Y L+A+++VLVFTVTRIL IPQGEFV++GALT+ M+Q GQ Sbjct: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP 60 Query: 61 PGPLWLLLVLAVCAAGMQTSALLRAGQAALLPRALLETLALP--LAIAALVWWAAPQ--- 115 WLL+ + + A + R + +L LP LA AA+V A Sbjct: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRR-------PSLWLPAKLAYAAVVGGVALSVNF 113 Query: 116 -QFPLPVQVLLTLLLITALGPLMYQVVFESLADASVLQLLIVSVGIHLAMTGLGLVFFGA 174 P+ VQ+ +TLLL+ LGPLMY++ F+ +A AS L LLIVS+ +H+A+ G+ L+ FG Sbjct: 114 ATLPMLVQIAMTLLLLVPLGPLMYRMAFQPIATASPLVLLIVSIAVHVALVGVALLVFGP 173 Query: 175 EGFRTPAFWDERWNLAALTLSAQTVVVVAAAAALLVALWLFSGRTLYGKALRATAVNRLG 234 EG RT F + L +L LS+Q + V+ + L+V L+L RTLYGKALRA A+NR+G Sbjct: 174 EGARTAPFTEAALELGSLRLSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRMG 233 Query: 235 ARLMGISTTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASF 294 ARLMGIS AGK F +A+ IG +SGVLI P++TI+YDSGFLI LKGFV + IG L S+ Sbjct: 234 ARLMGISPVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSY 293 Query: 295 PAAAGGALLVGLLESFSSFWASDYKEVIVFMALLPILLWRSLVTPAHDEDEE 346 P AA GAL +GL+ESFS+FWAS YKE+IVF+ ++PILLWRSL T H E+EE Sbjct: 294 PLAAAGALAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLTT-RHVEEEE 344 >gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 308 Score = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 55/148 (37%), Positives = 85/148 (57%), Gaps = 8/148 (5%) Query: 192 LTLSAQTVVVVAAAAALLVALWLFSGRTLYGKALRATAVNRLGARLMGISTTLAGKLSFA 251 +T+ +V+V L+VAL LF R+ G+A RA A + A L+GI T +F Sbjct: 151 VTIPYSRMVIVGVTLVLMVALTLFIARSRMGRACRACAEDMGMANLLGIDTNKVISFTFV 210 Query: 252 VAAFIGALSGVL----IGPMSTIFYDSGFLIGLKGFVAATIGALASFPAAAGGALLVGLL 307 + A + A+ GVL IG ++ GF+ G+K F AA +G + S P A G +L+GL Sbjct: 211 LGAMLAAVGGVLIALTIGKLNPYI---GFIAGIKAFTAAVLGGIGSIPGAMLGGVLLGLA 267 Query: 308 ESFSS-FWASDYKEVIVFMALLPILLWR 334 E+F++ + S+YK+V+ F L+ ILL+R Sbjct: 268 ETFAAGYLPSEYKDVVSFGLLVLILLFR 295 >gi|300311114|ref|YP_003775206.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 47/124 (37%), Positives = 78/124 (62%), Gaps = 1/124 (0%) Query: 199 VVVVAAAAALLVALWLFSGRTLYGKALRATAVNRLGARLMGISTTLAGKLSFAVAAFIGA 258 V+VV A ++ A+ LF+ +++YGKA+ AT+ +R A LMGI+T++ S+A+++ A Sbjct: 147 VLVVVGALLIMAAVELFNRKSIYGKAVVATSNDRDAAGLMGINTSMVITFSYALSSATAA 206 Query: 259 LSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASFPAAAGGALLVGLLESFSSFW-ASD 317 +GVL+ P++ G +GLK F A IG L S A G L++G+ E+ + F+ ++ Sbjct: 207 FAGVLVAPLTLTGATMGAALGLKAFAVAIIGGLTSGMGAIVGGLILGVAETLTGFYISTG 266 Query: 318 YKEV 321 YKEV Sbjct: 267 YKEV 270 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 0.327 0.140 0.413 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: 734,822 Number of extensions: 23189 Number of successful extensions: 205 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 11 Length of query: 346 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 260 Effective length of database: 1,212,660 Effective search space: 315291600 Effective search space used: 315291600 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: 131 (55.1 bits)