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= 0001.1153.p (344 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310682|ref|YP_003774774.1| amino acid ABC transporter perm... 593 e-171 gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC t... 311 5e-86 gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t... 276 2e-75 gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC tr... 73 3e-14 gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC t... 65 1e-11 >gi|300310682|ref|YP_003774774.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 593 bits (1530), Expect = e-171, Method: Compositional matrix adjust. Identities = 326/344 (94%), Positives = 335/344 (97%) Query: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQT 60 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQ Sbjct: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP 60 Query: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLPAKLVYAALVAGVALSVNFASWPMLA 120 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLPAKL YAA+V GVALSVNFA+ PML Sbjct: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLPAKLAYAAVVGGVALSVNFATLPMLV 120 Query: 121 QVAMTLLLLVPMGPLMYRMAFEPIASASPLVLLIVSIAVHVALVGVALLVFGPEGARTAP 180 Q+AMTLLLLVP+GPLMYRMAF+PIA+ASPLVLLIVSIAVHVALVGVALLVFGPEGARTAP Sbjct: 121 QIAMTLLLLVPLGPLMYRMAFQPIATASPLVLLIVSIAVHVALVGVALLVFGPEGARTAP 180 Query: 181 FTEAALEVGGLRLSSQALWVIGVSLLLIVALFLMFERTLYGKALRAAALNRMGARLMGIS 240 FTEAALE+G LRLSSQALWVI VSLLLIV LFLMFERTLYGKALRAAALNRMGARLMGIS Sbjct: 181 FTEAALELGSLRLSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRMGARLMGIS 240 Query: 241 PVFAGKAMFLLASLIGVMSGILIAPITTIYYDSGFLISLKGFVGSIIGGLVSYPLAAAGA 300 PVFAGKAMFLLASLIGVMSG+LIAPITTIYYDSGFLISLKGFVGSIIGGLVSYPLAAAGA Sbjct: 241 PVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSYPLAAAGA 300 Query: 301 LAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLSTHHVEEEE 344 LAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSL+T HVEEEE Sbjct: 301 LAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLTTRHVEEEE 344 >gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 350 Score = 311 bits (797), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 183/355 (51%), Positives = 250/355 (70%), Gaps = 18/355 (5%) Query: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQT 60 M+ I+ +L QDGIT GAIYALL+L++VLVF+VTR++ +PQGEFV+FGALT+ +QNGQ Sbjct: 1 MDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 Query: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRR------------PSLWLPAKLVYAALVAGVA 108 A LL+A+ A + R ++ R L LP L AL + Sbjct: 61 PATALLLLALGAVTLAVETGSALRLAQTRARLLRRLPLLLATHLGLP--LAILALTRCLD 118 Query: 109 LSVNFASWPMLAQVAMTLLLLVPMGPLMYRMAFEPIASASPLVLLIVSIAVHVALVGVAL 168 L W Q+ + LL++VPMGP++YR+A++P+A +S LVLLIVS+ VH+A+VG+ L Sbjct: 119 LQALAMPW----QILLALLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGL 174 Query: 169 LVFGPEGARTAPFTEAALEVGGLRLSSQALWVIGVSLLLIVALFLMFERTLYGKALRAAA 228 L+FGPEG T PFTE +G +S Q++ V+ LI +++ FERTL GKALRA A Sbjct: 175 LMFGPEGTNTRPFTEMQFNLGESPVSGQSVIVLITVAALIAVIYVFFERTLTGKALRATA 234 Query: 229 LNRMGARLMGISPVFAGKAMFLLASLIGVMSGILIAPITTIYYDSGFLISLKGFVGSIIG 288 +NR+GARL+G+ AGK F +A+ IG + GILIAP T + Y+SGF+I+LKGFVG+I G Sbjct: 235 VNRLGARLVGVGINQAGKLSFGMAAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFG 294 Query: 289 GLVSYPLAAAGALAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLSTHHVEEE 343 GL SYP+AA G++++GLIESFS+FWASAYKE+IVF +IIPILLWRSL++HH++EE Sbjct: 295 GLASYPIAALGSVSVGLIESFSSFWASAYKELIVFTVIIPILLWRSLTSHHIDEE 349 >gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 346 Score = 276 bits (706), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 179/350 (51%), Positives = 237/350 (67%), Gaps = 10/350 (2%) Query: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQT 60 M+ I A+L DG+TNG +Y L+A+++VLVFTVTRIL IPQGEFV++GALT+ M+Q GQ Sbjct: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 Query: 61 LTVAWLLVAMCLGACAFDLYDMWRTSR-----RRPSLWLPAKLVYAALVAGVALSVNFAS 115 WLL+ + L A + R + R L LV AALV A FA Sbjct: 61 PGPLWLLLVLALCAAGMQAASLLRAGQAALLPRALLGTLGVPLVIAALVWWAA-PQQFA- 118 Query: 116 WPMLAQVAMTLLLLVPMGPLMYRMAFEPIASASPLVLLIVSIAVHVALVGVALLVFGPEG 175 + QV +TLLL+ +GPLMY++ +E +A AS L LLIVS+ +H+A+ G+ L+ FG EG Sbjct: 119 --LPVQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAEG 176 Query: 176 ARTAPFTEAALEVGGLRLSSQALWVIGVSLLLIVALFLMFERTLYGKALRAAALNRMGAR 235 RT F + + L LS+Q + V+ + L+VAL+ RTLYGKALRA A+NR+GAR Sbjct: 177 FRTPAFWDERWNLASLTLSAQTVVVVAAAAALLVALWFFSGRTLYGKALRATAVNRLGAR 236 Query: 236 LMGISPVFAGKAMFLLASLIGVMSGILIAPITTIYYDSGFLISLKGFVGSIIGGLVSYPL 295 LMGIS AGK F +A+ IG +SG+LI P++TI+YDSGFLI LKGFV + IG L S+P Sbjct: 237 LMGISTTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASFPA 296 Query: 296 AAAGALAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLS-THHVEEEE 344 AA GAL +GL+ESFS+FWAS +KE+IVF+ ++PILLWRSL H E+EE Sbjct: 297 AAGGALLVGLLESFSSFWASDFKEVIVFLALLPILLWRSLVIPAHDEDEE 346 >gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 308 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/218 (29%), Positives = 109/218 (50%), Gaps = 16/218 (7%) Query: 138 RMAFEPIASASPLVLLIVSIAVHVALVGVALLVFGPEGARTAPFTEAALEVGGLRLSSQ- 196 R+A+ P+ LV LI +I + + L + G ALE ++ S Sbjct: 93 RVAYRPLRGGPRLVPLISAIGMSIFLQNYVQIGQGARDMSVPVLISGALE---FQMGSDF 149 Query: 197 -------ALWVIGVSLLLIVALFLMFERTLYGKALRAAALNRMGARLMGISPVFAGKAMF 249 + ++GV+L+L+VAL L R+ G+A RA A + A L+GI F Sbjct: 150 TVTIPYSRMVIVGVTLVLMVALTLFIARSRMGRACRACAEDMGMANLLGIDTNKVISFTF 209 Query: 250 LLASLIGVMSGILIA-PITTIYYDSGFLISLKGFVGSIIGGLVSYPLAAAGALAIGLIES 308 +L +++ + G+LIA I + GF+ +K F +++GG+ S P A G + +GL E+ Sbjct: 210 VLGAMLAAVGGVLIALTIGKLNPYIGFIAGIKAFTAAVLGGIGSIPGAMLGGVLLGLAET 269 Query: 309 FST-FWASAYKEIIVFVLIIPILLWRS---LSTHHVEE 342 F+ + S YK+++ F L++ ILL+R L VE+ Sbjct: 270 FAAGYLPSEYKDVVSFGLLVLILLFRPTGLLGKPDVEK 307 >gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/213 (27%), Positives = 110/213 (51%), Gaps = 17/213 (7%) Query: 135 LMYRMAFEPIASASPLVLLIVSIAVHVALVGVALLVFGPEGARTAPFTEA----ALEVGG 190 L+ R+A+ P+ +A L LI +I V + L +A++++G PF + + + G Sbjct: 87 LIERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMIWGRS---PLPFPQVMPSDPVHIAG 143 Query: 191 LRLSSQALWVIGVSLLLIVALFLMFERTLYGKALRAAALNRMGARLMGISPVFAGKAMFL 250 +S + ++ +++L +V L L+ E+T G+A+RA A N A LMG+ F Sbjct: 144 ALISPTQIMLLALAVLAMVGLVLIVEKTKMGRAMRATAENPRIAGLMGVDANKVIVVTFA 203 Query: 251 LASLIGVMSGIL-IAPITTIYYDSGFLISLKGFVGSIIGGLVSYPLAAAGALAIGLIESF 309 + + + ++G++ A +T + GF+ LK F +++GG+ + A G + +GLIES Sbjct: 204 IGAGLAAIAGVMWAANYSTAQFAMGFVPGLKAFSAAVLGGIGNIYGAMLGGILLGLIESL 263 Query: 310 ---------STFWASAYKEIIVFVLIIPILLWR 333 F S Y++I F+++I +L R Sbjct: 264 GAGYIGDLTGNFLGSNYQDIFAFIVLIIVLTLR 296 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 0.329 0.141 0.417 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: 870,449 Number of extensions: 30842 Number of successful extensions: 252 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 244 Number of HSP's successfully gapped: 15 Length of query: 344 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 258 Effective length of database: 1,212,660 Effective search space: 312866280 Effective search space used: 312866280 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 (21.8 bits) S2: 131 (55.1 bits)