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= 0012.0104.p (352 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC t... 455 e-129 gi|300310682|ref|YP_003774774.1| amino acid ABC transporter perm... 327 8e-91 gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t... 294 6e-81 gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC tr... 81 1e-16 gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC t... 75 8e-15 >gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 350 Score = 455 bits (1171), Expect = e-129, Method: Compositional matrix adjust. Identities = 264/350 (75%), Positives = 301/350 (86%) Query: 3 VDASIFAVLVQDGITTGAIYALLSLALVLVFSVTRVILLPQGEFVAFGALTLAAIQAGHA 62 +D SI VL+QDGITTGAIYALLSLALVLVFSVTRVI LPQGEFVAFGALTLAAIQ G A Sbjct: 1 MDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 Query: 63 PQSALLMVVLGVATILCELAGSLRRADRRGKLLGQLPLLAGKYLLFPIAIYAVTLYVPLK 122 P +ALL++ LG T+ E +LR A R +LL +LPLL +L P+AI A+T + L+ Sbjct: 61 PATALLLLALGAVTLAVETGSALRLAQTRARLLRRLPLLLATHLGLPLAILALTRCLDLQ 120 Query: 123 DLPMLLQIALALAIVVPMGPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGLGLLMFGPE 182 L M QI LAL IVVPMGPM+YR+AYQPLAH+S+LVLLIVSLGVHLAMVGLGLLMFGPE Sbjct: 121 ALAMPWQILLALLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE 180 Query: 183 GSNTLPFTDAQFAIGEMTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRATAVNRLGA 242 G+NT PFT+ QF +GE VSGQS+IV+ TV ALI IY +FERTL+GKALRATAVNRLGA Sbjct: 181 GTNTRPFTEMQFNLGESPVSGQSVIVLITVAALIAVIYVFFERTLTGKALRATAVNRLGA 240 Query: 243 RLVGIGTNQAGKLSFTLSAGIGALCGILIAPFTIINYESGFLIALKGFVGAIFGGLASYP 302 RLVG+G NQAGKLSF ++AGIGALCGILIAPFTI+NYESGF+IALKGFVGAIFGGLASYP Sbjct: 241 RLVGVGINQAGKLSFGMAAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASYP 300 Query: 303 IAAAGAVGVGLIESFSSFWASSFKDLIVFTVIIPVLLWRSLTSNHVDEEA 352 IAA G+V VGLIESFSSFWAS++K+LIVFTVIIP+LLWRSLTS+H+DEEA Sbjct: 301 IAALGSVSVGLIESFSSFWASAYKELIVFTVIIPILLWRSLTSHHIDEEA 350 >gi|300310682|ref|YP_003774774.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 327 bits (838), Expect = 8e-91, Method: Compositional matrix adjust. Identities = 192/349 (55%), Positives = 258/349 (73%), Gaps = 6/349 (1%) Query: 3 VDASIFAVLVQDGITTGAIYALLSLALVLVFSVTRVILLPQGEFVAFGALTLAAIQAGHA 62 ++ I A+L QDGIT GAIYALL+L++VLVF+VTR++L+PQGEFV+FGALT+ +Q G Sbjct: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP 60 Query: 63 PQSALLMVVLGVATILCELAGSLRRADRRGKLLGQLPLLAGKYLLFPIAIYAVTLYVPLK 122 A L+V + + +L R + RR L LP L + + V L V Sbjct: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSL--WLP----AKLAYAAVVGGVALSVNFA 114 Query: 123 DLPMLLQIALALAIVVPMGPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGLGLLMFGPE 182 LPML+QIA+ L ++VP+GP++YR+A+QP+A AS LVLLIVS+ VH+A+VG+ LL+FGPE Sbjct: 115 TLPMLVQIAMTLLLLVPLGPLMYRMAFQPIATASPLVLLIVSIAVHVALVGVALLVFGPE 174 Query: 183 GSNTLPFTDAQFAIGEMTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRATAVNRLGA 242 G+ T PFT+A +G + +S Q+L VI + LIVG++ FERTL GKALRA A+NR+GA Sbjct: 175 GARTAPFTEAALELGSLRLSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRMGA 234 Query: 243 RLVGIGTNQAGKLSFTLSAGIGALCGILIAPFTIINYESGFLIALKGFVGAIFGGLASYP 302 RL+GI AGK F L++ IG + G+LIAP T I Y+SGFLI+LKGFVG+I GGL SYP Sbjct: 235 RLMGISPVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSYP 294 Query: 303 IAAAGAVGVGLIESFSSFWASSFKDLIVFTVIIPVLLWRSLTSNHVDEE 351 +AAAGA+ +GLIESFS+FWAS++K++IVF +IIP+LLWRSLT+ HV+EE Sbjct: 295 LAAAGALAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLTTRHVEEE 343 >gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 346 Score = 294 bits (753), Expect = 6e-81, Method: Compositional matrix adjust. Identities = 177/355 (49%), Positives = 246/355 (69%), Gaps = 15/355 (4%) Query: 3 VDASIFAVLVQDGITTGAIYALLSLALVLVFSVTRVILLPQGEFVAFGALTLAAIQAGHA 62 +D+SI A+L DG+T G +Y L+++ALVLVF+VTR++ +PQGEFVA+GALTLA +Q G Sbjct: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 Query: 63 PQSALLMVVLGVATILCELAGSLRRADRRG----KLLGQLPLLAGKYLLFPIAIYAVTLY 118 P L++VL + + A SL RA + LLG L + P+ I A+ + Sbjct: 61 PGPLWLLLVLALCAAGMQ-AASLLRAGQAALLPRALLGTLGV--------PLVIAALVWW 111 Query: 119 VPLKDLPMLLQIALALAIVVPMGPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGLGLLM 178 + + +Q+ L L ++ +GP++Y++ Y+ +A AS+L LLIVS+G+HLAM GLGL+ Sbjct: 112 AAPQQFALPVQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVF 171 Query: 179 FGPEGSNTLPFTDAQFAIGEMTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRATAVN 238 FG EG T F D ++ + +T+S Q+++V+ AL+V ++F+ RTL GKALRATAVN Sbjct: 172 FGAEGFRTPAFWDERWNLASLTLSAQTVVVVAAAAALLVALWFFSGRTLYGKALRATAVN 231 Query: 239 RLGARLVGIGTNQAGKLSFTLSAGIGALCGILIAPFTIINYESGFLIALKGFVGAIFGGL 298 RLGARL+GI T AGKLSF ++A IGAL G+LI P + I Y+SGFLI LKGFV A G L Sbjct: 232 RLGARLMGISTTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGAL 291 Query: 299 ASYPIAAAGAVGVGLIESFSSFWASSFKDLIVFTVIIPVLLWRSLT--SNHVDEE 351 AS+P AA GA+ VGL+ESFSSFWAS FK++IVF ++P+LLWRSL ++ DEE Sbjct: 292 ASFPAAAGGALLVGLLESFSSFWASDFKEVIVFLALLPILLWRSLVIPAHDEDEE 346 >gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 308 Score = 80.9 bits (198), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/209 (31%), Positives = 113/209 (54%), Gaps = 9/209 (4%) Query: 141 GPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGLGLLMFGPEGSNTLPFTDA--QFAIGE 198 G V R+AY+PL LV LI ++G+ + + + G + +F +G Sbjct: 88 GWTVERVAYRPLRGGPRLVPLISAIGMSIFLQNYVQIGQGARDMSVPVLISGALEFQMGS 147 Query: 199 ---MTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRATAVNRLGARLVGIGTNQAGKL 255 +T+ ++++G + L+V + + R+ G+A RA A + A L+GI TN+ Sbjct: 148 DFTVTIPYSRMVIVGVTLVLMVALTLFIARSRMGRACRACAEDMGMANLLGIDTNKVISF 207 Query: 256 SFTLSAGIGALCGILIAPFTI--INYESGFLIALKGFVGAIFGGLASYPIAAAGAVGVGL 313 +F L A + A+ G+LIA TI +N GF+ +K F A+ GG+ S P A G V +GL Sbjct: 208 TFVLGAMLAAVGGVLIA-LTIGKLNPYIGFIAGIKAFTAAVLGGIGSIPGAMLGGVLLGL 266 Query: 314 IESFSS-FWASSFKDLIVFTVIIPVLLWR 341 E+F++ + S +KD++ F +++ +LL+R Sbjct: 267 AETFAAGYLPSEYKDVVSFGLLVLILLFR 295 >gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 75.1 bits (183), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 128/237 (54%), Gaps = 23/237 (9%) Query: 124 LPMLLQIALALAIVVPM----GPMVYRLAYQPLAHASILVLLIVSLGVHLAMVGLGLLMF 179 LP ++Q+ +A+ +P+ ++ R+AY+PL +A L LI ++GV + + L ++++ Sbjct: 64 LPGIVQLVIAIVGAIPVCIVVSLLIERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMIW 123 Query: 180 GPEGSNTLPF-----TDAQFAIGEMTVSGQSLIVIGTVVALIVGIYFYFERTLSGKALRA 234 G + LPF +D G + +S ++++ V +VG+ E+T G+A+RA Sbjct: 124 G---RSPLPFPQVMPSDPVHIAGAL-ISPTQIMLLALAVLAMVGLVLIVEKTKMGRAMRA 179 Query: 235 TAVNRLGARLVGIGTNQAGKLSFTLSAGIGALCGIL-IAPFTIINYESGFLIALKGFVGA 293 TA N A L+G+ N+ ++F + AG+ A+ G++ A ++ + GF+ LK F A Sbjct: 180 TAENPRIAGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLKAFSAA 239 Query: 294 IFGGLASYPIAAAGAVGVGLIESF---------SSFWASSFKDLIVFTVIIPVLLWR 341 + GG+ + A G + +GLIES +F S+++D+ F V+I VL R Sbjct: 240 VLGGIGNIYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDIFAFIVLIIVLTLR 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 0.328 0.143 0.410 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: 958,057 Number of extensions: 37854 Number of successful extensions: 264 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 252 Number of HSP's successfully gapped: 13 Length of query: 352 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 266 Effective length of database: 1,212,660 Effective search space: 322567560 Effective search space used: 322567560 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)