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= 0007.0053.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... 607 e-175 gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC t... 317 8e-88 gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t... 280 1e-76 gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC tr... 71 1e-13 gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC t... 66 4e-12 >gi|300310682|ref|YP_003774774.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 607 bits (1566), Expect = e-175, Method: Compositional matrix adjust. Identities = 329/344 (95%), Positives = 338/344 (98%) Query: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP 60 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP Sbjct: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP 60 Query: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLPAKLVYAVVVAGLALNLNFATLPMLA 120 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLPAKL YA VV G+AL++NFATLPML Sbjct: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLPAKLAYAAVVGGVALSVNFATLPMLV 120 Query: 121 QIAMTLLLLVPMGPLMYRMAFQPIASASPLVLLIVSIAVHVALVGVALLVFGPEGARTAP 180 QIAMTLLLLVP+GPLMYRMAFQPIA+ASPLVLLIVSIAVHVALVGVALLVFGPEGARTAP Sbjct: 121 QIAMTLLLLVPLGPLMYRMAFQPIATASPLVLLIVSIAVHVALVGVALLVFGPEGARTAP 180 Query: 181 FTEASLELGSLRFSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRLGARLMGIS 240 FTEA+LELGSLR SSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNR+GARLMGIS Sbjct: 181 FTEAALELGSLRLSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRMGARLMGIS 240 Query: 241 PVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSYPVAAIGA 300 PVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSYP+AA GA Sbjct: 241 PVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSYPLAAAGA 300 Query: 301 LAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLSTRHVEEEE 344 LAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSL+TRHVEEEE Sbjct: 301 LAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLTTRHVEEEE 344 >gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 350 Score = 317 bits (813), Expect = 8e-88, Method: Compositional matrix adjust. Identities = 183/349 (52%), Positives = 249/349 (71%), Gaps = 6/349 (1%) Query: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP 60 M+ I+ +L QDGIT GAIYALL+L++VLVF+VTR++ +PQGEFV+FGALT+ +QNGQ Sbjct: 1 MDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 Query: 61 LTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLP------AKLVYAVVVAGLALNLNFA 114 A LL+A+ A + R ++ R L L + + L L+ Sbjct: 61 PATALLLLALGAVTLAVETGSALRLAQTRARLLRRLPLLLATHLGLPLAILALTRCLDLQ 120 Query: 115 TLPMLAQIAMTLLLLVPMGPLMYRMAFQPIASASPLVLLIVSIAVHVALVGVALLVFGPE 174 L M QI + LL++VPMGP++YR+A+QP+A +S LVLLIVS+ VH+A+VG+ LL+FGPE Sbjct: 121 ALAMPWQILLALLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE 180 Query: 175 GARTAPFTEASLELGSLRFSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRLGA 234 G T PFTE LG S Q++ V+ LI +++ FERTL GKALRA A+NRLGA Sbjct: 181 GTNTRPFTEMQFNLGESPVSGQSVIVLITVAALIAVIYVFFERTLTGKALRATAVNRLGA 240 Query: 235 RLMGISPVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSYP 294 RL+G+ AGK F +A+ IG + G+LIAP T + Y+SGF+I+LKGFVG+I GGL SYP Sbjct: 241 RLVGVGINQAGKLSFGMAAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASYP 300 Query: 295 VAAIGALAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLSTRHVEEE 343 +AA+G++++GLIESFS+FWASAYKE+IVF +IIPILLWRSL++ H++EE Sbjct: 301 IAALGSVSVGLIESFSSFWASAYKELIVFTVIIPILLWRSLTSHHIDEE 349 >gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 346 Score = 280 bits (716), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 180/355 (50%), Positives = 239/355 (67%), Gaps = 20/355 (5%) Query: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQ- 59 M+ I A+L DG+TNG +Y L+A+++VLVFTVTRIL IPQGEFV++GALT+ M+Q GQ Sbjct: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 Query: 60 --PLTVAWLLVAMCLGACAFDLYDMWRTSRRRPSLWLPAKLV----YAVVVAGL---ALN 110 PL + +L G A L R + LP L+ +V+A L A Sbjct: 61 PGPLWLLLVLALCAAGMQAASLL------RAGQAALLPRALLGTLGVPLVIAALVWWAAP 114 Query: 111 LNFATLPMLAQIAMTLLLLVPMGPLMYRMAFQPIASASPLVLLIVSIAVHVALVGVALLV 170 FA LP+ Q+ +TLLL+ +GPLMY++ ++ +A AS L LLIVS+ +H+A+ G+ L+ Sbjct: 115 QQFA-LPV--QVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVF 171 Query: 171 FGPEGARTAPFTEASLELGSLRFSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALN 230 FG EG RT F + L SL S+Q + V+ + L+V L+ RTLYGKALRA A+N Sbjct: 172 FGAEGFRTPAFWDERWNLASLTLSAQTVVVVAAAAALLVALWFFSGRTLYGKALRATAVN 231 Query: 231 RLGARLMGISPVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGL 290 RLGARLMGIS AGK F +A+ IG +SGVLI P++TI+YDSGFLI LKGFV + IG L Sbjct: 232 RLGARLMGISTTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGAL 291 Query: 291 VSYPVAAIGALAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLS-TRHVEEEE 344 S+P AA GAL +GL+ESFS+FWAS +KE+IVF+ ++PILLWRSL H E+EE Sbjct: 292 ASFPAAAGGALLVGLLESFSSFWASDFKEVIVFLALLPILLWRSLVIPAHDEDEE 346 >gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 308 Score = 70.9 bits (172), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 61/203 (30%), Positives = 106/203 (52%), Gaps = 7/203 (3%) Query: 138 RMAFQPIASASPLVLLIVSIAVHVALVGVALLVFGPEGARTAPFTEASLE--LGS---LR 192 R+A++P+ LV LI +I + + L + G +LE +GS + Sbjct: 93 RVAYRPLRGGPRLVPLISAIGMSIFLQNYVQIGQGARDMSVPVLISGALEFQMGSDFTVT 152 Query: 193 FSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRLGARLMGISPVFAGKAMFLLA 252 + ++ V+L+L+V L L R+ G+A RA A + A L+GI F+L Sbjct: 153 IPYSRMVIVGVTLVLMVALTLFIARSRMGRACRACAEDMGMANLLGIDTNKVISFTFVLG 212 Query: 253 SLIGVMSGVLIA-PITTIYYDSGFLISLKGFVGSIIGGLVSYPVAAIGALAIGLIESFST 311 +++ + GVLIA I + GF+ +K F +++GG+ S P A +G + +GL E+F+ Sbjct: 213 AMLAAVGGVLIALTIGKLNPYIGFIAGIKAFTAAVLGGIGSIPGAMLGGVLLGLAETFAA 272 Query: 312 -FWASAYKEIIVFVLIIPILLWR 333 + S YK+++ F L++ ILL+R Sbjct: 273 GYLPSEYKDVVSFGLLVLILLFR 295 >gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 66.2 bits (160), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/213 (28%), Positives = 111/213 (52%), Gaps = 17/213 (7%) Query: 135 LMYRMAFQPIASASPLVLLIVSIAVHVALVGVALLVFGPEGARTAPFTEA----SLELGS 190 L+ R+A++P+ +A L LI +I V + L +A++++G PF + + + Sbjct: 87 LIERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMIWGRS---PLPFPQVMPSDPVHIAG 143 Query: 191 LRFSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRLGARLMGISPVFAGKAMFL 250 S + ++ +++L +VGL L+ E+T G+A+RA A N A LMG+ F Sbjct: 144 ALISPTQIMLLALAVLAMVGLVLIVEKTKMGRAMRATAENPRIAGLMGVDANKVIVVTFA 203 Query: 251 LASLIGVMSGVL-IAPITTIYYDSGFLISLKGFVGSIIGGLVSYPVAAIGALAIGLIESF 309 + + + ++GV+ 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 0.142 0.420 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: 823,371 Number of extensions: 27209 Number of successful extensions: 214 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 209 Number of HSP's successfully gapped: 13 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)