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= 0028.0022.p (350 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... 560 e-161 gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t... 314 7e-87 gi|300310682|ref|YP_003774774.1| amino acid ABC transporter perm... 308 5e-85 gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC tr... 79 5e-16 gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC t... 70 3e-13 >gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 350 Score = 560 bits (1444), Expect = e-161, Method: Compositional matrix adjust. Identities = 327/350 (93%), Positives = 337/350 (96%) Query: 1 VDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 +DTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA Sbjct: 1 MDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 Query: 61 PGTALLLVALGGVTLAVEGGTALRLAATRARFLRRLPSLLAMQIGLPLVLYALTRYVDLQ 120 P TALLL+ALG VTLAVE G+ALRLA TRAR LRRLP LLA +GLPL + ALTR +DLQ Sbjct: 61 PATALLLLALGAVTLAVETGSALRLAQTRARLLRRLPLLLATHLGLPLAILALTRCLDLQ 120 Query: 121 ALAMPWQILLTLLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE 180 ALAMPWQILL LLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE Sbjct: 121 ALAMPWQILLALLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE 180 Query: 181 GTNTKPFTEMQFNLGESPVSGQSVIVLVTVAALIAVIYVFFERTLTGKALRATAVNRLGA 240 GTNT+PFTEMQFNLGESPVSGQSVIVL+TVAALIAVIYVFFERTLTGKALRATAVNRLGA Sbjct: 181 GTNTRPFTEMQFNLGESPVSGQSVIVLITVAALIAVIYVFFERTLTGKALRATAVNRLGA 240 Query: 241 RLVGVGINQAGKLSFAMSAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASYP 300 RLVGVGINQAGKLSF M+AGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASYP Sbjct: 241 RLVGVGINQAGKLSFGMAAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASYP 300 Query: 301 IAALGSVSVGLIESFSSFWASAFKELIVFTVIIPILLWRSLTSHHIDEEA 350 IAALGSVSVGLIESFSSFWASA+KELIVFTVIIPILLWRSLTSHHIDEEA Sbjct: 301 IAALGSVSVGLIESFSSFWASAYKELIVFTVIIPILLWRSLTSHHIDEEA 350 >gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 346 Score = 314 bits (804), Expect = 7e-87, Method: Compositional matrix adjust. Identities = 187/351 (53%), Positives = 251/351 (71%), Gaps = 7/351 (1%) Query: 1 VDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 +D+SI +L DG+T G +Y L+++ALVLVF+VTR++F+PQGEFVA+GALTLA +Q GQ Sbjct: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 Query: 61 PGTALLLVALGGVTLAVEGGTALRLAATRARFLRRLPSLLAMQIGLPLVLYALTRYVDLQ 120 PG LL+ L ++ + LR A +A L P L +G+PLV+ AL + Q Sbjct: 61 PGPLWLLLVLALCAAGMQAASLLR--AGQAALL---PRALLGTLGVPLVIAALVWWAAPQ 115 Query: 121 ALAMPWQILLTLLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE 180 A+P Q+LLTLL++ +GP++Y+V Y+ +A +SVL LLIVS+G+HLAM GLGL+ FG E Sbjct: 116 QFALPVQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAE 175 Query: 181 GTNTKPFTEMQFNLGESPVSGQSVIVLVTVAALIAVIYVFFERTLTGKALRATAVNRLGA 240 G T F + ++NL +S Q+V+V+ AAL+ ++ F RTL GKALRATAVNRLGA Sbjct: 176 GFRTPAFWDERWNLASLTLSAQTVVVVAAAAALLVALWFFSGRTLYGKALRATAVNRLGA 235 Query: 241 RLVGVGINQAGKLSFAMSAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASYP 300 RL+G+ AGKLSFA++A IGAL G+LI P + + Y+SGF+I LKGFV A G LAS+P Sbjct: 236 RLMGISTTLAGKLSFAVAAFIGALSGVLIGPMSTIFYDSGFLIGLKGFVAATIGALASFP 295 Query: 301 IAALGSVSVGLIESFSSFWASAFKELIVFTVIIPILLWRSLT--SHHIDEE 349 AA G++ VGL+ESFSSFWAS FKE+IVF ++PILLWRSL +H DEE Sbjct: 296 AAAGGALLVGLLESFSSFWASDFKEVIVFLALLPILLWRSLVIPAHDEDEE 346 >gi|300310682|ref|YP_003774774.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 308 bits (789), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 186/350 (53%), Positives = 254/350 (72%), Gaps = 8/350 (2%) Query: 1 VDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 ++ I+ +L QDGIT GAIYALL+L++VLVF+VTR++ +PQGEFV+FGALT+ +QNGQ Sbjct: 1 MNLQIVALLGQDGITNGAIYALLALSIVLVFTVTRILLIPQGEFVSFGALTMGMMQNGQP 60 Query: 61 PGTALLLVALGGVTLAVEGGTALRLAATRARFLRRLPSL-LAMQIGLPLVLYALTRYVDL 119 A LLVA+ G A L R RR PSL L ++ V+ + V+ Sbjct: 61 LTVAWLLVAM------CLGACAFDLY-DMWRTSRRRPSLWLPAKLAYAAVVGGVALSVNF 113 Query: 120 QALAMPWQILLTLLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGP 179 L M QI +TLL++VP+GP++YR+A+QP+A +S LVLLIVS+ VH+A+VG+ LL+FGP Sbjct: 114 ATLPMLVQIAMTLLLLVPLGPLMYRMAFQPIATASPLVLLIVSIAVHVALVGVALLVFGP 173 Query: 180 EGTNTKPFTEMQFNLGESPVSGQSVIVLVTVAALIAVIYVFFERTLTGKALRATAVNRLG 239 EG T PFTE LG +S Q++ V+ LI +++ FERTL GKALRA A+NR+G Sbjct: 174 EGARTAPFTEAALELGSLRLSSQALWVICVSLLLIVGLFLMFERTLYGKALRAAALNRMG 233 Query: 240 ARLVGVGINQAGKLSFAMSAGIGALCGILIAPFTIVNYESGFIIALKGFVGAIFGGLASY 299 ARL+G+ AGK F +++ IG + G+LIAP T + Y+SGF+I+LKGFVG+I GGL SY Sbjct: 234 ARLMGISPVFAGKAMFLLASLIGVMSGVLIAPITTIYYDSGFLISLKGFVGSIIGGLVSY 293 Query: 300 PIAALGSVSVGLIESFSSFWASAFKELIVFTVIIPILLWRSLTSHHIDEE 349 P+AA G++++GLIESFS+FWASA+KE+IVF +IIPILLWRSLT+ H++EE Sbjct: 294 PLAAAGALAIGLIESFSTFWASAYKEIIVFVLIIPILLWRSLTTRHVEEE 343 >gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 308 Score = 79.0 bits (193), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 68/208 (32%), Positives = 114/208 (54%), Gaps = 13/208 (6%) Query: 142 IYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPEGTNTKPFTE--MQFNLGES-- 197 + RVAY+PL LV LI ++G+ + + + G + ++F +G Sbjct: 91 VERVAYRPLRGGPRLVPLISAIGMSIFLQNYVQIGQGARDMSVPVLISGALEFQMGSDFT 150 Query: 198 ---PVSGQSVIVLVTVAALIAVIYVFFERTLTGKALRATAVNRLGARLVGVGINQAGKLS 254 P S + VIV VT+ ++A+ +F R+ G+A RA A + A L+G+ N+ + Sbjct: 151 VTIPYS-RMVIVGVTLVLMVALT-LFIARSRMGRACRACAEDMGMANLLGIDTNKVISFT 208 Query: 255 FAMSAGIGALCGILIAPFTI--VNYESGFIIALKGFVGAIFGGLASYPIAALGSVSVGLI 312 F + A + A+ G+LIA TI +N GFI +K F A+ GG+ S P A LG V +GL Sbjct: 209 FVLGAMLAAVGGVLIA-LTIGKLNPYIGFIAGIKAFTAAVLGGIGSIPGAMLGGVLLGLA 267 Query: 313 ESFSS-FWASAFKELIVFTVIIPILLWR 339 E+F++ + S +K+++ F +++ ILL+R Sbjct: 268 ETFAAGYLPSEYKDVVSFGLLVLILLFR 295 >gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 92/350 (26%), Positives = 163/350 (46%), Gaps = 81/350 (23%) Query: 10 IQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGA---LTLAAIQNGQAPGTALL 66 I +G+ G++YAL++L +V+ V +I G+ + GA L+L + APG Sbjct: 8 IINGLVLGSMYALIALGYTMVYGVLNLINFAHGDILMVGAMVGLSLLKVVQQVAPG---- 63 Query: 67 LVALGGVTLAVEGGTALRLAATRARFLRRLPSLLAMQIGLPLVLYALTRYVDLQALAMPW 126 LP ++ + I + A+P Sbjct: 64 -----------------------------LPGIVQLVIAI--------------VGAIPV 80 Query: 127 QILLTLLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPEGTNTKP 186 I+++LLI R+AY+PL ++ L LI ++GV + + L ++++G + P Sbjct: 81 CIVVSLLI--------ERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMIWG---RSPLP 129 Query: 187 FTEMQFNLGESPVS------GQSVIVLVTVAALIAV-IYVFFERTLTGKALRATAVNRLG 239 F ++ + PV + I+L+ +A L V + + E+T G+A+RATA N Sbjct: 130 FPQV---MPSDPVHIAGALISPTQIMLLALAVLAMVGLVLIVEKTKMGRAMRATAENPRI 186 Query: 240 ARLVGVGINQAGKLSFAMSAGIGALCGIL-IAPFTIVNYESGFIIALKGFVGAIFGGLAS 298 A L+GV N+ ++FA+ AG+ A+ G++ A ++ + GF+ LK F A+ GG+ + Sbjct: 187 AGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLKAFSAAVLGGIGN 246 Query: 299 YPIAALGSVSVGLIESF---------SSFWASAFKELIVFTVIIPILLWR 339 A LG + +GLIES +F S ++++ F V+I +L R Sbjct: 247 IYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDIFAFIVLIIVLTLR 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 0.327 0.142 0.405 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: 816,397 Number of extensions: 28128 Number of successful extensions: 211 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 201 Number of HSP's successfully gapped: 13 Length of query: 350 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 264 Effective length of database: 1,212,660 Effective search space: 320142240 Effective search space used: 320142240 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)