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= 0028.0017.p (304 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311880|ref|YP_003775972.1| amino acid ABC transporter perm... 554 e-159 gi|300310286|ref|YP_003774378.1| branched-chain amino acid ABC t... 289 2e-79 gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC t... 128 7e-31 gi|300309519|ref|YP_003773611.1| branched-chain amino acid ABC t... 128 7e-31 gi|300312237|ref|YP_003776329.1| amino acid ABC transporter perm... 97 2e-21 >gi|300311880|ref|YP_003775972.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 554 bits (1428), Expect = e-159, Method: Compositional matrix adjust. Identities = 292/304 (96%), Positives = 298/304 (98%) Query: 1 MQFFFEVTLSGLLSGLMYSLVALGFVLIYKASGVFNFAQGAMVYFAALAVVGLMEKGMPM 60 MQFF EVTLSGLLSGLMYSLVALGFVLIYKASGVFNFAQGAMVYFAALAVVGLMEKGMPM Sbjct: 1 MQFFLEVTLSGLLSGLMYSLVALGFVLIYKASGVFNFAQGAMVYFAALAVVGLMEKGMPM 60 Query: 61 WAAIIGAFLVMIVVGLATERFVLRKLVNQPPITLFMATIGLAFFLEGLGPLLFGSEVRPI 120 WAAIIGAF+VMI+VGLATERFVLRKLVNQPPITLFMATIGL FFLEGLGPLLFGSEVRPI Sbjct: 61 WAAIIGAFVVMILVGLATERFVLRKLVNQPPITLFMATIGLTFFLEGLGPLLFGSEVRPI 120 Query: 121 ELGIVDEPIMSVMDSIGIGISKFDLFASGMVIGLVALLALFFQKTKVGRALRAVADDHQA 180 +LGIVDEPI SVMDSIGIGISKFDLFASGMV+ LVA LALFFQKTKVGRALRAVADDHQA Sbjct: 121 DLGIVDEPIQSVMDSIGIGISKFDLFASGMVVALVAALALFFQKTKVGRALRAVADDHQA 180 Query: 181 ALSLGIPLQHIWAVVWGVAGFVALVAGLLWGSRNGVQFALTMTALKALPVLILGGFTSIP 240 ALSLGIPLQHIWAVVWGVAGFVAL+AGLLWGSRNGVQFALTMTALKALPVLILGGFTSIP Sbjct: 181 ALSLGIPLQHIWAVVWGVAGFVALIAGLLWGSRNGVQFALTMTALKALPVLILGGFTSIP 240 Query: 241 GAIVGGLIIGASEKLAEIYIPPVLQDLFGGNFGGIEGWFPYVFALLFLLVRPEGLFGERH 300 GAIVGGLIIGASEKLAEIYIPPV+QD FGGNFGGIEGWFPYVFALLFLLVRPEGLFGERH Sbjct: 241 GAIVGGLIIGASEKLAEIYIPPVMQDAFGGNFGGIEGWFPYVFALLFLLVRPEGLFGERH 300 Query: 301 IDRV 304 IDRV Sbjct: 301 IDRV 304 >gi|300310286|ref|YP_003774378.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 298 Score = 289 bits (739), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 171/301 (56%), Positives = 218/301 (72%), Gaps = 11/301 (3%) Query: 3 FFFEVTLSGLLSGLMYSLVALGFVLIYKASGVFNFAQGAMVYFAALAVVGLMEKGMPMWA 62 FF EV GLLSG+MY+LVA+GFVLIYK SGV NFAQGA + FAAL V L+E+G+P Sbjct: 8 FFAEVLTGGLLSGVMYALVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSLVERGIPFVL 67 Query: 63 AIIGAFLVMIVVGLATERFVLRKLVNQPPITLFMATIGLAFFLEGLGPLLFGSEVRPIEL 122 A++ MI++GLA ER VLR L NQ P++LFMAT+GL++ +EG LL+G++V +EL Sbjct: 68 ALLLTLAAMILLGLAIERVVLRPLQNQSPMSLFMATLGLSYVIEGAAQLLWGTQVHALEL 127 Query: 123 GIVDEPIMSVMDSIGIGISKFDLFASGMVIGLVALLALFFQKTKVGRALRAVADDHQAAL 182 GI D P + G+ IS FDLFA+ +VALL+LFF+ T++G RA+ADD AAL Sbjct: 128 GIADTP----LQLGGMMISSFDLFAAATAALMVALLSLFFRYTRLGLEFRALADDGFAAL 183 Query: 183 SLGIPLQHIWAVVWGVAGFVALVAGLLWGSRNGVQFALTMTALKALPVLILGGFTSIPGA 242 ++G+ L I A VW AG +AL+AGLLWG+R GVQF+L++ LKALPVL+LGGF S+ GA Sbjct: 184 AVGLRLPRILAAVWATAGLIALIAGLLWGARLGVQFSLSLVVLKALPVLVLGGFDSVLGA 243 Query: 243 IVGGLIIGASEKLAEIYIPPVLQDLFGGNFGGIEGWFPYVFALLFLLVRPEGLFGERHID 302 IVGGL+IGA EKLAE+Y+ P++ GIEGWF YV AL FLLVRP GLFG+R Sbjct: 244 IVGGLLIGALEKLAEVYLGPLVGS-------GIEGWFAYVAALAFLLVRPSGLFGQRAWQ 296 Query: 303 R 303 R Sbjct: 297 R 297 >gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 128 bits (321), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 99/315 (31%), Positives = 164/315 (52%), Gaps = 19/315 (6%) Query: 1 MQFFFEVTLSGLLSGLMYSLVALGFVLIYKASGVFNFAQ------GAMVYFAALAVVGLM 54 M F + ++GL+ G MY+L+ALG+ ++Y + NFA GAMV + L VV + Sbjct: 1 MDIFIQQIINGLVLGSMYALIALGYTMVYGVLNLINFAHGDILMVGAMVGLSLLKVVQQV 60 Query: 55 EKGMP----MWAAIIGAFLVMIVVGLATERFVLRKLVNQPPITLFMATIGLAFFLEGLGP 110 G+P + AI+GA V IVV L ER R L N P + + IG++ L+ L Sbjct: 61 APGLPGIVQLVIAIVGAIPVCIVVSLLIERIAYRPLRNAPRLAPLITAIGVSILLQTLAM 120 Query: 111 LLFGSEVRPIELGIVDEPIMSVMDSIGIGISKFDLFASGMVIGLVALLALFFQKTKVGRA 170 +++G P + +P+ G IS + + + + L L +KTK+GRA Sbjct: 121 MIWGRSPLPFPQVMPSDPV----HIAGALISPTQIMLLALAVLAMVGLVLIVEKTKMGRA 176 Query: 171 LRAVADDHQAALSLGIPLQHIWAVVWGVAGFVALVAGLLWGSR-NGVQFALT-MTALKAL 228 +RA A++ + A +G+ + V + + +A +AG++W + + QFA+ + LKA Sbjct: 177 MRATAENPRIAGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLKAF 236 Query: 229 PVLILGGFTSIPGAIVGGLIIGASEKLAEIYIPPVLQDLFGGNFGGIEGWFPYVFALLFL 288 +LGG +I GA++GG+++G E L YI + + G N+ I F ++ ++ L Sbjct: 237 SAAVLGGIGNIYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDI---FAFIVLIIVL 293 Query: 289 LVRPEGLFGERHIDR 303 +RP G+ GER DR Sbjct: 294 TLRPSGIMGERVADR 308 >gi|300309519|ref|YP_003773611.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 128 bits (321), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 99/315 (31%), Positives = 164/315 (52%), Gaps = 19/315 (6%) Query: 1 MQFFFEVTLSGLLSGLMYSLVALGFVLIYKASGVFNFAQ------GAMVYFAALAVVGLM 54 M F + ++GL+ G MY+L+ALG+ ++Y + NFA GAMV + L VV + Sbjct: 1 MDIFIQQIINGLVLGSMYALIALGYTMVYGVLNLINFAHGDILMVGAMVGLSLLKVVQQV 60 Query: 55 EKGMP----MWAAIIGAFLVMIVVGLATERFVLRKLVNQPPITLFMATIGLAFFLEGLGP 110 G+P + AI+GA V IVV L ER R L N P + + IG++ L+ L Sbjct: 61 APGLPGIVQLVIAIVGAIPVCIVVSLLIERIAYRPLRNAPRLAPLITAIGVSILLQTLAM 120 Query: 111 LLFGSEVRPIELGIVDEPIMSVMDSIGIGISKFDLFASGMVIGLVALLALFFQKTKVGRA 170 +++G P + +P+ G IS + + + + L L +KTK+GRA Sbjct: 121 MIWGRSPLPFPQVMPSDPV----HIAGALISPTQIMLLALAVLAMVGLVLIVEKTKMGRA 176 Query: 171 LRAVADDHQAALSLGIPLQHIWAVVWGVAGFVALVAGLLWGSR-NGVQFALT-MTALKAL 228 +RA A++ + A +G+ + V + + +A +AG++W + + QFA+ + LKA Sbjct: 177 MRATAENPRIAGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLKAF 236 Query: 229 PVLILGGFTSIPGAIVGGLIIGASEKLAEIYIPPVLQDLFGGNFGGIEGWFPYVFALLFL 288 +LGG +I GA++GG+++G E L YI + + G N+ I F ++ ++ L Sbjct: 237 SAAVLGGIGNIYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDI---FAFIVLIIVL 293 Query: 289 LVRPEGLFGERHIDR 303 +RP G+ GER DR Sbjct: 294 TLRPSGIMGERVADR 308 >gi|300312237|ref|YP_003776329.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 92/291 (31%), Positives = 153/291 (52%), Gaps = 23/291 (7%) Query: 15 GLMYSLVALGFVLIYKASGVFNFAQGAMVYFAALAVVGLMEK-GMPMWAAIIGAFLVMIV 73 G +Y+L ALGF L++ GV N + GA+ + A + L+E+ +P+W A++ A + + Sbjct: 13 GSVYALFALGFTLVFGVLGVINLSHGAIFMLGSYAALLLVEQMALPLWVALLLAMVATGL 72 Query: 74 VGLATERFVLRKLV--NQPPITLFMATIGLAFFLEGLGPLLFGSEVRPIELGIVDEPIMS 131 +GL + VL+ L N P + +ATIG+A + + LFG+E + G + E +S Sbjct: 73 LGLIIDVLVLKPLRKRNAPHLIPMIATIGVAIMITNISQGLFGAENKRFPQGTIPEESVS 132 Query: 132 VMDSIGIGISKFDLFASGMVIGLVALLALFFQKTKVGRALRAVADDHQAALSLGIPLQHI 191 + ++ I + + V+ +V LL + +KT++GRALRA+A+ +AA LGI ++ + Sbjct: 133 -LGNLHITAVQVAIIVIAFVL-MVVLLGVM-RKTQLGRALRAIAESPKAAYLLGINVEGL 189 Query: 192 WAVV-WGVAGFVALVAGLLWGSRNGVQFALTMTAL-KALPVLILGGFTSIPGAIVGGLII 249 + + + A L+ S N + + L K + V+ILGG I GA++GGL + Sbjct: 190 FLLTSFAAAALGGAAGVLVGVSFNAISPFMGQPMLHKGIAVIILGGMGDIRGAMIGGLFL 249 Query: 250 GASEKLAEIYIPPVLQDLFGGNFGGIEGWFPYVFALLF--LLVRPEGLFGE 298 G +E L YI +D F LLF LLV+P G+FG+ Sbjct: 250 GFAEVLTVAYISSDFRD-------------AVAFGLLFLILLVKPSGMFGK 287 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 0.330 0.147 0.444 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: 813,706 Number of extensions: 32259 Number of successful extensions: 258 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 218 Number of HSP's successfully gapped: 26 Length of query: 304 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 219 Effective length of database: 1,217,395 Effective search space: 266609505 Effective search space used: 266609505 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: 130 (54.7 bits)