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= 0001.0749.p (298 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310286|ref|YP_003774378.1| branched-chain amino acid ABC t... 471 e-134 gi|300311880|ref|YP_003775972.1| amino acid ABC transporter perm... 302 2e-83 gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC t... 119 3e-28 gi|300309519|ref|YP_003773611.1| branched-chain amino acid ABC t... 119 3e-28 gi|300311114|ref|YP_003775206.1| branched-chain amino acid ABC t... 104 9e-24 >gi|300310286|ref|YP_003774378.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 298 Score = 471 bits (1212), Expect = e-134, Method: Compositional matrix adjust. Identities = 274/298 (91%), Positives = 283/298 (94%) Query: 1 MIDFDWVFFAEVLTGGLLSGVMYSLVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSLVE 60 M DFD VFFAEVLTGGLLSGVMY+LVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSLVE Sbjct: 1 MSDFDGVFFAEVLTGGLLSGVMYALVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSLVE 60 Query: 61 HGIPFALALLLTLAAMILLGLSIERVVLRPLVNQSPMTLFMATLGLSYVIEGVAQLLWGT 120 GIPF LALLLTLAAMILLGL+IERVVLRPL NQSPM+LFMATLGLSYVIEG AQLLWGT Sbjct: 61 RGIPFVLALLLTLAAMILLGLAIERVVLRPLQNQSPMSLFMATLGLSYVIEGAAQLLWGT 120 Query: 121 QVHALDLGIDDTPLHVGQMMISSFDLFAAITAALMVALLSAFFRYTRMGLEFRALADDSY 180 QVHAL+LGI DTPL +G MMISSFDLFAA TAALMVALLS FFRYTR+GLEFRALADD + Sbjct: 121 QVHALELGIADTPLQLGGMMISSFDLFAAATAALMVALLSLFFRYTRLGLEFRALADDGF 180 Query: 181 AALAVGLRLPRILTAVWATAGLIALIAGLLWGARLGVQFSLSLVVLKALPVLVLGGFDSI 240 AALAVGLRLPRIL AVWATAGLIALIAGLLWGARLGVQFSLSLVVLKALPVLVLGGFDS+ Sbjct: 181 AALAVGLRLPRILAAVWATAGLIALIAGLLWGARLGVQFSLSLVVLKALPVLVLGGFDSV 240 Query: 241 LGAIVGGLLIGALEKLAEVYLGPLVGSGIEGWFAYVAALAFLLVKPSGLFGQAALQRA 298 LGAIVGGLLIGALEKLAEVYLGPLVGSGIEGWFAYVAALAFLLV+PSGLFGQ A QRA Sbjct: 241 LGAIVGGLLIGALEKLAEVYLGPLVGSGIEGWFAYVAALAFLLVRPSGLFGQRAWQRA 298 >gi|300311880|ref|YP_003775972.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 302 bits (774), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 171/302 (56%), Positives = 217/302 (71%), Gaps = 13/302 (4%) Query: 8 FFAEVLTGGLLSGVMYSLVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSLVEHGIPFAL 67 FF EV GLLSG+MYSLVA+GFVLIYK SGV NFAQGA + FAAL V L+E G+P Sbjct: 3 FFLEVTLSGLLSGLMYSLVALGFVLIYKASGVFNFAQGAMVYFAALAVVGLMEKGMPMWA 62 Query: 68 ALLLTLAAMILLGLSIERVVLRPLVNQSPMTLFMATLGLSYVIEGVAQLLWGTQVHALDL 127 A++ MIL+GL+ ER VLR LVNQ P+TLFMAT+GL++ +EG+ LL+G++V +DL Sbjct: 63 AIIGAFVVMILVGLATERFVLRKLVNQPPITLFMATIGLTFFLEGLGPLLFGSEVRPIDL 122 Query: 128 GIDDTPLH-----VGQMMISSFDLFAAITAALMVALLSAFFRYTRMGLEFRALADDSYAA 182 GI D P+ +G + IS FDLFA+ +VA L+ FF+ T++G RA+ADD AA Sbjct: 123 GIVDEPIQSVMDSIG-IGISKFDLFASGMVVALVAALALFFQKTKVGRALRAVADDHQAA 181 Query: 183 LAVGLRLPRILTAVWATAGLIALIAGLLWGARLGVQFSLSLVVLKALPVLVLGGFDSILG 242 L++G+ L I VW AG +ALIAGLLWG+R GVQF+L++ LKALPVL+LGGF SI G Sbjct: 182 LSLGIPLQHIWAVVWGVAGFVALIAGLLWGSRNGVQFALTMTALKALPVLILGGFTSIPG 241 Query: 243 AIVGGLLIGALEKLAEVYLGPLVGS-------GIEGWFAYVAALAFLLVKPSGLFGQAAL 295 AIVGGL+IGA EKLAE+Y+ P++ GIEGWF YV AL FLLV+P GLFG+ + Sbjct: 242 AIVGGLIIGASEKLAEIYIPPVMQDAFGGNFGGIEGWFPYVFALLFLLVRPEGLFGERHI 301 Query: 296 QR 297 R Sbjct: 302 DR 303 >gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 119 bits (298), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 91/307 (29%), Positives = 158/307 (51%), Gaps = 16/307 (5%) Query: 8 FFAEVLTGGLLSGVMYSLVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSL------VEH 61 F + + GL+ G MY+L+A+G+ ++Y ++NFA G L+ A+ +SL V Sbjct: 3 IFIQQIINGLVLGSMYALIALGYTMVYGVLNLINFAHGDILMVGAMVGLSLLKVVQQVAP 62 Query: 62 GIP----FALALLLTLAAMILLGLSIERVVLRPLVNQSPMTLFMATLGLSYVIEGVAQLL 117 G+P +A++ + I++ L IER+ RPL N + + +G+S +++ +A ++ Sbjct: 63 GLPGIVQLVIAIVGAIPVCIVVSLLIERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMI 122 Query: 118 WGTQVHALDLGIDDTPLHVGQMMISSFDLFAAITAALMVALLSAFFRYTRMGLEFRALAD 177 WG + P+H+ +IS + A L + L T+MG RA A+ Sbjct: 123 WGRSPLPFPQVMPSDPVHIAGALISPTQIMLLALAVLAMVGLVLIVEKTKMGRAMRATAE 182 Query: 178 DSYAALAVGLRLPRILTAVWATAGLIALIAGLLWGARLGV-QFSLSLVV-LKALPVLVLG 235 + A +G+ +++ +A +A IAG++W A QF++ V LKA VLG Sbjct: 183 NPRIAGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLKAFSAAVLG 242 Query: 236 GFDSILGAIVGGLLIGALEKLAEVYLGPLV----GSGIEGWFAYVAALAFLLVKPSGLFG 291 G +I GA++GG+L+G +E L Y+G L GS + FA++ + L ++PSG+ G Sbjct: 243 GIGNIYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDIFAFIVLIIVLTLRPSGIMG 302 Query: 292 QAALQRA 298 + RA Sbjct: 303 ERVADRA 309 >gi|300309519|ref|YP_003773611.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 119 bits (298), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 91/307 (29%), Positives = 158/307 (51%), Gaps = 16/307 (5%) Query: 8 FFAEVLTGGLLSGVMYSLVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSL------VEH 61 F + + GL+ G MY+L+A+G+ ++Y ++NFA G L+ A+ +SL V Sbjct: 3 IFIQQIINGLVLGSMYALIALGYTMVYGVLNLINFAHGDILMVGAMVGLSLLKVVQQVAP 62 Query: 62 GIP----FALALLLTLAAMILLGLSIERVVLRPLVNQSPMTLFMATLGLSYVIEGVAQLL 117 G+P +A++ + I++ L IER+ RPL N + + +G+S +++ +A ++ Sbjct: 63 GLPGIVQLVIAIVGAIPVCIVVSLLIERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMI 122 Query: 118 WGTQVHALDLGIDDTPLHVGQMMISSFDLFAAITAALMVALLSAFFRYTRMGLEFRALAD 177 WG + P+H+ +IS + A L + L T+MG RA A+ Sbjct: 123 WGRSPLPFPQVMPSDPVHIAGALISPTQIMLLALAVLAMVGLVLIVEKTKMGRAMRATAE 182 Query: 178 DSYAALAVGLRLPRILTAVWATAGLIALIAGLLWGARLGV-QFSLSLVV-LKALPVLVLG 235 + A +G+ +++ +A +A IAG++W A QF++ V LKA VLG Sbjct: 183 NPRIAGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLKAFSAAVLG 242 Query: 236 GFDSILGAIVGGLLIGALEKLAEVYLGPLV----GSGIEGWFAYVAALAFLLVKPSGLFG 291 G +I GA++GG+L+G +E L Y+G L GS + FA++ + L ++PSG+ G Sbjct: 243 GIGNIYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDIFAFIVLIIVLTLRPSGIMG 302 Query: 292 QAALQRA 298 + RA Sbjct: 303 ERVADRA 309 >gi|300311114|ref|YP_003775206.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 104 bits (259), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 89/294 (30%), Positives = 147/294 (50%), Gaps = 21/294 (7%) Query: 16 GLLSGVMYSLVAIGFVLIYKTSGVLNFAQGAQLLFAALTFVSLVE--HGIPFA---LALL 70 G+ G++Y+++A G+ L + TSG LNF QG L+ AL +S+V HG P+ L + Sbjct: 11 GIALGMIYAVIAFGYQLTFATSGTLNFGQGEALMLGALVGLSVVGNIHGGPYLNYWLMIP 70 Query: 71 LTLAAMILLGLSIERVVLRPLVN-QSPMTLFMATLGLSYVIEGVAQLLWGTQVHALDLGI 129 + L L G+ +E + +RP + +S M+T+ L+ + + VA+ +WG I Sbjct: 71 IVLVFGALQGMFVEWIGVRPAIKIKSEFGWIMSTIALAIIFKNVAENIWGKDDLPFPSPI 130 Query: 130 DDTPLHVGQMMISSFDLFAAITAALMVALLSAFFRYTRMGLEFRALADDSYAALAVGLRL 189 P + + + + A L++A + F R + G A ++D AA +G+ Sbjct: 131 SGAPFQIFGANVQPMQVLVVVGALLIMAAVELFNRKSIYGKAVVATSNDRDAAGLMGINT 190 Query: 190 PRILTAVWATAGLIALIAGL------LWGARLGVQFSLSLVVLKALPVLVLGGFDSILGA 243 ++T +A + A AG+ L GA +G LKA V ++GG S +GA Sbjct: 191 SMVITFSYALSSATAAFAGVLVAPLTLTGATMGAALG-----LKAFAVAIIGGLTSGMGA 245 Query: 244 IVGGLLIGALEKLAEVYLGPLVGSGIEGWFAYVAALAFLLVKPSGLFGQAALQR 297 IVGGL++G E L Y + +G + V L L VKP+GLFG+ A+++ Sbjct: 246 IVGGLILGVAETLTGFY----ISTGYKEVPGLVLLLLVLAVKPAGLFGKTAIKK 295 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 0.144 0.421 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: 608,315 Number of extensions: 18631 Number of successful extensions: 181 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 165 Number of HSP's successfully gapped: 21 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 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)