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= 0001.0081.p (402 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311945|ref|YP_003776037.1| branched-chain amino acid ABC t... 802 0.0 gi|300313997|ref|YP_003778089.1| urea transport system, permease... 229 4e-61 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 82 8e-17 gi|300311564|ref|YP_003775656.1| branched-chain amino acid ABC t... 74 2e-14 gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC t... 72 1e-13 >gi|300311945|ref|YP_003776037.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 401 Score = 802 bits (2071), Expect = 0.0, Method: Compositional matrix adjust. Identities = 401/401 (100%), Positives = 401/401 (100%) Query: 2 MNAAYEKLLGGRSGALGLLVMAALLLVVFPLTLDMFRLNLVGKYLSYAFVAVGLVLCWGY 61 MNAAYEKLLGGRSGALGLLVMAALLLVVFPLTLDMFRLNLVGKYLSYAFVAVGLVLCWGY Sbjct: 1 MNAAYEKLLGGRSGALGLLVMAALLLVVFPLTLDMFRLNLVGKYLSYAFVAVGLVLCWGY 60 Query: 62 GGILSLGQGVFFGLGGYCMAMFLKLEASDPISTKIQSTPGIPDFMDWNQITALPAMWEPF 121 GGILSLGQGVFFGLGGYCMAMFLKLEASDPISTKIQSTPGIPDFMDWNQITALPAMWEPF Sbjct: 61 GGILSLGQGVFFGLGGYCMAMFLKLEASDPISTKIQSTPGIPDFMDWNQITALPAMWEPF 120 Query: 122 HSFAFTIFAVLAVPTVLAMLIGMAMFKRRVGDVYFSIVTQAIAAILSILIIGQQGLTGGV 181 HSFAFTIFAVLAVPTVLAMLIGMAMFKRRVGDVYFSIVTQAIAAILSILIIGQQGLTGGV Sbjct: 121 HSFAFTIFAVLAVPTVLAMLIGMAMFKRRVGDVYFSIVTQAIAAILSILIIGQQGLTGGV 180 Query: 182 NGITDLKTLMGWDIRTDHAKLVLYFVNAGLLFGCILFGRYVLGSKLGRLLVAMRDKEERV 241 NGITDLKTLMGWDIRTDHAKLVLYFVNAGLLFGCILFGRYVLGSKLGRLLVAMRDKEERV Sbjct: 181 NGITDLKTLMGWDIRTDHAKLVLYFVNAGLLFGCILFGRYVLGSKLGRLLVAMRDKEERV 240 Query: 242 RFSGYDVASFKVFVFCAAAMFSAIGGAMFTLQVGFMSPSFVGIVPSIEMVIFAAVGGRMS 301 RFSGYDVASFKVFVFCAAAMFSAIGGAMFTLQVGFMSPSFVGIVPSIEMVIFAAVGGRMS Sbjct: 241 RFSGYDVASFKVFVFCAAAMFSAIGGAMFTLQVGFMSPSFVGIVPSIEMVIFAAVGGRMS 300 Query: 302 LLGAVYGTLLVNFGKTYFSETFPELWLFLMGGLFIAVVMYFPNGLAGLWQTQGKRLMGKL 361 LLGAVYGTLLVNFGKTYFSETFPELWLFLMGGLFIAVVMYFPNGLAGLWQTQGKRLMGKL Sbjct: 301 LLGAVYGTLLVNFGKTYFSETFPELWLFLMGGLFIAVVMYFPNGLAGLWQTQGKRLMGKL 360 Query: 362 RGEPNAKAAVAAEPLKTTPRPSTPDTKRDGIEPGATLEASK 402 RGEPNAKAAVAAEPLKTTPRPSTPDTKRDGIEPGATLEASK Sbjct: 361 RGEPNAKAAVAAEPLKTTPRPSTPDTKRDGIEPGATLEASK 401 >gi|300313997|ref|YP_003778089.1| urea transport system, permease component protein [Herbaspirillum seropedicae SmR1] Length = 376 Score = 229 bits (583), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 140/339 (41%), Positives = 194/339 (57%), Gaps = 4/339 (1%) Query: 32 LTLDMFRLNLVGKYLSYAFVAVGLVLCWGYGGILSLGQGVFFGLGGYCMAMFLKLEASDP 91 L + + + LVGK++ YA A+ L L WGY GILSLG GVFF LGGY M+L Sbjct: 42 LHVSSYTVALVGKFMCYAMAALALDLVWGYTGILSLGHGVFFALGGYAHGMYLM----RA 97 Query: 92 ISTKIQSTPGIPDFMDWNQITALPAMWEPFHSFAFTIFAVLAVPTVLAMLIGMAMFKRRV 151 I +PDFM + A P W F F + V+ VP +LA + G F+ R+ Sbjct: 98 IGRDGVYQSDLPDFMVFLNWKAYPWYWWMTDHFWFAMLLVVLVPGLLAFVFGYFAFRSRI 157 Query: 152 GDVYFSIVTQAIAAILSILIIGQQGLTGGVNGITDLKTLMGWDIRTDHAKLVLYFVNAGL 211 VYFSI+TQA+ +L GG NG TD K ++G+ I K VLY V GL Sbjct: 158 KGVYFSIITQAMTFAFMLLFFRNDTGFGGNNGFTDFKRILGFTITAPATKAVLYLVTLGL 217 Query: 212 LFGCILFGRYVLGSKLGRLLVAMRDKEERVRFSGYDVASFKVFVFCAAAMFSAIGGAMFT 271 LFG ++ R ++ SKLGR+L +RD E R+ F GY+ FK+FV+ +A+ I GA++ Sbjct: 218 LFGALVLCRMIVTSKLGRVLQGVRDSESRLMFIGYNPLWFKLFVWTLSAVICGIAGALYV 277 Query: 272 LQVGFMSPSFVGIVPSIEMVIFAAVGGRMSLLGAVYGTLLVNFGKTYFSETFPELWLFLM 331 QVG ++PS + SIEMVI+AAVGGR +L+G + G VN K++F+ FP+LWL+ + Sbjct: 278 PQVGIINPSEMSPANSIEMVIWAAVGGRGTLIGPIIGAFTVNGLKSWFTAAFPDLWLYAL 337 Query: 332 GGLFIAVVMYFPNGLAGLWQTQGKRLMGKLRGEPNAKAA 370 G +FI V ++ P G+ GL Q KR G + +AA Sbjct: 338 GLIFILVTLFLPQGILGLVQKFKKRDAVAAEGSASKEAA 376 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 82.0 bits (201), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 82/297 (27%), Positives = 137/297 (46%), Gaps = 44/297 (14%) Query: 17 LGLLVMAALLLVVFPLTLDMFRLNLVGKYLSYAFVAVGLVLCWGYGGILSLGQGVFFGLG 76 LG++ +A + +VV + + L+L+ L YA + GL + GY G +SLG FG+G Sbjct: 11 LGIVALAGIPMVVH----NPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIG 66 Query: 77 GYCM-AMFLKLEASDPISTKIQSTPGIPDFMDWNQITALPAMWEPFHSFAFTIFAVLAVP 135 Y +F KL G+P F+ A+ A++ A+LA+P Sbjct: 67 SYAAGVLFFKL--------------GMPIFVTVPAAIAVTAVFG----------AILALP 102 Query: 136 TVLAMLIGMAMFKRRVGDVYFSIVTQAIAAILSILIIGQQGLTGGVNGITDLKTLMGWDI 195 + RV Y ++VT A I+ ILI LT G GI K ++G D Sbjct: 103 AL------------RVTGPYLAMVTLAFGTIIQILINEMTFLTEGPLGIKLQKPMIGGD- 149 Query: 196 RTDHAKLVLYFVNAGLLFGCILFGRYVLGSKLGRLLVAMRDKEERVRFSGYDVASFKVFV 255 +++ +++ A L+ +L +L S LGR A+RD G V +KV+ Sbjct: 150 --KMSEVQFFYLVAVLMVLSMLVVHRILKSNLGRAFQALRDSPIASDCMGVSVYRYKVYA 207 Query: 256 FCAAAMFSAIGGAMFTLQVGFMSPSFVGIVPSIEMVIFAAVGGRMSLLGAVYGTLLV 312 F +A + + GA++ ++SP+ +I ++ +GGR S +G++ G L+V Sbjct: 208 FIISAALAGLSGALYAYSEEYISPNTYNFELTIMFLLAVIMGGRKSRIGSLIGALIV 264 >gi|300311564|ref|YP_003775656.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 56/212 (26%), Positives = 104/212 (49%), Gaps = 4/212 (1%) Query: 148 KRRVGDVYFSIVTQAIAAILSILIIGQQGLTGGVNGITDLKTLMGWDIRTDHA-KLVLYF 206 RR G F+++T + ++S ++ + GG GI+ + + + + ++ +Y+ Sbjct: 110 TRRAGTT-FAMITLGLVELVSACVLMFPEVFGGEGGISGNRVIGEPVLGISYGPQIQVYY 168 Query: 207 VNAGLLFGCILFGRYVLGSKLGRLLVAMRDKEERVRFSGYDVASFKVFVFCAAAMFSAIG 266 + AG L C + + + LGR+L A+RD ER F GYD + +A F+ + Sbjct: 169 LIAGWLLVCAIAIWALRATPLGRILNAVRDNPERAAFIGYDPQRVRYLALILSAFFAGVS 228 Query: 267 GAMFTLQVGFMSPSFVGIVPSIEMVIFAAVGGRMSLLGAVYGTLLVNFGKTYFSETFPEL 326 G + + +S +VG + S +++F +GG G + G ++ ++ S + + Sbjct: 229 GGLSAINFEIVSAEYVGALRSGAILLFTFIGGSAYFYGPIVGGVVGVLFSSWLS-AYTQA 287 Query: 327 WLFLMGGLFIAVVMYFPNGLAGLWQTQGKRLM 358 W F +G FI +VM P GLA L QG R++ Sbjct: 288 WQFYLGAFFILIVMTAPGGLASL-IDQGWRIL 318 >gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 80/320 (25%), Positives = 135/320 (42%), Gaps = 49/320 (15%) Query: 27 LVVFPLTLDMFR---LNLVGKYLSYAFVAVGLVLCWGYGGILSLGQGVFFGLGGYCMAMF 83 ++VFP F + ++ L Y +A+GL + G+ G+L LG F+ +G Y + Sbjct: 26 MIVFPFVAQQFGNSWVRIMDVALLYIMLALGLNVVVGFAGLLDLGYIAFYAIGAYSAGLL 85 Query: 84 LKLEASDPISTKIQSTPGIPDFMDW--------NQITALPAMWEPFHSFAFTIF-AVLAV 134 + + I + + + P + +F+ W N I + P +F +F A+L Sbjct: 86 ASPQFAAVIESFVNTYPSVGNFLVWLCGPEIVQNGIHLSLWLIVPISAFLAALFGALLGA 145 Query: 135 PTVLAMLIGMAMFKRRVGDVYFSIVTQAIAAILSI----------LIIGQQGLT------ 178 PT+ K R GD Y +IVT I+ I + G QG+ Sbjct: 146 PTL----------KLR-GD-YLAIVTLGFGEIIRIFMNNLNAPVNITNGPQGINLIDPIK 193 Query: 179 ------GGVNGITDLKTLMGWDIRTDHAKLVLYFVNAGLLFGCILFGRYVLGSKLGRLLV 232 G G + + G + + +A L+ + L G I F + S+LGR V Sbjct: 194 VFGVSLAGEPGSGSMVKVFGMSMPSVNAYYFLFLL---LCIGVIFFSVRLQDSRLGRAWV 250 Query: 233 AMRDKEERVRFSGYDVASFKVFVFCAAAMFSAIGGAMFTLQVGFMSPSFVGIVPSIEMVI 292 A+R+ E + G + + K+ F A F + GAMF GF+SP + SI ++ Sbjct: 251 AIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESFSLTESIAVLA 310 Query: 293 FAAVGGRMSLLGAVYGTLLV 312 +GG + G V G +++ Sbjct: 311 MVVLGGIGHIPGVVLGGVIL 330 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 0.436 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: 1,157,808 Number of extensions: 48360 Number of successful extensions: 274 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 266 Number of HSP's successfully gapped: 15 Length of query: 402 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 315 Effective length of database: 1,207,925 Effective search space: 380496375 Effective search space used: 380496375 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: 132 (55.5 bits)