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= 0001.1503.p (414 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC t... 655 0.0 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 328 6e-91 gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 95 1e-20 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 83 4e-17 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 83 4e-17 >gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 413 Score = 655 bits (1690), Expect = 0.0, Method: Compositional matrix adjust. Identities = 316/381 (82%), Positives = 352/381 (92%) Query: 32 PAGAAEAIRIGEINSQGRQSTSGQAYRNGLALALEQINEAGGINGRPLQLVVREDDGDAD 91 P+ AAEAIRIGEINS+ R ST+GQAYRNGLALALEQIN AGG+ GRPLQLVVREDDGDAD Sbjct: 31 PSHAAEAIRIGEINSRHRLSTAGQAYRNGLALALEQINAAGGVGGRPLQLVVREDDGDAD 90 Query: 92 QAARNAKELVSNEHVEVLTGTMLSDVALAVARQAARSKTVLVVGDALSDAITLDKGNRYT 151 QAARNA+ L+S +HVEVLTG+MLSDVALAV+R+AAR +TVLVVGDALSDAITLDKGNRYT Sbjct: 91 QAARNARALISQDHVEVLTGSMLSDVALAVSREAARGRTVLVVGDALSDAITLDKGNRYT 150 Query: 152 FRVRPSTYMQAAMLAEQAARMPGRRWAVVAPNYEYGQSAVASFKMLLKQARPDVEFVSDQ 211 FRVRPSTYMQAAMLAEQAAR+PGRRWAVVAPNYEYGQSAVASFK+LLKQARPDVEFVSDQ Sbjct: 151 FRVRPSTYMQAAMLAEQAARLPGRRWAVVAPNYEYGQSAVASFKLLLKQARPDVEFVSDQ 210 Query: 212 WPALGKIKADDVVRAIRQSRPDGIFNATFGEDLQKLVQAGHRQQLFNGVRVVSMGAVGTQ 271 WPALGKIKADDV RAIRQSRPDGIFNATFGEDLQK VQAG+RQQLF GVRVVSM + G Sbjct: 211 WPALGKIKADDVARAIRQSRPDGIFNATFGEDLQKFVQAGNRQQLFEGVRVVSMASAGAP 270 Query: 272 ALDPSQSEAIRDWVSIGYPGEQINTPEHQRFLDAYMKKFSEPPQLPVVVGYSTMLAIAGG 331 +LDPSQSEAIRDW++IGYP +Q++ PEHQRFL+AY+K+FSE PQL V GY+TM+AIA G Sbjct: 271 SLDPSQSEAIRDWLAIGYPWDQVSLPEHQRFLEAYLKRFSERPQLSAVFGYTTMMAIAAG 330 Query: 332 LRKSEGGDGEALVEALRGLHWSSPLGELSFRALDQQSTMGAFIGLVSQKDGRSSLREWHY 391 L+KSEGGDGE LVEA+RGL + SPLG +SFRALDQQ+++GAF+GLVSQKDGRSS+R+W Y Sbjct: 331 LKKSEGGDGEVLVEAMRGLQFGSPLGPVSFRALDQQASLGAFVGLVSQKDGRSSMRDWRY 390 Query: 392 LDGTAYLPPPTYVRSRRPASA 412 LDG AYLPPP YVRSRRPASA Sbjct: 391 LDGAAYLPPPAYVRSRRPASA 411 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 328 bits (840), Expect = 6e-91, Method: Compositional matrix adjust. Identities = 164/376 (43%), Positives = 242/376 (64%) Query: 33 AGAAEAIRIGEINSQGRQSTSGQAYRNGLALALEQINEAGGINGRPLQLVVREDDGDADQ 92 A A + IRIGEINS Q + YR G +AL++IN +GG+ G+ L+++ R+D+G+ Sbjct: 26 ARAQDTIRIGEINSYKAQPAFLEPYRRGWEMALDEINASGGVLGKKLEVIARDDNGNPGD 85 Query: 93 AARNAKELVSNEHVEVLTGTMLSDVALAVARQAARSKTVLVVGDALSDAITLDKGNRYTF 152 + R A+EL++ E V +L G LS+ LA+ A + + + + L+D I GN+YT+ Sbjct: 86 SVRVAEELMARERVALLFGGFLSNTGLALTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTY 145 Query: 153 RVRPSTYMQAAMLAEQAARMPGRRWAVVAPNYEYGQSAVASFKMLLKQARPDVEFVSDQW 212 R+RPST M A + ++A ++ +RWA+V PNYEYGQSAVASFK L+KQA+PDVEFV++Q Sbjct: 146 RLRPSTSMLVASVVKEAVKLKKKRWAIVYPNYEYGQSAVASFKTLMKQAQPDVEFVAEQA 205 Query: 213 PALGKIKADDVVRAIRQSRPDGIFNATFGEDLQKLVQAGHRQQLFNGVRVVSMGAVGTQA 272 P LGKI A V +A+ ++PD IFNA F DL K V+ G+ + LF V VVS+ + Sbjct: 206 PPLGKIDAGAVTQALADAKPDAIFNALFAADLGKFVREGNTRGLFEQVDVVSLLTGEPEY 265 Query: 273 LDPSQSEAIRDWVSIGYPGEQINTPEHQRFLDAYMKKFSEPPQLPVVVGYSTMLAIAGGL 332 LDP + EA ++W+ GYP I+TPEH++F++AY KKF++ P+ +VGYS +++IA GL Sbjct: 266 LDPLKGEAPQNWIVTGYPWYAIHTPEHKKFVEAYRKKFNDYPRNGSLVGYSALMSIAAGL 325 Query: 333 RKSEGGDGEALVEALRGLHWSSPLGELSFRALDQQSTMGAFIGLVSQKDGRSSLREWHYL 392 RK+ D + L A GL +P+ + +R D QST+GAF+G K+GR + + Y+ Sbjct: 326 RKAGSTDADRLAAAFSGLKVETPVASIVYRPQDHQSTLGAFVGRTGLKEGRGVMTSFTYI 385 Query: 393 DGTAYLPPPTYVRSRR 408 DG A P V+ R Sbjct: 386 DGAALQLPDAEVKKLR 401 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 94.7 bits (234), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 99/363 (27%), Positives = 170/363 (46%), Gaps = 31/363 (8%) Query: 14 LSLLPALLGLVASLALPLPAGAAEAIRIGEINS-QGRQSTSGQAYRNGLALALEQI-NEA 71 LS + + + ++ LPA AA+ +++G + + G S G R G LAL+ + N+ Sbjct: 4 LSKVAGAVMMAMAVGASLPAQAADVVKVGFLTTLSGPASAPGVDEREGFMLALKTLGNKL 63 Query: 72 GGINGRPLQLVVREDDGDADQAARNAKELVSNEHVEVLTGTMLSDVALAVARQAARSKTV 131 GG+ P +++V +D D A + A L+ E V++L+G + S++ LAVA A SKTV Sbjct: 64 GGV---PAEVIVVDDQFSPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTV 120 Query: 132 LVVGDALSDAITLDKGNRYTFRVRPSTYMQAAMLAEQAARMPG----RRWAVVAPNYEYG 187 +V +A + N Y F S Q E A ++ +R A++APNY G Sbjct: 121 VVSANAGPAQLAGAGCNPYFF----SASYQNDAAHEAAGKLMADKGYQRVAIIAPNYPAG 176 Query: 188 QSAVASFKMLLKQARPDVEFVSDQWPALGKIKADDVVRAIRQSRPDGIFNATFG----ED 243 + A A FK LK+ P VE +P LG++ + +R + D ++ G Sbjct: 177 KDASAGFKRFLKK-DPAVEL----FPKLGQLDFATEIAQLRAANIDALYFFLPGGMGVNF 231 Query: 244 LQKLVQAGHRQQLFNGVRVVSMGAVGTQALDPSQSEAIRDWVSIGYPGEQINTPEHQRFL 303 +++ AG ++ VRV+ Q L S + I + G + +++ F+ Sbjct: 232 VKQYAAAGMDPKI---VRVMPAYDADQQML--SNGDLIAGVANTGQWSSDLPNEQNRAFV 286 Query: 304 DAYMKKFSEPPQLPVVVGYSTMLAIAGGLRKSEGG---DGEALVEALRGLHWSSPLGELS 360 AY+K++ P + Y + I + K+ GG + EAL+ A++ ++ S G Sbjct: 287 AAYLKEYGRQPSMFASQAYDAAMLIDSAV-KAVGGKVENREALIAAIKTANFKSVRGGFR 345 Query: 361 FRA 363 F A Sbjct: 346 FAA 348 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 98/371 (26%), Positives = 160/371 (43%), Gaps = 44/371 (11%) Query: 14 LSLLPALL-GLV---ASLALPLPAGAAEAIRIGEINSQGRQSTSGQAYRNGLALALEQIN 69 L +PALL G A+LA + G AEA+ G + G A +NG LA E+IN Sbjct: 7 LKTIPALLIGATLSQAALAADIKLGVAEALT-------GPAAKYGVAIKNGFTLASEEIN 59 Query: 70 EAGGINGRPLQLVVREDDGDADQAARNAKELVSNEHVEVLTGTMLSDVALAVARQAARSK 129 GG+NG L LV+ ++ G ++A K+L+ + V + G LS+ A A A +K Sbjct: 60 AKGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAK 119 Query: 130 TVLVVGDALSDAITLDKGNRYTFRVRPSTYMQAAML---AEQAARMPG-RRWAVVAPNYE 185 V+ +D IT +TFR ++ M+A +L + A + G ++ AV+ N + Sbjct: 120 VVVFGTSNTADGIT--AMGPFTFR---NSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDD 174 Query: 186 -YGQSAVASFKMLLKQARPDVEFVSDQWPALGKIKADDVVRAIRQSRPDGIFNATFGEDL 244 + +S FK L+ + + + + A G + + I+ PD I + E+ Sbjct: 175 AFTKSGYDVFKATLEHQK--IPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEA 232 Query: 245 QKLV----QAGHRQQLF--NGVRVVSMGAVGTQALDPSQSEAIRDWVSIGYPGEQIN-TP 297 ++ G +Q NG+ + + A D + +G P N TP Sbjct: 233 ANIILQTRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTL---------MGSPWSAENQTP 283 Query: 298 EHQRFLDAYMKKFSEPPQLPVVVGYSTMLAIAGGLRKSE-----GGDGEALVEALRGLHW 352 ++ F+ AY KF P Y M +A L+ + D +AL AL + Sbjct: 284 ANKAFITAYKAKFGADPDQFAAQAYDAMYIVADALKNVKLSGNLAKDRDALRAALPAVKI 343 Query: 353 SSPLGELSFRA 363 G+ +FRA Sbjct: 344 DGATGKFAFRA 354 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 87/347 (25%), Positives = 168/347 (48%), Gaps = 36/347 (10%) Query: 25 ASLALPLPAGAAEAIRIGEIN-SQGRQSTSGQAYRNGLALALEQINEAGGINGRPLQLVV 83 A ++L L + AA+ I+IG G + G + R+G+ LA+ +IN AGG+ GR +QL+ Sbjct: 12 ALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGLLGRQIQLIE 71 Query: 84 REDDGDADQAARNAKELVSNEHVEVLTGTMLSDVALAVARQAARSKTVLV----VGDALS 139 R+D+ ++ + A+EL++ E V G + + VALA R +K ++ G ++ Sbjct: 72 RDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVATGTVIT 131 Query: 140 DAITLDKGNRYTFRVRPSTYMQAAMLAEQAA-RMPGRRWAVVAPNYEYGQSAVASFKMLL 198 +K N Y FR + +QA M+A++A + + A++A + YGQ + +L Sbjct: 132 KQFEKEKDN-YVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLGREDLEKVL 190 Query: 199 --KQARPDVEFVSDQWPALGKIKADDVVRAIRQSRPDG---IFNATFGEDLQKLVQAGHR 253 K+ P +++ IK D+ + +S+ G + G +L ++ A Sbjct: 191 ADKKVTP---VAVEKY----NIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQI--ANGM 241 Query: 254 QQLFNGVRVV-----SMGA-VGTQALDPSQSEAIRDWVSIGYPGEQINTPEHQRFLDAYM 307 ++L V ++ SMG + + + + + ++ G NTP+ + F++AY Sbjct: 242 EKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDG------NTPKRKAFIEAYQ 295 Query: 308 KKFS---EPPQLPVVVGYSTMLAIAGGLRKSEGGDGEALVEALRGLH 351 K + P + GY ++L +A ++++ DG+ + AL L+ Sbjct: 296 KAYKVDRMPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLN 342 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 0.317 0.132 0.378 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: 1,240,168 Number of extensions: 52144 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 229 Number of HSP's successfully gapped: 14 Length of query: 414 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 326 Effective length of database: 1,203,190 Effective search space: 392239940 Effective search space used: 392239940 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 132 (55.5 bits)