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= 0031.0047.p (391 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 790 0.0 gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC t... 410 e-116 gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 107 2e-24 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 83 3e-17 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 79 8e-16 >gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 391 Score = 790 bits (2041), Expect = 0.0, Method: Compositional matrix adjust. Identities = 390/391 (99%), Positives = 391/391 (100%) Query: 1 MRFKKIALLAVMAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHG 60 MRFKKIALLAVMAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHG Sbjct: 1 MRFKKIALLAVMAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHG 60 Query: 61 DQVAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKK 120 DQVAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKK Sbjct: 61 DQVAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKK 120 Query: 121 PMIIMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAET 180 PMIIMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAET Sbjct: 121 PMIIMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAET 180 Query: 181 AFKTNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRE 240 AFKTNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRE Sbjct: 181 AFKTNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRE 240 Query: 241 RGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPG 300 RGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPG Sbjct: 241 RGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPG 300 Query: 301 AGRPNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIV 360 AGRPNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIV Sbjct: 301 AGRPNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIV 360 Query: 361 QTVYVRKVEKIGSEAYNVEFDKFENMKDTGK 391 QTVYVRKVEKIG+EAYNVEFDKFENMKDTGK Sbjct: 361 QTVYVRKVEKIGNEAYNVEFDKFENMKDTGK 391 >gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 410 bits (1054), Expect = e-116, Method: Compositional matrix adjust. Identities = 210/387 (54%), Positives = 278/387 (71%), Gaps = 2/387 (0%) Query: 4 KKIALLAVMAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDQV 63 ++ +LA A G LA+A + +KVGLI SGPFA G+Q+E +K Y ++GD V Sbjct: 10 RRQVMLAGTALVAGGAPMLARAADVLKVGLIVPMSGPFASTGRQIEAAVKLYQQKYGDSV 69 Query: 64 AGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPMI 123 AG+K++I++KD G SP++ KRLAQELV REK L GFGLTP ALA APIA QAK PMI Sbjct: 70 AGRKVEIVLKDDGGVSPDVTKRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAKAPMI 129 Query: 124 IMNAATSVITTKSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFK 183 + AATS+I +S YI R TL QV+ P+A+WA KNGIK VVT V+DYGPG+DAE F Sbjct: 130 VTAAATSIIPQRSPYIVRTGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFV 189 Query: 184 TNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRERGL 243 GG+V+ES+RVPLRNP++AP++QR+KDAKP+A+F+FVP+GE + A +K + ERGL Sbjct: 190 KTFGEAGGKVMESVRVPLRNPDYAPFLQRVKDAKPQALFVFVPSGEGA-AVLKQFTERGL 248 Query: 244 AEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGR 303 A AGI++I TGD+ DD +M +G + V+++ HYSAAH S NK ++++ A AN G R Sbjct: 249 AAAGIRLICTGDVLDDDLMAGIGAAAKDVVSSHHYSAAHPSAANKEYVEAMAKANKGM-R 307 Query: 304 PNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIVQTV 363 NF +V AYDGM+ +YE KK G DGD+ +A +K M + S RGP+A+D ATRDIVQTV Sbjct: 308 ANFHSVGAYDGMHLLYESLKKTGGDADGDKLLAAMKGMSWESVRGPVAVDAATRDIVQTV 367 Query: 364 YVRKVEKIGSEAYNVEFDKFENMKDTG 390 Y+RK E G+E YNVEFD+ E ++D G Sbjct: 368 YMRKAELRGAEFYNVEFDQVEKVRDPG 394 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 107 bits (267), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 112/374 (29%), Positives = 172/374 (45%), Gaps = 18/374 (4%) Query: 2 RFKKIALLAVMAASGGLLASL-AQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHG 60 R K+A +MA + G ASL AQA + +KVG + SGP + G G + G Sbjct: 3 RLSKVAGAVMMAMAVG--ASLPAQAADVVKVGFLTTLSGPASAPGVDEREGFMLALKTLG 60 Query: 61 DQVAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKK 120 +++ G ++I+ D SP+ AK+ A L+ REKVD L+GF + LAVAP A +K Sbjct: 61 NKLGGVPAEVIVVDDQF-SPDAAKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKT 119 Query: 121 PMIIMNAATSVITTKSNYIARFSMTLPQVSGPMATWAL--KNGIKRVVTLVADYGPGIDA 178 ++ NA + + FS + + A L G +RV + +Y G DA Sbjct: 120 VVVSANAGPAQLAGAGCNPYFFSASYQNDAAHEAAGKLMADKGYQRVAIIAPNYPAGKDA 179 Query: 179 ETAFKTNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGY 238 FK L L L +FA I +++ A +A++ F+P G + F+K Y Sbjct: 180 SAGFKRFLKKDPAVELFP---KLGQLDFATEIAQLRAANIDALYFFLPGG-MGVNFVKQY 235 Query: 239 RERGLAEAGIKVIATGDLTDDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAAN 298 G+ ++V+ D D M + G+ GV T +S+ + +N+AF+ ++ Sbjct: 236 AAAGMDPKIVRVMPAYDA--DQQMLSNGDLIAGVANTGQWSSDLPNEQNRAFVAAYLKEY 293 Query: 299 PGAGR-PNFMAVAAYDGMNAIYEVSKKLNGKIDGDRAM-AILKTMKFTSPRGPIAIDPAT 356 GR P+ A AYD I K + GK++ A+ A +KT F S RG A Sbjct: 294 ---GRQPSMFASQAYDAAMLIDSAVKAVGGKVENREALIAAIKTANFKSVRGGFRF-AAN 349 Query: 357 RDIVQTVYVRKVEK 370 +Q Y R V K Sbjct: 350 HFPIQNQYARVVTK 363 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 89/366 (24%), Positives = 164/366 (44%), Gaps = 23/366 (6%) Query: 27 ETIKVGLIAAFSGPFADYGKQMEGG---IKAYMAQHGDQVAGKKIQIIIKDTTGPSPEIA 83 + IK+G I SG ++D Q GG IK +A G + GKKI++++ D + ++A Sbjct: 29 DVIKIGFITDISGVYSDIDGQ--GGAEAIKMAIADMGGAINGKKIELLVADHQNKA-DVA 85 Query: 84 KRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPMIIMNAATSVITTK--SNYIAR 141 A+E ++ VD L G + ALA A +A + KK + + A ++ +T + S Y Sbjct: 86 ASKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVH 145 Query: 142 FSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQVLESIRVPL 201 ++ ++ + +K G K L ADY G E+ + GG V+ +++ PL Sbjct: 146 YAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHPL 205 Query: 202 RNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRERGLAE----AGIKVIATGDLT 257 +F+ ++ + + +K + + AG I +K E G+ + AG+ V + Sbjct: 206 GASDFSSFLLQAQSSKAQ-IIGLANAGGDFINSVKAANEFGITKTAKLAGLLVF----IN 260 Query: 258 DDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGRPNFMAVAAYDGMNA 317 D H + L + ++++ A + E +AF K + A P+ + A Y Sbjct: 261 DVHSLTLKNTEGLYLTDSWYWDA---NEETRAFAKRYFAVRK--KMPSSLQAADYSAALQ 315 Query: 318 IYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIVQTVYVRKVEKIGSEAYN 377 +V K++ G D D+ MA L+ KF A ++ +Y+ +V+ Y Sbjct: 316 YLKVVKEI-GTDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQVKAQSESKYP 374 Query: 378 VEFDKF 383 ++ K Sbjct: 375 WDYYKL 380 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 78.6 bits (192), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 113/233 (48%), Gaps = 10/233 (4%) Query: 4 KKIALLAVMAASGG--LLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAY---MAQ 58 ++ AL A A G +L S A +TIK+G I SG +AD+ Q GG++A +A Sbjct: 6 RRAALSATACALLGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQ--GGVEAIRMAIAD 63 Query: 59 HGDQVAGKKIQIIIKDTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQA 118 G + GKK++++ D + +IA A+E R+ VD L G + +LA+ +A + Sbjct: 64 AGGAINGKKVELVFADHQNKA-DIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEK 122 Query: 119 KKPMIIMNAATSVITTK--SNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGI 176 KK I + A T+ T + + Y +++ ++ + G K L ADY G Sbjct: 123 KKVFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGT 182 Query: 177 DAETAFKTNLLGGGGQVLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGE 229 E + GG V+ + RVPL +F+ ++ + + +K + + + V G+ Sbjct: 183 SLEKDTSEVVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGD 235 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 0.318 0.134 0.377 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: 1,163,896 Number of extensions: 49899 Number of successful extensions: 201 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 16 Length of query: 391 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 304 Effective length of database: 1,207,925 Effective search space: 367209200 Effective search space used: 367209200 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 (21.7 bits) S2: 131 (55.1 bits)