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= 0024.0096.p (374 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... 739 0.0 gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC t... 407 e-115 gi|300312955|ref|YP_003777047.1| amino acid ABC transporter peri... 101 9e-23 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 84 2e-17 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 79 5e-16 >gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 391 Score = 739 bits (1907), Expect = 0.0, Method: Compositional matrix adjust. Identities = 360/374 (96%), Positives = 368/374 (98%) Query: 1 LLTSLAHAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDTVAGKKIQVIIKDTTG 60 LL SLA AQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGD VAGKKIQ+IIKDTTG Sbjct: 18 LLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDQVAGKKIQIIIKDTTG 77 Query: 61 PSPEIAKRLAQELVVRDKVDFLAGFGLTPEALAVAPIAEQAKKPMIVMNAASSVITTKSS 120 PSPEIAKRLAQELVVR+KVDFLAGFGLTPEALAVAPIAEQAKKPMI+MNAA+SVITTKS+ Sbjct: 78 PSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPMIIMNAATSVITTKSN 137 Query: 121 YIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQVLESI 180 YIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQVLESI Sbjct: 138 YIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQVLESI 197 Query: 181 RVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQGIAFMKGYRERGLAEAGIKVIATGDLT 240 RVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQ IAFMKGYRERGLAEAGIKVIATGDLT Sbjct: 198 RVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGEQSIAFMKGYRERGLAEAGIKVIATGDLT 257 Query: 241 DDHVLPAMGDSTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGRPNFMAVAAYDGMNA 300 DDHV+PAMG+STLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGRPNFMAVAAYDGMNA Sbjct: 258 DDHVMPAMGESTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGRPNFMAVAAYDGMNA 317 Query: 301 IYEVSKKLNGKIDGDRAMAILKAMKFTSPRGPIAIDPATRDIVQTVYVRKVEKVGNEVYN 360 IYEVSKKLNGKIDGDRAMAILK MKFTSPRGPIAIDPATRDIVQTVYVRKVEK+GNE YN Sbjct: 318 IYEVSKKLNGKIDGDRAMAILKTMKFTSPRGPIAIDPATRDIVQTVYVRKVEKIGNEAYN 377 Query: 361 VEFDKFENMKDTGK 374 VEFDKFENMKDTGK Sbjct: 378 VEFDKFENMKDTGK 391 >gi|300313277|ref|YP_003777369.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 407 bits (1045), Expect = e-115, Method: Compositional matrix adjust. Identities = 204/369 (55%), Positives = 270/369 (73%), Gaps = 2/369 (0%) Query: 5 LAHAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDTVAGKKIQVIIKDTTGPSPE 64 LA A + +KVGLI SGPFA G+Q+E +K Y ++GD+VAG+K+++++KD G SP+ Sbjct: 28 LARAADVLKVGLIVPMSGPFASTGRQIEAAVKLYQQKYGDSVAGRKVEIVLKDDGGVSPD 87 Query: 65 IAKRLAQELVVRDKVDFLAGFGLTPEALAVAPIAEQAKKPMIVMNAASSVITTKSSYIAR 124 + KRLAQELV R+K L GFGLTP ALA APIA QAK PMIV AA+S+I +S YI R Sbjct: 88 VTKRLAQELVSREKAQVLMGFGLTPLALAAAPIATQAKAPMIVTAAATSIIPQRSPYIVR 147 Query: 125 FSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQVLESIRVPL 184 TL QV+ P+A+WA KNGIK VVT V+DYGPG+DAE F GG+V+ES+RVPL Sbjct: 148 TGFTLAQVTAPLASWAAKNGIKSVVTFVSDYGPGLDAEKVFVKTFGEAGGKVMESVRVPL 207 Query: 185 RNPEFAPYIQRIKDAKPEAVFIFVPAGEQGIAFMKGYRERGLAEAGIKVIATGDLTDDHV 244 RNP++AP++QR+KDAKP+A+F+FVP+GE G A +K + ERGLA AGI++I TGD+ DD + Sbjct: 208 RNPDYAPFLQRVKDAKPQALFVFVPSGE-GAAVLKQFTERGLAAAGIRLICTGDVLDDDL 266 Query: 245 LPAMGDSTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGRPNFMAVAAYDGMNAIYEV 304 + +G + V+++ HYSAAH S NK ++++ A AN G R NF +V AYDGM+ +YE Sbjct: 267 MAGIGAAAKDVVSSHHYSAAHPSAANKEYVEAMAKANKGM-RANFHSVGAYDGMHLLYES 325 Query: 305 SKKLNGKIDGDRAMAILKAMKFTSPRGPIAIDPATRDIVQTVYVRKVEKVGNEVYNVEFD 364 KK G DGD+ +A +K M + S RGP+A+D ATRDIVQTVY+RK E G E YNVEFD Sbjct: 326 LKKTGGDADGDKLLAAMKGMSWESVRGPVAVDAATRDIVQTVYMRKAELRGAEFYNVEFD 385 Query: 365 KFENMKDTG 373 + E ++D G Sbjct: 386 QVEKVRDPG 394 >gi|300312955|ref|YP_003777047.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 392 Score = 101 bits (252), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 102/352 (28%), Positives = 158/352 (44%), Gaps = 15/352 (4%) Query: 6 AHAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDTVAGKKIQVIIKDTTGPSPEI 65 A A + +KVG + SGP + G G + G+ + G +VI+ D SP+ Sbjct: 23 AQAADVVKVGFLTTLSGPASAPGVDEREGFMLALKTLGNKLGGVPAEVIVVDDQF-SPDA 81 Query: 66 AKRLAQELVVRDKVDFLAGFGLTPEALAVAPIAEQAKKPMIVMNAASSVITTKSSYIARF 125 AK+ A L+ R+KVD L+GF + LAVAP A +K ++ NA + + F Sbjct: 82 AKQGADRLIKREKVDILSGFVYSNILLAVAPAAFASKTVVVSANAGPAQLAGAGCNPYFF 141 Query: 126 SMTLPQVSGPMATWAL--KNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQVLESIRVP 183 S + + A L G +RV + +Y G DA FK L L Sbjct: 142 SASYQNDAAHEAAGKLMADKGYQRVAIIAPNYPAGKDASAGFKRFLKKDPAVELFP---K 198 Query: 184 LRNPEFAPYIQRIKDAKPEAVFIFVPAGEQGIAFMKGYRERGLAEAGIKVIATGDLTDDH 243 L +FA I +++ A +A++ F+P G G+ F+K Y G+ ++V+ D D Sbjct: 199 LGQLDFATEIAQLRAANIDALYFFLPGG-MGVNFVKQYAAAGMDPKIVRVMPAYDA--DQ 255 Query: 244 VLPAMGDSTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGR-PNFMAVAAYDGMNAIY 302 + + GD GV T +S+ + +N+AF+ ++ GR P+ A AYD I Sbjct: 256 QMLSNGDLIAGVANTGQWSSDLPNEQNRAFVAAYLKEY---GRQPSMFASQAYDAAMLID 312 Query: 303 EVSKKLNGKIDGDRAM-AILKAMKFTSPRGPIAIDPATRDIVQTVYVRKVEK 353 K + GK++ A+ A +K F S RG A +Q Y R V K Sbjct: 313 SAVKAVGGKVENREALIAAIKTANFKSVRGGFRF-AANHFPIQNQYARVVTK 363 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 91/366 (24%), Positives = 163/366 (44%), Gaps = 23/366 (6%) Query: 10 ETIKVGLIAAFSGPFADYGKQMEGG---IKAYMAQHGDTVAGKKIQVIIKDTTGPSPEIA 66 + IK+G I SG ++D Q GG IK +A G + GKKI++++ D + ++A Sbjct: 29 DVIKIGFITDISGVYSDIDGQ--GGAEAIKMAIADMGGAINGKKIELLVADHQNKA-DVA 85 Query: 67 KRLAQELVVRDKVDFLAGFGLTPEALAVAPIAEQAKKPMIVMNAASSVITTK--SSYIAR 124 A+E + VD L G + ALA A +A + KK + + A S+ +T + S Y Sbjct: 86 ASKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVH 145 Query: 125 FSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQVLESIRVPL 184 ++ ++ + +K G K L ADY G E+ + GG V+ +++ PL Sbjct: 146 YAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHPL 205 Query: 185 RNPEFAPYIQRIKDAKPEAVFIFVPAGEQGIAFMKGYRERGLAE----AGIKVIATGDLT 240 +F+ ++ + + +K + + AG I +K E G+ + AG+ V + Sbjct: 206 GASDFSSFLLQAQSSKAQ-IIGLANAGGDFINSVKAANEFGITKTAKLAGLLVF----IN 260 Query: 241 DDHVLPAMGDSTLGVITTFHYSAAHDSPENKAFLKSFAAANPGAGRPNFMAVAAYDGMNA 300 D H L L + ++++ A + E +AF K + A P+ + A Y Sbjct: 261 DVHSLTLKNTEGLYLTDSWYWDA---NEETRAFAKRYFAVRK--KMPSSLQAADYSAALQ 315 Query: 301 IYEVSKKLNGKIDGDRAMAILKAMKFTSPRGPIAIDPATRDIVQTVYVRKVEKVGNEVYN 360 +V K++ G D D+ MA L+ KF A ++ +Y+ +V+ Y Sbjct: 316 YLKVVKEI-GTDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQVKAQSESKYP 374 Query: 361 VEFDKF 366 ++ 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 = 79.3 bits (194), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 60/217 (27%), Positives = 107/217 (49%), Gaps = 8/217 (3%) Query: 1 LLTSLAHAQETIKVGLIAAFSGPFADYGKQMEGGIKAY---MAQHGDTVAGKKIQVIIKD 57 +L S A +TIK+G I SG +AD+ Q GG++A +A G + GKK++++ D Sbjct: 22 ILPSAQAAGDTIKIGFITDMSGTYADFDGQ--GGVEAIRMAIADAGGAINGKKVELVFAD 79 Query: 58 TTGPSPEIAKRLAQELVVRDKVDFLAGFGLTPEALAVAPIAEQAKKPMIVMNAASSVITT 117 + +IA A+E RD VD L G + +LA+ +A + KK I + A ++ T Sbjct: 80 HQNKA-DIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKKVFISVGAGTTRQTN 138 Query: 118 K--SSYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFKTNLLGGGGQ 175 + ++Y +++ ++ + G K L ADY G E + GG Sbjct: 139 EECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTSLEKDTSEVVKSNGGN 198 Query: 176 VLESIRVPLRNPEFAPYIQRIKDAKPEAVFIFVPAGE 212 V+ + RVPL +F+ ++ + + +K + + + V G+ Sbjct: 199 VVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGD 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 0.381 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: 1,201,497 Number of extensions: 52423 Number of successful extensions: 214 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 212 Number of HSP's successfully gapped: 16 Length of query: 374 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 287 Effective length of database: 1,207,925 Effective search space: 346674475 Effective search space used: 346674475 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)