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= 0002.0007.p (419 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 466 e-132 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 457 e-130 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 445 e-126 gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 362 e-101 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 85 1e-17 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 466 bits (1198), Expect = e-132, Method: Compositional matrix adjust. Identities = 225/408 (55%), Positives = 308/408 (75%), Gaps = 7/408 (1%) Query: 12 SSTALKLMSAAVCSALLY-GSASAQPQGISDNVVRIGVLTDLSGTFSDFAGKGAVEAVKM 70 +ST L+ ++AA A ++ G+A AQ +S++ VRIG +TD+SG ++D G G +EA++M Sbjct: 3 TSTPLRRLAAACAIAGIFSGAALAQ---VSNDAVRIGFITDMSGPYADTDGLGGLEAIRM 59 Query: 71 AVEDFGGKVNGKPIEVISADHLNKADIAASTAREWIDQRKVDMITDISGSATALATIKVA 130 AV DFGG V GKPIEVISADH NKADIAA+ AREW D+R +DM+ SATAL+ KV Sbjct: 60 AVADFGGTVLGKPIEVISADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVM 119 Query: 131 AEKKRIAIVTGGGTTRVTNEDCTPYSLHYNHDTAAMANVAGKYIVKQGGNTWYFLTADYS 190 AEKKR+ I G GT R+TNE+CTPY++HY +DT A+A ++KQGG +W+FL ADY+ Sbjct: 120 AEKKRVYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYA 179 Query: 191 FGYSLQADTTAVVEANGGKIVGVVKHPFNTSDFSSYLVQAQSSGAKIIGLANAGADTINS 250 FG+SL DT+AVV+A+GG +VG +KHP +SD SS+L+QAQ+S A+I+GLANAG DT+NS Sbjct: 180 FGHSLANDTSAVVKASGGTVVGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNS 239 Query: 251 IKTAAEFGMLNSGKQKFAGLLMFINDIHALGLKAAQGLYVTEAFYWDTNDETRKWSERFF 310 IK A EFG+ + K GLLM INDIHALGL A+GL +T+++YWD ++ +RK++ERFF Sbjct: 240 IKAAKEFGVTKT--MKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFF 297 Query: 311 KRVGKMPSSIQAADYSSTLQYLNAIKATGTDDADVVIKKMKETPVNDFYTKNGKIRADGL 370 +++ KMPS+ QAA YS+T YL A++A GTDD+ V+ ++K+T ++DFY K G IRADG Sbjct: 298 QKMKKMPSTHQAAAYSATTTYLKAVQAIGTDDSTKVMAQLKKTRIDDFYNK-GSIRADGR 356 Query: 371 LVHDMYLMQVKTPAESKKPWDYYNIRAVVPGDEAYPSLASGTCNFAKK 418 +HDMYL QVK+PAESKKPWDY + +PG++A+ S+A C+ K+ Sbjct: 357 NIHDMYLYQVKSPAESKKPWDYLKLLETIPGEQAFTSVADSKCSLLKQ 404 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 457 bits (1177), Expect = e-130, Method: Compositional matrix adjust. Identities = 209/375 (55%), Positives = 284/375 (75%), Gaps = 2/375 (0%) Query: 39 ISDNVVRIGVLTDLSGTFSDFAGKGAVEAVKMAVEDFGGKVNGKPIEVISADHLNKADIA 98 IS +V++IG +TD+SG +SD G+G EA+KMA+ D GG +NGK IE++ ADH NKAD+A Sbjct: 26 ISGDVIKIGFITDISGVYSDIDGQGGAEAIKMAIADMGGAINGKKIELLVADHQNKADVA 85 Query: 99 ASTAREWIDQRKVDMITDISGSATALATIKVAAEKKRIAIVTGGGTTRVTNEDCTPYSLH 158 AS AREW DQ+ VDM+ + S TALA+ KVAAEKK++ + G G+ R+TNE+C+PY++H Sbjct: 86 ASKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVH 145 Query: 159 YNHDTAAMANVAGKYIVKQGGNTWYFLTADYSFGYSLQADTTAVVEANGGKIVGVVKHPF 218 Y +DT A+A G +VKQGG +W+FLTADY+FG+SL++DT VV+A+GG +VG VKHP Sbjct: 146 YAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHPL 205 Query: 219 NTSDFSSYLVQAQSSGAKIIGLANAGADTINSIKTAAEFGMLNSGKQKFAGLLMFINDIH 278 SDFSS+L+QAQSS A+IIGLANAG D INS+K A EFG+ + K AGLL+FIND+H Sbjct: 206 GASDFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGITKTA--KLAGLLVFINDVH 263 Query: 279 ALGLKAAQGLYVTEAFYWDTNDETRKWSERFFKRVGKMPSSIQAADYSSTLQYLNAIKAT 338 +L LK +GLY+T+++YWD N+ETR +++R+F KMPSS+QAADYS+ LQYL +K Sbjct: 264 SLTLKNTEGLYLTDSWYWDANEETRAFAKRYFAVRKKMPSSLQAADYSAALQYLKVVKEI 323 Query: 339 GTDDADVVIKKMKETPVNDFYTKNGKIRADGLLVHDMYLMQVKTPAESKKPWDYYNIRAV 398 GTDD+D V+ +++ ND Y KNG +RADG ++HDMYL QVK +ESK PWDYY + Sbjct: 324 GTDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQVKAQSESKYPWDYYKLVQT 383 Query: 399 VPGDEAYPSLASGTC 413 +P ++A+ + A C Sbjct: 384 IPAEQAWTTKAESKC 398 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 445 bits (1144), Expect = e-126, Method: Compositional matrix adjust. Identities = 214/412 (51%), Positives = 289/412 (70%), Gaps = 12/412 (2%) Query: 6 ILRHPGSSTALKLMSAAVCSALLYGSASAQPQGISDNVVRIGVLTDLSGTFSDFAGKGAV 65 I R S+TA L+ AA+ SAQ G + ++IG +TD+SGT++DF G+G V Sbjct: 5 IRRAALSATACALLGAAILP-------SAQAAG---DTIKIGFITDMSGTYADFDGQGGV 54 Query: 66 EAVKMAVEDFGGKVNGKPIEVISADHLNKADIAASTAREWIDQRKVDMITDISGSATALA 125 EA++MA+ D GG +NGK +E++ ADH NKADIAA+ AREW D+ VDM+ SA +LA Sbjct: 55 EAIRMAIADAGGAINGKKVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLA 114 Query: 126 TIKVAAEKKRIAIVTGGGTTRVTNEDCTPYSLHYNHDTAAMANVAGKYIVKQGGNTWYFL 185 KVA EKK++ I G GTTR TNE+C Y++ Y +DT A+A G I +QGG +WYFL Sbjct: 115 MGKVAGEKKKVFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFL 174 Query: 186 TADYSFGYSLQADTTAVVEANGGKIVGVVKHPFNTSDFSSYLVQAQSSGAKIIGLANAGA 245 TADY+FG SL+ DT+ VV++NGG +VG + P TSDFSS+L+QAQSS A+I+GLA AG Sbjct: 175 TADYAFGTSLEKDTSEVVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGG 234 Query: 246 DTINSIKTAAEFGMLNSGKQKFAGLLMFINDIHALGLKAAQGLYVTEAFYWDTNDETRKW 305 D IN+IK A EFG+ + K AGLL+FIND H+LGL QG+Y+T+ +YWD ND+TR W Sbjct: 235 DVINAIKAANEFGVNKT--MKLAGLLIFINDTHSLGLSLTQGMYLTDGWYWDLNDQTRAW 292 Query: 306 SERFFKRVGKMPSSIQAADYSSTLQYLNAIKATGTDDADVVIKKMKETPVNDFYTKNGKI 365 + R+F ++ KMPS QA D S+ QYL A+KA G+ DAD V+ +++ +NDF+T NG + Sbjct: 293 ANRYFMKMKKMPSMFQAGDASAVGQYLKAVKAVGSTDADKVMDYLRKNRINDFFTSNGVV 352 Query: 366 RADGLLVHDMYLMQVKTPAESKKPWDYYNIRAVVPGDEAYPSLASGTCNFAK 417 R DG +VHDMYLM+VK P+ESK+PWDYY + +PG++AY + A C K Sbjct: 353 RPDGRMVHDMYLMEVKKPSESKRPWDYYKLVQTIPGEQAYMTKAESKCALWK 404 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 362 bits (928), Expect = e-101, Method: Compositional matrix adjust. Identities = 186/406 (45%), Positives = 265/406 (65%), Gaps = 11/406 (2%) Query: 19 MSAAVCSALLYGSASAQPQGISD-NVVRIGVLTDLSGTFSDFAGKGAVEAVKMAVED-FG 76 ++AA + + +A+A P D N V+IGVLTD+SG +S G+G+V A KMAVED Sbjct: 10 LTAAAVACTVSLAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDCLK 69 Query: 77 GKVNGKPIEVISADHLNKADIAASTAREWIDQRKVDMITDISGSATALATIKVAAEKKRI 136 + G IE++SAD+ NK D+ + AREW+D+ KV+ I D++ S+ ALA K+ +K I Sbjct: 70 NECKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQKLIKDKGGI 129 Query: 137 AIVTGGGTTRVTNEDCTPYSLHYNHDTAAMANVAGKYIVKQGGNTWYFLTADYSFGYSLQ 196 A+ +G T +T +C P H+ DT + A A + K G +WYF+T DY+FG+SL+ Sbjct: 130 AMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTVDYAFGHSLE 189 Query: 197 ADTTAVVEANGGKIVGVVKHPFNTSDFSSYLVQAQSSGAKIIGLANAGADTINSIKTAAE 256 D + VV+ANGG +VG V+HP N SDFSS+L+QAQ+S A++IGLA+ G D +N+IK A Sbjct: 190 KDASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQARS 249 Query: 257 FGMLNSGK-QKFAGLLMFINDIHALGLKAAQGLYVTEAFYWDTNDETRKWSERF---FKR 312 F + GK Q+ LL+F++D+HALGL+AAQGL T+ FYWD +++TR +S+RF FK Sbjct: 250 FAV--GGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKRFESQFKN 307 Query: 313 VGKMPSSIQAADYSSTLQYLNAIKATGTDDADVVIKKMKETPVNDFYTKNGKIRADGLLV 372 + P+ +QA YSS Q+L A A T D VV +KM+E P+ D +N IR DG ++ Sbjct: 308 I--KPTMVQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVI 365 Query: 373 HDMYLMQVKTPAESKKPWDYYNIRAVVPGDEAYPSLASGTCNFAKK 418 HDMYL QVKTPAESK PWDY + +V+P +A+ + C K+ Sbjct: 366 HDMYLYQVKTPAESKGPWDYLKLLSVIPAQQAFRPM-DAACPLVKQ 410 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 84.7 bits (208), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 101/390 (25%), Positives = 161/390 (41%), Gaps = 27/390 (6%) Query: 16 LKLMSAAVCSALLYGSASAQPQGISDNVVRIGVLTDLSGTFSDFAGKGAVEAVKMAVEDF 75 LKL + A AL Y AQ + I+ G +SG F+ GK A +K+A++ + Sbjct: 8 LKLSALAAPGALSYHDVFAQAESIA-----FGCPVPMSGPFAA-NGKFADLGMKLALQKY 61 Query: 76 GGKVNGKPIEVISADHLNKADIAASTAREWIDQRKVDMITDI-SGSATALATIKVAAEKK 134 G KV GK ++ D K A +E I++ I SG A A+ A+K Sbjct: 62 G-KVLGKSTSYVNLDTEGKPATAVRKMQESIEKGTRFFAGGILSGEALAMGK---EADKA 117 Query: 135 RIAIVTGGGTTRVTNEDCTPYSLHYNHDTAAMANVAGKYIVKQGGNT--WYFLTADYSFG 192 +T G +T DC + ++ T + ++++ N WY +T Y FG Sbjct: 118 GAVFITTAGADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKMPNAKRWYTITPQYVFG 177 Query: 193 YSLQADTTAVVEANGGKIVGVVKHPFNTSDFSSYLVQAQSSGAKIIGLANAGADTINSIK 252 L + + + G + VG H +FS YL A ++ ++ L N G+ + ++++ Sbjct: 178 EGLLSAAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLR 237 Query: 253 TAAEFGMLNSGKQKFA---GLLMFINDIHALGLKAAQGLYVTEAFYWDTNDETRKWSERF 309 A FGM N+ A GL F LG G+Y A YW D +++ F Sbjct: 238 QAVSFGMKNNCTILMAWASGLEQF----ETLGADICDGVYFG-AQYWHAIDAP--FNKEF 290 Query: 310 FKRVGKM----PSSIQAADYSSTLQYLNAIKATGTDDADVVIKKMKETPVNDFYTKNGKI 365 K V P+ A Y T L+AI + D VI M+ Sbjct: 291 VKLVNDNLKIDPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGSEEIR 350 Query: 366 RADGLLVHDMYLMQVKTPAESKKPWDYYNI 395 + D ++ + YL++ K A+ DY +I Sbjct: 351 KGDHQVIKNYYLLKGKAKAKMANKNDYADI 380 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 0.315 0.130 0.374 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: 1,272,633 Number of extensions: 53531 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 213 Number of HSP's successfully gapped: 9 Length of query: 419 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 331 Effective length of database: 1,203,190 Effective search space: 398255890 Effective search space used: 398255890 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)