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= 0004.0055.p (404 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... 805 0.0 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 550 e-158 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 514 e-147 gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 364 e-102 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 103 2e-23 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 805 bits (2079), Expect = 0.0, Method: Compositional matrix adjust. Identities = 387/404 (95%), Positives = 397/404 (98%) Query: 1 MIPSTTLRRLAAACAIAGIFAGPALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMA 60 M ST LRRLAAACAIAGIF+G ALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMA Sbjct: 1 MSTSTPLRRLAAACAIAGIFSGAALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMA 60 Query: 61 VADYGGKVLGKPVEILSADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMA 120 VAD+GG VLGKP+E++SADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMA Sbjct: 61 VADFGGTVLGKPIEVISADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMA 120 Query: 121 EKKRVYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAF 180 EKKRVYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAF Sbjct: 121 EKKRVYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAF 180 Query: 181 GHSLANDTSAVVKANGGTVIGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSI 240 GHSLANDTSAVVKA+GGTV+GSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSI Sbjct: 181 GHSLANDTSAVVKASGGTVVGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSI 240 Query: 241 KAAKEFGVTKTMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKM 300 KAAKEFGVTKTMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKM Sbjct: 241 KAAKEFGVTKTMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKM 300 Query: 301 KKMPSTHQAAAYSATMTYLKAVEAIGTDDATKVMAQLKKTRIDDFYNKGYIRADGRNIHD 360 KKMPSTHQAAAYSAT TYLKAV+AIGTDD+TKVMAQLKKTRIDDFYNKG IRADGRNIHD Sbjct: 301 KKMPSTHQAAAYSATTTYLKAVQAIGTDDSTKVMAQLKKTRIDDFYNKGSIRADGRNIHD 360 Query: 361 MYLYQVKSPAESKKPWDYLKLLETIPGEQAFTSVADSRCSLLKQ 404 MYLYQVKSPAESKKPWDYLKLLETIPGEQAFTSVADS+CSLLKQ Sbjct: 361 MYLYQVKSPAESKKPWDYLKLLETIPGEQAFTSVADSKCSLLKQ 404 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 550 bits (1417), Expect = e-158, Method: Compositional matrix adjust. Identities = 255/378 (67%), Positives = 315/378 (83%), Gaps = 1/378 (0%) Query: 27 QVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVADYGGKVLGKPVEILSADHQNKADI 86 Q+S D ++IGFITD+SG Y+D DG GG EAI+MA+AD GG + GK +E+L ADHQNKAD+ Sbjct: 25 QISGDVIKIGFITDISGVYSDIDGQGGAEAIKMAIADMGGAINGKKIELLVADHQNKADV 84 Query: 87 AATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKRVYINIGAGTARLTNEECTPYTV 146 AA++AREW D++G+DMLIGG NS TAL+ KV AEKK+VY+ IGAG+ARLTNEEC+PYTV Sbjct: 85 AASKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTV 144 Query: 147 HYEYDTVALAKGTASAVIKQGGKSWFFLVADYAFGHSLANDTSAVVKANGGTVIGSIKHP 206 HY YDTVALAKGT SAV+KQGGKSWFFL ADYAFGHSL +DT+ VVKA+GGTV+G++KHP Sbjct: 145 HYAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHP 204 Query: 207 PQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKAAKEFGVTKTMKLVGLLMVINDIHA 266 +SD SSFLLQAQ+SKAQI+GLANAG D +NS+KAA EFG+TKT KL GLL+ IND+H+ Sbjct: 205 LGASDFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGITKTAKLAGLLVFINDVHS 264 Query: 267 LGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKMKKMPSTHQAAAYSATMTYLKAVEAIG 326 L L N EGL +TDSWYWD +E +R FA+R+F KKMPS+ QAA YSA + YLK V+ IG Sbjct: 265 LTLKNTEGLYLTDSWYWDANEETRAFAKRYFAVRKKMPSSLQAADYSAALQYLKVVKEIG 324 Query: 327 TDDATKVMAQLKKTRIDDFYNK-GYIRADGRNIHDMYLYQVKSPAESKKPWDYLKLLETI 385 TDD+ KVMA L+K + +D Y K GY+RADGR +HDMYLYQVK+ +ESK PWDY KL++TI Sbjct: 325 TDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQVKAQSESKYPWDYYKLVQTI 384 Query: 386 PGEQAFTSVADSRCSLLK 403 P EQA+T+ A+S+C+ K Sbjct: 385 PAEQAWTTKAESKCAAWK 402 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 514 bits (1323), Expect = e-147, Method: Compositional matrix adjust. Identities = 244/394 (61%), Positives = 307/394 (77%), Gaps = 2/394 (0%) Query: 11 AAACAIAGIFAGPALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVADYGGKVLG 70 A ACA+ G P+ AQ + D ++IGFITDMSG YAD DG GG+EAIRMA+AD GG + G Sbjct: 12 ATACALLGAAILPS-AQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADAGGAING 70 Query: 71 KPVEILSADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKRVYINIG 130 K VE++ ADHQNKADIAA +AREW D G+DML+GGVNSA +L+M KV EKK+V+I++G Sbjct: 71 KKVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKKVFISVG 130 Query: 131 AGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAFGHSLANDTSA 190 AGT R TNEEC YT+ Y YDT ALA+GT +A+ +QGGKSW+FL ADYAFG SL DTS Sbjct: 131 AGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTSLEKDTSE 190 Query: 191 VVKANGGTVIGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKAAKEFGVTK 250 VVK+NGG V+G+ + P +SD SSFLLQAQ+SKAQILGLA AG D +N+IKAA EFGV K Sbjct: 191 VVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGDVINAIKAANEFGVNK 250 Query: 251 TMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKMKKMPSTHQAA 310 TMKL GLL+ IND H+LGL+ +G+ +TD WYWD ++ +R +A R+F KMKKMPS QA Sbjct: 251 TMKLAGLLIFINDTHSLGLSLTQGMYLTDGWYWDLNDQTRAWANRYFMKMKKMPSMFQAG 310 Query: 311 AYSATMTYLKAVEAIGTDDATKVMAQLKKTRIDDFY-NKGYIRADGRNIHDMYLYQVKSP 369 SA YLKAV+A+G+ DA KVM L+K RI+DF+ + G +R DGR +HDMYL +VK P Sbjct: 311 DASAVGQYLKAVKAVGSTDADKVMDYLRKNRINDFFTSNGVVRPDGRMVHDMYLMEVKKP 370 Query: 370 AESKKPWDYLKLLETIPGEQAFTSVADSRCSLLK 403 +ESK+PWDY KL++TIPGEQA+ + A+S+C+L K Sbjct: 371 SESKRPWDYYKLVQTIPGEQAYMTKAESKCALWK 404 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 364 bits (935), Expect = e-102, Method: Compositional matrix adjust. Identities = 199/404 (49%), Positives = 264/404 (65%), Gaps = 7/404 (1%) Query: 6 TLRRLAAACAIA-GIFAGPALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVAD- 63 +L A AC ++ A PA AQ +N V+IG +TDMSGPY+ G G + A +MAV D Sbjct: 9 SLTAAAVACTVSLAATAIPAWAQDAN-TVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDC 67 Query: 64 YGGKVLGKPVEILSADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKK 123 + G +EILSAD+QNK D+ TRAREW D ++ + NS+ AL++ K++ +K Sbjct: 68 LKNECKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQKLIKDKG 127 Query: 124 RVYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAFGHS 183 + + G T LT EC P H+ +DT + A G A+A+ K G KSW+F+ DYAFGHS Sbjct: 128 GIAMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTVDYAFGHS 187 Query: 184 LANDTSAVVKANGGTVIGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKAA 243 L D S VVKANGGTV+GS++HP +SD SSFLLQAQASKAQ++GLA+ G D VN+IK A Sbjct: 188 LEKDASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQA 247 Query: 244 KEFGV-TKTMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKMKK 302 + F V K +LV LL+ ++D+HALGL A+GL+ TD +YWD DE +R F++RF + K Sbjct: 248 RSFAVGGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKRFESQFKN 307 Query: 303 M-PSTHQAAAYSATMTYLKAVEAIGTDDATKVMAQLKKTRI-DDFYNKGYIRADGRNIHD 360 + P+ QA YS+ +LKA A T D V ++++ I D IR DGR IHD Sbjct: 308 IKPTMVQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVIHD 367 Query: 361 MYLYQVKSPAESKKPWDYLKLLETIPGEQAFTSVADSRCSLLKQ 404 MYLYQVK+PAESK PWDYLKLL IP +QAF + D+ C L+KQ Sbjct: 368 MYLYQVKTPAESKGPWDYLKLLSVIPAQQAFRPM-DAACPLVKQ 410 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 103 bits (258), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 96/406 (23%), Positives = 175/406 (43%), Gaps = 14/406 (3%) Query: 1 MIPSTTLRRLAAACAIAGIFAGPALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMA 60 MI +L+A A + AQ +++ G MSGP+A L +++A Sbjct: 1 MISRRHFLKLSALAAPGALSYHDVFAQA--ESIAFGCPVPMSGPFAANGKFADL-GMKLA 57 Query: 61 VADYGGKVLGKPVEILSADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMA 120 + YG KVLGK ++ D + K A + +E + E+G GG+ S AL+M K Sbjct: 58 LQKYG-KVLGKSTSYVNLDTEGKPATAVRKMQE-SIEKGTRFFAGGILSGEALAMGKEAD 115 Query: 121 EKKRVYINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQ--GGKSWFFLVADY 178 + V+I AG +T +C T + T + T ++++ K W+ + Y Sbjct: 116 KAGAVFITT-AGADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKMPNAKRWYTITPQY 174 Query: 179 AFGHSLANDTSAVVKANGGTVIGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVN 238 FG L + + K G +G+ H + S +L A A+K +L L N G + + Sbjct: 175 VFGEGLLSAAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSD 234 Query: 239 SIKAAKEFGVTKTMK-LVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEP-SRKFAERF 296 +++ A FG+ L+ + LG +G+ ++ D P +++F + Sbjct: 235 TLRQAVSFGMKNNCTILMAWASGLEQFETLGADICDGVYFGAQYWHAIDAPFNKEFVKLV 294 Query: 297 FQKMKKMPSTHQAAAYSATMTYLKAVEAIGTDDATKVMAQLKKTRIDDFYNKGYIR-ADG 355 +K P+ A +Y T L A+ + D V+A ++ + + IR D Sbjct: 295 NDNLKIDPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGSEEIRKGDH 354 Query: 356 RNIHDMYLYQVKSPAESKKPWDYLKLLETIPGEQAFTSVADSRCSL 401 + I + YL + K+ A+ DY ++ + ++F + ++C L Sbjct: 355 QVIKNYYLLKGKAKAKMANKNDYADIVSS---GKSFLPLEKTQCKL 397 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 0.131 0.375 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: 1,137,002 Number of extensions: 45187 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 174 Number of HSP's successfully gapped: 12 Length of query: 404 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 317 Effective length of database: 1,207,925 Effective search space: 382912225 Effective search space used: 382912225 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: 132 (55.5 bits)