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= 0002.0015.p (410 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 843 0.0 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 369 e-103 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 362 e-101 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 360 e-100 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 97 2e-21 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 843 bits (2177), Expect = 0.0, Method: Compositional matrix adjust. Identities = 410/410 (100%), Positives = 410/410 (100%) Query: 1 MRKNALGRSLTAAAVACTVSLAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAA 60 MRKNALGRSLTAAAVACTVSLAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAA Sbjct: 1 MRKNALGRSLTAAAVACTVSLAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAA 60 Query: 61 KMAVEDCLKNECKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQ 120 KMAVEDCLKNECKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQ Sbjct: 61 KMAVEDCLKNECKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQ 120 Query: 121 KLIKDKGGIAMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTV 180 KLIKDKGGIAMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTV Sbjct: 121 KLIKDKGGIAMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTV 180 Query: 181 DYAFGHSLEKDASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDV 240 DYAFGHSLEKDASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDV Sbjct: 181 DYAFGHSLEKDASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDV 240 Query: 241 VNAIKQARSFAVGGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKR 300 VNAIKQARSFAVGGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKR Sbjct: 241 VNAIKQARSFAVGGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKR 300 Query: 301 FESQFKNIKPTMVQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRP 360 FESQFKNIKPTMVQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRP Sbjct: 301 FESQFKNIKPTMVQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRP 360 Query: 361 DGRVIHDMYLYQVKTPAESKGPWDYLKLLSVIPAQQAFRPMDAACPLVKQ 410 DGRVIHDMYLYQVKTPAESKGPWDYLKLLSVIPAQQAFRPMDAACPLVKQ Sbjct: 361 DGRVIHDMYLYQVKTPAESKGPWDYLKLLSVIPAQQAFRPMDAACPLVKQ 410 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 369 bits (947), Expect = e-103, Method: Compositional matrix adjust. Identities = 195/400 (48%), Positives = 261/400 (65%), Gaps = 9/400 (2%) Query: 14 AVACTVS--LAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDCLKNE 71 A AC ++ + A+ + DA V+IG +TDMSGPY+ G G + A +MAV D Sbjct: 11 AAACAIAGIFSGAALAQVSNDA--VRIGFITDMSGPYADTDGLGGLEAIRMAVAD-FGGT 67 Query: 72 CKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQKLIKDKGGIAM 131 G IE++SAD+QNK D+ TRAREW D ++ + NS+ AL++ K++ +K + + Sbjct: 68 VLGKPIEVISADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKRVYI 127 Query: 132 YSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTVDYAFGHSLEKD 191 G T LT EC P H+ +DT + A G A+A+ K G KSW+F+ DYAFGHSL D Sbjct: 128 NIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAFGHSLAND 187 Query: 192 ASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQARSFA 251 S VVKA+GGTVVGS++HP +SD SSFLLQAQASKAQ++GLA+ G D VN+IK A+ F Sbjct: 188 TSAVVKASGGTVVGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKAAKEFG 247 Query: 252 VGGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKRFESQFKNIKPT 311 V K +LV LL+ ++D+HALGL A+GL+ TD +YWD DE +R F++RF + K + P+ Sbjct: 248 V-TKTMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKMKKM-PS 305 Query: 312 MVQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVIHDMYLY 371 QA YS+ +LKA A T D V ++++ I D SIR DGR IHDMYLY Sbjct: 306 THQAAAYSATTTYLKAVQAIGTDDSTKVMAQLKKTRI-DDFYNKGSIRADGRNIHDMYLY 364 Query: 372 QVKTPAESKGPWDYLKLLSVIPAQQAFRPM-DAACPLVKQ 410 QVK+PAESK PWDYLKLL IP +QAF + D+ C L+KQ Sbjct: 365 QVKSPAESKKPWDYLKLLETIPGEQAFTSVADSKCSLLKQ 404 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 362 bits (930), Expect = e-101, Method: Compositional matrix adjust. Identities = 189/403 (46%), Positives = 258/403 (64%), Gaps = 5/403 (1%) Query: 8 RSLTAAAVACTVSLAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDC 67 R +A AC + L A +P+ +T+KIG +TDMSG Y+ GQG V A +MA+ D Sbjct: 6 RRAALSATACAL-LGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADA 64 Query: 68 LKNECKGMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQKLIKDKG 127 G K+E++ AD+QNK D+ +AREW DRD V+ + NS+ +LA+ K+ +K Sbjct: 65 -GGAINGKKVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKK 123 Query: 128 GIAMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTVDYAFGHS 187 + + G T T EC + +DT + A G AA+T+ G KSWYF+T DYAFG S Sbjct: 124 KVFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTS 183 Query: 188 LEKDASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQA 247 LEKD S+VVK+NGG VVG+ R PL SDFSSFLLQAQ+SKAQ++GLA G DV+NAIK A Sbjct: 184 LEKDTSEVVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGDVINAIKAA 243 Query: 248 RSFAVGGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKRFESQFKN 307 F V K +L LL+F++D H+LGL QG+ TDG+YWD ++QTRA++ R+ + K Sbjct: 244 NEFGV-NKTMKLAGLLIFINDTHSLGLSLTQGMYLTDGWYWDLNDQTRAWANRYFMKMKK 302 Query: 308 IKPTMVQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVIHD 367 + P+M QAG S+V Q+LKA A ++D V +R+ I D N +RPDGR++HD Sbjct: 303 M-PSMFQAGDASAVGQYLKAVKAVGSTDADKVMDYLRKNRINDFFTSNGVVRPDGRMVHD 361 Query: 368 MYLYQVKTPAESKGPWDYLKLLSVIPAQQAF-RPMDAACPLVK 409 MYL +VK P+ESK PWDY KL+ IP +QA+ ++ C L K Sbjct: 362 MYLMEVKKPSESKRPWDYYKLVQTIPGEQAYMTKAESKCALWK 404 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 360 bits (923), Expect = e-100, Method: Compositional matrix adjust. Identities = 181/365 (49%), Positives = 245/365 (67%), Gaps = 3/365 (0%) Query: 34 NTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDCLKNECKGMKIEILSADNQNKPDVGVT 93 + +KIG +TD+SG YS + GQG A KMA+ D + G KIE+L AD+QNK DV + Sbjct: 29 DVIKIGFITDISGVYSDIDGQGGAEAIKMAIAD-MGGAINGKKIELLVADHQNKADVAAS 87 Query: 94 RAREWLDRDKVEAIADLTNSSVALAVQKLIKDKGGIAMYSGPATGALTTAECAPNGFHWM 153 +AREW D+ V+ + TNS ALA K+ +K + M G + LT EC+P H+ Sbjct: 88 KAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVHYA 147 Query: 154 FDTYSQAAGAAAALTKLGNKSWYFVTVDYAFGHSLEKDASDVVKANGGTVVGSVRHPLNA 213 +DT + A G +A+ K G KSW+F+T DYAFGHSLE D ++VVKA+GGTVVG+V+HPL A Sbjct: 148 YDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHPLGA 207 Query: 214 SDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQARSFAVGGKDQRLVALLVFLSDVHALG 273 SDFSSFLLQAQ+SKAQ+IGLA+ G D +N++K A F + K +L LLVF++DVH+L Sbjct: 208 SDFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGI-TKTAKLAGLLVFINDVHSLT 266 Query: 274 LEAAQGLVYTDGFYWDYDEQTRAFSKRFESQFKNIKPTMVQAGVYSSVYQFLKARAAAKT 333 L+ +GL TD +YWD +E+TRAF+KR+ + K + P+ +QA YS+ Q+LK T Sbjct: 267 LKNTEGLYLTDSWYWDANEETRAFAKRYFAVRKKM-PSSLQAADYSAALQYLKVVKEIGT 325 Query: 334 SDWKVVAQKMREIPIADAVMRNASIRPDGRVIHDMYLYQVKTPAESKGPWDYLKLLSVIP 393 D V +R+ D +N +R DGRV+HDMYLYQVK +ESK PWDY KL+ IP Sbjct: 326 DDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQVKAQSESKYPWDYYKLVQTIP 385 Query: 394 AQQAF 398 A+QA+ Sbjct: 386 AEQAW 390 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 98/381 (25%), Positives = 161/381 (42%), Gaps = 17/381 (4%) Query: 33 ANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDCLKNECKGMKIEILSADNQNKPDVGV 92 A ++ G MSGP++A G+ + + K+A++ K G ++ D + KP V Sbjct: 28 AESIAFGCPVPMSGPFAA-NGKFADLGMKLALQKYGK--VLGKSTSYVNLDTEGKPATAV 84 Query: 93 TRAREWLDR-DKVEAIADLTNSSVALAVQKLIKDKGGIAMYSGPATGALTTAECAPNGFH 151 + +E +++ + A L+ ++A+ + DK G + +T ++C F Sbjct: 85 RKMQESIEKGTRFFAGGILSGEALAMGKEA---DKAGAVFITTAGADEITGSDCNRATFR 141 Query: 152 WMFDTYSQAAGAA-AALTKLGN-KSWYFVTVDYAFGHSLEKDASDVVKANGGTVVGSVRH 209 W T+ L K+ N K WY +T Y FG L A ++ K G VG+ H Sbjct: 142 WSVPTFGAIEQTVRPLLEKMPNAKRWYTITPQYVFGEGLLSAAKNIFKEKGIEHVGNSYH 201 Query: 210 PLNASDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQARSFAVGGKDQRLVALLVFLSDV 269 L +FS +L A A+K V+ L + G+ + ++QA SF + L+A L Sbjct: 202 SLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAVSFGMKNNCTILMAWASGLEQF 261 Query: 270 HALGLEAAQGLVYTDGFYWDYDEQ--TRAFSKRFESQFKNIKPTMVQAGVYSSVYQFLKA 327 LG + G VY YW + + F K K I P AG Y L A Sbjct: 262 ETLGADICDG-VYFGAQYWHAIDAPFNKEFVKLVNDNLK-IDPNYSLAGSYICTKIILDA 319 Query: 328 RAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVIHDMYLYQVKTPAESKGPWDYLK 387 A ++D K V M + + D +VI + YL + K A+ DY Sbjct: 320 IIKANSTDPKAVIAAMEGMKYEGLTGSEEIRKGDHQVIKNYYLLKGKAKAKMANKNDYAD 379 Query: 388 LLSVIPAQQAFRPMDAA-CPL 407 ++S + ++F P++ C L Sbjct: 380 IVS---SGKSFLPLEKTQCKL 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 0.318 0.130 0.380 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: 1,180,607 Number of extensions: 45992 Number of successful extensions: 195 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 11 Length of query: 410 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 323 Effective length of database: 1,207,925 Effective search space: 390159775 Effective search space used: 390159775 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)