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= 0002.0012.p (394 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 708 0.0 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 577 e-166 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 557 e-160 gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 365 e-102 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 97 2e-21 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 708 bits (1828), Expect = 0.0, Method: Compositional matrix adjust. Identities = 342/378 (90%), Positives = 361/378 (95%) Query: 17 QISGDVIKIGFITDISGVYSDIDGQGGAEAIKFAIADMGGSINGKKIELVVADHQNKADV 76 QISGDVIKIGFITDISGVYSDIDGQGGAEAIK AIADMGG+INGKKIEL+VADHQNKADV Sbjct: 25 QISGDVIKIGFITDISGVYSDIDGQGGAEAIKMAIADMGGAINGKKIELLVADHQNKADV 84 Query: 77 AASKSREWFDQQGVDVLIGGTNSGTALAMAKVANEKKKVFIENGAGSARLTNEECSPYTV 136 AASK+REWFDQQGVD+LIGGTNSGTALA AKVA EKKKV+++ GAGSARLTNEECSPYTV Sbjct: 85 AASKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTV 144 Query: 137 HYAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTSNVVKASGGTVVGSVKHP 196 HYAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDT+NVVKASGGTVVG+VKHP Sbjct: 145 HYAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHP 204 Query: 197 LGASDFSSFLLQAQTSKAQIIGLANAGGDFINSVKAANEFGITKTAKLAGLLVFINDVHS 256 LGASDFSSFLLQAQ+SKAQIIGLANAGGDFINSVKAANEFGITKTAKLAGLLVFINDVHS Sbjct: 205 LGASDFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGITKTAKLAGLLVFINDVHS 264 Query: 257 LTPKLTQGMYLTDSWYWDTNEETRKFAKRYFEKQKKMPSSLQAADYSAALQYLQAVKAAG 316 LT K T+G+YLTDSWYWD NEETR FAKRYF +KKMPSSLQAADYSAALQYL+ VK G Sbjct: 265 LTLKNTEGLYLTDSWYWDANEETRAFAKRYFAVRKKMPSSLQAADYSAALQYLKVVKEIG 324 Query: 317 TDDSDKVMAQLRKTKFNDVFQKNGYLRADGRVVHDMYLYQVKTPAESKYPWDYYKLVQTI 376 TDDSDKVMA LRK KFND++QKNGYLRADGRV+HDMYLYQVK +ESKYPWDYYKLVQTI Sbjct: 325 TDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQVKAQSESKYPWDYYKLVQTI 384 Query: 377 PAEQAWTTKAESKCSAWK 394 PAEQAWTTKAESKC+AWK Sbjct: 385 PAEQAWTTKAESKCAAWK 402 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 577 bits (1488), Expect = e-166, Method: Compositional matrix adjust. Identities = 273/393 (69%), Positives = 318/393 (80%) Query: 2 STAAAAFAFAAPASAQISGDVIKIGFITDISGVYSDIDGQGGAEAIKFAIADMGGSINGK 61 +TA A A SAQ +GD IKIGFITD+SG Y+D DGQGG EAI+ AIAD GG+INGK Sbjct: 12 ATACALLGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADAGGAINGK 71 Query: 62 KIELVVADHQNKADVAASKSREWFDQQGVDVLIGGTNSGTALAMAKVANEKKKVFIENGA 121 K+ELV ADHQNKAD+AA+K+REWFD+ GVD+L+GG NS +LAM KVA EKKKVFI GA Sbjct: 72 KVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKKVFISVGA 131 Query: 122 GSARLTNEECSPYTVHYAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTSNV 181 G+ R TNEEC+ YT+ YAYDT ALA+GTG+A+ +QGGKSW+FLTADYAFG SLE DTS V Sbjct: 132 GTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADYAFGTSLEKDTSEV 191 Query: 182 VKASGGTVVGSVKHPLGASDFSSFLLQAQTSKAQIIGLANAGGDFINSVKAANEFGITKT 241 VK++GG VVG+ + PL SDFSSFLLQAQ+SKAQI+GLA AGGD IN++KAANEFG+ KT Sbjct: 192 VKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGDVINAIKAANEFGVNKT 251 Query: 242 AKLAGLLVFINDVHSLTPKLTQGMYLTDSWYWDTNEETRKFAKRYFEKQKKMPSSLQAAD 301 KLAGLL+FIND HSL LTQGMYLTD WYWD N++TR +A RYF K KKMPS QA D Sbjct: 252 MKLAGLLIFINDTHSLGLSLTQGMYLTDGWYWDLNDQTRAWANRYFMKMKKMPSMFQAGD 311 Query: 302 YSAALQYLQAVKAAGTDDSDKVMAQLRKTKFNDVFQKNGYLRADGRVVHDMYLYQVKTPA 361 SA QYL+AVKA G+ D+DKVM LRK + ND F NG +R DGR+VHDMYL +VK P+ Sbjct: 312 ASAVGQYLKAVKAVGSTDADKVMDYLRKNRINDFFTSNGVVRPDGRMVHDMYLMEVKKPS 371 Query: 362 ESKYPWDYYKLVQTIPAEQAWTTKAESKCSAWK 394 ESK PWDYYKLVQTIP EQA+ TKAESKC+ WK Sbjct: 372 ESKRPWDYYKLVQTIPGEQAYMTKAESKCALWK 404 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 557 bits (1436), Expect = e-160, Method: Compositional matrix adjust. Identities = 265/393 (67%), Positives = 324/393 (82%), Gaps = 3/393 (0%) Query: 4 AAAAFA--FAAPASAQISGDVIKIGFITDISGVYSDIDGQGGAEAIKFAIADMGGSINGK 61 AA A A F+ A AQ+S D ++IGFITD+SG Y+D DG GG EAI+ A+AD GG++ GK Sbjct: 12 AACAIAGIFSGAALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVADFGGTVLGK 71 Query: 62 KIELVVADHQNKADVAASKSREWFDQQGVDVLIGGTNSGTALAMAKVANEKKKVFIENGA 121 IE++ ADHQNKAD+AA+++REW D++G+D+LIGG NS TAL+M KV EKK+V+I GA Sbjct: 72 PIEVISADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKRVYINIGA 131 Query: 122 GSARLTNEECSPYTVHYAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTSNV 181 G+ARLTNEEC+PYTVHY YDTVALAKGT SAV+KQGGKSWFFL ADYAFGHSL +DTS V Sbjct: 132 GTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQGGKSWFFLVADYAFGHSLANDTSAV 191 Query: 182 VKASGGTVVGSVKHPLGASDFSSFLLQAQTSKAQIIGLANAGGDFINSVKAANEFGITKT 241 VKASGGTVVGS+KHP +SD SSFLLQAQ SKAQI+GLANAG D +NS+KAA EFG+TKT Sbjct: 192 VKASGGTVVGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKAAKEFGVTKT 251 Query: 242 AKLAGLLVFINDVHSLTPKLTQGMYLTDSWYWDTNEETRKFAKRYFEKQKKMPSSLQAAD 301 KL GLL+ IND+H+L +G+ +TDSWYWD +E +RKFA+R+F+K KKMPS+ QAA Sbjct: 252 MKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKMKKMPSTHQAAA 311 Query: 302 YSAALQYLQAVKAAGTDDSDKVMAQLRKTKFNDVFQKNGYLRADGRVVHDMYLYQVKTPA 361 YSA YL+AV+A GTDDS KVMAQL+KT+ +D + K G +RADGR +HDMYLYQVK+PA Sbjct: 312 YSATTTYLKAVQAIGTDDSTKVMAQLKKTRIDDFYNK-GSIRADGRNIHDMYLYQVKSPA 370 Query: 362 ESKYPWDYYKLVQTIPAEQAWTTKAESKCSAWK 394 ESK PWDY KL++TIP EQA+T+ A+SKCS K Sbjct: 371 ESKKPWDYLKLLETIPGEQAFTSVADSKCSLLK 403 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 365 bits (937), Expect = e-102, Method: Compositional matrix adjust. Identities = 192/386 (49%), Positives = 258/386 (66%), Gaps = 6/386 (1%) Query: 1 VSTAAAAFAFAAPASAQISGDVIKIGFITDISGVYSDIDGQGGAEAIKFAIAD-MGGSIN 59 V+ + A A PA AQ + +KIG +TD+SG YS + GQG A K A+ D + Sbjct: 15 VACTVSLAATAIPAWAQ-DANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDCLKNECK 73 Query: 60 GKKIELVVADHQNKADVAASKSREWFDQQGVDVLIGGTNSGTALAMAKVANEKKKVFIEN 119 G KIE++ AD+QNK DV +++REW D+ V+ + TNS ALA+ K+ +K + + + Sbjct: 74 GMKIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQKLIKDKGGIAMYS 133 Query: 120 GAGSARLTNEECSPYTVHYAYDTVALAKGTGSAVVKQGGKSWFFLTADYAFGHSLESDTS 179 G + LT EC+P H+ +DT + A G +A+ K G KSW+F+T DYAFGHSLE D S Sbjct: 134 GPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLGNKSWYFVTVDYAFGHSLEKDAS 193 Query: 180 NVVKASGGTVVGSVKHPLGASDFSSFLLQAQTSKAQIIGLANAGGDFINSVKAANEFGI- 238 +VVKA+GGTVVGSV+HPL ASDFSSFLLQAQ SKAQ+IGLA+ G D +N++K A F + Sbjct: 194 DVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQARSFAVG 253 Query: 239 TKTAKLAGLLVFINDVHSLTPKLTQGMYLTDSWYWDTNEETRKFAKRYFEKQKK--MPSS 296 K +L LLVF++DVH+L + QG+ TD +YWD +E+TR F+KR FE Q K P+ Sbjct: 254 GKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKR-FESQFKNIKPTM 312 Query: 297 LQAADYSAALQYLQAVKAAGTDDSDKVMAQLRKTKFNDVFQKNGYLRADGRVVHDMYLYQ 356 +QA YS+ Q+L+A AA T D V ++R+ D +N +R DGRV+HDMYLYQ Sbjct: 313 VQAGVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVIHDMYLYQ 372 Query: 357 VKTPAESKYPWDYYKLVQTIPAEQAW 382 VKTPAESK PWDY KL+ IPA+QA+ Sbjct: 373 VKTPAESKGPWDYLKLLSVIPAQQAF 398 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 99/390 (25%), Positives = 167/390 (42%), Gaps = 27/390 (6%) Query: 9 AFAAPASAQI-----SGDVIKIGFITDISGVYSDIDGQGGAEAIKFAIADMGGSINGKKI 63 A AAP + + I G +SG ++ +G+ +K A+ G + GK Sbjct: 12 ALAAPGALSYHDVFAQAESIAFGCPVPMSGPFA-ANGKFADLGMKLALQKYG-KVLGKST 69 Query: 64 ELVVADHQNKADVAASKSREWFDQQGVDVLIGGTNSGTALAMAKVANEKKKVFIENGAGS 123 V D + K A K +E ++G GG SG ALAM K A++ VFI AG+ Sbjct: 70 SYVNLDTEGKPATAVRKMQESI-EKGTRFFAGGILSGEALAMGKEADKAGAVFITT-AGA 127 Query: 124 ARLTNEECSPYTVHYAYDTVALAKGTGSAVVKQ--GGKSWFFLTADYAFGHSLESDTSNV 181 +T +C+ T ++ T + T ++++ K W+ +T Y FG L S N+ Sbjct: 128 DEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKMPNAKRWYTITPQYVFGEGLLSAAKNI 187 Query: 182 VKASGGTVVGSVKHPLGASDFSSFLLQAQTSKAQIIGLANAGGDFINSVKAANEFGITKT 241 K G VG+ H L +FS +L A +K ++ L N G ++++ A FG+ Sbjct: 188 FKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAVSFGMKNN 247 Query: 242 AKL-----AGLLVFINDVHSLTPKLTQGMYLTDSWYWDTNEE--TRKFAKRYFEKQKKMP 294 + +GL F +L + G+Y + YW + ++F K + K P Sbjct: 248 CTILMAWASGLEQF----ETLGADICDGVYF-GAQYWHAIDAPFNKEFVKLVNDNLKIDP 302 Query: 295 SSLQAADYSAALQYLQAVKAAGTDDSDKVMAQLRKTKFNDVFQKNGYLRADGRVVHDMYL 354 + A Y L A+ A + D V+A + K+ + + D +V+ + YL Sbjct: 303 NYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGSEEIRKGDHQVIKNYYL 362 Query: 355 YQVKTPAESKYPWDYYKLVQT----IPAEQ 380 + K A+ DY +V + +P E+ Sbjct: 363 LKGKAKAKMANKNDYADIVSSGKSFLPLEK 392 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 0.314 0.128 0.370 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: 1,146,063 Number of extensions: 46223 Number of successful extensions: 217 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 206 Number of HSP's successfully gapped: 16 Length of query: 394 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 307 Effective length of database: 1,207,925 Effective search space: 370832975 Effective search space used: 370832975 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: 131 (55.1 bits)