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= 0001.4531.p (397 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 801 0.0 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 102 4e-23 gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 99 6e-22 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 99 7e-22 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 86 6e-18 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 801 bits (2070), Expect = 0.0, Method: Compositional matrix adjust. Identities = 385/397 (96%), Positives = 392/397 (98%) Query: 1 MISRRNFLKLSALAAPGALTYHDVLAQAESIAFGCPVPMSGPFAANGKFADMGMKLALQK 60 MISRR+FLKLSALAAPGAL+YHDV AQAESIAFGCPVPMSGPFAANGKFAD+GMKLALQK Sbjct: 1 MISRRHFLKLSALAAPGALSYHDVFAQAESIAFGCPVPMSGPFAANGKFADLGMKLALQK 60 Query: 61 YGKVLGKSTSYVTLDTEGKPATAVRKMQETIEKGTRFFAGGILSGEALAMGKEADKAGAV 120 YGKVLGKSTSYV LDTEGKPATAVRKMQE+IEKGTRFFAGGILSGEALAMGKEADKAGAV Sbjct: 61 YGKVLGKSTSYVNLDTEGKPATAVRKMQESIEKGTRFFAGGILSGEALAMGKEADKAGAV 120 Query: 121 FITTAGADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKLPNAKRWYTITPQYVFGEGL 180 FITTAGADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEK+PNAKRWYTITPQYVFGEGL Sbjct: 121 FITTAGADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKMPNAKRWYTITPQYVFGEGL 180 Query: 181 LSAAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAV 240 LSAAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAV Sbjct: 181 LSAAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAV 240 Query: 241 SFGMKNNCTILMAWASGLEQFEALGADICDGVYFGAQYWHGIDSPFNKEFVKLVNDNLKI 300 SFGMKNNCTILMAWASGLEQFE LGADICDGVYFGAQYWH ID+PFNKEFVKLVNDNLKI Sbjct: 241 SFGMKNNCTILMAWASGLEQFETLGADICDGVYFGAQYWHAIDAPFNKEFVKLVNDNLKI 300 Query: 301 DPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGTEEIRKGDHQVIKNY 360 DPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTG+EEIRKGDHQVIKNY Sbjct: 301 DPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGSEEIRKGDHQVIKNY 360 Query: 361 YLLKGKAKAKMANKNDYADIVSSGKSFLALEKTQCKL 397 YLLKGKAKAKMANKNDYADIVSSGKSFL LEKTQCKL Sbjct: 361 YLLKGKAKAKMANKNDYADIVSSGKSFLPLEKTQCKL 397 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 102 bits (255), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 94/398 (23%), Positives = 174/398 (43%), Gaps = 14/398 (3%) Query: 9 KLSALAAPGALTYHDVLAQA--ESIAFGCPVPMSGPFAANGKFADM-GMKLALQKYG-KV 64 +L+A A + LAQ +++ G MSGP+A + +++A+ +G V Sbjct: 9 RLAAACAIAGIFSGAALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVADFGGTV 68 Query: 65 LGKSTSYVTLDTEGKPATAVRKMQE-TIEKGTRFFAGGILSGEALAMGKEADKAGAVFIT 123 LGK ++ D + K A + +E E+G GG+ S AL+M K + V+I Sbjct: 69 LGKPIEVISADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKRVYIN 128 Query: 124 T-AGADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKLPNAKRWYTITPQYVFGEGLLS 182 AG +T +C T + T + T ++++ K W+ + Y FG L + Sbjct: 129 IGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQ--GGKSWFFLVADYAFGHSLAN 186 Query: 183 AAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAVSF 242 + K G VG+ H + S +L A A+K +L L N G + ++++ A F Sbjct: 187 DTSAVVKASGGTVVGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKAAKEF 246 Query: 243 GMKNNCTILMAWASGLEQFEALGADICDGVYFGAQYWHGIDSPFNKEFVKLVNDNLKIDP 302 G+ L+ + ALG +G+ ++ D P +++F + +K P Sbjct: 247 GVTKTMK-LVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEP-SRKFAERFFQKMKKMP 304 Query: 303 NYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGTEEIRKGDHQVIKNYYL 362 + A +Y T L A+ + D V+A ++ + + IR D + I + YL Sbjct: 305 STHQAAAYSATTTYLKAVQAIGTDDSTKVMAQLKKTRIDDFYNKGSIR-ADGRNIHDMYL 363 Query: 363 LKGKAKAKMANKNDYADIVSS---GKSFLALEKTQCKL 397 + K+ A+ DY ++ + ++F ++ ++C L Sbjct: 364 YQVKSPAESKKPWDYLKLLETIPGEQAFTSVADSKCSL 401 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 99.0 bits (245), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 96/363 (26%), Positives = 153/363 (42%), Gaps = 13/363 (3%) Query: 28 AESIAFGCPVPMSGPFAA-NGKFADMGMKLALQKYGK--VLGKSTSYVTLDTEGKPATAV 84 A ++ G MSGP++A G+ + + K+A++ K G ++ D + KP V Sbjct: 33 ANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDCLKNECKGMKIEILSADNQNKPDVGV 92 Query: 85 RKMQETIEKGTRFFAGGILSGEALAMGKEA---DKAGAVFITTAGADEITGSDCNRATFR 141 + +E +++ + A L+ ++A+ + DK G + +T ++C F Sbjct: 93 TRAREWLDR-DKVEAIADLTNSSVALAVQKLIKDKGGIAMYSGPATGALTTAECAPNGFH 151 Query: 142 WSVPTFGAIEQTVRPLLEKLPNAKRWYTITPQYVFGEGLLSAAKNIFKEKGIEHVGNSYH 201 W T+ L KL N K WY +T Y FG L A ++ K G VG+ H Sbjct: 152 WMFDTYSQAAGAAA-ALTKLGN-KSWYFVTVDYAFGHSLEKDASDVVKANGGTVVGSVRH 209 Query: 202 SLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAVSFGMKNNCTILMAWASGLEQF 261 L +FS +L A A+K V+ L + G+ + ++QA SF + L+A L Sbjct: 210 PLNASDFSSFLLQAQASKAQVIGLADGGTDVVNAIKQARSFAVGGKDQRLVALLVFLSDV 269 Query: 262 EALGADICDG-VYFGAQYWHGIDSPFNKEFVKLVNDNLK-IDPNYSLAGSYICTKIILDA 319 ALG + G VY YW + + F K K I P AG Y L A Sbjct: 270 HALGLEAAQGLVYTDGFYWDYDEQ--TRAFSKRFESQFKNIKPTMVQAGVYSSVYQFLKA 327 Query: 320 IIKANSTDPKAVIAAMEGMKYEGLTGTEEIRKGDHQVIKNYYLLKGKAKAKMANKNDYAD 379 A ++D K V M + + D +VI + YL + K A+ DY Sbjct: 328 RAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVIHDMYLYQVKTPAESKGPWDYLK 387 Query: 380 IVS 382 ++S Sbjct: 388 LLS 390 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 98.6 bits (244), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 105/409 (25%), Positives = 175/409 (42%), Gaps = 27/409 (6%) Query: 4 RRNFLKLSALAAPGALTYHDVLAQAESIAFGCPVPMSGPFAA-NGKFADMGMKLALQKYG 62 RR L +A A GA A ++I G MSG +A +G+ +++A+ G Sbjct: 6 RRAALSATACALLGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADAG 65 Query: 63 KVL-GKSTSYVTLDTEGKPATAVRKMQETIEK-GTRFFAGGILSGEALAMGKEADKAGAV 120 + GK V D + K A K +E ++ G GG+ S +LAMGK A + V Sbjct: 66 GAINGKKVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEKKKV 125 Query: 121 FITT-AGADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEKLPNAKRWYTITPQYVFGEG 179 FI+ AG T +CN T +++ T T + + K WY +T Y FG Sbjct: 126 FISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQ--GGKSWYFLTADYAFGTS 183 Query: 180 LLSAAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQA 239 L + K G VG + L +FS +L A ++K +L L G + ++ A Sbjct: 184 LEKDTSEVVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGDVINAIKAA 243 Query: 240 VSFGMKNNCTILMAWASGLEQF----EALGADICDGVYF-GAQYWHGIDSP---FNKEFV 291 FG+ N T+ +A GL F +LG + G+Y YW D N+ F+ Sbjct: 244 NEFGV--NKTMKLA---GLLIFINDTHSLGLSLTQGMYLTDGWYWDLNDQTRAWANRYFM 298 Query: 292 KLVNDNLKIDPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAMEGMKYEGLTGTEEIRK 351 K +K P+ AG L A+ STD V+ + + + + + Sbjct: 299 K-----MKKMPSMFQAGDASAVGQYLKAVKAVGSTDADKVMDYLRKNRINDFFTSNGVVR 353 Query: 352 GDHQVIKNYYLLKGKAKAKMANKNDYADIVSS---GKSFLALEKTQCKL 397 D +++ + YL++ K ++ DY +V + ++++ +++C L Sbjct: 354 PDGRMVHDMYLMEVKKPSESKRPWDYYKLVQTIPGEQAYMTKAESKCAL 402 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 85.9 bits (211), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 87/361 (24%), Positives = 155/361 (42%), Gaps = 16/361 (4%) Query: 31 IAFGCPVPMSGPFA-ANGKFADMGMKLALQKYGKVL-GKSTSYVTLDTEGKPATAVRKMQ 88 I G +SG ++ +G+ +K+A+ G + GK + D + K A K + Sbjct: 31 IKIGFITDISGVYSDIDGQGGAEAIKMAIADMGGAINGKKIELLVADHQNKADVAASKAR 90 Query: 89 ETI-EKGTRFFAGGILSGEALAMGKEADKAGAVFITT-AGADEITGSDCNRATFRWSVPT 146 E ++G GG SG ALA K A + V++ AG+ +T +C+ T ++ T Sbjct: 91 EWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVHYAYDT 150 Query: 147 FGAIEQTVRPLLEKLPNAKRWYTITPQYVFGEGLLSAAKNIFKEKGIEHVGNSYHSLTEK 206 + T ++++ K W+ +T Y FG L S N+ K G VG H L Sbjct: 151 VALAKGTGSAVVKQ--GGKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKHPLGAS 208 Query: 207 EFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAVSFGMKNNCTILMAWASGLEQF----E 262 +FS +L A ++K ++ L N G ++++ A FG+ + +GL F Sbjct: 209 DFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGITKTAKL-----AGLLVFINDVH 263 Query: 263 ALGADICDGVYFGAQYWHGIDSPFNKEFVKLVNDNLKIDPNYSLAGSYICTKIILDAIIK 322 +L +G+Y W+ + + F K K P+ A Y L + + Sbjct: 264 SLTLKNTEGLYL-TDSWYWDANEETRAFAKRYFAVRKKMPSSLQAADYSAALQYLKVVKE 322 Query: 323 ANSTDPKAVIAAMEGMKYEGLTGTEEIRKGDHQVIKNYYLLKGKAKAKMANKNDYADIVS 382 + D V+AA+ K+ + + D +V+ + YL + KA+++ DY +V Sbjct: 323 IGTDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQVKAQSESKYPWDYYKLVQ 382 Query: 383 S 383 + Sbjct: 383 T 383 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 0.133 0.388 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: 1,126,105 Number of extensions: 45448 Number of successful extensions: 169 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 13 Length of query: 397 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 310 Effective length of database: 1,207,925 Effective search space: 374456750 Effective search space used: 374456750 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)