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= 0001.2905.p (291 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312238|ref|YP_003776330.1| amino acid ABC transporter perm... 511 e-146 gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC t... 156 1e-39 gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC t... 139 3e-34 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 133 2e-32 gi|300310522|ref|YP_003774614.1| branched-chain amino acid ABC t... 132 3e-32 >gi|300312238|ref|YP_003776330.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 511 bits (1315), Expect = e-146, Method: Compositional matrix adjust. Identities = 280/288 (97%), Positives = 285/288 (98%) Query: 4 MDWWDSFWATYNTVIFSIGVNAMLALSIYVTLSCGLLSLANAAFMGIGAYTASLLTMQFD 63 M+WWD FWATYNTVIFSIGVNAMLALSIYVTLSCGLLSLANAAFMGIGAYTASLLTMQF+ Sbjct: 1 MEWWDGFWATYNTVIFSIGVNAMLALSIYVTLSCGLLSLANAAFMGIGAYTASLLTMQFE 60 Query: 64 LPFPIALAAGGVLPALVALVIGIPTLRLSGVYLAMATLGFGEVVRVIVLNLDITGGPMGL 123 +PFPIALAAGGVLPALVALVIGIPTLRLSGVYLAMATLGFGEVVRVIVLNLDITGGPMGL Sbjct: 61 MPFPIALAAGGVLPALVALVIGIPTLRLSGVYLAMATLGFGEVVRVIVLNLDITGGPMGL 120 Query: 124 NGVPPITEWWHIVLLLGVTIYALARLRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAF 183 NGVPPITEWWHIVLLLGVTIY LARLRRSKIGRAFEAIKEDE+AARLMGVNVAGYKLLAF Sbjct: 121 NGVPPITEWWHIVLLLGVTIYVLARLRRSKIGRAFEAIKEDEIAARLMGVNVAGYKLLAF 180 Query: 184 VIGAAIAGVAGGLNAHYTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLP 243 VIGAAIAGVAGGLNAH+TFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLP Sbjct: 181 VIGAAIAGVAGGLNAHFTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLP 240 Query: 244 EVLRHFKDFRLAINGLILILVVLYLPKGIWDPRRIRALLGRNAEKKVK 291 EVLRHFKDFRLAINGLILILVVLYLPKGIWDPRRIRA LGRNAEKKVK Sbjct: 241 EVLRHFKDFRLAINGLILILVVLYLPKGIWDPRRIRAFLGRNAEKKVK 288 >gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 408 Score = 156 bits (395), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 98/280 (35%), Positives = 156/280 (55%), Gaps = 43/280 (15%) Query: 37 CGLLSLANAAFMGIGAYTASLLTMQFDLPF----PIALAAGGVLPALVALVIGIPTLRLS 92 GLL L F +GAYT +L F L F P+A AA AL ++G P LRL Sbjct: 126 AGLLDLGYVGFYAVGAYTYALCNQYFGLTFWECVPLAAAAS----ALFGFLLGFPVLRLR 181 Query: 93 GVYLAMATLGFGEVVRVIVLNL-DITGGPMGLNGVP------------PITE-------- 131 G YLA+ TLGFGE++R+++ N+ ITGGP G++G+P P+TE Sbjct: 182 GDYLAIVTLGFGEIIRLLLNNMTSITGGPDGVSGIPKPTVFGLVMARNPVTEGGTTFHQL 241 Query: 132 --------------WWHIVLLLGVTIYALARLRRSKIGRAFEAIKEDEVAARLMGVNVAG 177 ++ +L++ T + +RL R +GRA+EA++EDE+A R +G+N Sbjct: 242 FGLSYQGGHMVIFLYFLALLMVLFTYFVTSRLLRMPMGRAWEALREDEIACRSLGINPTK 301 Query: 178 YKLLAFVIGAAIAGVAGGLNAHYTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGST 237 KL AF +GAA AG+AG A + P ++ F + IL + V GG + +G ++ + Sbjct: 302 VKLSAFTLGAAFAGLAGSFFAARQGLVTPESFTFIESALILAIVVLGGMGSQLGVILAAI 361 Query: 238 ILSLLPEVLRHFKDFRLAINGLILILVVLYLPKGIWDPRR 277 +L++LPE+ R F ++R+ I GL+++L++++ P+G+ R Sbjct: 362 LLTVLPELARSFAEYRMLIFGLVMVLMMMWRPQGLLPATR 401 >gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 139 bits (350), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 106/334 (31%), Positives = 160/334 (47%), Gaps = 82/334 (24%) Query: 26 MLALSIYVTLS-CGLLSLANAAFMGIGAYTASLL-TMQF--------------------- 62 MLAL + V + GLL L AF IGAY+A LL + QF Sbjct: 52 MLALGLNVVVGFAGLLDLGYIAFYAIGAYSAGLLASPQFAAVIESFVNTYPSVGNFLVWL 111 Query: 63 ----------DLPFPIALAAGGVLPALVALVIGIPTLRLSGVYLAMATLGFGEVVRVIVL 112 L + + L AL ++G PTL+L G YLA+ TLGFGE++R+ + Sbjct: 112 CGPEIVQNGIHLSLWLIVPISAFLAALFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMN 171 Query: 113 NLD----ITGGPMGLN---------------------------GVPPITEWWHIVLLLGV 141 NL+ IT GP G+N +P + ++ + LLL + Sbjct: 172 NLNAPVNITNGPQGINLIDPIKVFGVSLAGEPGSGSMVKVFGMSMPSVNAYYFLFLLLCI 231 Query: 142 -TIYALARLRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAFVIGAAIAGVAGGLNAHY 200 I+ RL+ S++GRA+ AI+EDE+AA+ MG+N KLLAF +GA+ GVAG + + Sbjct: 232 GVIFFSVRLQDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAF 291 Query: 201 TFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLPEVLRHFKD--------- 251 + P ++ ++ +L M V GG ++ G ++G IL+ LPEVLRH + Sbjct: 292 QGFVSPESFSLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPVQMAIFGK 351 Query: 252 -------FRLAINGLILILVVLYLPKGIW-DPRR 277 R + GL +++++L P G+W PR Sbjct: 352 VWIDAEVLRQLLYGLAMVVIMLTRPAGLWPSPRH 385 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 133 bits (334), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 76/227 (33%), Positives = 135/227 (59%), Gaps = 10/227 (4%) Query: 37 CGLLSLANAAFMGIGAYTASLLTMQFDLPFPIALAAGGVLPALVALVIGIPTLRLSGVYL 96 G +SL +A GIG+Y A +L + +P + + A + A+ ++ +P LR++G YL Sbjct: 52 TGQVSLGHAGLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYL 111 Query: 97 AMATLGFGEVVRVIVLNLD-ITGGPMGLNGVPPI--------TEWWHIVLLLGV-TIYAL 146 AM TL FG ++++++ + +T GP+G+ P+ +++++V +L V ++ + Sbjct: 112 AMVTLAFGTIIQILINEMTFLTEGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMVLSMLVV 171 Query: 147 ARLRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAFVIGAAIAGVAGGLNAHYTFTIGP 206 R+ +S +GRAF+A+++ +A+ MGV+V YK+ AF+I AA+AG++G L A+ I P Sbjct: 172 HRILKSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISP 231 Query: 207 NNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLPEVLRHFKDFR 253 N Y FE + L + GG + IG +IG+ I+ +LP +L FR Sbjct: 232 NTYNFELTIMFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFR 278 >gi|300310522|ref|YP_003774614.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 132 bits (332), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 107/337 (31%), Positives = 161/337 (47%), Gaps = 88/337 (26%) Query: 26 MLALSIYVTLS-CGLLSLANAAFMGIGAYTASLLTM--------QFDLPFPIALAAGGVL 76 MLAL + V + GLL L AF IGAY+A LL F +P + G L Sbjct: 52 MLALGLNVVVGFAGLLDLGYIAFYAIGAYSAGLLASPQFAAVIESFVNTYP---SVGNFL 108 Query: 77 -----PALVA--------LVIGI--------------PTLRLSGVYLAMATLGFGEVVRV 109 P +V L++ I PTL+L G YLA+ TLGFGE++R+ Sbjct: 109 VWLCGPEIVQNGIHLSLWLIVPISALLAALFGALLGAPTLKLRGDYLAIVTLGFGEIIRI 168 Query: 110 IVLNLD----ITGGPMGLN---------------------------GVPPITEWWHIVLL 138 + NL+ IT GP G+N +P + ++ + LL Sbjct: 169 FMNNLNAPVNITNGPQGINLIDPIKVFGVSLAGEPGSGSMVKVFGMSMPSVNAYYFLFLL 228 Query: 139 LGV-TIYALARLRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAFVIGAAIAGVAGGLN 197 L + I+ RL+ S++GRA+ AI+EDE+AA+ MG+N KLLAF +GA+ GVAG + Sbjct: 229 LCIGVIFFSVRLQDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMF 288 Query: 198 AHYTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLPEVLRHFKD------ 251 + + P ++ ++ +L M V GG ++ G ++G IL+ LPEVLRH + Sbjct: 289 GAFQGFVSPESFSLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPVQMAI 348 Query: 252 ----------FRLAINGLILILVVLYLPKGIW-DPRR 277 R + GL +++++L P G+W PR Sbjct: 349 FGKVWIDAEVLRQLLYGLAMVVIMLTRPAGLWPSPRH 385 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 0.327 0.144 0.437 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: 780,044 Number of extensions: 29268 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 185 Number of HSP's successfully gapped: 28 Length of query: 291 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 207 Effective length of database: 1,222,130 Effective search space: 252980910 Effective search space used: 252980910 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 130 (54.7 bits)