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= 0002.0581.p (246 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC t... 70 2e-13 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 68 5e-13 gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC t... 67 1e-12 gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC t... 66 2e-12 gi|300310287|ref|YP_003774379.1| branched-chain amino acid ABC t... 64 1e-11 >gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 408 Score = 70.1 bits (170), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 58/232 (25%), Positives = 103/232 (44%), Gaps = 30/232 (12%) Query: 3 AALVSLVFGYVTLKTKGPYFLLIGFAFTEVMRILYAR-SDWLGGNSGMVGIFPPSGFG-- 59 +AL + G+ L+ +G Y ++ F E++R+L + GG G+ GI P+ FG Sbjct: 166 SALFGFLLGFPVLRLRGDYLAIVTLGFGEIIRLLLNNMTSITGGPDGVSGIPKPTVFGLV 225 Query: 60 -----------NYFPLFAIG------------LCSVMILALYLIE----RSSFGKILIAI 92 + LF + L +M+L Y + R G+ A+ Sbjct: 226 MARNPVTEGGTTFHQLFGLSYQGGHMVIFLYFLALLMVLFTYFVTSRLLRMPMGRAWEAL 285 Query: 93 RDNDNVVLSVGINVHLSKVVCFGIASFVAGIGGSLHGFTNNVISPGDFGFLLSTFTLAYL 152 R+++ S+GIN K+ F + + AG+ GS +++P F F+ S LA + Sbjct: 286 REDEIACRSLGINPTKVKLSAFTLGAAFAGLAGSFFAARQGLVTPESFTFIESALILAIV 345 Query: 153 KVGGENSPFGPLLGSIVLLALGSVAMGMGAGEHIFYGAAIVIAVLLFPNGLV 204 +GG S G +L +I+L L +A + +G +V+ ++ P GL+ Sbjct: 346 VLGGMGSQLGVILAAILLTVLPELARSFAEYRMLIFGLVMVLMMMWRPQGLL 397 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 68.2 bits (165), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 51/184 (27%), Positives = 97/184 (52%), Gaps = 11/184 (5%) Query: 3 AALVSLVFGYV----TLKTKGPYFLLIGFAFTEVMRILYARSDWLGGNSGMVGIFPPSGF 58 A V+ VFG + L+ GPY ++ AF +++IL +L + + P Sbjct: 88 AIAVTAVFGAILALPALRVTGPYLAMVTLAFGTIIQILINEMTFLTEGPLGIKLQKPMIG 147 Query: 59 GN------YFPLFAIGLCSVMILALYLIERSSFGKILIAIRDNDNVVLSVGINVHLSKVV 112 G+ +F L A+ L + +L ++ I +S+ G+ A+RD+ +G++V+ KV Sbjct: 148 GDKMSEVQFFYLVAV-LMVLSMLVVHRILKSNLGRAFQALRDSPIASDCMGVSVYRYKVY 206 Query: 113 CFGIASFVAGIGGSLHGFTNNVISPGDFGFLLSTFTLAYLKVGGENSPFGPLLGSIVLLA 172 F I++ +AG+ G+L+ ++ ISP + F L+ L + +GG S G L+G+++++ Sbjct: 207 AFIISAALAGLSGALYAYSEEYISPNTYNFELTIMFLLAVIMGGRKSRIGSLIGALIVVM 266 Query: 173 LGSV 176 L S+ Sbjct: 267 LPSL 270 >gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 628 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 53/172 (30%), Positives = 84/172 (48%), Gaps = 7/172 (4%) Query: 3 AALVSLVFGYVTLKTKGPYFLLIGFAFTE-VMRILYARSDWLGGNSGMVGIFPPSGFGNY 61 A L +L+FG+ ++ G Y ++ AF + V +Y D GG++G+VG+ + + Sbjct: 411 AMLAALLFGWFCVRLSGVYLAMLTLAFAQIVWAAIYQWDDLTGGSNGLVGLRTAAALASP 470 Query: 62 FPLFAIGL-CSVMILALYLIER---SSFGKILIAIRDNDNVVLSVGINVHLSKVVCFGIA 117 + + L CS L +YL+ R + FG L A RD ++G++V + F +A Sbjct: 471 LAYYYLALLCSA--LGVYLLRRVIHAPFGLALRAARDASGRAQALGMDVRALQWGGFALA 528 Query: 118 SFVAGIGGSLHGFTNNVISPGDFGFLLSTFTLAYLKVGGENSPFGPLLGSIV 169 G+ G L F+ ISP G S L + +GG S GPLLG+ V Sbjct: 529 GLFCGLAGVLFAFSKGSISPEVAGVNRSVDGLVMVLLGGVQSLAGPLLGASV 580 >gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 334 Score = 66.2 bits (160), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 45/172 (26%), Positives = 83/172 (48%), Gaps = 20/172 (11%) Query: 12 YVTLKTKGPYFLLIGFAFTEVMRIL-YARSDWLGGNSGMVGI------------FPPSGF 58 + +++ +G YF+++ AF ++ L Y D GG++G++ I P + Sbjct: 99 WFSIRQRGTYFVMLTLAFAQMFYFLAYTMKDVTGGDNGLLDIPRPPLALFGLTLLPTTSS 158 Query: 59 GNYFPLFAIGLCSVMILALYLIER---SSFGKILIAIRDNDNVVLSVGINVHLSKVVCFG 115 Y+ + AI + +L +L++R S GK L+A+R+N+ ++G +V L K+ F Sbjct: 159 WQYYTVVAI----LFVLVFWLLQRVVDSVLGKTLLAVRENEARASALGYDVRLLKLAAFV 214 Query: 116 IASFVAGIGGSLHGFTNNVISPGDFGFLLSTFTLAYLKVGGENSPFGPLLGS 167 I+ V G+ G LH V + + S L +GG + F +LG+ Sbjct: 215 ISGAVTGLAGGLHAMMTGVAPLSNIEYHTSEAILVMTVIGGTGNLFASVLGA 266 >gi|300310287|ref|YP_003774379.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 63.9 bits (154), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 58/239 (24%), Positives = 107/239 (44%), Gaps = 29/239 (12%) Query: 3 AALVSLVFGYVTLKTKGPYFLLIGFAFTEVMRILYARSDWLGGN--SGMVGIFPP----- 55 A + LVFG +L+ +G Y + A ++ + + W + SG++ PP Sbjct: 110 ATAIGLVFGLPSLRLRGFYLAVSTLAAQFFVQWVLVKFSWFSNDNPSGVIDA-PPLVVGG 168 Query: 56 ----SGFGNYFPLFAIGLCSVMILALYLIERSSFGKILIAIRDNDNVVLSVGINVHLSKV 111 + G Y LFA+ + +V+ L + + +S G IA+RDN+ +G+ V +K+ Sbjct: 169 LAFDTPAGRY--LFALAIVTVLTLLCWRLVQSQTGHHFIAVRDNEQAARVIGVPVLRTKL 226 Query: 112 VCFGIASFVAGIGGSLHGFTN-NVISPGDFGFLLSTFTLAYLKVGGENSPFGPLLGSIVL 170 + F I+SFV G+ G L GF + P F S L + +GG + G G+ ++ Sbjct: 227 LAFAISSFVIGVAGVLWGFVYLRTVEPAGFNLDRSLQILFIVIIGGLATIRGAFFGAALI 286 Query: 171 LALGSVAMG--------------MGAGEHIFYGAAIVIAVLLFPNGLVGIFSWGYKKLF 215 + + + + I GA I+ +++ P GL ++ G ++L+ Sbjct: 287 VVFPLLLSRLGSLLLGQWFDSGVLEMSQRIVLGALIIFFLIVEPQGLAALWQRGRQRLW 345 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 0.326 0.145 0.441 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: 851,712 Number of extensions: 39083 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 21 Length of query: 246 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 163 Effective length of database: 1,226,865 Effective search space: 199978995 Effective search space used: 199978995 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 129 (54.3 bits)