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= 0005.0262.p (322 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314069|ref|YP_003778161.1| amino acid ABC transporter perm... 160 2e-40 gi|300312953|ref|YP_003777045.1| amino acid ABC transporter perm... 134 7e-33 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 124 7e-30 gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC t... 119 3e-28 gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC t... 117 8e-28 >gi|300314069|ref|YP_003778161.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 326 Score = 160 bits (404), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 108/317 (34%), Positives = 167/317 (52%), Gaps = 26/317 (8%) Query: 22 PFVTHDDFYLNLATLIMIWGIFAVGFDFVFGSLGMVSFGHASFLGIGGYAVALATQRLGL 81 PF + F + + + + +FA F+ + G G++SFGHA+FLG GY A + GL Sbjct: 18 PFGIYPVFLMKM----LCFALFACAFNLLIGYTGLLSFGHAAFLGWAGYMCGQALKVWGL 73 Query: 82 PFEAGVVLAMAAAAACAWLYSFFALRVSGIFFALVTLSLSQLLYILADSKLREWTGGADG 141 P E G+++ A + A+R GI+F ++TL+L+Q+L+ +A +TGG DG Sbjct: 74 PTELGLIIGTLTGALIGLVMGLLAIRRQGIYFTMITLALAQMLFFVALQA--PFTGGEDG 131 Query: 142 LPGVARPATFGIDFFDPVNFYWYAAVVFALVMIAIAVLR-SSPFGRVVMAIQQNEIRTDH 200 L GV R G + +Y + A+ A+ V SPFG+V+ AI++NE R Sbjct: 132 LQGVPRGKLLGFLNLESDMTLYYVVLAIAVAGFALIVRTIHSPFGQVLKAIKENEPRAIS 191 Query: 201 LGYNTHRIKQITFLISGAISGLAGALLGSLMMYVNPQMLHWGTSGDVIIMTLLGGAGTLW 260 LGY+ R K + F++S +SGLAGA ++ + +HW SG V++MTL+GG GT+ Sbjct: 192 LGYDVARYKLLAFVLSAGLSGLAGATKTLVLGFETLTDVHWSMSGLVVLMTLVGGLGTIL 251 Query: 261 GPVAGVAIFEILKESL---SGWTQY-----WYGIL--------GVVFILATLYFPRGVLG 304 GP+ G I +L+ L W W+ L G +FI+ L F +G++G Sbjct: 252 GPIVGAVIIIMLENKLGDIGAWLASVTHIDWFNTLGDSVTIVTGFIFIVCVLAFRKGIVG 311 Query: 305 EIQARLVRTRPGRSGES 321 EI L TR G++ S Sbjct: 312 EI---LALTRKGQASGS 325 >gi|300312953|ref|YP_003777045.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 317 Score = 134 bits (338), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 98/276 (35%), Positives = 150/276 (54%), Gaps = 3/276 (1%) Query: 28 DFYLNLATLIMIWGIFAVGFDFVFGSLGMVSFGHASFLGIGGYAVALATQRLGLPFEAGV 87 ++Y+ + T I+I+ + A +F+ G GMVSFGHA F G+G Y A+A+ Sbjct: 26 EYYIGVLTRILIFAMVAASLNFILGYGGMVSFGHAVFFGLGAYVTAIASFHGVTSAWLIW 85 Query: 88 VLAMAAAAACAWLYSFFALRVSGIFFALVTLSLSQLLYILADSKLREWTGGADGLPGVAR 147 +LA A + ALR ++F ++T++L+QL Y + GG DGL AR Sbjct: 86 LLAALVTALVGLVIGVIALRTRAVYFIMITMALAQLFYYFFVGF--RYYGGDDGLQVTAR 143 Query: 148 PAT-FGIDFFDPVNFYWYAAVVFALVMIAIAVLRSSPFGRVVMAIQQNEIRTDHLGYNTH 206 P FG+D FYW A I + L +S FG + AI+QNE R +GY Sbjct: 144 PLLGFGLDMSGDNAFYWVVLAWLAASFILLQRLLASRFGLALNAIRQNERRAQAIGYPAL 203 Query: 207 RIKQITFLISGAISGLAGALLGSLMMYVNPQMLHWGTSGDVIIMTLLGGAGTLWGPVAGV 266 R K F+I+ I+G+AG+L+G ++ +P++LHW SG +++M LGG G +G + G Sbjct: 204 RYKLAAFVIAAVIAGIAGSLIGMSNLFASPKLLHWSQSGILLVMVALGGVGYFYGGLLGA 263 Query: 267 AIFEILKESLSGWTQYWYGILGVVFILATLYFPRGV 302 A F +L+E LS +YW +G++ +L + PRGV Sbjct: 264 AAFLLLEEVLSTHFEYWQIYVGLILLLVVMVAPRGV 299 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 124 bits (312), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 86/276 (31%), Positives = 142/276 (51%), Gaps = 5/276 (1%) Query: 3 LSRFDLVLGCLLIPVVIALPFVTHDDFYLNLATLIMIWGIFAVGFDFVFGSLGMVSFGHA 62 +++ L+L L I + +P V H+ +YL+L I+I+ I G D V G G VS GHA Sbjct: 1 MNKKILLLSLLGIVALAGIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHA 60 Query: 63 SFLGIGGYAVALATQRLGLPFEAGVVLAMAAAAACAWLYSFFALRVSGIFFALVTLSLSQ 122 GIG YA + +LG+P V A+A A + + ALRV+G + A+VTL+ Sbjct: 61 GLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVFGAILALPALRVTGPYLAMVTLAFGT 120 Query: 123 LLYILADSKLREWTGGADGLPGVA-RPATFGIDFFDPVNFYWYAAVVFALVMIAIAVLRS 181 ++ IL + E T +G G+ + G D V F++ AV+ L M+ + + Sbjct: 121 IIQIL----INEMTFLTEGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMVLSMLVVHRILK 176 Query: 182 SPFGRVVMAIQQNEIRTDHLGYNTHRIKQITFLISGAISGLAGALLGSLMMYVNPQMLHW 241 S GR A++ + I +D +G + +R K F+IS A++GL+GAL Y++P ++ Sbjct: 177 SNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNF 236 Query: 242 GTSGDVIIMTLLGGAGTLWGPVAGVAIFEILKESLS 277 + ++ ++GG + G + G I +L LS Sbjct: 237 ELTIMFLLAVIMGGRKSRIGSLIGALIVVMLPSLLS 272 >gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 334 Score = 119 bits (298), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 91/294 (30%), Positives = 162/294 (55%), Gaps = 9/294 (3%) Query: 32 NLATLIMIWGIFAVGFDFVFGSLGMVSFGHASFLGIGGYAVALATQRLGLPFEAGVVLAM 91 LAT ++++ + A+G + + G G++SFG F G+G Y + +L L + LA Sbjct: 28 TLATEVLVFALAALGCNLLLGYTGLMSFGQGIFFGVGSYTAGVVLLQLKLALLPALALAA 87 Query: 92 AAAAACAWLYSFFALRVSGIFFALVTLSLSQLLYILADSKLREWTGGADGLPGVARP--A 149 A A L +F++R G +F ++TL+ +Q+ Y LA + +++ TGG +GL + RP A Sbjct: 88 LGGALVALLVGWFSIRQRGTYFVMLTLAFAQMFYFLAYT-MKDVTGGDNGLLDIPRPPLA 146 Query: 150 TFGIDFFDPVN---FYWYAAVVFALVMIAIAVLRSSPFGRVVMAIQQNEIRTDHLGYNTH 206 FG+ + +Y A++F LV + + S G+ ++A+++NE R LGY+ Sbjct: 147 LFGLTLLPTTSSWQYYTVVAILFVLVFWLLQRVVDSVLGKTLLAVRENEARASALGYDVR 206 Query: 207 RIKQITFLISGAISGLAGALLGSLMMYVNP-QMLHWGTSGDVIIMTLLGGAGTLWGPVAG 265 +K F+ISGA++GLAG L ++M V P + + TS +++MT++GG G L+ V G Sbjct: 207 LLKLAAFVISGAVTGLAGG-LHAMMTGVAPLSNIEYHTSEAILVMTVIGGTGNLFASVLG 265 Query: 266 VAIFEILKESLSGWTQYWYGILGVVFILATLYFPRGVLGEIQARLVRTRPGRSG 319 + + ++ LS W +LG++ I +LY +G+ G + +++ G G Sbjct: 266 ASFYVLVGNWLSTLWPRWLMLLGLLLIAVSLYMQKGLFG-LAMKIIDAVRGNKG 318 >gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 408 Score = 117 bits (294), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 82/297 (27%), Positives = 143/297 (48%), Gaps = 24/297 (8%) Query: 30 YLNLATLIMIWGIFAVGFDFVFGSLGMVSFGHASFLGIGGYAVALATQRLGLPFEAGVVL 89 Y+++ TL +I+ + +G + V G G++ G+ F +G Y AL Q GL F V L Sbjct: 102 YVDVMTLALIYVVLGLGLNIVVGFAGLLDLGYVGFYAVGAYTYALCNQYFGLTFWECVPL 161 Query: 90 AMAAAAACAWLYSFFALRVSGIFFALVTLSLSQLLYILADSKLREWTGGADGLPGVARPA 149 A AA+A +L F LR+ G + A+VTL +++ +L ++ + TGG DG+ G+ +P Sbjct: 162 AAAASALFGFLLGFPVLRLRGDYLAIVTLGFGEIIRLLLNN-MTSITGGPDGVSGIPKPT 220 Query: 150 TFGIDF-FDPVN----------------------FYWYAAVVFALVMIAIAVLRSSPFGR 186 FG+ +PV Y+ A ++ + L P GR Sbjct: 221 VFGLVMARNPVTEGGTTFHQLFGLSYQGGHMVIFLYFLALLMVLFTYFVTSRLLRMPMGR 280 Query: 187 VVMAIQQNEIRTDHLGYNTHRIKQITFLISGAISGLAGALLGSLMMYVNPQMLHWGTSGD 246 A++++EI LG N ++K F + A +GLAG+ + V P+ + S Sbjct: 281 AWEALREDEIACRSLGINPTKVKLSAFTLGAAFAGLAGSFFAARQGLVTPESFTFIESAL 340 Query: 247 VIIMTLLGGAGTLWGPVAGVAIFEILKESLSGWTQYWYGILGVVFILATLYFPRGVL 303 ++ + +LGG G+ G + + +L E + +Y I G+V +L ++ P+G+L Sbjct: 341 ILAIVVLGGMGSQLGVILAAILLTVLPELARSFAEYRMLIFGLVMVLMMMWRPQGLL 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 0.329 0.144 0.451 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: 992,378 Number of extensions: 40738 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 216 Number of HSP's successfully gapped: 29 Length of query: 322 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 237 Effective length of database: 1,217,395 Effective search space: 288522615 Effective search space used: 288522615 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 (21.8 bits) S2: 130 (54.7 bits)