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= 0011.0113.p (408 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... 707 0.0 gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC t... 251 7e-68 gi|300310522|ref|YP_003774614.1| branched-chain amino acid ABC t... 235 4e-63 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 164 2e-41 gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 115 6e-27 >gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 408 Score = 707 bits (1825), Expect = 0.0, Method: Compositional matrix adjust. Identities = 348/408 (85%), Positives = 380/408 (93%) Query: 1 MPITLKNAVAAAILTAILTTPMLGLQLQLEGYRVVLNAHWTPVLIAVLVVFVFQLIKPAL 60 MP T KNAV AA++TA+LT P+LG+QLQLEGYRVVLN HWTPVL+AVL VF+FQL KP L Sbjct: 1 MPETFKNAVTAALVTAVLTIPLLGMQLQLEGYRVVLNTHWTPVLVAVLAVFLFQLAKPVL 60 Query: 61 TRSTRKIRLPALPQLQPRQQRYALLFLFAIALVWPFFGSRGNVDVVTLALIYVILGLGLN 120 +RS+ I+LPALP++QPRQQR A++ L ALVWPFFGSRG VDV+TLALIYV+LGLGLN Sbjct: 61 SRSSAGIKLPALPRMQPRQQRAAVMILLMAALVWPFFGSRGYVDVMTLALIYVVLGLGLN 120 Query: 121 IVVGFAGLLDLGYVGFYAVGGYTYALLNQYFGFTFWECLPIAAGMSALFGFILGFPVLRL 180 IVVGFAGLLDLGYVGFYAVG YTYAL NQYFG TFWEC+P+AA SALFGF+LGFPVLRL Sbjct: 121 IVVGFAGLLDLGYVGFYAVGAYTYALCNQYFGLTFWECVPLAAAASALFGFLLGFPVLRL 180 Query: 181 RGDYLAIVTLGFGEIIRLLLNNMTSLTGGPDGVSGIPKPTVFGIEMARNASVEGGTTFHD 240 RGDYLAIVTLGFGEIIRLLLNNMTS+TGGPDGVSGIPKPTVFG+ MARN EGGTTFH Sbjct: 181 RGDYLAIVTLGFGEIIRLLLNNMTSITGGPDGVSGIPKPTVFGLVMARNPVTEGGTTFHQ 240 Query: 241 MLGLTYQGGHMVIFLYFVALLLVLFTYFVTSRLIRMPMGRAWEALRDDEIACRSLGINPT 300 + GL+YQGGHMVIFLYF+ALL+VLFTYFVTSRL+RMPMGRAWEALR+DEIACRSLGINPT Sbjct: 241 LFGLSYQGGHMVIFLYFLALLMVLFTYFVTSRLLRMPMGRAWEALREDEIACRSLGINPT 300 Query: 301 RIKLSAFTLGAAFAGLAGSFFAARQGLVNPESFTFIESALILAIVVLGGMGSQLGVILAA 360 ++KLSAFTLGAAFAGLAGSFFAARQGLV PESFTFIESALILAIVVLGGMGSQLGVILAA Sbjct: 301 KVKLSAFTLGAAFAGLAGSFFAARQGLVTPESFTFIESALILAIVVLGGMGSQLGVILAA 360 Query: 361 ILLTILPEVARSFAEYRMLIFGLVMVLMMMWRPQGLLPATRPHVELPR 408 ILLT+LPE+ARSFAEYRMLIFGLVMVLMMMWRPQGLLPATRPHVELP+ Sbjct: 361 ILLTVLPELARSFAEYRMLIFGLVMVLMMMWRPQGLLPATRPHVELPQ 408 >gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 251 bits (641), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 163/387 (42%), Positives = 227/387 (58%), Gaps = 61/387 (15%) Query: 76 QPRQQRYALLFLFAIALVWPFFGSR-GN--VDVVTLALIYVILGLGLNIVVGFAGLLDLG 132 P+Q R +LL L A+ +V+PF + GN V ++ +AL+Y++L LGLN+VVGFAGLLDLG Sbjct: 11 NPQQARISLLLLLALMIVFPFVAQQFGNSWVRIMDVALLYIMLALGLNVVVGFAGLLDLG 70 Query: 133 YVGFYAVGGYTYALL-------------NQY---FGFTFWEC----------------LP 160 Y+ FYA+G Y+ LL N Y F W C +P Sbjct: 71 YIAFYAIGAYSAGLLASPQFAAVIESFVNTYPSVGNFLVWLCGPEIVQNGIHLSLWLIVP 130 Query: 161 IAAGMSALFGFILGFPVLRLRGDYLAIVTLGFGEIIRLLLNNMT---SLTGGPDGVSGIP 217 I+A ++ALFG +LG P L+LRGDYLAIVTLGFGEIIR+ +NN+ ++T GP G++ I Sbjct: 131 ISAFLAALFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNITNGPQGINLID 190 Query: 218 KPTVFGIEMARNASVEGGTTFHDMLGLTYQGGHMVIFLYFVALLLVLFTYFVTSRLIRMP 277 VFG+ +A G + + G++ V YF+ LLL + F + RL Sbjct: 191 PIKVFGVSLAGE---PGSGSMVKVFGMSMPS---VNAYYFLFLLLCIGVIFFSVRLQDSR 244 Query: 278 MGRAWEALRDDEIACRSLGINPTRIKLSAFTLGAAFAGLAGSFFAARQGLVNPESFTFIE 337 +GRAW A+R+DEIA +++GIN +KL AF +GA+F G+AG+ F A QG V+PESF+ E Sbjct: 245 LGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESFSLTE 304 Query: 338 SALILAIVVLGGMGSQLGVILAAILLTILPEVARSFAE----------------YRMLIF 381 S +LA+VVLGG+G GV+L ++L LPEV R E R L++ Sbjct: 305 SIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPVQMAIFGKVWIDAEVLRQLLY 364 Query: 382 GLVMVLMMMWRPQGLLPATRPHVELPR 408 GL MV++M+ RP GL P+ R H + P Sbjct: 365 GLAMVVIMLTRPAGLWPSPR-HEDRPE 390 >gi|300310522|ref|YP_003774614.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 235 bits (600), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 163/389 (41%), Positives = 228/389 (58%), Gaps = 61/389 (15%) Query: 74 QLQPRQQRYALLFLFAIALVWPFFGSR-GN--VDVVTLALIYVILGLGLNIVVGFAGLLD 130 + P+Q R +LL L A+ +V+PF + GN V ++ +AL+Y++L LGLN+VVGFAGLLD Sbjct: 9 KRNPQQARISLLLLLALMIVFPFVAQQFGNSWVRIMDVALLYIMLALGLNVVVGFAGLLD 68 Query: 131 LGYVGFYAVGGYTYALL-------------NQY---FGFTFWEC---------------- 158 LGY+ FYA+G Y+ LL N Y F W C Sbjct: 69 LGYIAFYAIGAYSAGLLASPQFAAVIESFVNTYPSVGNFLVWLCGPEIVQNGIHLSLWLI 128 Query: 159 LPIAAGMSALFGFILGFPVLRLRGDYLAIVTLGFGEIIRLLLNNMT---SLTGGPDGVSG 215 +PI+A ++ALFG +LG P L+LRGDYLAIVTLGFGEIIR+ +NN+ ++T GP G++ Sbjct: 129 VPISALLAALFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNITNGPQGINL 188 Query: 216 IPKPTVFGIEMARNASVEGGTTFHDMLGLTYQGGHMVIFLYFVALLLVLFTYFVTSRLIR 275 I VFG+ +A G + + G++ V YF+ LLL + F + RL Sbjct: 189 IDPIKVFGVSLAGE---PGSGSMVKVFGMSMPS---VNAYYFLFLLLCIGVIFFSVRLQD 242 Query: 276 MPMGRAWEALRDDEIACRSLGINPTRIKLSAFTLGAAFAGLAGSFFAARQGLVNPESFTF 335 +GRAW A+R+DEIA +++GIN +KL AF +GA+F G+AG+ F A QG V+PESF+ Sbjct: 243 SRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESFSL 302 Query: 336 IESALILAIVVLGGMGSQLGVILAAILLTILPEVARSFAE----------------YRML 379 ES +LA+VVLGG+G GV+L ++L LPEV R E R L Sbjct: 303 TESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPVQMAIFGKVWIDAEVLRQL 362 Query: 380 IFGLVMVLMMMWRPQGLLPATRPHVELPR 408 ++GL MV++M+ RP GL P+ R H + P Sbjct: 363 LYGLAMVVIMLTRPAGLWPSPR-HEDRPE 390 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 164 bits (414), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 97/270 (35%), Positives = 156/270 (57%), Gaps = 25/270 (9%) Query: 110 LIYVILGLGLNIVVGFAGLLDLGYVGFYAVGGYTYALLNQYFGFTFWECLPIAAGMSALF 169 LIY IL GL+IVVG+ G + LG+ G + +G Y +L G + +P A ++A+F Sbjct: 36 LIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSYAAGVLFFKLGMPIFVTVPAAIAVTAVF 95 Query: 170 GFILGFPVLRLRGDYLAIVTLGFGEIIRLLLNNMTSLTGGPDGVSGIPKPTVFGIEMARN 229 G IL P LR+ G YLA+VTL FG II++L+N MT LT GP G+ + KP + G +M+ Sbjct: 96 GAILALPALRVTGPYLAMVTLAFGTIIQILINEMTFLTEGPLGIK-LQKPMIGGDKMSE- 153 Query: 230 ASVEGGTTFHDMLGLTYQGGHMVIFLYFVALLLVLFTYFVTSRLIRMPMGRAWEALRDDE 289 V F Y VA+L+VL + V R+++ +GRA++ALRD Sbjct: 154 ----------------------VQFFYLVAVLMVL-SMLVVHRILKSNLGRAFQALRDSP 190 Query: 290 IACRSLGINPTRIKLSAFTLGAAFAGLAGSFFAARQGLVNPESFTFIESALILAIVVLGG 349 IA +G++ R K+ AF + AA AGL+G+ +A + ++P ++ F + + L V++GG Sbjct: 191 IASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTIMFLLAVIMGG 250 Query: 350 MGSQLGVILAAILLTILPEVARSFAEYRML 379 S++G ++ A+++ +LP + A +R + Sbjct: 251 RKSRIGSLIGALIVVMLPSLLSDIALFRQI 280 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 115 bits (288), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 90/296 (30%), Positives = 143/296 (48%), Gaps = 32/296 (10%) Query: 111 IYVILGLGLNIVVGFAGLLDLGYVGFYAVGGYTYALLNQYFGFTFWECLPIAAGMSALFG 170 +Y I+ LGL ++ G AGL+ G F +G YT A L FG + W L ++A Sbjct: 40 LYAIVALGLVLLTGVAGLISFGQAAFVGMGAYTTAYLTTQFGLSPWIGLLAGIALTACSA 99 Query: 171 FILGFPVLRLRGDYLAIVTLGFGEIIRLLLNNMTSLTGGPDGVSGIPKPTVFGIEMARNA 230 F++G +R+ G YL + T+ +G + L N+ L G DG++GIP T+ +E A Sbjct: 100 FLIGSLTMRISGHYLPLSTIAWGLSLYYLFGNLEML-GKHDGINGIPVITIGSVEFGNGA 158 Query: 231 SVEGGTTFHDMLGLTYQGGHMVIFLYFVALLLVLFTYFVTSRLIRMPMGRAWEALRDDEI 290 S+ +++I++ + L LV F+ SR GRA ALR + Sbjct: 159 SM-----------------YLLIWVVLI-LALVSVVNFLDSR-----AGRAVRALRFGTV 195 Query: 291 ACRSLGINPTRIKLSAFTLGAAFAGLAGSFFAARQGLVNPESFTFIESALILAIVVLGGM 350 ++G++ R+K+ F A AG++G +A Q VNP F L +VV+GG Sbjct: 196 MPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLKYGIDYLLMVVVGGA 255 Query: 351 GSQLGVILAAILLTI--------LPEVARSFAEYRMLIFGLVMVLMMMWRPQGLLP 398 G G IL A LL + LP V + + ++FG+ +V+ + + +GL P Sbjct: 256 GHVAGAILGAGLLAVLSNFLQEWLPGVLGTGGNFEAIVFGIALVIFLQFANEGLWP 311 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 0.331 0.146 0.442 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: 1,137,852 Number of extensions: 46111 Number of successful extensions: 313 Number of sequences better than 1.0e-08: 29 Number of HSP's gapped: 280 Number of HSP's successfully gapped: 30 Length of query: 408 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 321 Effective length of database: 1,207,925 Effective search space: 387743925 Effective search space used: 387743925 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 132 (55.5 bits)