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= 0011.0020.p (407 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 412 e-116 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 231 6e-62 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 187 1e-48 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 167 1e-42 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 120 2e-28 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 412 bits (1059), Expect = e-116, Method: Compositional matrix adjust. Identities = 191/351 (54%), Positives = 258/351 (73%) Query: 46 PEDDGSRTVLIGYAGPLSGTSAAVGKSMANAAQLAVDEANKRGLQIQGRPVQLKLLIQDD 105 P+ + T+ IG+AGPLSG S VGKSM N QLA+ EAN+RGL+I G+ QL+L+ QDD Sbjct: 32 PDRQETATLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDD 91 Query: 106 RTNPRTAELIARYLVRSGVVGVIGHWNSGASLAAAPIYNAGGVIQISPASMSNLFTQQGN 165 R +P TAE +AR LV+ V+ V+GHW SG SLAAAP+Y+ GVIQ++P++MS T Sbjct: 92 RADPATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSY 151 Query: 166 RAAFRTIGNNDSAGSYTADYAVKTLQARRFLVVDDGTPFGRGFVEQFSRSAKELGAQIVG 225 FRTI NN+S G A YAV L+ R + +DD TPFG+G EQF+R+A E GAQ+VG Sbjct: 152 PRIFRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVG 211 Query: 226 SHSVSDKTSDFNAVLIDALRLRPDAVMFGGLELQASTLARSLKRRSPGIRFIGSSGTVGL 285 +SVSDKTSDFNA L++A +L+PD + FGGL+ QA LA+S++R R + S GT+GL Sbjct: 212 RYSVSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGL 271 Query: 286 PFLRAAGADGNGSVVLEPGLPMDKMPGWKNFEKNYMQKFDSNIELFAPFAYDATQVLIAA 345 PFL AG D NG++VLEPG P DKMPGWK+F + Y + FDS+++L+A FAY+A Q +I Sbjct: 272 PFLMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQG 331 Query: 346 MRQANSMEPKKIAEALHAIHFSGMTGPVSFNQQGDLNNPTFTIYEVENQSW 396 +RQA S +P++IAEA+H + F G++GPV+FN++GDL P+FT+YEV++Q W Sbjct: 332 IRQAGSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRW 382 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 231 bits (590), Expect = 6e-62, Method: Compositional matrix adjust. Identities = 124/342 (36%), Positives = 196/342 (57%), Gaps = 5/342 (1%) Query: 52 RTVLIGYAGPLSGTSAAVGKSMANAAQLAVDEANKRGLQIQGRPVQLKLLIQDDRTNPRT 111 V I + GPLSG +A +GK N A++AVDE N +G I G+ V+ +L+ +DD ++P+ Sbjct: 26 EVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIGGKKVKFELVGEDDASDPKQ 85 Query: 112 AELIARYLVRSGVVGVIGHWNSGASLAAAPIYNAGGVIQISPASMSNLFTQQGNRAAFRT 171 A +A LV V VIGH NSG ++ A+ IY+ G+ Q+SP++ + +TQQG + AFR Sbjct: 86 ATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQVSPSATNPKYTQQGFKTAFRV 145 Query: 172 IGNNDSAGSYTADYAVKTLQARRFLVVDDGTPFGRGFVEQFSRSAKELGAQIVGSHSVSD 231 + N+ G+ YAV+ L ++ V+DD T +G+G ++F++ AK G IVG+ +D Sbjct: 146 VANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEFAKGAKAAGGTIVGTQYTND 205 Query: 232 KTSDFNAVLIDALRLRPDAVMFGGLELQASTLARSLKRRSPGIRFIGSSG--TVGLPFLR 289 K +DFNA+L +PD V FGG++ + R +K+ +F+G G T LP L Sbjct: 206 KATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQLGISAKFMGGDGICTGSLPGLA 265 Query: 290 AAGADGNGSVVLEPGLPMDK--MPGWKNFEKNYMQKFDSNIELFAPFAYDATQVLIAAMR 347 G G+ V+ +D+ G +F Y +KF ++ A +AYDAT + AM Sbjct: 266 GDGL-GDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDVVYNAAYAYDATMTVADAMA 324 Query: 348 QANSMEPKKIAEALHAIHFSGMTGPVSFNQQGDLNNPTFTIY 389 +A S +PKK L I G+TG ++F+ +GD+ + + T+Y Sbjct: 325 KAGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDGSLTLY 366 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 187 bits (476), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 103/344 (29%), Positives = 177/344 (51%), Gaps = 2/344 (0%) Query: 51 SRTVLIGYAGPLSGTSAAVGKSMANAAQLAVDEANKRGLQIQGRPVQLKLLIQDDRTNPR 110 ++ V IG++ PL+G A+ GK +A++ N + + + G+ ++ ++ +DD+ +P+ Sbjct: 27 TQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVIAEDDQADPK 86 Query: 111 TAELIARYLVRSGVVGVIGHWNSGASLAAAPIYNAGGVIQISPASMSNLFTQQGNRAAFR 170 + +A+ L GV ++G +NSG ++ A+ +YN G++ + AS + TQQG FR Sbjct: 87 SGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIVVATVASNPKI-TQQGFATLFR 145 Query: 171 TIGNNDSAGSYTADYAVKTLQARRFLVVDDGTPFGRGFVEQFSRSAKELGAQIVGSHSVS 230 ++ G A YA K L+ +R V+DD T +G+G ++F + AK G +V + + Sbjct: 146 VAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANGIDVVSTDFTN 205 Query: 231 DKTSDFNAVLIDALRLRPDAVMFGGLELQASTLARSLKRRSPGIRFIGSSGTVGLPFLRA 290 DK +DF A+L +PDAV GG Q + R +K+ + +G G R Sbjct: 206 DKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDGICSPEMGRL 265 Query: 291 AG-ADGNGSVVLEPGLPMDKMPGWKNFEKNYMQKFDSNIELFAPFAYDATQVLIAAMRQA 349 G A G + G +DK K F Y +K++ E +A YD ++ AM+QA Sbjct: 266 GGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQA 325 Query: 350 NSMEPKKIAEALHAIHFSGMTGPVSFNQQGDLNNPTFTIYEVEN 393 NS++PK+ AL I + G+ G F+ DL T+Y ++ Sbjct: 326 NSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFKD 369 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 167 bits (424), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 118/365 (32%), Positives = 180/365 (49%), Gaps = 24/365 (6%) Query: 52 RTVLIGYAGPLSGTSAAVGKSMANAAQLAVDEANKRGLQIQGRPVQLKLLIQDDRTNPRT 111 +T+ +G+ G LS + +S AQLA+DEAN + + P++ +LL QDD N Sbjct: 29 KTIALGFTGRLS---EPIAQSALQGAQLAIDEANALAAKRRS-PLRFELLPQDDHGNENF 84 Query: 112 AELIARYLVRSGVVGVIGHWNSGASLAAAPIYNAGGVIQISPASMSNLFTQQGNRAAFRT 171 A IARY V+ V GVIG W+S A+LA A IY + + QI + S+ +T GNR FR Sbjct: 85 AVNIARYYVKEKVAGVIGPWSSDAALATAAIYESAQIPQIGFTATSSQWTGMGNRMPFRV 144 Query: 172 IGNNDSAGSYTADYAVKTLQARRFLVVDDGTPFGRG----FVEQFSRSAKELGAQIVGSH 227 +G + A+ A ++LQ RR V+ + R VE SA+++ + + Sbjct: 145 VGGTRELAATLAEVATRSLQGRRIFVIQSDAAYSRALADTLVENLGGSAQQIA---LARY 201 Query: 228 SVSDKTSDFNAVLIDALRLRPDAVMFGGLELQASTLARSLKRRSPGIRFI--GSSGTVGL 285 V +++DF+A L A + D ++F GL QA R R + G + + L Sbjct: 202 QVGRRSTDFHAALKAAEAHQADVIVFVGLYPQARAFIDGANRTRTTARLLLTGGASNLSL 261 Query: 286 PF---LRAAGADGNGSVVLEPGLPMDKMPGWKNFEKNYMQKFDSNIELFAPFAYDATQVL 342 P LR VLE + P WK + Y ++F + ++ +AYDA VL Sbjct: 262 PAPLELRLH--------VLEYEIARPHCPQWKVVTQTYQRRFGAAPTTYSFYAYDAASVL 313 Query: 343 IAAMRQANSMEPKKIAEALHAIHFSGMTGPVSFNQQGDLNNPTFTIYEVENQSWVVKKVI 402 AA+ QA S KIA ALH + +G+ G +SF+ G +P +T+ + + V+ Sbjct: 314 TAAIVQAGSDNGDKIATALHRMRHAGLHGTLSFDATGANAHPRYTLLRYQERWQAVEVFA 373 Query: 403 SGSAN 407 GSAN Sbjct: 374 PGSAN 378 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 120 bits (302), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 90/343 (26%), Positives = 157/343 (45%), Gaps = 11/343 (3%) Query: 51 SRTVLIGYAGPLSGTSAAVGKSMANAAQLAVDEANKRGLQIQGRPVQLKLLIQDDRTNPR 110 + TV I AGP++G A G + A A+++ N G + + ++ DD P+ Sbjct: 26 AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG---GANGNKFEAVMMDDACEPK 82 Query: 111 TAELIARYLVRSGVVGVIGHWNSGASLAAAPIYNAGGVIQISPASMSNLFTQ-QGNRAAF 169 A +A +V G+ VIGH SG+++ A+ IY GV+ I+P++ + T+ + ++ F Sbjct: 83 QAVAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIF 142 Query: 170 RTIGNNDSAGSYTADYAVKTLQARRFLVVDDGTPFGRGFVEQFSRSAKELGAQIVGSHSV 229 RTIG +D G A Y ++ L+ ++ V+ D +G+G + +V + Sbjct: 143 RTIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGI 202 Query: 230 SDKTSDFNAVLIDALRLRPDAVMFGGLELQASTLARSLKRRSPGIRFIGSSGTVGLPFLR 289 + SD++A++ D V FGG + + R + + F+G G Sbjct: 203 NAGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITA 262 Query: 290 AAGADGNGSVVLEPGLPMDKMPGWKN---FEKNYMQKFDSNIELFAPFAYDATQVLIAAM 346 AG G +V LP D N + K D N P AY +++ A+ Sbjct: 263 IAGPASEGMLVT---LPADFAADPANAALVKAFAAAKRDPNGPFQMP-AYSGVKIIADAI 318 Query: 347 RQANSMEPKKIAEALHAIHFSGMTGPVSFNQQGDLNNPTFTIY 389 A S +P+K+A +HA F G V ++++GDL + F ++ Sbjct: 319 AGAKSTDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVF 361 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 0.132 0.373 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: 1,167,223 Number of extensions: 49496 Number of successful extensions: 221 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 211 Number of HSP's successfully gapped: 10 Length of query: 407 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 320 Effective length of database: 1,207,925 Effective search space: 386536000 Effective search space used: 386536000 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: 132 (55.5 bits)