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= 0036.0004.p (389 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... 216 2e-57 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 196 3e-51 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 177 1e-45 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 141 8e-35 gi|300311113|ref|YP_003775205.1| 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 = 216 bits (551), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 116/364 (31%), Positives = 197/364 (54%), Gaps = 5/364 (1%) Query: 26 QPPATAADK----NVSIGFAGPLTGLSSASGTSMLNAVKMAVDEINGAEMRLGSDRLVLK 81 QP A D+ ++IGFAGPL+G S G SM N V++A+ E N +R+G L+ Sbjct: 26 QPRAPLPDRQETATLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLR 85 Query: 82 LQVQDDKSNPRIAEIAARYFVRNDTAGVVGIFNSAVAVSSSAIYQKAGIPHFAISG-TRR 140 L QDD+++P AE AR V+ VVG + S +++++ +Y +AG+ S +RR Sbjct: 86 LIAQDDRADPATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRR 145 Query: 141 FTQQGHDSAFRIAAYDEQRAAVLASYVAQELHKSRVAIVHDDSVFGRDYKEKFESAFTKL 200 T + FR +E + A Y +L + + D + FG+ E+F ++ Sbjct: 146 LTAMSYPRIFRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASER 205 Query: 201 GGKIVSVNSVNATTYDFNDILKAIRVGKADAVFFGGLASQSAMLAQNMYRLGIEAQLVTA 260 G ++V SV+ T DFN L R + D +FFGGL Q+ +LA+++ RL + A+L+ + Sbjct: 206 GAQVVGRYSVSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMAS 265 Query: 261 ASLVGPIFLQTAGPGAEGTVSIMPGAHQRKSKQLDAFEKNYLQRYNAAPGAYSAVAYDQV 320 +G FL AGP A G + + PG Q K +F + Y + +++ Y+ AY+ Sbjct: 266 PGTLGLPFLMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAA 325 Query: 321 QVLAAAIVRAGSANPRKVTAALHAIKYNGLTGTISFDAHGDLRDVSFSTYQVRNSVWTMY 380 Q + I +AGSA+P ++ A+H +++ G++G ++F+ GDL SF+ Y+V++ W Sbjct: 326 QAIIQGIRQAGSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPV 385 Query: 381 KQYH 384 +++ Sbjct: 386 ARFN 389 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 196 bits (497), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 120/374 (32%), Positives = 186/374 (49%), Gaps = 8/374 (2%) Query: 10 ALLAMAALLGLQLLGWQPPATAADKNVSIGFAGPLTGLSSASGTSMLNAVKMAVDEINGA 69 A++ + A +GL G A + + V I GPL+G ++ G N +MAVDE+N Sbjct: 6 AIIPLTAAIGLAFAG----AAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAK 61 Query: 70 EMRLGSDRLVLKLQVQDDKSNPRIAEIAARYFVRNDTAGVVGIFNSAVAVSSSAIYQKAG 129 +G ++ +L +DD S+P+ A A V A V+G NS + +S IY AG Sbjct: 62 GFTIGGKKVKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAG 121 Query: 130 IPHFAISGTR-RFTQQGHDSAFRIAAYDEQRAAVLASYVAQELHKSRVAIVHDDSVFGRD 188 IP + S T ++TQQG +AFR+ A D Q A L Y Q+L ++A++ D + +G+ Sbjct: 122 IPQVSPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQG 181 Query: 189 YKEKFESAFTKLGGKIVSVNSVNATTYDFNDILKAIRVGKADAVFFGGLASQSAMLAQNM 248 ++F GG IV N DFN IL +++ K D VFFGG+ + + + M Sbjct: 182 VADEFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQM 241 Query: 249 YRLGIEAQLVTAASLVGPIFLQTAGPGAEGTVSIMP---GAHQRKSKQLDAFEKNYLQRY 305 +LGI A+ + + AG G I G + K +D F Y +++ Sbjct: 242 KQLGISAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKF 301 Query: 306 NAAPGAYSAVAYDQVQVLAAAIVRAGSANPRKVTAALHAIKYNGLTGTISFDAHGDLRDV 365 +A AYD +A A+ +AGSA+P+K L I + G+TG I+FDA GD++D Sbjct: 302 GIDVVYNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDG 361 Query: 366 SFSTYQVRNSVWTM 379 S + Y + T+ Sbjct: 362 SLTLYTYKGGQRTL 375 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 177 bits (450), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 101/349 (28%), Positives = 172/349 (49%), Gaps = 1/349 (0%) Query: 36 VSIGFAGPLTGLSSASGTSMLNAVKMAVDEINGAEMRLGSDRLVLKLQVQDDKSNPRIAE 95 V IGF+ PLTG +++G + MA++ +N + +G ++ + +DD+++P+ Sbjct: 30 VKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVIAEDDQADPKSGV 89 Query: 96 IAARYFVRNDTAGVVGIFNSAVAVSSSAIYQKAGIPHFAISGTRRFTQQGHDSAFRIAAY 155 A+ +VG +NS V + +S +Y AGI ++ + TQQG + FR+AA Sbjct: 90 AVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIVVATVASNPKITQQGFATLFRVAAS 149 Query: 156 DEQRAAVLASYVAQELHKSRVAIVHDDSVFGRDYKEKFESAFTKLGGKIVSVNSVNATTY 215 D Q +A Y A+EL RVA++ D + +G+ ++F G +VS + N Sbjct: 150 DSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANGIDVVSTDFTNDKAT 209 Query: 216 DFNDILKAIRVGKADAVFFGGLASQSAMLAQNMYRLGIEAQLVTAASLVGPIFLQTAGPG 275 DF IL +I+ K DAVF GG A Q + + M +LG++ L+ + P + G Sbjct: 210 DFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDGICSPEMGRLGGDA 269 Query: 276 -AEGTVSIMPGAHQRKSKQLDAFEKNYLQRYNAAPGAYSAVAYDQVQVLAAAIVRAGSAN 334 E G K+K+ F Y ++YN Y+ YD + ++A A+ +A S + Sbjct: 270 IGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQANSVD 329 Query: 335 PRKVTAALHAIKYNGLTGTISFDAHGDLRDVSFSTYQVRNSVWTMYKQY 383 P++ AL I Y G+ G FDA+ DL+ + Y+ ++ + Y Sbjct: 330 PKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFKDGLPVPLTSY 378 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 141 bits (356), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 114/370 (30%), Positives = 167/370 (45%), Gaps = 30/370 (8%) Query: 1 MEKQGKRGMALLAMAALLGLQLLGWQPPATAADKNVSIGFAGPLTGLSSASGTSMLNAVK 60 M + G R + L + L GW K +++GF G LS S L + Sbjct: 1 MRRSGARRV-LAGVLLLWAFMQAGW----AQERKTIALGFTG---RLSEPIAQSALQGAQ 52 Query: 61 MAVDEINGAEMRLGSDRLVLKLQVQDDKSNPRIAEIAARYFVRNDTAGVVGIFNSAVAVS 120 +A+DE N + S L +L QDD N A ARY+V+ AGV+G ++S A++ Sbjct: 53 LAIDEANALAAKRRSP-LRFELLPQDDHGNENFAVNIARYYVKEKVAGVIGPWSSDAALA 111 Query: 121 SSAIYQKAGIPHFAISGTR-RFTQQGHDSAFRIAAYDEQRAAVLASYVAQELHKSRVAIV 179 ++AIY+ A IP + T ++T G+ FR+ + AA LA + L R+ ++ Sbjct: 112 TAAIYESAQIPQIGFTATSSQWTGMGNRMPFRVVGGTRELAATLAEVATRSLQGRRIFVI 171 Query: 180 HDDSVFGRDYKEKFESAFTKLGGKIVSVN----SVNATTYDFNDILKAIRVGKADAVFFG 235 D+ + R + LGG + V + DF+ LKA +AD + F Sbjct: 172 QSDAAYSRALADTL---VENLGGSAQQIALARYQVGRRSTDFHAALKAAEAHQADVIVFV 228 Query: 236 GLASQSAMLAQNMYRLGIEAQLVTAA-----SLVGPIFLQTAGPGAEGTVSIMPGAHQRK 290 GL Q+ R A+L+ SL P+ L+ E P Sbjct: 229 GLYPQARAFIDGANRTRTTARLLLTGGASNLSLPAPLELRLHVLEYEIARPHCP------ 282 Query: 291 SKQLDAFEKNYLQRYNAAPGAYSAVAYDQVQVLAAAIVRAGSANPRKVTAALHAIKYNGL 350 Q + Y +R+ AAP YS AYD VL AAIV+AGS N K+ ALH +++ GL Sbjct: 283 --QWKVVTQTYQRRFGAAPTTYSFYAYDAASVLTAAIVQAGSDNGDKIATALHRMRHAGL 340 Query: 351 TGTISFDAHG 360 GT+SFDA G Sbjct: 341 HGTLSFDATG 350 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 120 bits (300), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 109/376 (28%), Positives = 177/376 (47%), Gaps = 26/376 (6%) Query: 15 AALLGLQLLGWQPPATAADKNVSIGFAGPLTGLSSASGTSMLNAVKMAVDEINGAEMRLG 74 AAL+ L L + AAD + IG +GP TG S+ G SM + VK+AV EIN A LG Sbjct: 11 AALMSLALT-----SQAADP-IKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGLLG 64 Query: 75 SDRLVLKLQVQDDKSNPRIAEIAARYFVRNDTAGVVGIFNSAVAVSSSAIYQKAGIP--H 132 R + ++ D+ N R +IA + VG N+ VA++S YQ+A IP + Sbjct: 65 --RQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVIN 122 Query: 133 FAISGT---RRFTQQGHDSAFRIAAYDEQRAAVLASYVAQELHKSRVAIVHDDSVFGRDY 189 +GT ++F ++ + FR +A D+ +A ++A + ++VAI+ D + +G+ Sbjct: 123 NVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLG 182 Query: 190 KEKFESAFTKLGGKIVSVNSVNATTYDFNDILKAIRVGKADAVFFGGLASQSAMLAQNMY 249 +E E V+V N D L + G A AV G+ + A +A M Sbjct: 183 REDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGME 242 Query: 250 RLGIEAQLVTAASLVGPIFLQTAGPGAEGT----VSIMPGAHQRKSKQLDAFEKNYLQRY 305 +L ++ + L F+ +G G I G ++ ++A++K Y + Sbjct: 243 KLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAY--KV 300 Query: 306 NAAPGAYSAV-AYDQVQVLAAAIVRAGSANPRKVTAALHAI--KYNGLTGT----ISFDA 358 + P A SA YD + +LAAAI +AG+ + KV AAL + K G+ T + D Sbjct: 301 DRMPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDD 360 Query: 359 HGDLRDVSFSTYQVRN 374 H ++ +V+N Sbjct: 361 HEAIKPAMVVMGEVKN 376 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 0.318 0.131 0.367 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: 1,084,530 Number of extensions: 42015 Number of successful extensions: 198 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 12 Length of query: 389 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 302 Effective length of database: 1,207,925 Effective search space: 364793350 Effective search space used: 364793350 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: 131 (55.1 bits)