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= 0162.0002.p (361 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... 225 3e-60 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 183 2e-47 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 166 3e-42 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 154 1e-38 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 107 1e-24 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 225 bits (574), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 122/354 (34%), Positives = 200/354 (56%), Gaps = 6/354 (1%) Query: 14 TVLIGVIGPLTIPRG---KTTRDGAQFAVDKINAQGLRVGDKNIVLRLFLADDKNDLNLA 70 T+ IG GPL+ P G K+ ++G Q A+ + N +GLR+G K+ LRL DD+ D A Sbjct: 39 TLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATA 98 Query: 71 VINARAAVAAGVVGVVGHLTTDASIAAAKIYNEAGVPQLSPTSSGREFTQLGYSTVFQLL 130 AR+ V V+ VVGH T+ S+AAA +Y+ AGV Q++P++ R T + Y +F+ + Sbjct: 99 EFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRIFRTI 158 Query: 131 GHSEYTSQYLAETAIKVLRAKRIMLIDNDTLLGKALARGFAAAVTRQGGQIVDSDKINAK 190 ++E + A A+ L + I+ ID+ T G+ LA FA + +G Q+V ++ K Sbjct: 159 PNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSVSDK 218 Query: 191 SSDFNAAVAKIRNASPDLVFFAGVEPQTSAFAVRLRQFGLQTRLLLAGGAVNPLFPRKTE 250 +SDFNAA+ + R PDL+FF G++ Q A +R+ L RL+ + G + F + Sbjct: 219 TSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLMRAG 278 Query: 251 EYPEGTLVLVNGHPVEKVQNFKRLEQAYREKYTSPLIPRTWFAYDAVDMLAEAMKRAGST 310 G LVL G P +K+ +K Q Y E + S + FAY+A + + +++AGS Sbjct: 279 PDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIRQAGSA 338 Query: 311 NPRLLSPILHQMKFNGLSGAISFAPDGSLIAPPYTLYRAEQGRWKTL---NTLP 361 +P ++ +H+++F G+SG ++F +G L+ P +T+Y + RW+ + N LP Sbjct: 339 DPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPVARFNGLP 392 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 183 bits (464), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 105/351 (29%), Positives = 183/351 (52%), Gaps = 6/351 (1%) Query: 13 QTVLIGVIGPLTIPR---GKTTRDGAQFAVDKINAQGLRVGDKNIVLRLFLADDKNDLNL 69 + V I +GPL+ P GK +GA+ AVD++NA+G +G K + L DD +D Sbjct: 26 EVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIGGKKVKFELVGEDDASDPKQ 85 Query: 70 AVINARAAVAAGVVGVVGHLTTDASIAAAKIYNEAGVPQLSPTSSGREFTQLGYSTVFQL 129 A A V V V+GHL + +I A+KIY++AG+PQ+SP+++ ++TQ G+ T F++ Sbjct: 86 ATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQVSPSATNPKYTQQGFKTAFRV 145 Query: 130 LGHSEYTSQYLAETAIKVLRAKRIMLIDNDTLLGKALARGFAAAVTRQGGQIVDSDKINA 189 + + L + A++ L K+I +ID+ T G+ +A FA GG IV + N Sbjct: 146 VANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEFAKGAKAAGGTIVGTQYTND 205 Query: 190 KSSDFNAAVAKIRNASPDLVFFAGVEPQTSAFAVRLRQFGLQTRLLLAGGAVNPLFPR-K 248 K++DFNA + ++ PD+VFF G++ +++Q G+ + + G P Sbjct: 206 KATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQLGISAKFMGGDGICTGSLPGLA 265 Query: 249 TEEYPEGTLVLVNGHPVEKV--QNFKRLEQAYREKYTSPLIPRTWFAYDAVDMLAEAMKR 306 + + ++ V++ + AY++K+ ++ +AYDA +A+AM + Sbjct: 266 GDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDVVYNAAYAYDATMTVADAMAK 325 Query: 307 AGSTNPRLLSPILHQMKFNGLSGAISFAPDGSLIAPPYTLYRAEQGRWKTL 357 AGS +P+ P L ++ G++G I+F G + TLY + G+ L Sbjct: 326 AGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDGSLTLYTYKGGQRTLL 376 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 166 bits (420), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 103/344 (29%), Positives = 170/344 (49%), Gaps = 5/344 (1%) Query: 13 QTVLIGVIGPLTIPR---GKTTRDGAQFAVDKINAQGLRVGDKNIVLRLFLADDKNDLNL 69 Q V IG PLT P+ GK + G A++++NAQ + VG K I + DD+ D Sbjct: 28 QVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVIAEDDQADPKS 87 Query: 70 AVINARAAVAAGVVGVVGHLTTDASIAAAKIYNEAGVPQLSPTSSGREFTQLGYSTVFQL 129 V A+ GV +VG + +I A+++YN+AG+ ++ +S + TQ G++T+F++ Sbjct: 88 GVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGI-VVATVASNPKITQQGFATLFRV 146 Query: 130 LGHSEYTSQYLAETAIKVLRAKRIMLIDNDTLLGKALARGFAAAVTRQGGQIVDSDKINA 189 +A A K L+ KR+ +ID+ T G+ LA+ F G +V +D N Sbjct: 147 AASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANGIDVVSTDFTND 206 Query: 190 KSSDFNAAVAKIRNASPDLVFFAGVEPQTSAFAVRLRQFGLQTRLLLAGGAVNPLFPR-K 248 K++DF A + I+ PD VF G PQ +++Q G+ L+ G +P R Sbjct: 207 KATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDGICSPEMGRLG 266 Query: 249 TEEYPEGTLVLVNGHPVEKVQNFKRLEQAYREKYTSPLIPRTWFAYDAVDMLAEAMKRAG 308 + E G ++K + K Y++KY P YD + ++A+AMK+A Sbjct: 267 GDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQAN 326 Query: 309 STNPRLLSPILHQMKFNGLSGAISFAPDGSLIAPPYTLYRAEQG 352 S +P+ P L ++ + G++G F + L P T+YR + G Sbjct: 327 SVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFKDG 370 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 154 bits (389), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 106/355 (29%), Positives = 176/355 (49%), Gaps = 18/355 (5%) Query: 13 QTVLIGVIGPLTIPRGKTTRDGAQFAVDKINAQGLRVGDKNIVLRLFLADDKNDLNLAVI 72 +T+ +G G L+ P ++ GAQ A+D+ NA + + L DD + N AV Sbjct: 29 KTIALGFTGRLSEPIAQSALQGAQLAIDEANALAAKR-RSPLRFELLPQDDHGNENFAVN 87 Query: 73 NARAAVAAGVVGVVGHLTTDASIAAAKIYNEAGVPQLSPTSSGREFTQLGYSTVFQLLGH 132 AR V V GV+G ++DA++A A IY A +PQ+ T++ ++T +G F+++G Sbjct: 88 IARYYVKEKVAGVIGPWSSDAALATAAIYESAQIPQIGFTATSSQWTGMGNRMPFRVVGG 147 Query: 133 SEYTSQYLAETAIKVLRAKRIMLIDNDTLLGKALARGFAAAVTRQGGQIVDSD-KINAKS 191 + + LAE A + L+ +RI +I +D +ALA + QI + ++ +S Sbjct: 148 TRELAATLAEVATRSLQGRRIFVIQSDAAYSRALADTLVENLGGSAQQIALARYQVGRRS 207 Query: 192 SDFNAAVAKIRNASPDLVFFAGVEPQTSAFAVRLRQFGLQTRLLLAGGAVNPLFPRKTEE 251 +DF+AA+ D++ F G+ PQ AF + RLLL GGA N P E Sbjct: 208 TDFHAALKAAEAHQADVIVFVGLYPQARAFIDGANRTRTTARLLLTGGASNLSLPAPLE- 266 Query: 252 YPEGTLVLVNGHPVE------KVQNFKRLEQAYREKYTSPLIPRTWFAYDAVDMLAEAMK 305 + H +E +K + Q Y+ ++ + +++AYDA +L A+ Sbjct: 267 --------LRLHVLEYEIARPHCPQWKVVTQTYQRRFGAAPTTYSFYAYDAASVLTAAIV 318 Query: 306 RAGSTNPRLLSPILHQMKFNGLSGAISFAPDGSLIAPPYTLYRAEQGRWKTLNTL 360 +AGS N ++ LH+M+ GL G +SF G+ P YTL R ++ RW+ + Sbjct: 319 QAGSDNGDKIATALHRMRHAGLHGTLSFDATGANAHPRYTLLRYQE-RWQAVEVF 372 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 86/348 (24%), Positives = 158/348 (45%), Gaps = 8/348 (2%) Query: 13 QTVLIGVIGPLT---IPRGKTTRDGAQFAVDKINAQGLRVGDKNIVLRLFLADDKNDLNL 69 +TV I + GP+T G + GA A+++INA G G+K + DD + Sbjct: 27 ETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNK---FEAVMMDDACEPKQ 83 Query: 70 AVINARAAVAAGVVGVVGHLTTDASIAAAKIYNEAGVPQLSPTSSGREFTQLG-YSTVFQ 128 AV A V+ G+ V+GH+ + ++I A+ IY GV ++P+++ + T+ + +F+ Sbjct: 84 AVAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFR 143 Query: 129 LLGHSEYTSQYLAETAIKVLRAKRIMLIDNDTLLGKALARGFAAAVTRQGGQIVDSDKIN 188 +G + A I+ L+ K++ ++ + G+ +A AA+ +V + IN Sbjct: 144 TIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGIN 203 Query: 189 AKSSDFNAAVAKIRNASPDLVFFAGVEPQTSAFAVRLRQFGLQTRLLLAGGAVNPLFPRK 248 A SD++A V K+++ D V+F G P+ + R+ G++ + G N Sbjct: 204 AGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAI 263 Query: 249 TEEYPEGTLVLVNGHPVEKVQNFKRLEQAYREKYTSPLIPRTWFAYDAVDMLAEAMKRAG 308 EG LV + N ++ K P P AY V ++A+A+ A Sbjct: 264 AGPASEGMLVTLPADFAADPANAALVKAFAAAK-RDPNGPFQMPAYSGVKIIADAIAGAK 322 Query: 309 STNPRLLSPILHQMKFNGLSGAISFAPDGSLIAPPYTLYRAEQGRWKT 356 ST+P ++ +H F G + + G L + + ++ + KT Sbjct: 323 STDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVFTWHKDASKT 370 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 0.135 0.384 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: 1,084,475 Number of extensions: 43036 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 158 Number of HSP's successfully gapped: 7 Length of query: 361 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 275 Effective length of database: 1,212,660 Effective search space: 333481500 Effective search space used: 333481500 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)