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= 0001.3837.p (382 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 412 e-116 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 149 3e-37 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 124 1e-29 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 109 3e-25 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 70 2e-13 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 412 bits (1059), Expect = e-116, Method: Compositional matrix adjust. Identities = 205/385 (53%), Positives = 270/385 (70%), Gaps = 3/385 (0%) Query: 1 MRRITTTMALFIAIWLPCTMTPARSEQLRYVTLGLSAWLTQPIVQSAWHGAEMAVDDANA 60 MRR L + L M +++ + + LG + L++PI QSA GA++A+D+ANA Sbjct: 1 MRRSGARRVLAGVLLLWAFMQAGWAQERKTIALGFTGRLSEPIAQSALQGAQLAIDEANA 60 Query: 61 LAAKKKSSYRFRLLAQDDQGTANFGVNVAHYFIKEKVAGILGPWSSDAAMATAELYEAAH 120 LAAK++S RF LL QDD G NF VN+A Y++KEKVAG++GPWSSDAA+ATA +YE+A Sbjct: 61 LAAKRRSPLRFELLPQDDHGNENFAVNIARYYVKEKVAGVIGPWSSDAALATAAIYESAQ 120 Query: 121 IPQIGFTASTSQWTNQGHRMPFRVVGSTSELSAALAEVVKRPLAGKRVFVIHNDTVFSNA 180 IPQIGFTA++SQWT G+RMPFRVVG T EL+A LAEV R L G+R+FVI +D +S A Sbjct: 121 IPQIGFTATSSQWTGMGNRMPFRVVGGTRELAATLAEVATRSLQGRRIFVIQSDAAYSRA 180 Query: 181 VSDELISRLGKQAGTTTM-RYLVGRRSTDFNAAIKAASQYQADVVVFLALFPQAAAFLDE 239 ++D L+ LG A + RY VGRRSTDF+AA+KAA +QADV+VF+ L+PQA AF+D Sbjct: 181 LADTLVENLGGSAQQIALARYQVGRRSTDFHAALKAAEAHQADVIVFVGLYPQARAFIDG 240 Query: 240 ARRARLEARLLLLGGATRLSLGEVDLPQAYALEYEVPHTHCPRWKSFTQAYTKRFNEPPS 299 A R R ARLLL GGA+ LSL + + LEYE+ HCP+WK TQ Y +RF P+ Sbjct: 241 ANRTRTTARLLLTGGASNLSLPAPLELRLHVLEYEIARPHCPQWKVVTQTYQRRFGAAPT 300 Query: 300 TYSYYAYDAASVLIAAILQSDSTDGQRIAATLRTMHHAGLNGTISFAPNGAHAQPRFTLY 359 TYS+YAYDAASVL AAI+Q+ S +G +IA L M HAGL+GT+SF GA+A PR+TL Sbjct: 301 TYSFYAYDAASVLTAAIVQAGSDNGDKIATALHRMRHAGLHGTLSFDATGANAHPRYTLL 360 Query: 360 QHQRQWRQVGVLPLGA--GQNDKCS 382 ++Q +W+ V V G+ + + CS Sbjct: 361 RYQERWQAVEVFAPGSANARQEACS 385 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 149 bits (377), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 101/360 (28%), Positives = 172/360 (47%), Gaps = 9/360 (2%) Query: 17 PCTMTPARSEQLRYVTLGLSAWLTQP---IVQSAWHGAEMAVDDANALAAK-KKSSYRFR 72 P P R E + +G + L+ P + +S +G ++A+ +AN + S++ R Sbjct: 27 PRAPLPDRQETA-TLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLR 85 Query: 73 LLAQDDQGTANFGVNVAHYFIKEKVAGILGPWSSDAAMATAELYEAAHIPQIGFTASTSQ 132 L+AQDD+ VA ++++V ++G W+S ++A A +Y A + Q+ +A + + Sbjct: 86 LIAQDDRADPATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRR 145 Query: 133 WTNQGHRMPFRVVGSTSELSAALAEVVKRPLAGKRVFVIHNDTVFSNAVSDELISRLGKQ 192 T + FR + + L A L + + I + T F ++++ ++ Sbjct: 146 LTAMSYPRIFRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASER 205 Query: 193 AGTTTMRYLVGRRSTDFNAAIKAASQYQADVVVFLALFPQAAAFLDEARRARLEARLLLL 252 RY V +++DFNAA+ A + Q D++ F L QA RR +L ARL+ Sbjct: 206 GAQVVGRYSVSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMAS 265 Query: 253 GGATRLSL---GEVDLPQAYALEYEVPHTHCPRWKSFTQAYTKRFNEPPSTYSYYAYDAA 309 G L D A LE P P WKSF Q Y++ F+ Y+ +AY+AA Sbjct: 266 PGTLGLPFLMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAA 325 Query: 310 SVLIAAILQSDSTDGQRIAATLRTMHHAGLNGTISFAPNGAHAQPRFTLYQHQRQ-WRQV 368 +I I Q+ S D +RIA + + G++G ++F G QP FT+Y+ + Q W+ V Sbjct: 326 QAIIQGIRQAGSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPV 385 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 124 bits (312), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 97/376 (25%), Positives = 162/376 (43%), Gaps = 13/376 (3%) Query: 1 MRRITTTMALFIAIWLPCTMTPARSEQLRYVTLGLSAWLTQPIVQSAWHGAEMAVDDANA 60 M+ + + L AI L E ++ +G + + + +GA MAVD+ NA Sbjct: 1 MKLKSAIIPLTAAIGLAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNA 60 Query: 61 ----LAAKKKSSYRFRLLAQDDQGTANFGVNVAHYFIKEKVAGILGPWSSDAAMATAELY 116 + KK +F L+ +DD VA + +KVA ++G +S + +++Y Sbjct: 61 KGFTIGGKK---VKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIY 117 Query: 117 EAAHIPQIGFTASTSQWTNQGHRMPFRVVGSTSELSAALAEVVKRPLAGKRVFVIHNDTV 176 A IPQ+ +A+ ++T QG + FRVV + ++L AAL + + L K++ VI + T Sbjct: 118 SDAGIPQVSPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTA 177 Query: 177 FSNAVSDELISRLGKQAGTTTMRYLVGRRSTDFNAAIKAASQYQADVVVFLALFPQAAAF 236 + V+DE GT ++TDFNA + + + DVV F + Sbjct: 178 YGQGVADEFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPM 237 Query: 237 LDEARRARLEARLLLLGGATRLSL------GEVDLPQAYALEYEVPHTHCPRWKSFTQAY 290 L + ++ + A+ + G SL G D A V F AY Sbjct: 238 LRQMKQLGISAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAY 297 Query: 291 TKRFNEPPSTYSYYAYDAASVLIAAILQSDSTDGQRIAATLRTMHHAGLNGTISFAPNGA 350 K+F + YAYDA + A+ ++ S D ++ L + H G+ G I+F G Sbjct: 298 KKKFGIDVVYNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDAKGD 357 Query: 351 HAQPRFTLYQHQRQWR 366 TLY ++ R Sbjct: 358 IKDGSLTLYTYKGGQR 373 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 109 bits (273), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 88/352 (25%), Positives = 152/352 (43%), Gaps = 17/352 (4%) Query: 23 ARSEQLRYVTLGLSAWLTQPIVQSAWH---GAEMAVDDANA----LAAKKKSSYRFRLLA 75 A +++ + V +G S+ LT P + G MA++ NA + KK +F ++A Sbjct: 22 AMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKK---IKFDVIA 78 Query: 76 QDDQGTANFGVNVAHYFIKEKVAGILGPWSSDAAMATAELYEAAHIPQIGFTASTSQWTN 135 +DDQ GV VA + V I+GP++S + + +Y A I + AS + T Sbjct: 79 EDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGI-VVATVASNPKITQ 137 Query: 136 QGHRMPFRVVGSTSELSAALAEVVKRPLAGKRVFVIHNDTVFSNAVSDELISRLGKQAGT 195 QG FRV S S+L +A + L KRV VI + T + ++ E I ++ K G Sbjct: 138 QGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFI-KVAKANGI 196 Query: 196 TTMRY-LVGRRSTDFNAAIKAASQYQADVVVFLALFPQAAAFLDEARRARLEARLLLLGG 254 + ++TDF A + + + D V PQ + ++ ++ L+ G Sbjct: 197 DVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDG 256 Query: 255 ATRLSLGEVDL----PQAYALEYEVPHTHCPRWKSFTQAYTKRFNEPPSTYSYYAYDAAS 310 +G + Y + K F+ Y K++N P TY+ YD Sbjct: 257 ICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMM 316 Query: 311 VLIAAILQSDSTDGQRIAATLRTMHHAGLNGTISFAPNGAHAQPRFTLYQHQ 362 ++ A+ Q++S D ++ L + + G+ G F N Q T+Y+ + Sbjct: 317 LIAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFK 368 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 78/343 (22%), Positives = 144/343 (41%), Gaps = 19/343 (5%) Query: 7 TMALFIAIWLPCTMTPARSEQLRYVTLGLSAWLTQPIVQSAWHGAEMAVDDANALAAKKK 66 T A A + +T ++ ++ G + P+ S G ++AV + NA A Sbjct: 5 TQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINA--AGGL 62 Query: 67 SSYRFRLLAQDDQGTANFGVNVAHYFI-KEKVAGILGPWSSDAAMATAELYEAAHIPQIG 125 + +L+ +DD+ GV +A I KEKV +G ++ A+A+ Y+ A IP I Sbjct: 63 LGRQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVIN 122 Query: 126 FTASTSQWTNQGHRMPFRVVGSTSELSAALAEVVKRPLAGKRVF----VIHNDTVFSNAV 181 A+ + T Q + V TS A+++ K+ F ++ + T + Sbjct: 123 NVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLG 182 Query: 182 SDELISRLGKQAGTTTMRYLVGRRSTDFNAAIKAASQYQADVVVFLALFPQAAAFLDEAR 241 ++L L + T + D A + + Q A V+ + P+ A + Sbjct: 183 REDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGME 242 Query: 242 RARLEARLLLLGGATRLSLGE-VDLPQAYALEYEVPHT-----HCPRWKSFTQAYTKRFN 295 + ++ G+ LS+G +D +P T + P+ K+F +AY K + Sbjct: 243 KLNWHVPII---GSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYK 299 Query: 296 ---EPPSTYSYYAYDAASVLIAAILQSDSTDGQRIAATLRTMH 335 P + + YD+ +L AAI Q+ +TDG ++ A L ++ Sbjct: 300 VDRMPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLN 342 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 0.320 0.131 0.390 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: 1,026,885 Number of extensions: 36405 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 127 Number of HSP's successfully gapped: 9 Length of query: 382 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 295 Effective length of database: 1,207,925 Effective search space: 356337875 Effective search space used: 356337875 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 131 (55.1 bits)