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= 0004.0009.p (377 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 645 0.0 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 187 1e-48 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 165 7e-42 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 133 2e-32 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 104 1e-23 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 645 bits (1665), Expect = 0.0, Method: Compositional matrix adjust. Identities = 331/371 (89%), Positives = 347/371 (93%), Gaps = 5/371 (1%) Query: 9 RLTKIAVAVGVAVSAVSFAGVAQAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAA 68 RLTKIA+A + VA AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAA Sbjct: 6 RLTKIALAAATFAAFAG---VAHAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAA 62 Query: 69 GGAGGNKFEAVLMDDACEPKQAVAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVM 128 GGA GNKFEAV+MDDACEPKQAVAVANKIVSQGIK+VIGHVCSGSTIPASDIYENEGVVM Sbjct: 63 GGANGNKFEAVMMDDACEPKQAVAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVM 122 Query: 129 ITPSATAPQLTEAKPHKYIFRTIGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVA 188 ITPSATAPQLTEAKPHK+IFRTIGRDDQQGPAAA+YV+EKLKPKK AVLHDKQSYGQGVA Sbjct: 123 ITPSATAPQLTEAKPHKFIFRTIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVA 182 Query: 189 TS--XVLDAAKIPVVVFEGVNAGDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQARE 246 +S LDAAK+PVVVFEG+NAGDSDYSA++TKLKSQGVDFVYFGGYHPEMGLIMRQARE Sbjct: 183 SSVKAALDAAKVPVVVFEGINAGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQARE 242 Query: 247 QGVKAVFMGPEGVGNKDITAIAGPASEGMLVTLPADFAADPANAALVKAFAAQKRDPNGP 306 QG+KAVFMGPEGVGNKDITAIAGPASEGMLVTLPADFAADPANAALVKAFAA KRDPNGP Sbjct: 243 QGIKAVFMGPEGVGNKDITAIAGPASEGMLVTLPADFAADPANAALVKAFAAAKRDPNGP 302 Query: 307 FQMPAYSGVKVIADAITATKSTDPTKVAAYIHANSFKTPIGTVDYDKKGDLKSFKFVVFT 366 FQMPAYSGVK+IADAI KSTDP KVAAYIHANSFKTPIG V+YDKKGDLKSFKFVVFT Sbjct: 303 FQMPAYSGVKIIADAIAGAKSTDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVFT 362 Query: 367 WHKDATKTEAK 377 WHKDA+KTEAK Sbjct: 363 WHKDASKTEAK 373 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 187 bits (475), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 129/354 (36%), Positives = 186/354 (52%), Gaps = 11/354 (3%) Query: 24 VSFAGVAQA-ETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG---GAGGNKFEAV 79 ++FAG A + E VKIA GP++G A G + GA A++++NA G G KFE V Sbjct: 16 LAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIGGKKVKFELV 75 Query: 80 LMDDACEPKQAVAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLT 139 DDA +PKQA AVA K+V Q + VIGH+ SG+TIPAS IY + G+ ++PSAT P+ T Sbjct: 76 GEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQVSPSATNPKYT 135 Query: 140 EAKPHKYIFRTIGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVATSXV--LDAAK 197 + + K FR + D Q G A KY V+KL K+ AV+ D+ +YGQGVA AA Sbjct: 136 Q-QGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEFAKGAKAAG 194 Query: 198 IPVVVFEGVNAGDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPE 257 +V + N +D++A++T LK + D V+FGG G ++RQ ++ G+ A FMG + Sbjct: 195 GTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQLGISAKFMGGD 254 Query: 258 GVGNKDITAIAGPASEGMLVTLPADFAADPANAALVKAFAAQKRDPNG----PFQMPAYS 313 G+ + +AG V D A + F A + G AY Sbjct: 255 GICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDVVYNAAYAYD 314 Query: 314 GVKVIADAITATKSTDPTKVAAYIHANSFKTPIGTVDYDKKGDLKSFKFVVFTW 367 +ADA+ S DP K + S K G + +D KGD+K ++T+ Sbjct: 315 ATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDGSLTLYTY 368 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 165 bits (417), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 114/351 (32%), Positives = 179/351 (50%), Gaps = 9/351 (2%) Query: 25 SFAGVAQAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG---GAGGNKFEAVLM 81 +FA + + VKI + P+TG A G + G + AIE++NA G KF+ + Sbjct: 20 AFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVIAE 79 Query: 82 DDACEPKQAVAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEA 141 DD +PK VAVA K+ QG+K ++G SG TIPAS +Y + G+V+ T A+ P++T+ Sbjct: 80 DDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIVVAT-VASNPKITQ- 137 Query: 142 KPHKYIFRTIGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVATS--XVLDAAKIP 199 + +FR D Q G A Y ++LK K+ AV+ D+ +YGQG+A V A I Sbjct: 138 QGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANGID 197 Query: 200 VVVFEGVNAGDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPEGV 259 VV + N +D++A++T +K + D V+ GGY P+ G I RQ ++ GV MG +G+ Sbjct: 198 VVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDGI 257 Query: 260 GNKDITAIAGPASEGMLVTLPADFAADPANAALVKAFAAQKR--DPNGPFQMPAYSGVKV 317 + ++ + G A + D A V + QK+ P + + Y G+ + Sbjct: 258 CSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMML 317 Query: 318 IADAITATKSTDPTKVAAYIHANSFKTPIGTVDYDKKGDLKSFKFVVFTWH 368 IA A+ S DP + + S+K G D+D DLK V+ + Sbjct: 318 IAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFK 368 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 95/338 (28%), Positives = 161/338 (47%), Gaps = 7/338 (2%) Query: 34 TVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG-GAGGNKFEAVLM--DDACEPKQA 90 T+ I AGP++G G ++ G A+ + N G GG ++ L+ DD +P A Sbjct: 39 TLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATA 98 Query: 91 VAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKYIFRT 150 VA +V Q + V+GH SG+++ A+ +Y GV+ +TPSA + +LT A + IFRT Sbjct: 99 EFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLT-AMSYPRIFRT 157 Query: 151 IGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVATSXVLDAAK--IPVVVFEGVNA 208 I ++ G AA Y V+KL+ + + D+ +GQG+A A++ VV V+ Sbjct: 158 IPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSVSD 217 Query: 209 GDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPEGVGNKDITAIA 268 SD++A + + + D ++FGG + G++ + R + A M G A Sbjct: 218 KTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLMRA 277 Query: 269 GPASEGMLVTLPADFAAD-PANAALVKAFAAQKRDPNGPFQMPAYSGVKVIADAITATKS 327 GP + G LV P P + + ++ + + AY + I I S Sbjct: 278 GPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIRQAGS 337 Query: 328 TDPTKVAAYIHANSFKTPIGTVDYDKKGDLKSFKFVVF 365 DP ++A +H F+ G V ++++GDL F ++ Sbjct: 338 ADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMY 375 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 96/308 (31%), Positives = 145/308 (47%), Gaps = 19/308 (6%) Query: 30 AQAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGAGGNKFEAVLMDDACEPKQ 89 A A +K+ +A +TG A+YG +K G A E+INA GG G+K V+ D+ + ++ Sbjct: 23 ALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGGVNGDKLALVIEDEQGKKEE 82 Query: 90 AVAVANKIVSQG-IKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKYIF 148 A+ V K++ Q + V G S S A I VV+ S TA +T P + F Sbjct: 83 AINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKVVVFGTSNTADGITAMGP--FTF 140 Query: 149 RTIGRDDQQGPAAAKYVVEKLKPKKAAVLH------DKQSYGQGVATSXVLDAAKIPVVV 202 R + P K V+ KK AV++ K Y AT L+ KIPV Sbjct: 141 RNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGYDVFKAT---LEHQKIPVTT 197 Query: 203 FEGVNAGDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPEGVGNK 262 E GD D+ A +TK+K+ D + E I+ Q R G+K F+G G+ + Sbjct: 198 TEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTRALGMKQPFIGGNGLNSP 257 Query: 263 DITAIAGPASEGMLVTLPADFAAD---PANAALVKAFAAQ-KRDPNGPFQMPAYSGVKVI 318 + IA A + L+ P ++A+ PAN A + A+ A+ DP+ F AY + ++ Sbjct: 258 KLFEIAKDAGDNTLMGSP--WSAENQTPANKAFITAYKAKFGADPD-QFAAQAYDAMYIV 314 Query: 319 ADAITATK 326 ADA+ K Sbjct: 315 ADALKNVK 322 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 0.316 0.131 0.371 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: 1,037,635 Number of extensions: 40610 Number of successful extensions: 198 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 14 Length of query: 377 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 290 Effective length of database: 1,207,925 Effective search space: 350298250 Effective search space used: 350298250 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 (21.6 bits) S2: 131 (55.1 bits)