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= 0011.0111.p (380 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... 657 0.0 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 194 1e-50 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 162 3e-41 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 134 2e-32 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 108 7e-25 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 657 bits (1695), Expect = 0.0, Method: Compositional matrix adjust. Identities = 326/349 (93%), Positives = 339/349 (97%) Query: 32 QAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGAGGNKFEAVLMDDACEPKQA 91 AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGA GNKFEAV+MDDACEPKQA Sbjct: 25 HAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNKFEAVMMDDACEPKQA 84 Query: 92 VAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKYIFRT 151 VAVANKIVSQGIK+VIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHK+IFRT Sbjct: 85 VAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFRT 144 Query: 152 IGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVATSVKAGLDAAKIPVVVFEGVNA 211 IGRDDQQGPAAA+YV+EKLKPKK AVLHDKQSYGQGVA+SVKA LDAAK+PVVVFEG+NA Sbjct: 145 IGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGINA 204 Query: 212 GDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPEGVGNKDITAIA 271 GDSDYSA++TKLKSQGVDFVYFGGYHPEMGLIMRQAREQG+KAVFMGPEGVGNKDITAIA Sbjct: 205 GDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAIA 264 Query: 272 GPASEGMLVTLPADFAADPANAALVKAFAAQKRDPNGPFQMPAYSGVKVIADAITATKST 331 GPASEGMLVTLPADFAADPANAALVKAFAA KRDPNGPFQMPAYSGVK+IADAI KST Sbjct: 265 GPASEGMLVTLPADFAADPANAALVKAFAAAKRDPNGPFQMPAYSGVKIIADAIAGAKST 324 Query: 332 DPTKVAAYIHANSFKTPIGTVEYDKKGDLKSFKFVVFTWHKDATKTEAK 380 DP KVAAYIHANSFKTPIG VEYDKKGDLKSFKFVVFTWHKDA+KTEAK Sbjct: 325 DPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVFTWHKDASKTEAK 373 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 194 bits (492), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 130/354 (36%), Positives = 188/354 (53%), Gaps = 9/354 (2%) Query: 25 ISFAGIAQA-ETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG---GAGGNKFEAV 80 ++FAG A + E VKIA GP++G A G + GA A++++NA G G KFE V Sbjct: 16 LAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIGGKKVKFELV 75 Query: 81 LMDDACEPKQAVAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLT 140 DDA +PKQA AVA K+V Q + VIGH+ SG+TIPAS IY + G+ ++PSAT P+ T Sbjct: 76 GEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQVSPSATNPKYT 135 Query: 141 EAKPHKYIFRTIGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVATSVKAGLDAAK 200 + + K FR + D Q G A KY V+KL K+ AV+ D+ +YGQGVA G AA Sbjct: 136 Q-QGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEFAKGAKAAG 194 Query: 201 IPVVVFEGVNAGDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPE 260 +V + N +D++A++T LK + D V+FGG G ++RQ ++ G+ A FMG + Sbjct: 195 GTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQLGISAKFMGGD 254 Query: 261 GVGNKDITAIAGPASEGMLVTLPADFAADPANAALVKAFAAQKRDPNGPFQM----PAYS 316 G+ + +AG V D A + F A + G + AY Sbjct: 255 GICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDVVYNAAYAYD 314 Query: 317 GVKVIADAITATKSTDPTKVAAYIHANSFKTPIGTVEYDKKGDLKSFKFVVFTW 370 +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 = 162 bits (411), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 112/351 (31%), Positives = 178/351 (50%), Gaps = 7/351 (1%) Query: 26 SFAGIAQAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG---GAGGNKFEAVLM 82 +FA + + VKI + P+TG A G + G + AIE++NA G KF+ + Sbjct: 20 AFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVIAE 79 Query: 83 DDACEPKQAVAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEA 142 DD +PK VAVA K+ QG+K ++G SG TIPAS +Y + G+V+ T A+ P++T+ Sbjct: 80 DDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIVVAT-VASNPKITQ- 137 Query: 143 KPHKYIFRTIGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVATSVKAGLDAAKIP 202 + +FR D Q G A Y ++LK K+ AV+ D+ +YGQG+A A I Sbjct: 138 QGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANGID 197 Query: 203 VVVFEGVNAGDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPEGV 262 VV + N +D++A++T +K + D V+ GGY P+ G I RQ ++ GV MG +G+ Sbjct: 198 VVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDGI 257 Query: 263 GNKDITAIAGPASEGMLVTLPADFAADPANAALVKAFAAQKR--DPNGPFQMPAYSGVKV 320 + ++ + G A + D A V + QK+ P + + Y G+ + Sbjct: 258 CSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMML 317 Query: 321 IADAITATKSTDPTKVAAYIHANSFKTPIGTVEYDKKGDLKSFKFVVFTWH 371 IA A+ S DP + + S+K G ++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 = 134 bits (336), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 94/338 (27%), Positives = 158/338 (46%), Gaps = 5/338 (1%) Query: 35 TVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG-GAGGNKFEAVLM--DDACEPKQA 91 T+ I AGP++G G ++ G A+ + N G GG ++ L+ DD +P A Sbjct: 39 TLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATA 98 Query: 92 VAVANKIVSQGIKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKYIFRT 151 VA +V Q + V+GH SG+++ A+ +Y GV+ +TPSA + +LT A + IFRT Sbjct: 99 EFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLT-AMSYPRIFRT 157 Query: 152 IGRDDQQGPAAAKYVVEKLKPKKAAVLHDKQSYGQGVATSVKAGLDAAKIPVVVFEGVNA 211 I ++ G AA Y V+KL+ + + D+ +GQG+A VV V+ Sbjct: 158 IPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSVSD 217 Query: 212 GDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPEGVGNKDITAIA 271 SD++A + + + D ++FGG + G++ + R + A M G A Sbjct: 218 KTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLMRA 277 Query: 272 GPASEGMLVTLPADFAAD-PANAALVKAFAAQKRDPNGPFQMPAYSGVKVIADAITATKS 330 GP + G LV P P + + ++ + + AY + I I S Sbjct: 278 GPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIRQAGS 337 Query: 331 TDPTKVAAYIHANSFKTPIGTVEYDKKGDLKSFKFVVF 368 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 = 108 bits (270), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 94/305 (30%), Positives = 147/305 (48%), Gaps = 11/305 (3%) Query: 31 AQAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGAGGNKFEAVLMDDACEPKQ 90 A A +K+ +A +TG A+YG +K G A E+INA GG G+K V+ D+ + ++ Sbjct: 23 ALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGGVNGDKLALVIEDEQGKKEE 82 Query: 91 AVAVANKIVSQG-IKFVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKYIF 149 A+ V K++ Q + V G S S A I VV+ S TA +T P + F Sbjct: 83 AINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKVVVFGTSNTADGITAMGP--FTF 140 Query: 150 RTIGRDDQQGPAAAKYVVEKLKPKKAAVLH-DKQSYGQGVATSVKAGLDAAKIPVVVFEG 208 R + P K V+ KK AV++ + ++ + KA L+ KIPV E Sbjct: 141 RNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGYDVFKATLEHQKIPVTTTEA 200 Query: 209 VNAGDSDYSAVITKLKSQGVDFVYFGGYHPEMGLIMRQAREQGVKAVFMGPEGVGNKDIT 268 GD D+ A +TK+K+ D + E I+ Q R G+K F+G G+ + + Sbjct: 201 YAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTRALGMKQPFIGGNGLNSPKLF 260 Query: 269 AIAGPASEGMLVTLPADFAAD---PANAALVKAFAAQ-KRDPNGPFQMPAYSGVKVIADA 324 IA A + L+ P ++A+ PAN A + A+ A+ DP+ F AY + ++ADA Sbjct: 261 EIAKDAGDNTLMGSP--WSAENQTPANKAFITAYKAKFGADPD-QFAAQAYDAMYIVADA 317 Query: 325 ITATK 329 + K Sbjct: 318 LKNVK 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: 1,102,475 Number of extensions: 44364 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 210 Number of HSP's successfully gapped: 16 Length of query: 380 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 293 Effective length of database: 1,207,925 Effective search space: 353922025 Effective search space used: 353922025 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)