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= 0001.1497.p (412 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... 582 e-167 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 243 2e-65 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 184 1e-47 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... 128 7e-31 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 582 bits (1500), Expect = e-167, Method: Compositional matrix adjust. Identities = 281/358 (78%), Positives = 314/358 (87%) Query: 55 DDATLLIGFAGPLSGPNMGVGRSMRNGAQLAIDEANRRGLRIAGKVYRLKLLSQDDRADP 114 + ATL IGFAGPLSGP+ GVG+SM+NG QLA+ EANRRGLRI GK ++L+L++QDDRADP Sbjct: 36 ETATLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADP 95 Query: 115 VTAEYVARYLASQHVLAVVGHWTSGTSLVAAPVYHAAGVIQVTPSAMSRKLTALSYPRIF 174 TAE+VAR L Q V+AVVGHWTSGTSL AAPVYH AGVIQVTPSAMSR+LTA+SYPRIF Sbjct: 96 ATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRIF 155 Query: 175 RTIPNNESMGRWSAQYAVGKLGVRTVVTIDDRTPFGQGLAEQFAQEVQAQGAQVVGRYSV 234 RTIPNNES+GR +A YAV KL RT+VTIDDRTPFGQGLAEQFA+ +GAQVVGRYSV Sbjct: 156 RTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSV 215 Query: 235 SDKTSDFNAPLLQARKQAPDLIFFGGLDWQAAVLVKSIRRLKLEARFMAAAGTVGLPFLM 294 SDKTSDFNA LL+ARK PDLIFFGGLDWQA VL KSIRRLKL AR MA+ GT+GLPFLM Sbjct: 216 SDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLM 275 Query: 295 GAGADANGALVLEPGPPEDKMPGWKSFRQRYSESFDSSIDLYSVFSYEAAQAIIEGLRRA 354 AG DANGALVLEPGPP+DKMPGWKSFRQRYSE+FDS +DLY+VF+YEAAQAII+G+R+A Sbjct: 276 RAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIRQA 335 Query: 355 GSTDSDAVARAMHRLRFEGVSGPVAFNEEGDLLNPGFTMYEVKDQRWVAVTRLHGLPR 412 GS D + +A AMHRLRFEGVSGPVAFNEEGDLL P FTMYEVKDQRW V R +GLPR Sbjct: 336 GSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPVARFNGLPR 393 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 243 bits (621), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 128/351 (36%), Positives = 201/351 (57%), Gaps = 5/351 (1%) Query: 61 IGFAGPLSGPNMGVGRSMRNGAQLAIDEANRRGLRIAGKVYRLKLLSQDDRADPVTAEYV 120 I GPLSGPN +G+ NGA++A+DE N +G I GK + +L+ +DD +DP A V Sbjct: 30 IAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIGGKKVKFELVGEDDASDPKQATAV 89 Query: 121 ARYLASQHVLAVVGHWTSGTSLVAAPVYHAAGVIQVTPSAMSRKLTALSYPRIFRTIPNN 180 A L Q V AV+GH SGT++ A+ +Y AG+ QV+PSA + K T + FR + N+ Sbjct: 90 ATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQVSPSATNPKYTQQGFKTAFRVVAND 149 Query: 181 ESMGRWSAQYAVGKLGVRTVVTIDDRTPFGQGLAEQFAQEVQAQGAQVVGRYSVSDKTSD 240 +G +YAV KLG + + IDDRT +GQG+A++FA+ +A G +VG +DK +D Sbjct: 150 AQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEFAKGAKAAGGTIVGTQYTNDKATD 209 Query: 241 FNAPLLQARKQAPDLIFFGGLDWQAAVLVKSIRRLKLEARFMAAAG--TVGLPFLMGAGA 298 FNA L + + PD++FFGG+D +++ +++L + A+FM G T LP L G G Sbjct: 210 FNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQLGISAKFMGGDGICTGSLPGLAGDGL 269 Query: 299 DANGALVLEPGP-PEDKMPGWKSFRQRYSESFDSSIDLYSVFSYEAAQAIIEGLRRAGST 357 + + E G E G FR Y + F + + ++Y+A + + + +AGS Sbjct: 270 GDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDVVYNAAYAYDATMTVADAMAKAGSA 329 Query: 358 DSDAVARAMHRLRFEGVSGPVAFNEEGDLLNPGFTMYEVK-DQR-WVAVTR 406 D + ++ +GV+G +AF+ +GD+ + T+Y K QR +AVT+ Sbjct: 330 DPKKYLPELAKISHKGVTGVIAFDAKGDIKDGSLTLYTYKGGQRTLLAVTK 380 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 184 bits (467), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 113/361 (31%), Positives = 188/361 (52%), Gaps = 8/361 (2%) Query: 47 ALKEEMQVDDATLLIGFAGPLSGPNMGVGRSMRNGAQLAIDEANRRGLRIAGKVYRLKLL 106 A+ +E QV + IGF+ PL+GP G+ + G +AI+ N + + + GK + ++ Sbjct: 22 AMAQETQV----VKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVI 77 Query: 107 SQDDRADPVTAEYVARYLASQHVLAVVGHWTSGTSLVAAPVYHAAGVIQVTPSAMSRKLT 166 ++DD+ADP + VA+ LA Q V A+VG + SG ++ A+ VY+ AG++ V A + K+T Sbjct: 78 AEDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIV-VATVASNPKIT 136 Query: 167 ALSYPRIFRTIPNNESMGRWSAQYAVGKLGVRTVVTIDDRTPFGQGLAEQFAQEVQAQGA 226 + +FR ++ +G A YA +L + V IDDRT +GQGLA++F + +A G Sbjct: 137 QQGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANGI 196 Query: 227 QVVGRYSVSDKTSDFNAPLLQARKQAPDLIFFGGLDWQAAVLVKSIRRLKLEARFMAAAG 286 VV +DK +DF A L + + PD +F GG Q + + +++L ++ M G Sbjct: 197 DVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDG 256 Query: 287 TVGLPFLMGAGADANGALVL--EPGPPEDKMPGWKSFRQRYSESFDSSIDLYSVFSYEAA 344 P + G DA G V + G DK K F Y + ++ + Y+V Y+ Sbjct: 257 ICS-PEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGM 315 Query: 345 QAIIEGLRRAGSTDSDAVARAMHRLRFEGVSGPVAFNEEGDLLNPGFTMYEVKDQRWVAV 404 I + +++A S D A+ ++ ++GV+G F+ DL T+Y KD V + Sbjct: 316 MLIAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFKDGLPVPL 375 Query: 405 T 405 T Sbjct: 376 T 376 >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 = 104/348 (29%), Positives = 165/348 (47%), Gaps = 9/348 (2%) Query: 58 TLLIGFAGPLSGPNMGVGRSMRNGAQLAIDEANRRGLRIAGKVYRLKLLSQDDRADPVTA 117 T+ +GF G LS P + +S GAQLAIDEAN + + R +LL QDD + A Sbjct: 30 TIALGFTGRLSEP---IAQSALQGAQLAIDEANALAAKRRSPL-RFELLPQDDHGNENFA 85 Query: 118 EYVARYLASQHVLAVVGHWTSGTSLVAAPVYHAAGVIQVTPSAMSRKLTALSYPRIFRTI 177 +ARY + V V+G W+S +L A +Y +A + Q+ +A S + T + FR + Sbjct: 86 VNIARYYVKEKVAGVIGPWSSDAALATAAIYESAQIPQIGFTATSSQWTGMGNRMPFRVV 145 Query: 178 PNNESMGRWSAQYAVGKLGVRTVVTIDDRTPFGQGLAEQFAQEVQAQGAQV-VGRYSVSD 236 + A+ A L R + I + + LA+ + + Q+ + RY V Sbjct: 146 GGTRELAATLAEVATRSLQGRRIFVIQSDAAYSRALADTLVENLGGSAQQIALARYQVGR 205 Query: 237 KTSDFNAPLLQARKQAPDLIFFGGLDWQAAVLVKSIRRLKLEARFMAAAGTVGLPFLMGA 296 +++DF+A L A D+I F GL QA + R + AR + G L Sbjct: 206 RSTDFHAALKAAEAHQADVIVFVGLYPQARAFIDGANRTRTTARLLLTGGASNLSLPAPL 265 Query: 297 GADANGALVLEPGPPEDKMPGWKSFRQRYSESFDSSIDLYSVFSYEAAQAIIEGLRRAGS 356 + VLE P WK Q Y F ++ YS ++Y+AA + + +AGS Sbjct: 266 ELRLH---VLEYEIARPHCPQWKVVTQTYQRRFGAAPTTYSFYAYDAASVLTAAIVQAGS 322 Query: 357 TDSDAVARAMHRLRFEGVSGPVAFNEEGDLLNPGFTMYEVKDQRWVAV 404 + D +A A+HR+R G+ G ++F+ G +P +T+ ++ RW AV Sbjct: 323 DNGDKIATALHRMRHAGLHGTLSFDATGANAHPRYTLLRYQE-RWQAV 369 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 128 bits (322), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 93/343 (27%), Positives = 164/343 (47%), Gaps = 15/343 (4%) Query: 58 TLLIGFAGPLSGPNMGVGRSMRNGAQLAIDEANRRGLRIAGKVYRLKLLSQDDRADPVTA 117 T+ I AGP++G G ++ GA AI++ N G + + + DD +P A Sbjct: 28 TVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAG---GANGNKFEAVMMDDACEPKQA 84 Query: 118 EYVARYLASQHVLAVVGHWTSGTSLVAAPVYHAAGVIQVTPSAMSRKLT-ALSYPRIFRT 176 VA + SQ + V+GH SG+++ A+ +Y GV+ +TPSA + +LT A + IFRT Sbjct: 85 VAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFRT 144 Query: 177 IPNNESMGRWSAQYAVGKLGVRTVVTIDDRTPFGQGLAEQFAQEVQAQGAQVVGRYSVSD 236 I ++ G +A+Y + KL + V + D+ +GQG+A + A VV ++ Sbjct: 145 IGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGINA 204 Query: 237 KTSDFNAPLLQARKQAPDLIFFGGLDWQAAVLVKSIRRLKLEARFMAAAGTVGLPFLMGA 296 SD++A + + + Q D ++FGG + ++++ R ++A FM G A Sbjct: 205 GDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAIA 264 Query: 297 GADANGALVLEPG-----PPEDKMPGWKSFRQRYSESFDSSIDLYSVFSYEAAQAIIEGL 351 G + G LV P P + + +R + + +Y + I + + Sbjct: 265 GPASEGMLVTLPADFAADPANAALVKAFAAAKRDPNG------PFQMPAYSGVKIIADAI 318 Query: 352 RRAGSTDSDAVARAMHRLRFEGVSGPVAFNEEGDLLNPGFTMY 394 A STD + VA +H F+ G V ++++GDL + F ++ Sbjct: 319 AGAKSTDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVF 361 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 0.134 0.395 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: 1,242,091 Number of extensions: 49554 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 12 Length of query: 412 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 324 Effective length of database: 1,203,190 Effective search space: 389833560 Effective search space used: 389833560 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 (21.8 bits) S2: 132 (55.5 bits)