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= 0013.0005.p (222 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 434 e-123 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 199 1e-52 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 129 2e-31 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 89 4e-19 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 69 4e-13 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 434 bits (1115), Expect = e-123, Method: Compositional matrix adjust. Identities = 208/222 (93%), Positives = 218/222 (98%) Query: 1 MALYAAKELKLKRVAVIDDRTAYGQGLAEEFAKVAKANGIEVISKDFTNDKATDFTAILT 60 MALYAAKELK KRVAVIDDRTAYGQGLA+EF KVAKANGI+V+S DFTNDKATDFTAILT Sbjct: 157 MALYAAKELKFKRVAVIDDRTAYGQGLAQEFIKVAKANGIDVVSTDFTNDKATDFTAILT 216 Query: 61 SIKGKKPDAVFLGGYAPQGGPIKRQMKQLGIDVPLMGGDGICSPEMGRLGGDAIGETVYC 120 SIKGKKPDAVFLGGYAPQGGPIKRQMKQLG+DVPLMGGDGICSPEMGRLGGDAIGE+VYC Sbjct: 217 SIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDGICSPEMGRLGGDAIGESVYC 276 Query: 121 TQGGTMLDKAKDGKVFADDYQKKYSRPAETYAVSFYDGMMLIAQAMKQANSVDPKAFGPA 180 TQGGTMLDKAK+GKVF+D+YQKKY+RPAETYAVSFYDGMMLIAQAMKQANSVDPK FGPA Sbjct: 277 TQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPA 336 Query: 181 MAKISYKGVAGQYDFDANHDLKQSPVTVYRFKDGLPVPLTSY 222 +AKISYKGVAGQYDFDANHDLKQSPVTVYRFKDGLPVPLTSY Sbjct: 337 LAKISYKGVAGQYDFDANHDLKQSPVTVYRFKDGLPVPLTSY 378 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 199 bits (506), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 109/213 (51%), Positives = 138/213 (64%), Gaps = 2/213 (0%) Query: 4 YAAKELKLKRVAVIDDRTAYGQGLAEEFAKVAKANGIEVISKDFTNDKATDFTAILTSIK 63 YA ++L K++AVIDDRTAYGQG+A+EFAK AKA G ++ +TNDKATDF AILTS+K Sbjct: 159 YAVQKLGTKQIAVIDDRTAYGQGVADEFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLK 218 Query: 64 GKKPDAVFLGGYAPQGGPIKRQMKQLGIDVPLMGGDGICSPEMGRLGGDAIG-ETVYCTQ 122 GKKPD VF GG GGP+ RQMKQLGI MGGDGIC+ + L GD +G + V C + Sbjct: 219 GKKPDVVFFGGMDAVGGPMLRQMKQLGISAKFMGGDGICTGSLPGLAGDGLGDDQVICAE 278 Query: 123 GGTMLDKAKDG-KVFADDYQKKYSRPAETYAVSFYDGMMLIAQAMKQANSVDPKAFGPAM 181 G + + K G F Y+KK+ A YD M +A AM +A S DPK + P + Sbjct: 279 AGGVDEAGKKGMDDFRAAYKKKFGIDVVYNAAYAYDATMTVADAMAKAGSADPKKYLPEL 338 Query: 182 AKISYKGVAGQYDFDANHDLKQSPVTVYRFKDG 214 AKIS+KGV G FDA D+K +T+Y +K G Sbjct: 339 AKISHKGVTGVIAFDAKGDIKDGSLTLYTYKGG 371 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 129 bits (324), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 74/220 (33%), Positives = 113/220 (51%), Gaps = 3/220 (1%) Query: 4 YAAKELKLKRVAVIDDRTAYGQGLAEEFAKVAKANGIEVISKDFTNDKATDFTAILTSIK 63 YA +L+ + + IDDRT +GQGLAE+FA+ A G +V+ + +DK +DF A L + Sbjct: 171 YAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYSVSDKTSDFNAALLEAR 230 Query: 64 GKKPDAVFLGGYAPQGGPIKRQMKQLGIDVPLMGGDGICS-PEMGRLGGDAIGETVYCTQ 122 +PD +F GG Q G + + +++L + LM G P + R G DA G V + Sbjct: 231 KLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFLMRAGPDANGALVL--E 288 Query: 123 GGTMLDKAKDGKVFADDYQKKYSRPAETYAVSFYDGMMLIAQAMKQANSVDPKAFGPAMA 182 G DK K F Y + + + YAV Y+ I Q ++QA S DP+ AM Sbjct: 289 PGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGIRQAGSADPERIAEAMH 348 Query: 183 KISYKGVAGQYDFDANHDLKQSPVTVYRFKDGLPVPLTSY 222 ++ ++GV+G F+ DL Q T+Y KD P+ + Sbjct: 349 RLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPVARF 388 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 88.6 bits (218), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 62/210 (29%), Positives = 102/210 (48%), Gaps = 2/210 (0%) Query: 2 ALYAAKELKLKRVAVIDDRTAYGQGLAEEFAKVAKANGIEVISKDFTNDKATDFTAILTS 61 A Y ++LK K+VAV+ D+ +YGQG+A A + V+ + N +D++AI+T Sbjct: 156 ARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGINAGDSDYSAIVTK 215 Query: 62 IKGKKPDAVFLGGYAPQGGPIKRQMKQLGIDVPLMGGDGICSPEMGRLGGDAIGETVYCT 121 +K + D V+ GGY P+ G I RQ ++ GI MG +G+ + ++ + G A + Sbjct: 216 LKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAIAGPASEGMLVTL 275 Query: 122 QGGTMLDKAKDGKVFADDYQKKYSRPAETYAVSFYDGMMLIAQAMKQANSVDPKAFGPAM 181 D A V A K+ P + + Y G+ +IA A+ A S DP+ + Sbjct: 276 PADFAADPANAALVKAFAAAKR--DPNGPFQMPAYSGVKIIADAIAGAKSTDPEKVAAYI 333 Query: 182 AKISYKGVAGQYDFDANHDLKQSPVTVYRF 211 S+K G ++D DLK V+ + Sbjct: 334 HANSFKTPIGNVEYDKKGDLKSFKFVVFTW 363 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 68.6 bits (166), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 89/201 (44%), Gaps = 11/201 (5%) Query: 5 AAKELKLKRVAVI---DDRTAYGQGLAEEFAKVAKANGIEVISKDFTNDKATDFTAILTS 61 A K +K+VAVI DD A+ + + F + I V + + DF A LT Sbjct: 157 AVKHFGIKKVAVIYGNDD--AFTKSGYDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTK 214 Query: 62 IKGKKPDAVFLGGYAPQGGPIKRQMKQLGIDVPLMGGDGICSPEMGRLGGDAIGETVYCT 121 IK PDA+ A + I Q + LG+ P +GG+G+ SP++ + DA G+ Sbjct: 215 IKAGNPDAIVCSCLAEEAANIILQTRALGMKQPFIGGNGLNSPKLFEIAKDA-GDNTLMG 273 Query: 122 QGGTMLDKAKDGKVFADDYQKKYSRPAETYAVSFYDGMMLIAQAMKQAN-----SVDPKA 176 + ++ K F Y+ K+ + +A YD M ++A A+K + D A Sbjct: 274 SPWSAENQTPANKAFITAYKAKFGADPDQFAAQAYDAMYIVADALKNVKLSGNLAKDRDA 333 Query: 177 FGPAMAKISYKGVAGQYDFDA 197 A+ + G G++ F A Sbjct: 334 LRAALPAVKIDGATGKFAFRA 354 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 0.317 0.136 0.392 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: 745,934 Number of extensions: 33027 Number of successful extensions: 109 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 105 Number of HSP's successfully gapped: 6 Length of query: 222 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 140 Effective length of database: 1,231,600 Effective search space: 172424000 Effective search space used: 172424000 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: 129 (54.3 bits)