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= 0088.0013.p (135 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... 102 1e-23 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 84 4e-18 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 61 4e-11 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 54 6e-09 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 102 bits (254), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 42/125 (33%), Positives = 77/125 (61%) Query: 1 MNVRLVATGGTATGLFVQLAEGVQGNVWALETGVPRDRLPGWREFNDKMRVRFKGEITHY 60 ++ RL+A+ GT F+ A LE G P+D++PGW+ F + F ++ Y Sbjct: 258 LHARLMASPGTLGLPFLMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLY 317 Query: 61 ALFAYDAANVLVAAIQKAGSVDPKAVTTALHEIRYPGLTGIVSFDANGAVINPAYTIYHL 120 A+FAY+AA ++ I++AGS DP+ + A+H +R+ G++G V+F+ G ++ P++T+Y + Sbjct: 318 AVFAYEAAQAIIQGIRQAGSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEV 377 Query: 121 EQSKW 125 + +W Sbjct: 378 KDQRW 382 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 84.0 bits (206), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 48/130 (36%), Positives = 70/130 (53%), Gaps = 4/130 (3%) Query: 2 NVRLVATGGTATGLFVQLAEGVQGNVWALETGVPRDRLPGWREFNDKMRVRFKGEITHYA 61 RL+ TGG + + L ++ + LE + R P W+ + RF T Y+ Sbjct: 247 TARLLLTGGASN---LSLPAPLELRLHVLEYEIARPHCPQWKVVTQTYQRRFGAAPTTYS 303 Query: 62 LFAYDAANVLVAAIQKAGSVDPKAVTTALHEIRYPGLTGIVSFDANGAVINPAYTIYHLE 121 +AYDAA+VL AAI +AGS + + TALH +R+ GL G +SFDA GA +P YT+ Sbjct: 304 FYAYDAASVLTAAIVQAGSDNGDKIATALHRMRHAGLHGTLSFDATGANAHPRYTLLRY- 362 Query: 122 QSKWSVEKVL 131 Q +W +V Sbjct: 363 QERWQAVEVF 372 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 60.8 bits (146), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 36/121 (29%), Positives = 61/121 (50%), Gaps = 3/121 (2%) Query: 1 MNVRLVATGGTATGLFVQLAEGVQGN---VWALETGVPRDRLPGWREFNDKMRVRFKGEI 57 ++ + + G TG LA G+ + A GV G +F + +F ++ Sbjct: 246 ISAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDV 305 Query: 58 THYALFAYDAANVLVAAIQKAGSVDPKAVTTALHEIRYPGLTGIVSFDANGAVINPAYTI 117 + A +AYDA + A+ KAGS DPK L +I + G+TG+++FDA G + + + T+ Sbjct: 306 VYNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDGSLTL 365 Query: 118 Y 118 Y Sbjct: 366 Y 366 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 53.5 bits (127), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 28/96 (29%), Positives = 49/96 (51%) Query: 26 NVWALETGVPRDRLPGWREFNDKMRVRFKGEITHYALFAYDAANVLVAAIQKAGSVDPKA 85 +V+ + G D+ + F+D+ + ++ YA+ YD ++ A+++A SVDPK Sbjct: 273 SVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQANSVDPKQ 332 Query: 86 VTTALHEIRYPGLTGIVSFDANGAVINPAYTIYHLE 121 AL +I Y G+ G FDAN + T+Y + Sbjct: 333 FGPALAKISYKGVAGQYDFDANHDLKQSPVTVYRFK 368 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 0.319 0.135 0.403 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: 448,422 Number of extensions: 17205 Number of successful extensions: 59 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 59 Number of HSP's successfully gapped: 4 Length of query: 135 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 59 Effective length of database: 1,260,010 Effective search space: 74340590 Effective search space used: 74340590 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: 125 (52.8 bits)