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= 0003.0053.p (158 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 170 4e-44 gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 166 1e-42 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 155 2e-39 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 154 2e-39 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 170 bits (431), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 80/156 (51%), Positives = 111/156 (71%), Gaps = 2/156 (1%) Query: 4 NQALAAPAVFLTDIHGMGLKAAQGLRFITAFYWDRNERTREWAKRFHQRRKAM-PTMTQA 62 +Q L A VFL+D+H +GL+AAQGL + FYWD +E+TR ++KRF + K + PTM QA Sbjct: 256 DQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYDEQTRAFSKRFESQFKNIKPTMVQA 315 Query: 63 GVYSSVLHYLKAVKAANTDNAAEVMKKMRELPVDDMFAQNGHLREDGQMVHDMFLVEVKK 122 GVYSSV +LKA AA T + V +KMRE+P+ D +N +R DG+++HDM+L +VK Sbjct: 316 GVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVMRNASIRPDGRVIHDMYLYQVKT 375 Query: 123 PSESKAPWDYYKVLSTIPGDKIFKPLAQSDCPLVKK 158 P+ESK PWDY K+LS IP + F+P+ + CPLVK+ Sbjct: 376 PAESKGPWDYLKLLSVIPAQQAFRPM-DAACPLVKQ 410 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 166 bits (419), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 75/151 (49%), Positives = 103/151 (68%) Query: 7 LAAPAVFLTDIHGMGLKAAQGLRFITAFYWDRNERTREWAKRFHQRRKAMPTMTQAGVYS 66 LA +F+ D H +GL QG+ +YWD N++TR WA R+ + K MP+M QAG S Sbjct: 254 LAGLLIFINDTHSLGLSLTQGMYLTDGWYWDLNDQTRAWANRYFMKMKKMPSMFQAGDAS 313 Query: 67 SVLHYLKAVKAANTDNAAEVMKKMRELPVDDMFAQNGHLREDGQMVHDMFLVEVKKPSES 126 +V YLKAVKA + +A +VM +R+ ++D F NG +R DG+MVHDM+L+EVKKPSES Sbjct: 314 AVGQYLKAVKAVGSTDADKVMDYLRKNRINDFFTSNGVVRPDGRMVHDMYLMEVKKPSES 373 Query: 127 KAPWDYYKVLSTIPGDKIFKPLAQSDCPLVK 157 K PWDYYK++ TIPG++ + A+S C L K Sbjct: 374 KRPWDYYKLVQTIPGEQAYMTKAESKCALWK 404 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 155 bits (391), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 70/158 (44%), Positives = 106/158 (67%), Gaps = 1/158 (0%) Query: 1 VTANQALAAPAVFLTDIHGMGLKAAQGLRFITAFYWDRNERTREWAKRFHQRRKAMPTMT 60 VT L + + DIH +GL A+GL ++YWD++E +R++A+RF Q+ K MP+ Sbjct: 248 VTKTMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRKFAERFFQKMKKMPSTH 307 Query: 61 QAGVYSSVLHYLKAVKAANTDNAAEVMKKMRELPVDDMFAQNGHLREDGQMVHDMFLVEV 120 QA YS+ YLKAV+A TD++ +VM ++++ +DD F G +R DG+ +HDM+L +V Sbjct: 308 QAAAYSATTTYLKAVQAIGTDDSTKVMAQLKKTRIDD-FYNKGSIRADGRNIHDMYLYQV 366 Query: 121 KKPSESKAPWDYYKVLSTIPGDKIFKPLAQSDCPLVKK 158 K P+ESK PWDY K+L TIPG++ F +A S C L+K+ Sbjct: 367 KSPAESKKPWDYLKLLETIPGEQAFTSVADSKCSLLKQ 404 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 154 bits (390), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 70/154 (45%), Positives = 101/154 (65%) Query: 1 VTANQALAAPAVFLTDIHGMGLKAAQGLRFITAFYWDRNERTREWAKRFHQRRKAMPTMT 60 +T LA VF+ D+H + LK +GL ++YWD NE TR +AKR+ RK MP+ Sbjct: 246 ITKTAKLAGLLVFINDVHSLTLKNTEGLYLTDSWYWDANEETRAFAKRYFAVRKKMPSSL 305 Query: 61 QAGVYSSVLHYLKAVKAANTDNAAEVMKKMRELPVDDMFAQNGHLREDGQMVHDMFLVEV 120 QA YS+ L YLK VK TD++ +VM +R+ +DM+ +NG+LR DG+++HDM+L +V Sbjct: 306 QAADYSAALQYLKVVKEIGTDDSDKVMAALRKAKFNDMYQKNGYLRADGRVMHDMYLYQV 365 Query: 121 KKPSESKAPWDYYKVLSTIPGDKIFKPLAQSDCP 154 K SESK PWDYYK++ TIP ++ + A+S C Sbjct: 366 KAQSESKYPWDYYKLVQTIPAEQAWTTKAESKCA 399 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 0.132 0.398 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: 460,817 Number of extensions: 16079 Number of successful extensions: 36 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 34 Number of HSP's successfully gapped: 4 Length of query: 158 Length of database: 1,619,870 Length adjustment: 78 Effective length of query: 80 Effective length of database: 1,250,540 Effective search space: 100043200 Effective search space used: 100043200 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 (21.9 bits) S2: 127 (53.5 bits)