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= 0031.0180.p (393 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313460|ref|YP_003777552.1| branched-chain amino acid ABC t... 808 0.0 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 65 1e-11 gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC t... 63 4e-11 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 61 2e-10 >gi|300313460|ref|YP_003777552.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 808 bits (2088), Expect = 0.0, Method: Compositional matrix adjust. Identities = 391/393 (99%), Positives = 391/393 (99%) Query: 1 MIDGLSGPFANAGEAVVRNISYAIERVNARGGVTLPDGKHLLQLSTFDNKLGVEDSLVQF 60 MIDGLSGPFANAGEAVVRNISYAIERVNARGGVTLPDGKHLLQLSTFDNKLGVEDSLVQF Sbjct: 38 MIDGLSGPFANAGEAVVRNISYAIERVNARGGVTLPDGKHLLQLSTFDNKLGVEDSLVQF 97 Query: 61 RQLTDERIPFLIEGNSSAVAAALIDAVNKHNQREPDRRVLFLNYSAVDPTLTNEKCSFWH 120 RQLTDERIPFLIEGNSSAVAAALIDAVNKHNQREPDRRVLFLNYSAVDPTLTNEKCSFWH Sbjct: 98 RQLTDERIPFLIEGNSSAVAAALIDAVNKHNQREPDRRVLFLNYSAVDPTLTNEKCSFWH 157 Query: 121 FRFDASADMRMQALTEAIKADAATRKVYLIGQDYSFGRQVAKAAREQLAAKRPDIAIVGD 180 FRFDASADMRMQALTEAIKAD ATRKVYLIGQDYSFGRQVAKAAREQLAAKRPDIAIVGD Sbjct: 158 FRFDASADMRMQALTEAIKADTATRKVYLIGQDYSFGRQVAKAAREQLAAKRPDIAIVGD 217 Query: 181 ELHPIGKIKDFAPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYANSLG 240 ELHPIGKIKDFAPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYANSLG Sbjct: 218 ELHPIGKIKDFAPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYANSLG 277 Query: 241 APAAIGEAGVGVVRAVAEWHPNAGGNPGSPSDAYYQVFRQRYPQPKDDYLYLRMQVMIDM 300 APAAIGEAGVGVVRAVAEWHPNAGGNPGSPSDAYYQ FRQRYPQPKDDYLYLRMQVMIDM Sbjct: 278 APAAIGEAGVGVVRAVAEWHPNAGGNPGSPSDAYYQAFRQRYPQPKDDYLYLRMQVMIDM 337 Query: 301 LAKAIEKAGSADPKAVAYALEGAQYQSAFHSATMRAQDHQLIQPLYLMQMQRADSGGIRF 360 LAKAIEKAGSADPKAVAYALEGAQYQSAFHSATMRAQDHQLIQPLYLMQMQRADSGGIRF Sbjct: 338 LAKAIEKAGSADPKAVAYALEGAQYQSAFHSATMRAQDHQLIQPLYLMQMQRADSGGIRF 397 Query: 361 DNEGSGYGFRTERFIPAEQTALPSSCRMQRPPR 393 DNEGSGYGFRTERFIPAEQTALPSSCRMQRPPR Sbjct: 398 DNEGSGYGFRTERFIPAEQTALPSSCRMQRPPR 430 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 79/331 (23%), Positives = 136/331 (41%), Gaps = 30/331 (9%) Query: 18 RNISYAIERVNARGGVTLPDGKHLLQLSTFDNKLGVEDSLVQFRQLTDERIPFLIEGNSS 77 R A++ +NA GGV GK L ++ DN + V + ER+ L G S Sbjct: 52 RGWEMALDEINASGGVL---GKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFLS 108 Query: 78 AVAAALIDAVNKHNQREPDRRVLFLNYSAVDPTLTNEKCSFWHFRFDASADMRMQALT-E 136 AL D +H RV FL + + + + + +R S M + ++ E Sbjct: 109 NTGLALTDYAKQH-------RVFFLAAEPLTDKIVWQNGNKYTYRLRPSTSMLVASVVKE 161 Query: 137 AIKADAATRKVYLIGQDYSFGRQVAKAAREQLAAKRPDIAIVGDELHPIGKIKDFAPYIA 196 A+K ++ ++ +Y +G+ + + + +PD+ V ++ P+GKI D Sbjct: 162 AVKLK--KKRWAIVYPNYEYGQSAVASFKTLMKQAQPDVEFVAEQAPPLGKI-DAGAVTQ 218 Query: 197 KMRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYANSL--GAPAAI----GEAGV 250 + A DA+ + DL V R+ + F SL G P + GEA Sbjct: 219 ALADAKPDAIFNALFAADLGKFV---REGNTRGLFEQVDVVSLLTGEPEYLDPLKGEAPQ 275 Query: 251 GVVRAVAEWHPNAGGNPGSPSDAYYQVFRQRYPQ-PKDDYLYLRMQVMIDMLAKAIEKAG 309 + W+ A P + + +R+++ P++ L +M +A + KAG Sbjct: 276 NWIVTGYPWY--AIHTP--EHKKFVEAYRKKFNDYPRNGSLVGYSALM--SIAAGLRKAG 329 Query: 310 SADPKAVAYALEGAQYQSAFHSATMRAQDHQ 340 S D +A A G + ++ S R QDHQ Sbjct: 330 STDADRLAAAFSGLKVETPVASIVYRPQDHQ 360 >gi|300310957|ref|YP_003775049.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 413 Score = 62.8 bits (151), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 85/344 (24%), Positives = 142/344 (41%), Gaps = 38/344 (11%) Query: 9 FANAGEAVVRNISYAIERVNARGGVTLPDGKHLLQLSTFDNKLGVEDSLVQFRQL-TDER 67 + AG+A ++ A+E++NA GGV G LQL ++ + + R L + + Sbjct: 49 LSTAGQAYRNGLALALEQINAAGGV----GGRPLQLVVREDDGDADQAARNARALISQDH 104 Query: 68 IPFLIEGNSSAVAAALIDAVNKHNQREPDR-RVLFLNYSAVDPTLTNEKCSFWHFRFDAS 126 + L S VA A+ RE R R + + A+ +T +K + + FR S Sbjct: 105 VEVLTGSMLSDVALAV--------SREAARGRTVLVVGDALSDAITLDKGNRYTFRVRPS 156 Query: 127 ADMRMQALTEAIKADAATRKVYLIGQDYSFGRQVAKAAREQLAAKRPDIAIVGDELHPIG 186 M+ L E A R+ ++ +Y +G+ + + L RPD+ V D+ +G Sbjct: 157 TYMQAAMLAEQ-AARLPGRRWAVVAPNYEYGQSAVASFKLLLKQARPDVEFVSDQWPALG 215 Query: 187 KIKDFAPYIAK-MRSAGADAVITGNWGNDLTLLVKAARDAGFKAKFYTFYANSLGAPAAI 245 KIK A +A+ +R + D + +G DL V+A S GAP+ Sbjct: 216 KIK--ADDVARAIRQSRPDGIFNATFGEDLQKFVQAGNRQQLFEGVRVVSMASAGAPSLD 273 Query: 246 GEAGVGVVRAVAEWHPNAGGNPGSPS---------DAYYQVFRQRYPQPKDDYLYLRMQV 296 A+ +W A G P +AY + F +R PQ + Y M Sbjct: 274 PSQS----EAIRDWL--AIGYPWDQVSLPEHQRFLEAYLKRFSER-PQLSAVFGYTTMMA 326 Query: 297 MIDMLAKAIEKAGSADPKAVAYALEGAQYQSAFHSATMRAQDHQ 340 +A ++K+ D + + A+ G Q+ S + RA D Q Sbjct: 327 ----IAAGLKKSEGGDGEVLVEAMRGLQFGSPLGPVSFRALDQQ 366 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 81/361 (22%), Positives = 148/361 (40%), Gaps = 51/361 (14%) Query: 5 LSGPFANAGEAVVRNISYAIERVNARGGVTLPDGKHLLQLSTFDNKLGVEDSLVQFRQLT 64 +SGPFA G+ + A+++ GK L + +++ N R++ Sbjct: 39 MSGPFAANGKFADLGMKLALQKY----------GKVLGKSTSYVNLDTEGKPATAVRKMQ 88 Query: 65 DERIPFLIEGNSSAVAAALIDAVNKHNQREPDRR-VLFLNYSAVDPTLTNEKCSFWHFRF 123 + IE + A ++ +E D+ +F+ + D +T C+ FR+ Sbjct: 89 ES-----IEKGTRFFAGGILSGEALAMGKEADKAGAVFITTAGADE-ITGSDCNRATFRW 142 Query: 124 DASADMRM-QALTEAIKADAATRKVYLIGQDYSFGRQVAKAAREQLAAKRPDIAIVGDEL 182 + Q + ++ ++ Y I Y FG + AA+ K I VG+ Sbjct: 143 SVPTFGAIEQTVRPLLEKMPNAKRWYTITPQYVFGEGLLSAAKNIF--KEKGIEHVGNSY 200 Query: 183 HPIGKIKDFAPYIAKMRSAGADAVITGNWGNDLTLLVKAARDAGFK--AKFYTFYANSLG 240 H + + K+F+ Y+ +A D ++ N+G+ + ++ A G K +A+ L Sbjct: 201 HSLTE-KEFSGYLTNAIAAKPDVLLLLNFGSQSSDTLRQAVSFGMKNNCTILMAWASGLE 259 Query: 241 APAAIG-EAGVGVVRAVAEWHPNAGGNPGSPSDAYYQVFRQRYPQPKDDYL--------- 290 +G + GV WH A F + + + +D L Sbjct: 260 QFETLGADICDGVYFGAQYWH------------AIDAPFNKEFVKLVNDNLKIDPNYSLA 307 Query: 291 --YLRMQVMIDMLAKAIEKAGSADPKAVAYALEGAQYQSAFHSATMRAQDHQLIQPLYLM 348 Y+ ++++D AI KA S DPKAV A+EG +Y+ S +R DHQ+I+ YL+ Sbjct: 308 GSYICTKIILD----AIIKANSTDPKAVIAAMEGMKYEGLTGSEEIRKGDHQVIKNYYLL 363 Query: 349 Q 349 + Sbjct: 364 K 364 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 0.393 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: 1,170,189 Number of extensions: 46015 Number of successful extensions: 176 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 173 Number of HSP's successfully gapped: 7 Length of query: 393 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 306 Effective length of database: 1,207,925 Effective search space: 369625050 Effective search space used: 369625050 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: 131 (55.1 bits)