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= 0001.3394.p (433 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 141 1e-34 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 140 2e-34 gi|300314071|ref|YP_003778163.1| amino acid ABC transporter peri... 132 8e-32 gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC t... 113 4e-26 gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC t... 97 3e-21 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 141 bits (355), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 114/409 (27%), Positives = 189/409 (46%), Gaps = 21/409 (5%) Query: 29 RRRLLSAAAGAAVLGFPAIVRAQS--DKIIIGHLTPRTGFLGPM-GEYAVMSINLAVEEQ 85 RR LSA A A+LG + AQ+ D I IG +T +G G+ V +I +A+ + Sbjct: 6 RRAALSATA-CALLGAAILPSAQAAGDTIKIGFITDMSGTYADFDGQGGVEAIRMAIADA 64 Query: 86 NKAGGLLGRQLTLLSEDSVNPP-TASTKAQRLLERDGAALLIGEISSASALGIAQVAQRN 144 G + G+++ L+ D N A+ KA+ +RDG +L+G ++SA++L + +VA Sbjct: 65 --GGAINGKKVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVAGEK 122 Query: 145 KKLFMNTGCNSDELRGKSCNKFMFHIEAANSTYVKACGQQLLHNGLIKGKKLYALTADYA 204 KK+F++ G + + CN + + + G + G GK Y LTADYA Sbjct: 123 KKVFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQG---GKSWYFLTADYA 179 Query: 205 FGHDLLRTAKTFVAANGGTIANDELVPTDATDFSPYLLKIRQAKPDLVISNLAGNQITNF 264 FG L + V +NGG + VP +DFS +LL+ + +K ++ +AG + N Sbjct: 180 FGTSLEKDTSEVVKSNGGNVVGATRVPLATSDFSSFLLQAQSSKAQILGLAVAGGDVINA 239 Query: 265 IKQYAEFGL--PFPIAGFGFDTVAAWGAGADNFAGTWPTT-WHHDVDAPSAKAFVSAFVK 321 IK EFG+ +AG G G + T W+ D++ +A+ + + Sbjct: 240 IKAANEFGVNKTMKLAGLLIFINDTHSLGLSLTQGMYLTDGWYWDLN-DQTRAWANRYFM 298 Query: 322 KYGKPPENQAWGEYVGFRSIAQAIAETKSLDTMKLIEYFEKGAQIDILKGRKGYYRDWDH 381 K K P G+ +A+ S D K+++Y K +I+ G R D Sbjct: 299 KMKKMPSMFQAGDASAVGQYLKAVKAVGSTDADKVMDYLRKN-RINDFFTSNGVVRP-DG 356 Query: 382 QLMQEMYTLSPKPKGRAKDQWDFLQLGVPVPGPNLPLESIAPTPQENAC 430 +++ +MY + K +K WD+ +L +PG E T E+ C Sbjct: 357 RMVHDMYLMEVKKPSESKRPWDYYKLVQTIPG-----EQAYMTKAESKC 400 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 140 bits (353), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 111/389 (28%), Positives = 180/389 (46%), Gaps = 14/389 (3%) Query: 30 RRLLSAAAGAAVLGFPAIVRAQSDKIIIGHLTPRTG-FLGPMGEYAVMSINLAVEEQNKA 88 RRL +A A A + A+ + +D + IG +T +G + G + +I +AV + Sbjct: 8 RRLAAACAIAGIFSGAALAQVSNDAVRIGFITDMSGPYADTDGLGGLEAIRMAVADFG-- 65 Query: 89 GGLLGRQLTLLSEDSVNPP-TASTKAQRLLERDGAALLIGEISSASALGIAQVAQRNKKL 147 G +LG+ + ++S D N A+T+A+ + G +LIG ++SA+AL + +V K++ Sbjct: 66 GTVLGKPIEVISADHQNKADIAATRAREWADERGLDMLIGGVNSATALSMNKVMAEKKRV 125 Query: 148 FMNTGCNSDELRGKSCNKFMFHIEAANSTYVKACGQQLLHNGLIKGKKLYALTADYAFGH 207 ++N G + L + C + H E K ++ G GK + L ADYAFGH Sbjct: 126 YINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIKQG---GKSWFFLVADYAFGH 182 Query: 208 DLLRTAKTFVAANGGTIANDELVPTDATDFSPYLLKIRQAKPDLVISNLAGNQITNFIKQ 267 L V A+GGT+ P ++D S +LL+ + +K ++ AG N IK Sbjct: 183 SLANDTSAVVKASGGTVVGSIKHPPQSSDLSSFLLQAQASKAQILGLANAGEDTVNSIKA 242 Query: 268 YAEFGLPFPIAGFGFDTVA--AWGAGADNFAGTWPT-TWHHDVDAPSAKAFVSAFVKKYG 324 EFG+ + G V G N G T +W+ D D PS K F F +K Sbjct: 243 AKEFGVTKTMKLVGLLMVINDIHALGLANAEGLMMTDSWYWDKDEPSRK-FAERFFQKMK 301 Query: 325 KPPENQAWGEYVGFRSIAQAIAETKSLDTMKLIEYFEKGAQIDILKGRKGYYRDWDHQLM 384 K P Y + +A+ + D+ K++ +K +ID KG R D + + Sbjct: 302 KMPSTHQAAAYSATTTYLKAVQAIGTDDSTKVMAQLKK-TRIDDFY-NKGSIRA-DGRNI 358 Query: 385 QEMYTLSPKPKGRAKDQWDFLQLGVPVPG 413 +MY K +K WD+L+L +PG Sbjct: 359 HDMYLYQVKSPAESKKPWDYLKLLETIPG 387 >gi|300314071|ref|YP_003778163.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 132 bits (331), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 105/383 (27%), Positives = 174/383 (45%), Gaps = 18/383 (4%) Query: 53 DKIIIGHLTPRTGFLGPM-GEYAVMSINLAVEEQNKAGGLLGRQLTLLSEDSVNPP-TAS 110 D I IG +T +G + G+ +I +A+ + G + G+++ LL D N A+ Sbjct: 29 DVIKIGFITDISGVYSDIDGQGGAEAIKMAIADMG--GAINGKKIELLVADHQNKADVAA 86 Query: 111 TKAQRLLERDGAALLIGEISSASALGIAQVAQRNKKLFMNTGCNSDELRGKSCNKFMFHI 170 +KA+ ++ G +LIG +S +AL A+VA KK++M G S L + C+ + H Sbjct: 87 SKAREWFDQQGVDMLIGGTNSGTALASAKVAAEKKKVYMQIGAGSARLTNEECSPYTVHY 146 Query: 171 EAANSTYVKACGQQLLHNGLIKGKKLYALTADYAFGHDLLRTAKTFVAANGGTIANDELV 230 K G ++ G GK + LTADYAFGH L V A+GGT+ Sbjct: 147 AYDTVALAKGTGSAVVKQG---GKSWFFLTADYAFGHSLESDTANVVKASGGTVVGAVKH 203 Query: 231 PTDATDFSPYLLKIRQAKPDLVISNLAGNQITNFIKQYAEFGL--PFPIAGFGFDTVAAW 288 P A+DFS +LL+ + +K ++ AG N +K EFG+ +AG Sbjct: 204 PLGASDFSSFLLQAQSSKAQIIGLANAGGDFINSVKAANEFGITKTAKLAGLLVFINDVH 263 Query: 289 GAGADNFAGTWPT-TWHHDVDAPSAKAFVSAFVKKYGKPPENQAWGEYVGFRSIAQAIAE 347 N G + T +W+ D + + +AF + K P + +Y + + E Sbjct: 264 SLTLKNTEGLYLTDSWYWDANEET-RAFAKRYFAVRKKMPSSLQAADYSAALQYLKVVKE 322 Query: 348 TKSLDTMKLIEYFEKGAQIDILKGRKGYYRDWDHQLMQEMYTLSPKPKGRAKDQWDFLQL 407 + D+ K++ K A+ + + + GY R D ++M +MY K + +K WD+ +L Sbjct: 323 IGTDDSDKVMAALRK-AKFNDMYQKNGYLRA-DGRVMHDMYLYQVKAQSESKYPWDYYKL 380 Query: 408 GVPVPGPNLPLESIAPTPQENAC 430 +P E T E+ C Sbjct: 381 -----VQTIPAEQAWTTKAESKC 398 >gi|300313931|ref|YP_003778023.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 397 Score = 113 bits (282), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 108/404 (26%), Positives = 174/404 (43%), Gaps = 26/404 (6%) Query: 27 ARRRRL-LSAAAGAAVLGFPAIVRAQSDKIIIGHLTPRTGFLGPMGEYAVMSINLAVEEQ 85 +RR L LSA A L + + AQ++ I G P +G G++A + + LA++ Sbjct: 3 SRRHFLKLSALAAPGALSYHDVF-AQAESIAFGCPVPMSGPFAANGKFADLGMKLALQ-- 59 Query: 86 NKAGGLLGRQLTLLSEDSV-NPPTASTKAQRLLERDGAALLIGEISSASALGIAQVAQRN 144 K G +LG+ + ++ D+ P TA K Q +E+ G G I S AL + + A + Sbjct: 60 -KYGKVLGKSTSYVNLDTEGKPATAVRKMQESIEK-GTRFFAGGILSGEALAMGKEADKA 117 Query: 145 KKLFMNTGCNSDELRGKSCNKFMFHIEAANSTYVKACGQQLLHNGLIKGKKLYALTADYA 204 +F+ T +DE+ G CN+ F ++ + LL + K+ Y +T Y Sbjct: 118 GAVFITTA-GADEITGSDCNRATFRWSVPTFGAIEQTVRPLLEK-MPNAKRWYTITPQYV 175 Query: 205 FGHDLLRTAKTFVAANGGTIANDELVPTDATDFSPYLLKIRQAKPDLVISNLAGNQITNF 264 FG LL AK G + +FS YL AKPD+++ G+Q ++ Sbjct: 176 FGEGLLSAAKNIFKEKGIEHVGNSYHSLTEKEFSGYLTNAIAAKPDVLLLLNFGSQSSDT 235 Query: 265 IKQYAEFGLPFPIAGFGFDTVAAWGAGADNFAGT---------WPTTWHHDVDAPSAKAF 315 ++Q FG+ + AW +G + F + + H +DAP K F Sbjct: 236 LRQAVSFGMKNNCT-----ILMAWASGLEQFETLGADICDGVYFGAQYWHAIDAPFNKEF 290 Query: 316 VSAFVKKYGKPPENQAWGEYVGFRSIAQAIAETKSLDTMKLIEYFEKGAQIDILKGRKGY 375 V P G Y+ + I AI + S D +I E G + + L G + Sbjct: 291 VKLVNDNLKIDPNYSLAGSYICTKIILDAIIKANSTDPKAVIAAME-GMKYEGLTGSE-E 348 Query: 376 YRDWDHQLMQEMYTLSPKPKGRAKDQWDFLQLGVPVPGPNLPLE 419 R DHQ+++ Y L K K + ++ D+ + V LPLE Sbjct: 349 IRKGDHQVIKNYYLLKGKAKAKMANKNDYADI-VSSGKSFLPLE 391 >gi|300312372|ref|YP_003776464.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 96.7 bits (239), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 107/415 (25%), Positives = 177/415 (42%), Gaps = 30/415 (7%) Query: 31 RLLSAAAGAAVLGFPAIV----RAQSDKIIIGHLTPRTGFLGPMG-EYAVMSINLAVEE- 84 R L+AAA A + A ++ + IG LT +G MG + +V++ +AVE+ Sbjct: 8 RSLTAAAVACTVSLAATAIPAWAQDANTVKIGVLTDMSGPYSAMGGQGSVVAAKMAVEDC 67 Query: 85 -QNKAGGLLGRQLTLLSEDSVNPP-TASTKAQRLLERDGAALLIGEISSASALGIAQVAQ 142 +N+ G+ ++ +LS D+ N P T+A+ L+RD + +S+ AL + ++ + Sbjct: 68 LKNECKGM---KIEILSADNQNKPDVGVTRAREWLDRDKVEAIADLTNSSVALAVQKLIK 124 Query: 143 RNKKLFMNTGCNSDELRGKSCNKFMFHIEAANSTYVKACGQQLLHNGLIKGKKLYALTAD 202 + M +G + L C FH + L G K Y +T D Sbjct: 125 DKGGIAMYSGPATGALTTAECAPNGFHWMFDTYSQAAGAAAALTKLG---NKSWYFVTVD 181 Query: 203 YAFGHDLLRTAKTFVAANGGTIANDELVPTDATDFSPYLLKIRQAKPDLVISNLAGNQIT 262 YAFGH L + A V ANGGT+ P +A+DFS +LL+ + +K ++ G + Sbjct: 182 YAFGHSLEKDASDVVKANGGTVVGSVRHPLNASDFSSFLLQAQASKAQVIGLADGGTDVV 241 Query: 263 NFIKQYAEFGLP------FPIAGFGFDTVAAWGAGADNFAGTWPTTWHHDVDAPSAKAFV 316 N IKQ F + + F D A A T W +D +AF Sbjct: 242 NAIKQARSFAVGGKDQRLVALLVFLSDVHALGLEAAQGLVYTDGFYWDYD---EQTRAFS 298 Query: 317 SAFVKKYG--KPPENQAWGEYVGFRSIAQAIAETKSLDTMKLIEYFEKGAQIDILKGRKG 374 F ++ KP QA G Y +A A K+ D + + + D + R Sbjct: 299 KRFESQFKNIKPTMVQA-GVYSSVYQFLKARAAAKTSDWKVVAQKMREIPIADAVM-RNA 356 Query: 375 YYRDWDHQLMQEMYTLSPKPKGRAKDQWDFLQLGVPVPGPNL--PLESIAPTPQE 427 R D +++ +MY K +K WD+L+L +P P+++ P ++ Sbjct: 357 SIRP-DGRVIHDMYLYQVKTPAESKGPWDYLKLLSVIPAQQAFRPMDAACPLVKQ 410 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 0.134 0.402 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: 1,235,239 Number of extensions: 49440 Number of successful extensions: 200 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 17 Length of query: 433 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 345 Effective length of database: 1,203,190 Effective search space: 415100550 Effective search space used: 415100550 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 (21.7 bits) S2: 132 (55.5 bits)