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= 0032.0003.p (249 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran... 489 e-139 gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind... 393 e-111 gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 108 3e-25 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 107 8e-25 gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 102 3e-23 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 489 bits (1258), Expect = e-139, Method: Compositional matrix adjust. Identities = 235/249 (94%), Positives = 241/249 (96%) Query: 1 MLAPSLAKFGPLGVKEFEVFDLPYIFPSKEVLYRVTEGPIGKDLFKKLEPKGITGLAYWD 60 MLAPSLAKFGPLGVKEFEVFDLPYIFP+KEVLYRVTEGPIGKDLFKKLEPKGITGLAYWD Sbjct: 86 MLAPSLAKFGPLGVKEFEVFDLPYIFPTKEVLYRVTEGPIGKDLFKKLEPKGITGLAYWD 145 Query: 61 NGFKGMSANKPLHVPADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVD 120 NGFK MSANKPLH PADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVD Sbjct: 146 NGFKVMSANKPLHHPADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVD 205 Query: 121 GTENPPSNLYTQKMHEVQKHVTVSDHGYLGYAVIVNKKFWDGLPADIRTALEGAMKDATK 180 GTENPPSNLYTQKMHEVQKHVTVS+HGYLGYAVIVNKKFWDGLP+DIRT LEGAMKDATK Sbjct: 206 GTENPPSNLYTQKMHEVQKHVTVSNHGYLGYAVIVNKKFWDGLPSDIRTQLEGAMKDATK 265 Query: 181 YANAIAQQENDAALAAVQKTGKTTIYRLNDKEKAEWRKALLPVQTQMADRIGKDLIAAVN 240 YANAIAQQENDAALAAV+KTGKTT+YRL D EKAEWRKALLPVQ QMA RIGKDLI AVN Sbjct: 266 YANAIAQQENDAALAAVEKTGKTTVYRLTDAEKAEWRKALLPVQQQMASRIGKDLIDAVN 325 Query: 241 KEAAALGQK 249 KE+AALGQK Sbjct: 326 KESAALGQK 334 >gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 393 bits (1009), Expect = e-111, Method: Compositional matrix adjust. Identities = 187/249 (75%), Positives = 212/249 (85%) Query: 1 MLAPSLAKFGPLGVKEFEVFDLPYIFPSKEVLYRVTEGPIGKDLFKKLEPKGITGLAYWD 60 MLAPSLAKFGPLG +EFEVFDLPYIFP K VL RVTEGPIG+ LF+KLE KGI GLAYWD Sbjct: 94 MLAPSLAKFGPLGAREFEVFDLPYIFPDKAVLKRVTEGPIGQGLFQKLEGKGIKGLAYWD 153 Query: 61 NGFKGMSANKPLHVPADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVD 120 NG K M+AN+PLH ADFR LKMRIQSSKVLD Q RAL ANPQVLAFSEVYQA+QTGVVD Sbjct: 154 NGMKVMTANRPLHKVADFRALKMRIQSSKVLDEQFRALKANPQVLAFSEVYQAMQTGVVD 213 Query: 121 GTENPPSNLYTQKMHEVQKHVTVSDHGYLGYAVIVNKKFWDGLPADIRTALEGAMKDATK 180 G+EN PSN+YTQKMHEVQ ++TVSDHGY+GYAVIVNKKFW+ LPADIR+ LE AMK AT Sbjct: 214 GSENTPSNVYTQKMHEVQSNLTVSDHGYIGYAVIVNKKFWEALPADIRSQLEAAMKQATL 273 Query: 181 YANAIAQQENDAALAAVQKTGKTTIYRLNDKEKAEWRKALLPVQTQMADRIGKDLIAAVN 240 YAN IAQ+END ALAA++ +GKT +Y L+++EKAEWR+ALLPV MA R+G DLI A+ Sbjct: 274 YANTIAQKENDDALAAIKASGKTRVYTLSEQEKAEWRRALLPVHKSMAARVGADLIEAIY 333 Query: 241 KEAAALGQK 249 KE+ A G K Sbjct: 334 KESEAAGVK 342 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 108 bits (271), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 51/152 (33%), Positives = 99/152 (65%), Gaps = 2/152 (1%) Query: 19 VFDLPYIFPSKEVLYRVTEGPIGKDLFKKLEPKGITGLAY-WDNGFKGMS-ANKPLHVPA 76 + + + F + +++ +GP+G + ++E G+ ++ WDNGF+ ++ + KP+ A Sbjct: 120 IVNTGFAFHDYKEVWQAMDGPLGAYVRAQIEKVGLLTMSKPWDNGFRQITTSTKPIKTAA 179 Query: 77 DFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVDGTENPPSNLYTQKMHE 136 D +GLK+R+ ++ +L + ALGA+P + F+EVY +LQT +V+G ENP + + T +++E Sbjct: 180 DLKGLKLRVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYE 239 Query: 137 VQKHVTVSDHGYLGYAVIVNKKFWDGLPADIR 168 VQK T+S+H + Y ++ N++ ++ LP DI+ Sbjct: 240 VQKFCTISNHVWDAYWILGNRRAFEKLPKDIQ 271 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 107 bits (267), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 54/165 (32%), Positives = 101/165 (61%), Gaps = 6/165 (3%) Query: 19 VFDLPYIFPSKEVLYRVTEGPIGKDLFKKLEPKGITGLAY-WDNGFKGMS-ANKPLHVPA 76 + + + F +++ +GP+G + ++E G+ ++ WDNGF+ ++ + KP+ Sbjct: 117 IVNTGFAFHDYGAVWKAMDGPLGAHVRAQIEKVGLLTMSKPWDNGFRQITTSTKPVRNAG 176 Query: 77 DFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVDGTENPPSNLYTQKMHE 136 D +GLK+R+ ++ +L + ALGA+P + F+EVY +LQT +V+G ENP + + T +++E Sbjct: 177 DVKGLKLRVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYE 236 Query: 137 VQKHVTVSDHGYLGYAVIVNKKFWDGLPADI----RTALEGAMKD 177 VQK T+S+H + Y ++ N++ ++ LP DI R L+ A D Sbjct: 237 VQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAASD 281 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 102 bits (254), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 54/188 (28%), Positives = 109/188 (57%), Gaps = 5/188 (2%) Query: 18 EVFDLPYIFPSKEVLYRVTEGPIGKDLFKKLEPKGITGLAY---WDNGFKGMS-ANKPLH 73 ++ + + F ++ +G +G + K++E + T A+ WDNG++ ++ + KP+ Sbjct: 114 QISGIGFAFKDYSQVWPAMDGELGAHVRKQIEARS-TLFAFEKIWDNGYRQITNSTKPIK 172 Query: 74 VPADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVDGTENPPSNLYTQK 133 V D +G+K+R+ S + + +A A P + F+EVY ALQT +V+G ENP + + T K Sbjct: 173 VAEDLKGMKLRVPPSPLWTSMFKAFDAAPTSINFAEVYSALQTKIVEGQENPMAIISTAK 232 Query: 134 MHEVQKHVTVSDHGYLGYAVIVNKKFWDGLPADIRTALEGAMKDATKYANAIAQQENDAA 193 ++EVQK+ ++++H + G+ + NKK ++ LP D++ + + +A A ++ ND+ Sbjct: 233 LYEVQKYCSITNHMWDGFWFLGNKKSFERLPKDLQELMTRIINEAGVNQRADVRKLNDSL 292 Query: 194 LAAVQKTG 201 + ++ G Sbjct: 293 VDEMKGKG 300 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 0.316 0.133 0.385 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: 757,430 Number of extensions: 30240 Number of successful extensions: 114 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 112 Number of HSP's successfully gapped: 6 Length of query: 249 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 166 Effective length of database: 1,226,865 Effective search space: 203659590 Effective search space used: 203659590 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)