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= 0223.0019.p (194 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 239 7e-65 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 211 3e-56 gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 209 1e-55 gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran... 97 6e-22 gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind... 93 1e-20 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 239 bits (611), Expect = 7e-65, Method: Compositional matrix adjust. Identities = 115/194 (59%), Positives = 137/194 (70%), Gaps = 1/194 (0%) Query: 1 LHVFDKVWDNGFRHIT-SNKPIGAPEDLVSMKIRVPVSPLLLSIFKSLKAAPTPINFNEL 59 L F+K+WDNG+R IT S KPI EDL MK+RVP SPL S+FK+ AAPT INF E+ Sbjct: 150 LFAFEKIWDNGYRQITNSTKPIKVAEDLKGMKLRVPPSPLWTSMFKAFDAAPTSINFAEV 209 Query: 60 YSALQTRIVDGQENPFPIIDTAKLYEVQKYCAMTSHAWDGYWLLANKKSFAALPLPLQEI 119 YSALQT+IV+GQENP II TAKLYEVQKYC++T+H WDG+W L NKKSF LP LQE+ Sbjct: 210 YSALQTKIVEGQENPMAIISTAKLYEVQKYCSITNHMWDGFWFLGNKKSFERLPKDLQEL 269 Query: 120 VSRNFNAAGVSQRTDSEKLAADLQQKLASKGLTFSKPSTDRFRQALQQGGFYKEWKTKFG 179 ++R N AGV+QR D KL L ++ KGL F+ D FR L+ GFY EWK KFG Sbjct: 270 MTRIINEAGVNQRADVRKLNDSLVDEMKGKGLAFNNADADSFRAKLRAAGFYAEWKKKFG 329 Query: 180 EEAWAHLESAVGKL 193 +E WA LE GKL Sbjct: 330 DEPWALLEKYTGKL 343 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 211 bits (538), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 96/194 (49%), Positives = 132/194 (68%), Gaps = 1/194 (0%) Query: 1 LHVFDKVWDNGFRHIT-SNKPIGAPEDLVSMKIRVPVSPLLLSIFKSLKAAPTPINFNEL 59 L K WDNGFR IT S KP+ D+ +K+RVP +P+L S+F +L A+PTPINFNE+ Sbjct: 151 LLTMSKPWDNGFRQITTSTKPVRNAGDVKGLKLRVPAAPMLTSLFSALGASPTPINFNEV 210 Query: 60 YSALQTRIVDGQENPFPIIDTAKLYEVQKYCAMTSHAWDGYWLLANKKSFAALPLPLQEI 119 YS+LQT++V+GQENP II TA+LYEVQK+C +++H WD YW+L N+++F LP +QEI Sbjct: 211 YSSLQTKLVEGQENPLAIISTARLYEVQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEI 270 Query: 120 VSRNFNAAGVSQRTDSEKLAADLQQKLASKGLTFSKPSTDRFRQALQQGGFYKEWKTKFG 179 V R + A +R D + + LASKGL + D F++AL + FYK+ + KFG Sbjct: 271 VRRELDKAASDERADIAAFSGFARNDLASKGLQIVEADKDSFKEALARANFYKDMRAKFG 330 Query: 180 EEAWAHLESAVGKL 193 E+AW LE +VG L Sbjct: 331 EDAWKLLEGSVGAL 344 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 209 bits (533), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 94/194 (48%), Positives = 133/194 (68%), Gaps = 1/194 (0%) Query: 1 LHVFDKVWDNGFRHIT-SNKPIGAPEDLVSMKIRVPVSPLLLSIFKSLKAAPTPINFNEL 59 L K WDNGFR IT S KPI DL +K+RVP +P+L S+F +L A+PTPINFNE+ Sbjct: 154 LLTMSKPWDNGFRQITTSTKPIKTAADLKGLKLRVPAAPMLTSLFSALGASPTPINFNEV 213 Query: 60 YSALQTRIVDGQENPFPIIDTAKLYEVQKYCAMTSHAWDGYWLLANKKSFAALPLPLQEI 119 YS+LQT++V+GQENP II TA+LYEVQK+C +++H WD YW+L N+++F LP +QEI Sbjct: 214 YSSLQTKLVEGQENPLAIISTARLYEVQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEI 273 Query: 120 VSRNFNAAGVSQRTDSEKLAADLQQKLASKGLTFSKPSTDRFRQALQQGGFYKEWKTKFG 179 V R + A +R D L+ + L KG+ + + F++AL +G FYK+ + KFG Sbjct: 274 VRRELDKAATDERADIASLSGFARNDLQGKGVQIIEADKNSFKEALARGSFYKDLRAKFG 333 Query: 180 EEAWAHLESAVGKL 193 ++AW L+++VG L Sbjct: 334 DDAWKLLQNSVGSL 347 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 97.4 bits (241), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 44/106 (41%), Positives = 71/106 (66%) Query: 8 WDNGFRHITSNKPIGAPEDLVSMKIRVPVSPLLLSIFKSLKAAPTPINFNELYSALQTRI 67 WDNGF+ +++NKP+ P D +K+R+ S +L + ++L A P + F+E+Y ALQT + Sbjct: 144 WDNGFKVMSANKPLHHPADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGV 203 Query: 68 VDGQENPFPIIDTAKLYEVQKYCAMTSHAWDGYWLLANKKSFAALP 113 VDG ENP + T K++EVQK+ +++H + GY ++ NKK + LP Sbjct: 204 VDGTENPPSNLYTQKMHEVQKHVTVSNHGYLGYAVIVNKKFWDGLP 249 >gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 93.2 bits (230), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 52/163 (31%), Positives = 93/163 (57%), Gaps = 6/163 (3%) Query: 8 WDNGFRHITSNKPIGAPEDLVSMKIRVPVSPLLLSIFKSLKAAPTPINFNELYSALQTRI 67 WDNG + +T+N+P+ D ++K+R+ S +L F++LKA P + F+E+Y A+QT + Sbjct: 152 WDNGMKVMTANRPLHKVADFRALKMRIQSSKVLDEQFRALKANPQVLAFSEVYQAMQTGV 211 Query: 68 VDGQENPFPIIDTAKLYEVQKYCAMTSHAWDGYWLLANKKSFAALPLPLQE-----IVSR 122 VDG EN + T K++EVQ ++ H + GY ++ NKK + ALP ++ + Sbjct: 212 VDGSENTPSNVYTQKMHEVQSNLTVSDHGYIGYAVIVNKKFWEALPADIRSQLEAAMKQA 271 Query: 123 NFNAAGVSQRTDSEKLAADLQQKLASKGLTFSKPSTDRFRQAL 165 A ++Q+ + + LAA ++ ++ T S+ +R+AL Sbjct: 272 TLYANTIAQKENDDALAA-IKASGKTRVYTLSEQEKAEWRRAL 313 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 0.318 0.132 0.399 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: 607,228 Number of extensions: 22658 Number of successful extensions: 86 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 83 Number of HSP's successfully gapped: 5 Length of query: 194 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 114 Effective length of database: 1,241,070 Effective search space: 141481980 Effective search space used: 141481980 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: 128 (53.9 bits)