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= 0013.0161.p (195 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 368 e-103 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 355 2e-99 gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 231 4e-62 gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran... 97 1e-21 gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind... 83 2e-17 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 368 bits (944), Expect = e-103, Method: Compositional matrix adjust. Identities = 176/195 (90%), Positives = 186/195 (95%) Query: 1 LLTMSRPWDNGFRQITTSTKAVKTAGDLKGLKLRVPAAPMLTSLFTALGASPTPINFNEV 60 LLTMS+PWDNGFRQITTSTK +KTA DLKGLKLRVPAAPMLTSLF+ALGASPTPINFNEV Sbjct: 154 LLTMSKPWDNGFRQITTSTKPIKTAADLKGLKLRVPAAPMLTSLFSALGASPTPINFNEV 213 Query: 61 YSSLQTKLVEGQENPLAIISTARLYEVQKFCAMSNHVWDAYWILGNRRAIERLPKDIQEI 120 YSSLQTKLVEGQENPLAIISTARLYEVQKFC +SNHVWDAYWILGNRRA E+LPKDIQEI Sbjct: 214 YSSLQTKLVEGQENPLAIISTARLYEVQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEI 273 Query: 121 VRRELDKAATDERADIASLSISARNDLAAKGVQIIEPDKNSFKDALAKGTFYKDLRSKFG 180 VRRELDKAATDERADIASLS ARNDL KGVQIIE DKNSFK+ALA+G+FYKDLR+KFG Sbjct: 274 VRRELDKAATDERADIASLSGFARNDLQGKGVQIIEADKNSFKEALARGSFYKDLRAKFG 333 Query: 181 EDAWKLLQNSVGSLG 195 +DAWKLLQNSVGSLG Sbjct: 334 DDAWKLLQNSVGSLG 348 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 355 bits (910), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 166/195 (85%), Positives = 184/195 (94%) Query: 1 LLTMSRPWDNGFRQITTSTKAVKTAGDLKGLKLRVPAAPMLTSLFTALGASPTPINFNEV 60 LLTMS+PWDNGFRQITTSTK V+ AGD+KGLKLRVPAAPMLTSLF+ALGASPTPINFNEV Sbjct: 151 LLTMSKPWDNGFRQITTSTKPVRNAGDVKGLKLRVPAAPMLTSLFSALGASPTPINFNEV 210 Query: 61 YSSLQTKLVEGQENPLAIISTARLYEVQKFCAMSNHVWDAYWILGNRRAIERLPKDIQEI 120 YSSLQTKLVEGQENPLAIISTARLYEVQKFC +SNHVWDAYWILGNRRA E+LPKDIQEI Sbjct: 211 YSSLQTKLVEGQENPLAIISTARLYEVQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEI 270 Query: 121 VRRELDKAATDERADIASLSISARNDLAAKGVQIIEPDKNSFKDALAKGTFYKDLRSKFG 180 VRRELDKAA+DERADIA+ S ARNDLA+KG+QI+E DK+SFK+ALA+ FYKD+R+KFG Sbjct: 271 VRRELDKAASDERADIAAFSGFARNDLASKGLQIVEADKDSFKEALARANFYKDMRAKFG 330 Query: 181 EDAWKLLQNSVGSLG 195 EDAWKLL+ SVG+LG Sbjct: 331 EDAWKLLEGSVGALG 345 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 231 bits (588), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 101/194 (52%), Positives = 143/194 (73%) Query: 1 LLTMSRPWDNGFRQITTSTKAVKTAGDLKGLKLRVPAAPMLTSLFTALGASPTPINFNEV 60 L + WDNG+RQIT STK +K A DLKG+KLRVP +P+ TS+F A A+PT INF EV Sbjct: 150 LFAFEKIWDNGYRQITNSTKPIKVAEDLKGMKLRVPPSPLWTSMFKAFDAAPTSINFAEV 209 Query: 61 YSSLQTKLVEGQENPLAIISTARLYEVQKFCAMSNHVWDAYWILGNRRAIERLPKDIQEI 120 YS+LQTK+VEGQENP+AIISTA+LYEVQK+C+++NH+WD +W LGN+++ ERLPKD+QE+ Sbjct: 210 YSALQTKIVEGQENPMAIISTAKLYEVQKYCSITNHMWDGFWFLGNKKSFERLPKDLQEL 269 Query: 121 VRRELDKAATDERADIASLSISARNDLAAKGVQIIEPDKNSFKDALAKGTFYKDLRSKFG 180 + R +++A ++RAD+ L+ S +++ KG+ D +SF+ L FY + + KFG Sbjct: 270 MTRIINEAGVNQRADVRKLNDSLVDEMKGKGLAFNNADADSFRAKLRAAGFYAEWKKKFG 329 Query: 181 EDAWKLLQNSVGSL 194 ++ W LL+ G L Sbjct: 330 DEPWALLEKYTGKL 343 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 96.7 bits (239), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 47/124 (37%), Positives = 79/124 (63%), Gaps = 5/124 (4%) Query: 8 WDNGFRQITTSTKAVKTAGDLKGLKLRVPAAPMLTSLFTALGASPTPINFNEVYSSLQTK 67 WDNGF+ + ++ K + D +GLK+R+ ++ +L + ALGA+P + F+EVY +LQT Sbjct: 144 WDNGFK-VMSANKPLHHPADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTG 202 Query: 68 LVEGQENPLAIISTARLYEVQKFCAMSNHVWDAYWILGNRRAIERLPKDIQEIVRRELDK 127 +V+G ENP + + T +++EVQK +SNH + Y ++ N++ + LP DI R +L+ Sbjct: 203 VVDGTENPPSNLYTQKMHEVQKHVTVSNHGYLGYAVIVNKKFWDGLPSDI----RTQLEG 258 Query: 128 AATD 131 A D Sbjct: 259 AMKD 262 >gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 82.8 bits (203), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 39/121 (32%), Positives = 73/121 (60%), Gaps = 1/121 (0%) Query: 8 WDNGFRQITTSTKAVKTAGDLKGLKLRVPAAPMLTSLFTALGASPTPINFNEVYSSLQTK 67 WDNG + + T+ + + D + LK+R+ ++ +L F AL A+P + F+EVY ++QT Sbjct: 152 WDNGMK-VMTANRPLHKVADFRALKMRIQSSKVLDEQFRALKANPQVLAFSEVYQAMQTG 210 Query: 68 LVEGQENPLAIISTARLYEVQKFCAMSNHVWDAYWILGNRRAIERLPKDIQEIVRRELDK 127 +V+G EN + + T +++EVQ +S+H + Y ++ N++ E LP DI+ + + + Sbjct: 211 VVDGSENTPSNVYTQKMHEVQSNLTVSDHGYIGYAVIVNKKFWEALPADIRSQLEAAMKQ 270 Query: 128 A 128 A Sbjct: 271 A 271 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 0.132 0.379 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: 560,591 Number of extensions: 20449 Number of successful extensions: 59 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 61 Number of HSP's successfully gapped: 5 Length of query: 195 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 115 Effective length of database: 1,241,070 Effective search space: 142723050 Effective search space used: 142723050 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)