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= 0218.0010.p (288 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind... 104 1e-23 gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 100 2e-22 gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran... 92 5e-20 gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 86 3e-18 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 84 1e-17 >gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 70/288 (24%), Positives = 136/288 (47%), Gaps = 9/288 (3%) Query: 2 QHFKELVDKESKGRYSVSLYTDGQLGDIPQLLSAMQVGTVDMGYFGLSSISFVRGGEPLN 61 + FKEL +K ++GR V +Y + L + L A+Q+G+V M L+ + G Sbjct: 53 ERFKELAEKATQGRVKVEVYPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPL-GAREFE 111 Query: 62 IIYVPYLFKNGEWAEKILNNAEFNGIYEKVAGSSGVRVFGAWGQRSARALQTTKGPIRKP 121 + +PY+F + +++ G+++K+ G G++ W + + T P+ K Sbjct: 112 VFDLPYIFPDKAVLKRVTEGPIGQGLFQKLEGK-GIKGLAYWD--NGMKVMTANRPLHKV 168 Query: 122 EDLRGMRLRIPTIPILKASFERIGVQVTPMGMMEIYSALSRGMIDGQDNGFDLSIPAKYH 181 D R +++RI + +L F + + E+Y A+ G++DG +N K H Sbjct: 169 ADFRALKMRIQSSKVLDEQFRALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMH 228 Query: 182 ETAKFWSATDHVYEIVGFFVSERLWKTLSEADKAMFKKAAQEAGAVTTDLTKKFEKESID 241 E + +DH Y V+++ W+ L ++ + A ++A + +K +++ Sbjct: 229 EVQSNLTVSDHGYIGYAVIVNKKFWEALPADIRSQLEAAMKQATLYANTIAQKENDDALA 288 Query: 242 TLKAAGVTYVVP----DKAAFRAAFAGVEKSQDGKLWPAGLVDRVHKE 285 +KA+G T V +KA +R A V KS ++ A L++ ++KE Sbjct: 289 AIKASGKTRVYTLSEQEKAEWRRALLPVHKSMAARVG-ADLIEAIYKE 335 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 100 bits (248), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 63/253 (24%), Positives = 121/253 (47%), Gaps = 2/253 (0%) Query: 8 VDKESKGRYSVSLYTDGQLGDIPQLLSAMQVGTVDMGYFGLSSISFVRGGEPLNIIYVPY 67 + ++SKGR + LY + QLG +LS ++ G +D +F LS + I + + Sbjct: 63 IAEQSKGRIELQLYPNNQLGTDTDMLSQVRAGAID--FFTLSPLILGTLVPAAQISGIGF 120 Query: 68 LFKNGEWAEKILNNAEFNGIYEKVAGSSGVRVFGAWGQRSARALQTTKGPIRKPEDLRGM 127 FK+ ++ + +++ S + F R + + PI+ EDL+GM Sbjct: 121 AFKDYSQVWPAMDGELGAHVRKQIEARSTLFAFEKIWDNGYRQITNSTKPIKVAEDLKGM 180 Query: 128 RLRIPTIPILKASFERIGVQVTPMGMMEIYSALSRGMIDGQDNGFDLSIPAKYHETAKFW 187 +LR+P P+ + F+ T + E+YSAL +++GQ+N + AK +E K+ Sbjct: 181 KLRVPPSPLWTSMFKAFDAAPTSINFAEVYSALQTKIVEGQENPMAIISTAKLYEVQKYC 240 Query: 188 SATDHVYEIVGFFVSERLWKTLSEADKAMFKKAAQEAGAVTTDLTKKFEKESIDTLKAAG 247 S T+H+++ F +++ ++ L + + + + EAG +K +D +K G Sbjct: 241 SITNHMWDGFWFLGNKKSFERLPKDLQELMTRIINEAGVNQRADVRKLNDSLVDEMKGKG 300 Query: 248 VTYVVPDKAAFRA 260 + + D +FRA Sbjct: 301 LAFNNADADSFRA 313 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 92.0 bits (227), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 67/288 (23%), Positives = 129/288 (44%), Gaps = 9/288 (3%) Query: 2 QHFKELVDKESKGRYSVSLYTDGQLGDIPQLLSAMQVGTVDMGYFGLSSISFVRGGEPLN 61 + FKEL +K +KGR + +Y + L + L A+Q+G V M L+ + G + Sbjct: 45 ERFKELAEKATKGRVKIEVYPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPL-GVKEFE 103 Query: 62 IIYVPYLFKNGEWAEKILNNAEFNGIYEKVAGSSGVRVFGAWGQRSARALQTTKGPIRKP 121 + +PY+F E ++ +++K+ G+ W + + + P+ P Sbjct: 104 VFDLPYIFPTKEVLYRVTEGPIGKDLFKKLE-PKGITGLAYWD--NGFKVMSANKPLHHP 160 Query: 122 EDLRGMRLRIPTIPILKASFERIGVQVTPMGMMEIYSALSRGMIDGQDNGFDLSIPAKYH 181 D RG+++RI + +L A +G + E+Y AL G++DG +N K H Sbjct: 161 ADFRGLKMRIQSSKVLDAQMRALGANPQVLAFSEVYQALQTGVVDGTENPPSNLYTQKMH 220 Query: 182 ETAKFWSATDHVYEIVGFFVSERLWKTLSEADKAMFKKAAQEAGAVTTDLTKKFEKESID 241 E K + ++H Y V+++ W L + + A ++A + ++ ++ Sbjct: 221 EVQKHVTVSNHGYLGYAVIVNKKFWDGLPSDIRTQLEGAMKDATKYANAIAQQENDAALA 280 Query: 242 TLKAAGVTYVV----PDKAAFRAAFAGVEKSQDGKLWPAGLVDRVHKE 285 ++ G T V +KA +R A V++ ++ L+D V+KE Sbjct: 281 AVEKTGKTTVYRLTDAEKAEWRKALLPVQQQMASRIG-KDLIDAVNKE 327 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 85.9 bits (211), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 69/269 (25%), Positives = 128/269 (47%), Gaps = 17/269 (6%) Query: 2 QHFKELVDKESKGRYSVSLYTDGQLGDIPQLLSAMQVGTVDMGYFGLSSISFVRGGEPLN 61 Q + + + + GR + L+ QLG L+S ++ G V+ +F +S+ Sbjct: 62 QQAIDRIREATGGRLDIKLFPANQLGSDTDLMSQIRNGGVE--FFNQASVVLSTLVPAAG 119 Query: 62 IIYVPYLFKNGEWAEKILNN---AEFNGIYEKVAGSSGVRVFGAWGQRSARALQTTKGPI 118 I+ + F + + + ++ A EKV G+ R + T+ PI Sbjct: 120 IVNTGFAFHDYKEVWQAMDGPLGAYVRAQIEKV----GLLTMSKPWDNGFRQITTSTKPI 175 Query: 119 RKPEDLRGMRLRIPTIPILKASFERIGVQVTPMGMMEIYSALSRGMIDGQDNGFDLSIPA 178 + DL+G++LR+P P+L + F +G TP+ E+YS+L +++GQ+N + A Sbjct: 176 KTAADLKGLKLRVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTA 235 Query: 179 KYHETAKFWSATDHVYE---IVGFFVS-ERLWKTLSEADKAMFKKAAQEAGAVTTDLTKK 234 + +E KF + ++HV++ I+G + E+L K + E + KAA + A L+ Sbjct: 236 RLYEVQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAATDERADIASLS-G 294 Query: 235 FEKESIDTLKAAGVTYVVPDKAAFRAAFA 263 F + + L+ GV + DK +F+ A A Sbjct: 295 FAR---NDLQGKGVQIIEADKNSFKEALA 320 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 61/265 (23%), Positives = 122/265 (46%), Gaps = 12/265 (4%) Query: 5 KELVDK---ESKGRYSVSLYTDGQLGDIPQLLSAMQVGTVDMGYFGLSSISFVRGGEPLN 61 +E +D+ + GR + L+ QLG L+S ++ G V+ +F ++ Sbjct: 59 QEAIDRIRNATNGRLEIKLFPANQLGSDTDLMSQVRNGGVE--FFNQANTVLSTLVPAAG 116 Query: 62 IIYVPYLFKNGEWAEKILNN---AEFNGIYEKVAGSSGVRVFGAWGQRSARALQTTKGPI 118 I+ + F + K ++ A EKV G+ R + T+ P+ Sbjct: 117 IVNTGFAFHDYGAVWKAMDGPLGAHVRAQIEKV----GLLTMSKPWDNGFRQITTSTKPV 172 Query: 119 RKPEDLRGMRLRIPTIPILKASFERIGVQVTPMGMMEIYSALSRGMIDGQDNGFDLSIPA 178 R D++G++LR+P P+L + F +G TP+ E+YS+L +++GQ+N + A Sbjct: 173 RNAGDVKGLKLRVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTA 232 Query: 179 KYHETAKFWSATDHVYEIVGFFVSERLWKTLSEADKAMFKKAAQEAGAVTTDLTKKFEKE 238 + +E KF + ++HV++ + R ++ L + + + ++ +A + F Sbjct: 233 RLYEVQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAASDERADIAAFSGF 292 Query: 239 SIDTLKAAGVTYVVPDKAAFRAAFA 263 + + L + G+ V DK +F+ A A Sbjct: 293 ARNDLASKGLQIVEADKDSFKEALA 317 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 0.135 0.396 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: 881,646 Number of extensions: 35268 Number of successful extensions: 102 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 97 Number of HSP's successfully gapped: 5 Length of query: 288 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 204 Effective length of database: 1,222,130 Effective search space: 249314520 Effective search space used: 249314520 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: 130 (54.7 bits)