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= 0018.0014.p (338 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... 388 e-109 gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind... 387 e-108 gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 140 1e-34 gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 132 3e-32 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 129 2e-31 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 388 bits (996), Expect = e-109, Method: Compositional matrix adjust. Identities = 186/324 (57%), Positives = 242/324 (74%), Gaps = 4/324 (1%) Query: 7 IVATAAIALFTTAVQAQTAQQPIIIKFSHVVAANTSKGKTADYFKKIVEERTGGRVKVEV 66 + TAA + T A AQQPI+IKFSHVVA +T KGK A+ FK++ E+ T GRVK+EV Sbjct: 8 LAMTAAAIVSTNAF----AQQPIVIKFSHVVANDTPKGKAAERFKELAEKATKGRVKIEV 63 Query: 67 YPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYLFDNMAQAQKVTQG 126 YPNS LYKDKEELEALQ+G+VQMLAP+ KFGP+GV+EFEVFDLPY+F +VT+G Sbjct: 64 YPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPTKEVLYRVTEG 123 Query: 127 PIGHALLKKLDAKGLTGLAMWDSGFLDWTSNKPIQKPSDIKGMKIRIQSSKVIDARTRVV 186 PIG L KKL+ KG+TGLA WD+GF ++NKP+ P+D +G+K+RIQSSKV+DA+ R + Sbjct: 124 PIGKDLFKKLEPKGITGLAYWDNGFKVMSANKPLHHPADFRGLKMRIQSSKVLDAQMRAL 183 Query: 187 GALPQVMPWSEIYQGLQTGVVDGQENPPSIVSTAKLFEVQKFMTISEHGYHGYVFIANKR 246 GA PQV+ +SE+YQ LQTGVVDG ENPPS + T K+ EVQK +T+S HGY GY I NK+ Sbjct: 184 GANPQVLAFSEVYQALQTGVVDGTENPPSNLYTQKMHEVQKHVTVSNHGYLGYAVIVNKK 243 Query: 247 FWDALPADLKPVMDKAVKDATEYFNSNAKKENDDALEDIRKTGKMKILTMTPEEKNEWKA 306 FWD LP+D++ ++ A+KDAT+Y N+ A++END AL + KTGK + +T EK EW+ Sbjct: 244 FWDGLPSDIRTQLEGAMKDATKYANAIAQQENDAALAAVEKTGKTTVYRLTDAEKAEWRK 303 Query: 307 IQYKVHREMEDRIGKDLIQSIYKE 330 V ++M RIGKDLI ++ KE Sbjct: 304 ALLPVQQQMASRIGKDLIDAVNKE 327 >gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 387 bits (993), Expect = e-108, Method: Compositional matrix adjust. Identities = 184/325 (56%), Positives = 241/325 (74%) Query: 6 AIVATAAIALFTTAVQAQTAQQPIIIKFSHVVAANTSKGKTADYFKKIVEERTGGRVKVE 65 A A + L A AQ QQPIIIKFSHVVA +T KGK A+ FK++ E+ T GRVKVE Sbjct: 11 AACAFVTLGLPQPAALAQQPQQPIIIKFSHVVANDTPKGKGAERFKELAEKATQGRVKVE 70 Query: 66 VYPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYLFDNMAQAQKVTQ 125 VYPNS LYKDKEELEALQ+GSVQMLAP+ KFGP+G REFEVFDLPY+F + A ++VT+ Sbjct: 71 VYPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPLGAREFEVFDLPYIFPDKAVLKRVTE 130 Query: 126 GPIGHALLKKLDAKGLTGLAMWDSGFLDWTSNKPIQKPSDIKGMKIRIQSSKVIDARTRV 185 GPIG L +KL+ KG+ GLA WD+G T+N+P+ K +D + +K+RIQSSKV+D + R Sbjct: 131 GPIGQGLFQKLEGKGIKGLAYWDNGMKVMTANRPLHKVADFRALKMRIQSSKVLDEQFRA 190 Query: 186 VGALPQVMPWSEIYQGLQTGVVDGQENPPSIVSTAKLFEVQKFMTISEHGYHGYVFIANK 245 + A PQV+ +SE+YQ +QTGVVDG EN PS V T K+ EVQ +T+S+HGY GY I NK Sbjct: 191 LKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDHGYIGYAVIVNK 250 Query: 246 RFWDALPADLKPVMDKAVKDATEYFNSNAKKENDDALEDIRKTGKMKILTMTPEEKNEWK 305 +FW+ALPAD++ ++ A+K AT Y N+ A+KENDDAL I+ +GK ++ T++ +EK EW+ Sbjct: 251 KFWEALPADIRSQLEAAMKQATLYANTIAQKENDDALAAIKASGKTRVYTLSEQEKAEWR 310 Query: 306 AIQYKVHREMEDRIGKDLIQSIYKE 330 VH+ M R+G DLI++IYKE Sbjct: 311 RALLPVHKSMAARVGADLIEAIYKE 335 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 140 bits (353), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 144/240 (60%), Gaps = 6/240 (2%) Query: 54 VEERTGGRVKVEVYPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYL 113 + E++ GR+++++YPN+QL D + L ++ G++ + G + V ++ + + Sbjct: 63 IAEQSKGRIELQLYPNNQLGTDTDMLSQVRAGAIDFFTLSPLILGTL-VPAAQISGIGFA 121 Query: 114 FDNMAQAQKVTQGPIGHALLKKLDAKGLTGLA---MWDSGFLDWT-SNKPIQKPSDIKGM 169 F + +Q G +G + K+++A+ T A +WD+G+ T S KPI+ D+KGM Sbjct: 122 FKDYSQVWPAMDGELGAHVRKQIEARS-TLFAFEKIWDNGYRQITNSTKPIKVAEDLKGM 180 Query: 170 KIRIQSSKVIDARTRVVGALPQVMPWSEIYQGLQTGVVDGQENPPSIVSTAKLFEVQKFM 229 K+R+ S + + + A P + ++E+Y LQT +V+GQENP +I+STAKL+EVQK+ Sbjct: 181 KLRVPPSPLWTSMFKAFDAAPTSINFAEVYSALQTKIVEGQENPMAIISTAKLYEVQKYC 240 Query: 230 TISEHGYHGYVFIANKRFWDALPADLKPVMDKAVKDATEYFNSNAKKENDDALEDIRKTG 289 +I+ H + G+ F+ NK+ ++ LP DL+ +M + + +A ++ +K ND +++++ G Sbjct: 241 SITNHMWDGFWFLGNKKSFERLPKDLQELMTRIINEAGVNQRADVRKLNDSLVDEMKGKG 300 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 132 bits (333), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 82/270 (30%), Positives = 146/270 (54%), Gaps = 8/270 (2%) Query: 2 QHWKAIVATAAIALFTTAVQAQTAQQPIIIKFSHVVAANTSKGKTADYFKKIVEERTGGR 61 Q KA AA+ LF+ + A + KF+ + K A + E TGGR Sbjct: 17 QLLKAGAVGAALPLFSIMSRPANAAE-FNYKFATGQDPSHPVNKRAQQAIDRIREATGGR 75 Query: 62 VKVEVYPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYLFDNMAQAQ 121 + ++++P +QL D + + ++ G V+ + V + + + F + + Sbjct: 76 LDIKLFPANQLGSDTDLMSQIRNGGVEFFNQASVVLSTL-VPAAGIVNTGFAFHDYKEVW 134 Query: 122 KVTQGPIGHALLKKLDAKGLTGLAM-WDSGFLD-WTSNKPIQKPSDIKGMKIRIQSSKVI 179 + GP+G + +++ GL ++ WD+GF TS KPI+ +D+KG+K+R+ ++ ++ Sbjct: 135 QAMDGPLGAYVRAQIEKVGLLTMSKPWDNGFRQITTSTKPIKTAADLKGLKLRVPAAPML 194 Query: 180 DARTRVVGALPQVMPWSEIYQGLQTGVVDGQENPPSIVSTAKLFEVQKFMTISEHGYHGY 239 + +GA P + ++E+Y LQT +V+GQENP +I+STA+L+EVQKF TIS H + Y Sbjct: 195 TSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEVQKFCTISNHVWDAY 254 Query: 240 VFIANKRFWDALPADLKPV----MDKAVKD 265 + N+R ++ LP D++ + +DKA D Sbjct: 255 WILGNRRAFEKLPKDIQEIVRRELDKAATD 284 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 129 bits (325), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 125/218 (57%), Gaps = 7/218 (3%) Query: 54 VEERTGGRVKVEVYPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYL 113 + T GR++++++P +QL D + + ++ G V+ + V + + + Sbjct: 65 IRNATNGRLEIKLFPANQLGSDTDLMSQVRNGGVEFFNQANTVLSTL-VPAAGIVNTGFA 123 Query: 114 FDNMAQAQKVTQGPIGHALLKKLDAKGLTGLAM-WDSGFLD-WTSNKPIQKPSDIKGMKI 171 F + K GP+G + +++ GL ++ WD+GF TS KP++ D+KG+K+ Sbjct: 124 FHDYGAVWKAMDGPLGAHVRAQIEKVGLLTMSKPWDNGFRQITTSTKPVRNAGDVKGLKL 183 Query: 172 RIQSSKVIDARTRVVGALPQVMPWSEIYQGLQTGVVDGQENPPSIVSTAKLFEVQKFMTI 231 R+ ++ ++ + +GA P + ++E+Y LQT +V+GQENP +I+STA+L+EVQKF TI Sbjct: 184 RVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEVQKFCTI 243 Query: 232 SEHGYHGYVFIANKRFWDALPADLKPV----MDKAVKD 265 S H + Y + N+R ++ LP D++ + +DKA D Sbjct: 244 SNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAASD 281 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 0.133 0.388 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: 984,766 Number of extensions: 37200 Number of successful extensions: 121 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 6 Length of query: 338 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 252 Effective length of database: 1,212,660 Effective search space: 305590320 Effective search space used: 305590320 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: 131 (55.1 bits)