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= 0020.0064.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... 393 e-110 gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind... 387 e-109 gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 141 1e-34 gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 133 3e-32 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 132 4e-32 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 393 bits (1010), Expect = e-110, Method: Compositional matrix adjust. Identities = 190/324 (58%), Positives = 244/324 (75%), Gaps = 4/324 (1%) Query: 7 IAATAAIILFTAAAQAQTAQQPIVIKFSHVVAANTSKGKTADYFKKIVEERTSGRVKVEV 66 +A TAA I+ T A AQQPIVIKFSHVVA +T KGK A+ FK++ E+ T GRVK+EV Sbjct: 8 LAMTAAAIVSTNA----FAQQPIVIKFSHVVANDTPKGKAAERFKELAEKATKGRVKIEV 63 Query: 67 YPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYLFDNMAQAQKVTQG 126 YPNS LYKDKEELEALQ+G+VQMLAP+ KFGP+GV+EFEVFDLPY+F +VT+G Sbjct: 64 YPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPTKEVLYRVTEG 123 Query: 127 PIGHALLKKLDAKGLTGLAMWDSGFLDWTSNKPIQKPADIKGMKIRIQSSKVIDARTRVV 186 PIG L KKL+ KG+TGLA WD+GF ++NKP+ PAD +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 FWDSLPADLKPVMDKAVKDATEYFNSNAKKENDDALEDIRKTGKMKILSMTPEEKNEWKA 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-109, Method: Compositional matrix adjust. Identities = 185/327 (56%), Positives = 245/327 (74%), Gaps = 2/327 (0%) Query: 6 AIAATAAIILFTA--AAQAQTAQQPIVIKFSHVVAANTSKGKTADYFKKIVEERTSGRVK 63 A+AA A + L AA AQ QQPI+IKFSHVVA +T KGK A+ FK++ E+ T GRVK Sbjct: 9 ALAACAFVTLGLPQPAALAQQPQQPIIIKFSHVVANDTPKGKGAERFKELAEKATQGRVK 68 Query: 64 VEVYPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYLFDNMAQAQKV 123 VEVYPNS LYKDKEELEALQ+GSVQMLAP+ KFGP+G REFEVFDLPY+F + A ++V Sbjct: 69 VEVYPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPLGAREFEVFDLPYIFPDKAVLKRV 128 Query: 124 TQGPIGHALLKKLDAKGLTGLAMWDSGFLDWTSNKPIQKPADIKGMKIRIQSSKVIDART 183 T+GPIG L +KL+ KG+ GLA WD+G T+N+P+ K AD + +K+RIQSSKV+D + Sbjct: 129 TEGPIGQGLFQKLEGKGIKGLAYWDNGMKVMTANRPLHKVADFRALKMRIQSSKVLDEQF 188 Query: 184 RVVGALPQVMPWSEIYQGLQTGVVDGQENPPSIVSTAKLFEVQKFMTISEHGYHGYVFIA 243 R + A PQV+ +SE+YQ +QTGVVDG EN PS V T K+ EVQ +T+S+HGY GY I Sbjct: 189 RALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDHGYIGYAVIV 248 Query: 244 NKRFWDSLPADLKPVMDKAVKDATEYFNSNAKKENDDALEDIRKTGKMKILSMTPEEKNE 303 NK+FW++LPAD++ ++ A+K AT Y N+ A+KENDDAL I+ +GK ++ +++ +EK E Sbjct: 249 NKKFWEALPADIRSQLEAAMKQATLYANTIAQKENDDALAAIKASGKTRVYTLSEQEKAE 308 Query: 304 WKAIQYKVHREMEDRIGKDLIQSIYKE 330 W+ VH+ M R+G DLI++IYKE Sbjct: 309 WRRALLPVHKSMAARVGADLIEAIYKE 335 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 141 bits (355), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 144/240 (60%), Gaps = 6/240 (2%) Query: 54 VEERTSGRVKVEVYPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYL 113 + E++ GR+++++YPN+QL D + L ++ G++ + G + V ++ + + Sbjct: 63 IAEQSKGRIELQLYPNNQLGTDTDMLSQVRAGAIDFFTLSPLILGTL-VPAAQISGIGFA 121 Query: 114 FDNMAQAQKVTQGPIGHALLKKLDAKGLTGLA---MWDSGFLDWT-SNKPIQKPADIKGM 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 TISEHGYHGYVFIANKRFWDSLPADLKPVMDKAVKDATEYFNSNAKKENDDALEDIRKTG 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 = 133 bits (334), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 83/270 (30%), Positives = 147/270 (54%), Gaps = 8/270 (2%) Query: 2 QHWKAIAATAAIILFTAAAQAQTAQQPIVIKFSHVVAANTSKGKTADYFKKIVEERTSGR 61 Q KA A AA+ LF+ ++ A + KF+ + K A + E T GR 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-WTSNKPIQKPADIKGMKIRIQSSKVI 179 + GP+G + +++ GL ++ WD+GF TS KPI+ AD+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 VFIANKRFWDSLPADLKPV----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 = 132 bits (332), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 80/267 (29%), Positives = 146/267 (54%), Gaps = 8/267 (2%) Query: 5 KAIAATAAIILFTAAAQAQTAQQPIVIKFSHVVAANTSKGKTADYFKKIVEERTSGRVKV 64 KA A AA+ LF+ ++ +A + KF+ + K A + T+GR+++ Sbjct: 17 KAGAVGAALPLFSILSRPASAAE-FSYKFATGQDPSHPVNKRAQEAIDRIRNATNGRLEI 75 Query: 65 EVYPNSQLYKDKEELEALQMGSVQMLAPTFGKFGPMGVREFEVFDLPYLFDNMAQAQKVT 124 +++P +QL D + + ++ G V+ + V + + + F + K Sbjct: 76 KLFPANQLGSDTDLMSQVRNGGVEFFNQANTVLSTL-VPAAGIVNTGFAFHDYGAVWKAM 134 Query: 125 QGPIGHALLKKLDAKGLTGLAM-WDSGFLD-WTSNKPIQKPADIKGMKIRIQSSKVIDAR 182 GP+G + +++ GL ++ WD+GF TS KP++ D+KG+K+R+ ++ ++ + Sbjct: 135 DGPLGAHVRAQIEKVGLLTMSKPWDNGFRQITTSTKPVRNAGDVKGLKLRVPAAPMLTSL 194 Query: 183 TRVVGALPQVMPWSEIYQGLQTGVVDGQENPPSIVSTAKLFEVQKFMTISEHGYHGYVFI 242 +GA P + ++E+Y LQT +V+GQENP +I+STA+L+EVQKF TIS H + Y + Sbjct: 195 FSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEVQKFCTISNHVWDAYWIL 254 Query: 243 ANKRFWDSLPADLKPV----MDKAVKD 265 N+R ++ LP D++ + +DKA D Sbjct: 255 GNRRAFEKLPKDIQEIVRRELDKAASD 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 0.316 0.132 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: 943,580 Number of extensions: 35628 Number of successful extensions: 117 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 113 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)