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= 0021.0098.p (240 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... 458 e-130 gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran... 388 e-109 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 99 3e-22 gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 96 3e-21 gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 93 2e-20 >gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 458 bits (1178), Expect = e-130, Method: Compositional matrix adjust. Identities = 222/243 (91%), Positives = 226/243 (93%), Gaps = 3/243 (1%) Query: 1 MTIITKRAALTACAFATLSLSATAVLAQQT---IVIKFSHVVANDTPKGKGAERFKELAE 57 MTI+ R AL ACAF TL L A LAQQ I+IKFSHVVANDTPKGKGAERFKELAE Sbjct: 1 MTILPLRTALAACAFVTLGLPQPAALAQQPQQPIIIKFSHVVANDTPKGKGAERFKELAE 60 Query: 58 KATHGRVKVEVYPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPLGAKEFEVFDLPYIFP 117 KAT GRVKVEVYPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPLGA+EFEVFDLPYIFP Sbjct: 61 KATQGRVKVEVYPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPLGAREFEVFDLPYIFP 120 Query: 118 NKTVLKRVTEGPIGQGLFQKLESKGIKGLAYWDNGMKVMTANRPLHKVADFRALKMRIQS 177 +K VLKRVTEGPIGQGLFQKLE KGIKGLAYWDNGMKVMTANRPLHKVADFRALKMRIQS Sbjct: 121 DKAVLKRVTEGPIGQGLFQKLEGKGIKGLAYWDNGMKVMTANRPLHKVADFRALKMRIQS 180 Query: 178 SKVLDEQFRALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDHG 237 SKVLDEQFRALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDHG Sbjct: 181 SKVLDEQFRALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDHG 240 Query: 238 YIG 240 YIG Sbjct: 241 YIG 243 >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 = 187/232 (80%), Positives = 202/232 (87%), Gaps = 5/232 (2%) Query: 9 ALTACAFATLSLSATAVLAQQTIVIKFSHVVANDTPKGKGAERFKELAEKATHGRVKVEV 68 A+TA A + T AQQ IVIKFSHVVANDTPKGK AERFKELAEKAT GRVK+EV Sbjct: 9 AMTAAAIVS-----TNAFAQQPIVIKFSHVVANDTPKGKAAERFKELAEKATKGRVKIEV 63 Query: 69 YPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPLGAKEFEVFDLPYIFPNKTVLKRVTEG 128 YPNSTLYKDKEELEALQLG+VQMLAPSLAKFGPLG KEFEVFDLPYIFP K VL RVTEG Sbjct: 64 YPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPTKEVLYRVTEG 123 Query: 129 PIGQGLFQKLESKGIKGLAYWDNGMKVMTANRPLHKVADFRALKMRIQSSKVLDEQFRAL 188 PIG+ LF+KLE KGI GLAYWDNG KVM+AN+PLH ADFR LKMRIQSSKVLD Q RAL Sbjct: 124 PIGKDLFKKLEPKGITGLAYWDNGFKVMSANKPLHHPADFRGLKMRIQSSKVLDAQMRAL 183 Query: 189 KANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDHGYIG 240 ANPQVLAFSEVYQA+QTGVVDG+EN PSN+YTQKMHEVQ ++TVS+HGY+G Sbjct: 184 GANPQVLAFSEVYQALQTGVVDGTENPPSNLYTQKMHEVQKHVTVSNHGYLG 235 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 99.0 bits (245), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 63/244 (25%), Positives = 129/244 (52%), Gaps = 14/244 (5%) Query: 4 ITKRAALTACAFATLSLSATAVLAQQTIVIKFSHVVAN----DTPKGKGAERFKELAEKA 59 +T+R L A A +L ++L++ +FS+ A P K A+ + A Sbjct: 10 VTRRNMLKAGAVGA-ALPLFSILSRPASAAEFSYKFATGQDPSHPVNKRAQEAIDRIRNA 68 Query: 60 THGRVKVEVYPNSTLYKDKEELEALQLGSVQMLAPS---LAKFGPLGAKEFEVFDLPYIF 116 T+GR++++++P + L D + + ++ G V+ + L+ P + + + F Sbjct: 69 TNGRLEIKLFPANQLGSDTDLMSQVRNGGVEFFNQANTVLSTLVPAAG----IVNTGFAF 124 Query: 117 PNKTVLKRVTEGPIGQGLFQKLESKGIKGLAY-WDNGMK-VMTANRPLHKVADFRALKMR 174 + + + +GP+G + ++E G+ ++ WDNG + + T+ +P+ D + LK+R Sbjct: 125 HDYGAVWKAMDGPLGAHVRAQIEKVGLLTMSKPWDNGFRQITTSTKPVRNAGDVKGLKLR 184 Query: 175 IQSSKVLDEQFRALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVS 234 + ++ +L F AL A+P + F+EVY ++QT +V+G EN + + T +++EVQ T+S Sbjct: 185 VPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEVQKFCTIS 244 Query: 235 DHGY 238 +H + Sbjct: 245 NHVW 248 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 95.5 bits (236), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 62/246 (25%), Positives = 131/246 (53%), Gaps = 14/246 (5%) Query: 2 TIITKRAALTACAFATLSLSATAVLAQQTIVIKFSHVVAN----DTPKGKGAERFKELAE 57 T +++R L A A +L +++++ +F++ A P K A++ + Sbjct: 11 TSVSRRQLLKAGAVGA-ALPLFSIMSRPANAAEFNYKFATGQDPSHPVNKRAQQAIDRIR 69 Query: 58 KATHGRVKVEVYPNSTLYKDKEELEALQLGSVQMLAPS---LAKFGPLGAKEFEVFDLPY 114 +AT GR+ ++++P + L D + + ++ G V+ + L+ P + + + Sbjct: 70 EATGGRLDIKLFPANQLGSDTDLMSQIRNGGVEFFNQASVVLSTLVPAAG----IVNTGF 125 Query: 115 IFPNKTVLKRVTEGPIGQGLFQKLESKGIKGLAY-WDNGMK-VMTANRPLHKVADFRALK 172 F + + + +GP+G + ++E G+ ++ WDNG + + T+ +P+ AD + LK Sbjct: 126 AFHDYKEVWQAMDGPLGAYVRAQIEKVGLLTMSKPWDNGFRQITTSTKPIKTAADLKGLK 185 Query: 173 MRIQSSKVLDEQFRALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLT 232 +R+ ++ +L F AL A+P + F+EVY ++QT +V+G EN + + T +++EVQ T Sbjct: 186 LRVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEVQKFCT 245 Query: 233 VSDHGY 238 +S+H + Sbjct: 246 ISNHVW 251 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 92.8 bits (229), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 57/227 (25%), Positives = 119/227 (52%), Gaps = 12/227 (5%) Query: 23 TAVLAQQTIVIKFSHVVANDTP-----KGKGAERFKELAEKATHGRVKVEVYPNSTLYKD 77 T +++ +F+ AN+ P + E +AE+ + GR+++++YPN+ L D Sbjct: 26 TGLVSTSAHAAEFTFKYANNLPVTHPMNARAKEMAAAIAEQ-SKGRIELQLYPNNQLGTD 84 Query: 78 KEELEALQLGSVQMLAPSLAKFGPLGAKEFEVFDLPYIFPNKTVLKRVTEGPIGQGLFQK 137 + L ++ G++ S G L ++ + + F + + + +G +G + ++ Sbjct: 85 TDMLSQVRAGAIDFFTLSPLILGTL-VPAAQISGIGFAFKDYSQVWPAMDGELGAHVRKQ 143 Query: 138 LESKGIKGLAY---WDNGMKVMT-ANRPLHKVADFRALKMRIQSSKVLDEQFRALKANPQ 193 +E++ A+ WDNG + +T + +P+ D + +K+R+ S + F+A A P Sbjct: 144 IEARSTL-FAFEKIWDNGYRQITNSTKPIKVAEDLKGMKLRVPPSPLWTSMFKAFDAAPT 202 Query: 194 VLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDHGYIG 240 + F+EVY A+QT +V+G EN + + T K++EVQ ++++H + G Sbjct: 203 SINFAEVYSALQTKIVEGQENPMAIISTAKLYEVQKYCSITNHMWDG 249 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 0.131 0.365 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: 597,952 Number of extensions: 21544 Number of successful extensions: 72 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 69 Number of HSP's successfully gapped: 6 Length of query: 240 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 157 Effective length of database: 1,226,865 Effective search space: 192617805 Effective search space used: 192617805 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: 129 (54.3 bits)