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= 0023.0010.p (294 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 288 4e-79 gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 165 4e-42 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 164 9e-42 gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran... 68 1e-12 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 288 bits (737), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 153/210 (72%), Positives = 170/210 (80%), Gaps = 3/210 (1%) Query: 1 MGNPTASITRRRFLKTVSVASAAAATGMISTQAFAAAEFTLKYANNLPATHPMNLRAKEM 60 M T ITRR FLKT SVASAAAATG++ST A AA EFT KYANNLP THPMN RAKEM Sbjct: 1 MAQSTGKITRRNFLKTASVASAAAATGLVSTSAHAA-EFTFKYANNLPVTHPMNARAKEM 59 Query: 61 AAKIATESKGRIDFQVYPNNQLGNDTDTLGQVRSGAVDFFTLSPLILGTLVPAAQISGVG 120 AA IA +SKGRI+ Q+YPNNQLG DTD L QVR+GA+DFFTLSPLILGTLVPAAQISG+G Sbjct: 60 AAAIAEQSKGRIELQLYPNNQLGTDTDMLSQVRAGAIDFFTLSPLILGTLVPAAQISGIG 119 Query: 121 FAFKDYNQVWAALDGELGAHVRKQIDAKSTVFAFEKIWDNGYRQITNSTRAINKPEDLKG 180 FAFKDY+QVW A+DGELGAHVRKQI+A+ST+FAFEKIWDNGYRQITNST+ I EDLKG Sbjct: 120 FAFKDYSQVWPAMDGELGAHVRKQIEARSTLFAFEKIWDNGYRQITNSTKPIKVAEDLKG 179 Query: 181 MKLRXINKPEDLKGMKS--PAPSAIAFPPV 208 MKLR P K+ AP++I F V Sbjct: 180 MKLRVPPSPLWTSMFKAFDAAPTSINFAEV 209 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 165 bits (418), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 84/178 (47%), Positives = 118/178 (66%), Gaps = 2/178 (1%) Query: 7 SITRRRFLKTVSVASAAAATGMISTQAFAAAEFTLKYANNLPATHPMNLRAKEMAAKIAT 66 S++RR+ LK +V +A ++S A AAEF K+A +HP+N RA++ +I Sbjct: 12 SVSRRQLLKAGAVGAALPLFSIMSRPA-NAAEFNYKFATGQDPSHPVNKRAQQAIDRIRE 70 Query: 67 ESKGRIDFQVYPNNQLGNDTDTLGQVRSGAVDFFTLSPLILGTLVPAAQISGVGFAFKDY 126 + GR+D +++P NQLG+DTD + Q+R+G V+FF + ++L TLVPAA I GFAF DY Sbjct: 71 ATGGRLDIKLFPANQLGSDTDLMSQIRNGGVEFFNQASVVLSTLVPAAGIVNTGFAFHDY 130 Query: 127 NQVWAALDGELGAHVRKQIDAKSTVFAFEKIWDNGYRQITNSTRAINKPEDLKGMKLR 184 +VW A+DG LGA+VR QI+ K + K WDNG+RQIT ST+ I DLKG+KLR Sbjct: 131 KEVWQAMDGPLGAYVRAQIE-KVGLLTMSKPWDNGFRQITTSTKPIKTAADLKGLKLR 187 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 164 bits (415), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 84/177 (47%), Positives = 116/177 (65%), Gaps = 2/177 (1%) Query: 8 ITRRRFLKTVSVASAAAATGMISTQAFAAAEFTLKYANNLPATHPMNLRAKEMAAKIATE 67 +TRR LK +V +A ++S A +AAEF+ K+A +HP+N RA+E +I Sbjct: 10 VTRRNMLKAGAVGAALPLFSILSRPA-SAAEFSYKFATGQDPSHPVNKRAQEAIDRIRNA 68 Query: 68 SKGRIDFQVYPNNQLGNDTDTLGQVRSGAVDFFTLSPLILGTLVPAAQISGVGFAFKDYN 127 + GR++ +++P NQLG+DTD + QVR+G V+FF + +L TLVPAA I GFAF DY Sbjct: 69 TNGRLEIKLFPANQLGSDTDLMSQVRNGGVEFFNQANTVLSTLVPAAGIVNTGFAFHDYG 128 Query: 128 QVWAALDGELGAHVRKQIDAKSTVFAFEKIWDNGYRQITNSTRAINKPEDLKGMKLR 184 VW A+DG LGAHVR QI+ K + K WDNG+RQIT ST+ + D+KG+KLR Sbjct: 129 AVWKAMDGPLGAHVRAQIE-KVGLLTMSKPWDNGFRQITTSTKPVRNAGDVKGLKLR 184 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 53/177 (29%), Positives = 93/177 (52%), Gaps = 16/177 (9%) Query: 14 LKTVSVASAAAATGMISTQAFAAAEFTLKY----ANNLPATHPMNLRAKEMAAKIATESK 69 LK++ +A AAA ++ST AFA +K+ AN+ P R KE+A K +K Sbjct: 3 LKSILLAMTAAA--IVSTNAFAQQPIVIKFSHVVANDTPKGKAAE-RFKELAEK---ATK 56 Query: 70 GRIDFQVYPNNQLGNDTDTLGQVRSGAVDFFTLSPLILGTL-VPAAQISGVGFAFKDYNQ 128 GR+ +VYPN+ L D + L ++ GAV S G L V ++ + + F Sbjct: 57 GRVKIEVYPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPTKEV 116 Query: 129 VWAALDGELGAHVRKQIDAKS-TVFAFEKIWDNGYRQITNSTRAINKPEDLKGMKLR 184 ++ +G +G + K+++ K T A+ WDNG++ + ++ + ++ P D +G+K+R Sbjct: 117 LYRVTEGPIGKDLFKKLEPKGITGLAY---WDNGFK-VMSANKPLHHPADFRGLKMR 169 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 0.319 0.132 0.408 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: 839,847 Number of extensions: 33194 Number of successful extensions: 113 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 110 Number of HSP's successfully gapped: 4 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 130 (54.7 bits)