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= 0035.0169.p (168 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312285|ref|YP_003776377.1| CheW chemotaxis protein [Herbas... 334 2e-93 gi|300309959|ref|YP_003774051.1| positive regulator of CheA prot... 87 5e-19 gi|300311028|ref|YP_003775120.1| chemotaxis signal transduction ... 79 2e-16 >gi|300312285|ref|YP_003776377.1| CheW chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 168 Score = 334 bits (857), Expect = 2e-93, Method: Compositional matrix adjust. Identities = 168/168 (100%), Positives = 168/168 (100%) Query: 1 MSDTASKNLSGFGEKTDSNGNEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPDFIK 60 MSDTASKNLSGFGEKTDSNGNEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPDFIK Sbjct: 1 MSDTASKNLSGFGEKTDSNGNEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPDFIK 60 Query: 61 GVVNLRGIIVPIVDMRIKFQLGEPTYDQFTVVIILNIGGRVVGMVVDSVSDVITLTQEQI 120 GVVNLRGIIVPIVDMRIKFQLGEPTYDQFTVVIILNIGGRVVGMVVDSVSDVITLTQEQI Sbjct: 61 GVVNLRGIIVPIVDMRIKFQLGEPTYDQFTVVIILNIGGRVVGMVVDSVSDVITLTQEQI 120 Query: 121 KPAPEMGTTFDSDYLIGLGTLEQRMLILVDIDKLMSSAEMGLIEKLAA 168 KPAPEMGTTFDSDYLIGLGTLEQRMLILVDIDKLMSSAEMGLIEKLAA Sbjct: 121 KPAPEMGTTFDSDYLIGLGTLEQRMLILVDIDKLMSSAEMGLIEKLAA 168 >gi|300309959|ref|YP_003774051.1| positive regulator of CheA protein activity protein [Herbaspirillum seropedicae SmR1] Length = 194 Score = 87.4 bits (215), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 42/152 (27%), Positives = 91/152 (59%), Gaps = 4/152 (2%) Query: 21 NEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPDFIKGVVNLRGIIVPIVDMRIKFQ 80 +FL F +G E + + I ++EI + +T + P F++GV+NLRG +VP++D+ ++F Sbjct: 23 RQFLTFLVGTESFAMPIASIREIIEFSGLTEVPLMPAFLRGVINLRGSVVPVIDLSVRFG 82 Query: 81 LGEPTYDQFTVVIIL----NIGGRVVGMVVDSVSDVITLTQEQIKPAPEMGTTFDSDYLI 136 + T +II+ + ++G++VD+VS V+++ +QI+P P G +D++ Sbjct: 83 RAPTVVAKRTCIIIMELQQDEQQLLLGVMVDAVSAVLSIGVDQIEPRPSFGAGIRADFVD 142 Query: 137 GLGTLEQRMLILVDIDKLMSSAEMGLIEKLAA 168 + + +R L+++D+ +++S E+ + ++A Sbjct: 143 AMINVNERFLVVLDVPRVLSVDELASLLGMSA 174 >gi|300311028|ref|YP_003775120.1| chemotaxis signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 79.3 bits (194), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 50/166 (30%), Positives = 94/166 (56%), Gaps = 8/166 (4%) Query: 1 MSDTASKNLSGFGEKTDS---NGNEFLAFTLGKEEYGIDILKVQEI-RGYEAVTRIANSP 56 MS+ S + + GE+ D+ + + + F L KEE+G+ I VQEI R + + + +P Sbjct: 347 MSEDHSDH-AQPGEEIDTAIDDDEQMVIFRLDKEEFGVPIHSVQEIVRVPDELVHVPGAP 405 Query: 57 DFIKGVVNLRGIIVPIVDMRIKFQLGEPTYDQFTVVIILNIGGRVVGMVVDSVSDVITLT 116 F++GV+NLRG ++P++D+R + L +++ I G +VD V++V+ + Sbjct: 406 AFVEGVINLRGSVLPVIDLRARLGLPAIERSDGQRIMVFVIADVRTGFIVDQVAEVLRIA 465 Query: 117 QEQIKPAPEMGTTFDSDYLIGLGTLEQ--RMLILVDIDKLMSSAEM 160 ++ I+PAP T S L + +E+ RM+ L++ +L+++ EM Sbjct: 466 KDAIEPAPRFSTQ-QSALLARMANMEKQGRMVQLLEPAQLINADEM 510 Score = 70.5 bits (171), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 42/119 (35%), Positives = 70/119 (58%), Gaps = 3/119 (2%) Query: 21 NEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPDFIKGVVNLRGIIVPIVDMRIKFQ 80 +F+ F G E + +++ VQEI V R+ +P + G+ NLRG I+PIV +R F Sbjct: 26 RQFVTFVAGDEVFAVEMAPVQEIIRSPDVVRVPLAPPTLDGLANLRGKILPIVSLRRIFG 85 Query: 81 LGEPTYDQFTVVIILNIGGRVVGMVVDSVSDVITLTQEQIKPAPE-MGTTFDSDYLIGL 138 E D T +++N+ G+ +G VVD V+ V+ + ++I+ APE + +T D++ L GL Sbjct: 86 FPERDKDDATRAVVINV-GQPLGFVVDRVASVLDVEADKIE-APEGLQSTIDTELLAGL 142 Score = 62.8 bits (151), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 36/113 (31%), Positives = 63/113 (55%), Gaps = 1/113 (0%) Query: 13 GEKTDSNGNEFLAFTLGKEEYGIDILKVQEI-RGYEAVTRIANSPDFIKGVVNLRGIIVP 71 E T ++ + ++F L +EY IDI VQEI + + R+ +S + + GV+ LR ++ Sbjct: 189 AEATRNDELQLVSFRLSGQEYAIDIADVQEIVQVPSGIVRLPHSAEHVIGVMALRSRLLM 248 Query: 72 IVDMRIKFQLGEPTYDQFTVVIILNIGGRVVGMVVDSVSDVITLTQEQIKPAP 124 +VD+R F L D +++L G +G+ VDSVS+V+ + + + P P Sbjct: 249 LVDLRRMFGLPAQELDDKCRIVVLAHGASSIGLAVDSVSEVLRVPKGLVDPLP 301 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 0.139 0.379 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: 423,563 Number of extensions: 13669 Number of successful extensions: 52 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 51 Number of HSP's successfully gapped: 5 Length of query: 168 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 89 Effective length of database: 1,245,805 Effective search space: 110876645 Effective search space used: 110876645 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 (21.7 bits) S2: 127 (53.5 bits)