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= 0024.0035.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... 314 2e-87 gi|300309959|ref|YP_003774051.1| positive regulator of CheA prot... 89 3e-19 gi|300311028|ref|YP_003775120.1| chemotaxis signal transduction ... 76 2e-15 >gi|300312285|ref|YP_003776377.1| CheW chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 168 Score = 314 bits (805), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 157/168 (93%), Positives = 164/168 (97%) Query: 1 MSDTISKNISGFGEKSDSAGNEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPEFIK 60 MSDT SKN+SGFGEK+DS GNEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSP+FIK Sbjct: 1 MSDTASKNLSGFGEKTDSNGNEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPDFIK 60 Query: 61 GVVNLRGIIVPIVDMRIKFQLGEPTYDQFTVVIILNISGRVVGMVVDSVSDVITLSPEQI 120 GVVNLRGIIVPIVDMRIKFQLGEPTYDQFTVVIILNI GRVVGMVVDSVSDVITL+ EQI Sbjct: 61 GVVNLRGIIVPIVDMRIKFQLGEPTYDQFTVVIILNIGGRVVGMVVDSVSDVITLTQEQI 120 Query: 121 KPAPEMGTTFDSDYLIGLGTLDERMLILVDIDKLMSSADMGLIEKLAA 168 KPAPEMGTTFDSDYLIGLGTL++RMLILVDIDKLMSSA+MGLIEKLAA Sbjct: 121 KPAPEMGTTFDSDYLIGLGTLEQRMLILVDIDKLMSSAEMGLIEKLAA 168 >gi|300309959|ref|YP_003774051.1| positive regulator of CheA protein activity protein [Herbaspirillum seropedicae SmR1] Length = 194 Score = 88.6 bits (218), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 41/140 (29%), Positives = 86/140 (61%), Gaps = 4/140 (2%) Query: 21 NEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPEFIKGVVNLRGIIVPIVDMRIKFQ 80 +FL F +G E + + I ++EI + +T + P F++GV+NLRG +VP++D+ ++F Sbjct: 23 RQFLTFLVGTESFAMPIASIREIIEFSGLTEVPLMPAFLRGVINLRGSVVPVIDLSVRFG 82 Query: 81 LGEPTYDQFTVVIIL----NISGRVVGMVVDSVSDVITLSPEQIKPAPEMGTTFDSDYLI 136 + T +II+ + ++G++VD+VS V+++ +QI+P P G +D++ Sbjct: 83 RAPTVVAKRTCIIIMELQQDEQQLLLGVMVDAVSAVLSIGVDQIEPRPSFGAGIRADFVD 142 Query: 137 GLGTLDERMLILVDIDKLMS 156 + ++ER L+++D+ +++S Sbjct: 143 AMINVNERFLVVLDVPRVLS 162 >gi|300311028|ref|YP_003775120.1| chemotaxis signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 75.9 bits (185), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 46/154 (29%), Positives = 89/154 (57%), Gaps = 7/154 (4%) Query: 13 GEKSDSA---GNEFLAFTLGKEEYGIDILKVQEI-RGYEAVTRIANSPEFIKGVVNLRGI 68 GE+ D+A + + F L KEE+G+ I VQEI R + + + +P F++GV+NLRG Sbjct: 358 GEEIDTAIDDDEQMVIFRLDKEEFGVPIHSVQEIVRVPDELVHVPGAPAFVEGVINLRGS 417 Query: 69 IVPIVDMRIKFQLGEPTYDQFTVVIILNISGRVVGMVVDSVSDVITLSPEQIKPAPEMGT 128 ++P++D+R + L +++ I+ G +VD V++V+ ++ + I+PAP T Sbjct: 418 VLPVIDLRARLGLPAIERSDGQRIMVFVIADVRTGFIVDQVAEVLRIAKDAIEPAPRFST 477 Query: 129 TFDSDYLIGLGTLDE--RMLILVDIDKLMSSADM 160 S L + +++ RM+ L++ +L+++ +M Sbjct: 478 Q-QSALLARMANMEKQGRMVQLLEPAQLINADEM 510 Score = 71.2 bits (173), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 43/121 (35%), Positives = 71/121 (58%), Gaps = 3/121 (2%) Query: 19 AGNEFLAFTLGKEEYGIDILKVQEIRGYEAVTRIANSPEFIKGVVNLRGIIVPIVDMRIK 78 A +F+ F G E + +++ VQEI V R+ +P + G+ NLRG I+PIV +R Sbjct: 24 ATRQFVTFVAGDEVFAVEMAPVQEIIRSPDVVRVPLAPPTLDGLANLRGKILPIVSLRRI 83 Query: 79 FQLGEPTYDQFTVVIILNISGRVVGMVVDSVSDVITLSPEQIKPAPE-MGTTFDSDYLIG 137 F E D T +++N+ G+ +G VVD V+ V+ + ++I+ APE + +T D++ L G Sbjct: 84 FGFPERDKDDATRAVVINV-GQPLGFVVDRVASVLDVEADKIE-APEGLQSTIDTELLAG 141 Query: 138 L 138 L Sbjct: 142 L 142 Score = 60.1 bits (144), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 41/131 (31%), Positives = 70/131 (53%), Gaps = 3/131 (2%) Query: 22 EFLAFTLGKEEYGIDILKVQEI-RGYEAVTRIANSPEFIKGVVNLRGIIVPIVDMRIKFQ 80 + ++F L +EY IDI VQEI + + R+ +S E + GV+ LR ++ +VD+R F Sbjct: 198 QLVSFRLSGQEYAIDIADVQEIVQVPSGIVRLPHSAEHVIGVMALRSRLLMLVDLRRMFG 257 Query: 81 LGEPTYDQFTVVIILNISGRVVGMVVDSVSDVITLSPEQIKPAP-EMGTTFDSDYLIGLG 139 L D +++L +G+ VDSVS+V+ + + P P + + D+ + + Sbjct: 258 LPAQELDDKCRIVVLAHGASSIGLAVDSVSEVLRVPKGLVDPLPVALAKSDDAPEIACVC 317 Query: 140 TLDE-RMLILV 149 LDE R L+ V Sbjct: 318 RLDEGRRLVSV 328 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 0.140 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: 436,297 Number of extensions: 14571 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)