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= 0001.3224.p (200 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312563|ref|YP_003776655.1| transcription regulator protein... 357 e-100 gi|300310688|ref|YP_003774780.1| transcription regulator protein... 137 5e-34 >gi|300312563|ref|YP_003776655.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 200 Score = 357 bits (917), Expect = e-100, Method: Compositional matrix adjust. Identities = 172/200 (86%), Positives = 187/200 (93%) Query: 1 MRKKSEERRQAMIDIAAEVFNEIGFEGASMAEISARVGGSKATLYNYFSSKEEIFVEVMI 60 MRKKSEERRQAMIDIAAEVFNEIGFE ASMAEISAR+GGSKATLYNYF+SKEEIFVEVMI Sbjct: 1 MRKKSEERRQAMIDIAAEVFNEIGFEAASMAEISARIGGSKATLYNYFNSKEEIFVEVMI 60 Query: 61 KQVGCQFEELFMALRNEDDVRSGLLRLADHYLAVVFRPEVIAVKRLGSYYAGKSELGPML 120 KQVGCQFEELFMALRNEDDV+ GLLRLA HYL VVFRPE++AVKRLG YYAGKS LGP+L Sbjct: 61 KQVGCQFEELFMALRNEDDVKGGLLRLARHYLRVVFRPEIVAVKRLGIYYAGKSNLGPLL 120 Query: 121 YERGPKRGWTRIAEFLKVKMDEGKLHPGDAWIAAMQFRGLVEAEWMEMRMLNVVTEIAPA 180 YERGPKRGWTRIAEFL+ KM+EGKLH D W+AAMQ+RGL+EAEWME+RMLNVVT+IA Sbjct: 121 YERGPKRGWTRIAEFLQAKMEEGKLHRTDPWLAAMQYRGLMEAEWMEVRMLNVVTDIAED 180 Query: 181 QLQASARRAVEAFVYLYQPR 200 QL ASA+RAVEAF+YLYQPR Sbjct: 181 QLDASAQRAVEAFLYLYQPR 200 >gi|300310688|ref|YP_003774780.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 201 Score = 137 bits (346), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 79/198 (39%), Positives = 117/198 (59%), Gaps = 1/198 (0%) Query: 1 MRKKSEERRQAMIDIAAEVFNEIGFEGASMAEISARVGGSKATLYNYFSSKEEIFVEVMI 60 MR K+ ERR A++ AAEVF E GFEGASMA ISAR+GGSK TLY+YF SKEE+FV V Sbjct: 1 MRVKTAERRDAILAAAAEVFLEEGFEGASMAGISARIGGSKGTLYSYFKSKEELFVAVTH 60 Query: 61 KQVGCQFEELFMAL-RNEDDVRSGLLRLADHYLAVVFRPEVIAVKRLGSYYAGKSELGPM 119 +Q Q E AL ++ D++ L + ++ + + + R+ +G+S++G Sbjct: 61 EQAKKQMEPALAALEKDTGDLQKTLQVFGEKAVSFLCQESTLQTHRMIVAESGRSDIGRR 120 Query: 120 LYERGPKRGWTRIAEFLKVKMDEGKLHPGDAWIAAMQFRGLVEAEWMEMRMLNVVTEIAP 179 +E GPK G RIA FL +M G+L D +A +Q L++ E ++ ML + + I+ Sbjct: 121 FHESGPKLGMERIAAFLSRQMQAGRLKQADPMLATLQLCALLDCETVKPMMLGLESAISR 180 Query: 180 AQLQASARRAVEAFVYLY 197 +++ RAVE F+ Y Sbjct: 181 PRMKRMVGRAVETFLAAY 198 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 0.322 0.136 0.391 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: 572,643 Number of extensions: 21781 Number of successful extensions: 75 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 74 Number of HSP's successfully gapped: 2 Length of query: 200 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 119 Effective length of database: 1,236,335 Effective search space: 147123865 Effective search space used: 147123865 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 (21.9 bits) S2: 128 (53.9 bits)