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= 0001.0006.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312018|ref|YP_003776110.1| transcription regulator protein... 616 e-178 gi|300313630|ref|YP_003777722.1| LysR family transcription regul... 164 9e-42 gi|300313065|ref|YP_003777157.1| LysR family transcription regul... 144 1e-35 gi|300311233|ref|YP_003775325.1| LysR family transcription regul... 138 6e-34 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 138 7e-34 >gi|300312018|ref|YP_003776110.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 616 bits (1588), Expect = e-178, Method: Compositional matrix adjust. Identities = 304/305 (99%), Positives = 304/305 (99%) Query: 1 MSILDHIEFSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRA 60 MSILDHIEFSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRA Sbjct: 1 MSILDHIEFSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRA 60 Query: 61 ISPTAAGSELAARLEQGFEQIGAALSQLDSSAARSLGELRINVFADAAHLLIEPAIPEFV 120 ISPTAAGSELAARLEQGFEQIGAALSQLDSSAA SLGELRINVFADAAHLLIEPAIPEFV Sbjct: 61 ISPTAAGSELAARLEQGFEQIGAALSQLDSSAAGSLGELRINVFADAAHLLIEPAIPEFV 120 Query: 121 RQCPKVRLTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDR 180 RQCPKVRLTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDR Sbjct: 121 RQCPKVRLTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDR 180 Query: 181 HGRPLTLQDLQQHTCLQLLLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAG 240 HGRPLTLQDLQQHTCLQLLLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAG Sbjct: 181 HGRPLTLQDLQQHTCLQLLLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAG 240 Query: 241 VGIAYLLEGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDIIRLQHG 300 VGIAYLLEGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDIIRLQHG Sbjct: 241 VGIAYLLEGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDIIRLQHG 300 Query: 301 LSRLR 305 LSRLR Sbjct: 301 LSRLR 305 >gi|300313630|ref|YP_003777722.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 164 bits (415), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 109/290 (37%), Positives = 163/290 (56%), Gaps = 2/290 (0%) Query: 8 EFSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAAG 67 EF++L+ FV ++ SF AA LGL+PSA S +++LE+R+ +LL R++R+++P+A G Sbjct: 5 EFNELKAFVAVVERQSFVRAAEHLGLSPSALSQTIRQLEDRIGARLLNRTTRSVAPSANG 64 Query: 68 SELAARLEQGFEQIGAALSQLDSSAARSLGELRINVFADAAHLLIEPAIPEFVRQCPKVR 127 L R+ F ++ AA++Q + + G LRIN AA +I P + F + P V Sbjct: 65 ELLYRRVAPLFREMAAAVAQASEATGQMSGRLRINTLGIAARTIIAPRLARFHQAHPDVV 124 Query: 128 LTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDRHGRPLTL 187 L IVVDD DIV+ +DAGIR G+ V + MV LT VA A+P YL R G P + Sbjct: 125 LDIVVDDTLTDIVAGRFDAGIRVGNRVEKDMVAIRLTPDLNMVAVASPDYLARRGVPRSP 184 Query: 188 QDLQQHTCLQLLLG-DNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAGVGIAYL 246 +DL HTC+ L D Y+WEF + + + V G + N+ IAAA G+GIAY Sbjct: 185 KDLHDHTCINWRLQMDGRHYRWEFKKRGQQLEVAVDGPIITNHADIGIAAALGGLGIAYH 244 Query: 247 LE-GRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDII 295 E +S+ + +G L +L +W+ +YY +R+H L ID + Sbjct: 245 FERDGVSELLSQGRLVQVLADWSISRPGLFLYYPNRQHRPALLGAFIDCL 294 >gi|300313065|ref|YP_003777157.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 144 bits (362), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 92/289 (31%), Positives = 135/289 (46%) Query: 7 IEFSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAA 66 I DL +FV GS AAA Q +TP+ S AMKRLE L +LL RS+R++ T Sbjct: 2 IRLEDLAIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTPD 61 Query: 67 GSELAARLEQGFEQIGAALSQLDSSAARSLGELRINVFADAAHLLIEPAIPEFVRQCPKV 126 G ++ A + G L ++ +D LI + EF Q P V Sbjct: 62 GERYLQHARNVLAEVNAGRDAVAHGRRVIGGNLSLSAPSDFGRNLIGQWLDEFQAQHPAV 121 Query: 127 RLTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDRHGRPLT 186 L + V D+ D+ + D IRY +V PL +R V A+P YL RHGRP + Sbjct: 122 SLQVHVSDRVADMYRQPVDVAIRYSAPDDSSLVALPLAPDNRRVLCASPDYLARHGRPRS 181 Query: 187 LQDLQQHTCLQLLLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAGVGIAYL 246 DL+QH CL+ +L D QW F + +++V G T ++ A G GIAY Sbjct: 182 PADLRQHNCLRYVLSDTLHSQWNFFKDDEPVQVQVSGDRTCDDGELVRRWAVNGRGIAYK 241 Query: 247 LEGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDII 295 + ++ G LE +LE++ P H+ + R P +R L +++ Sbjct: 242 SRLDVLADLRNGRLEALLEDYEGEPSPLHLVCTHRMCVSPTVRALRELL 290 >gi|300311233|ref|YP_003775325.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 138 bits (347), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 92/285 (32%), Positives = 147/285 (51%), Gaps = 10/285 (3%) Query: 9 FSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAAGS 68 +++ VF ++ TGSF AA QLG TPSA S A+ RLE+ L TQLL R++R + + +G Sbjct: 10 LNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLRLSESGQ 69 Query: 69 ELAARLEQGFEQIGAALSQLDSSAARSLGELRINVFADAAHLLIEPAIPEFVRQCPKVRL 128 ++ AR A L+ + A G++R++V H L+ P +P+F+ PKV + Sbjct: 70 DIHARCRDMLNAAQAVLAVSGAFDAEPQGQVRVSVPKAVGHALVHPHVPDFLAAHPKVDV 129 Query: 129 TIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDRHGRPLTLQ 188 + ++D+ +D++ + D IR + P G++ L R + A P YL HG P Q Sbjct: 130 LLRLEDRYMDLIDDEVDLAIRITDHPPPGLMGRRLMRIDHLL-CATPHYLATHGTPAHPQ 188 Query: 189 DLQQHTCLQLLLGDN-SSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAGVGIAYLL 247 L++H+C + LG++ + +W F R + V G N+T + A +GIA L Sbjct: 189 ALKEHSC--IYLGESPADARWRFRRQGKSVNVEVRGRYAANHTGVRLDAVLRHLGIASLP 246 Query: 248 EGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHA-HPALRKL 291 +EEGSL +L +W+ F +Y A +PA R L Sbjct: 247 YFIARPALEEGSLVQVLPQWS-----FRTHYCGELWALYPATRHL 286 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 138 bits (347), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 89/288 (30%), Positives = 142/288 (49%), Gaps = 2/288 (0%) Query: 8 EFSDLRVFVTILRTGSFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAAG 67 + ++ F+ + GSF AA LG++ +A S + LE RL ++L+ R++R +S T AG Sbjct: 3 KLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAG 62 Query: 68 SELAARLEQGFEQIGAALSQLDSSAARSLGELRINVFADAAHLLIEPAIPEFVRQCPKVR 127 + R +Q + A L S +A+ G LRIN L + P P F+ + P++ Sbjct: 63 ALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEIS 122 Query: 128 LTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDRHGRPLTL 187 L I + D+ +DI+ EGYD IR +V LT V A+PAYLD HG P Sbjct: 123 LDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHV-CASPAYLDAHGTPAHP 181 Query: 188 QDLQQHTCLQLLLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAGVGIAYLL 247 +L QH + + S +W+F + +RV + +NN + + AA G+GI Sbjct: 182 HELAQHQTISYSY-NQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 248 EGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLIDII 295 I + + G L +IL ++ AP + Y SR H +R ++D + Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFL 288 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 0.321 0.135 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: 885,884 Number of extensions: 34045 Number of successful extensions: 268 Number of sequences better than 1.0e-08: 53 Number of HSP's gapped: 226 Number of HSP's successfully gapped: 53 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 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: 130 (54.7 bits)