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= 0031.0023.p (287 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 386 e-108 gi|300312614|ref|YP_003776706.1| LysR family transcription regul... 94 2e-20 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 91 7e-20 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 89 4e-19 gi|300312835|ref|YP_003776927.1| LysR family transcription regul... 87 2e-18 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 386 bits (991), Expect = e-108, Method: Compositional matrix adjust. Identities = 187/285 (65%), Positives = 238/285 (83%), Gaps = 2/285 (0%) Query: 1 MEIAALEIFRAVVSEGGITRAAERLHRVQSNVTTRIRQLEESVGVPLFIRDRKRLLLTPA 60 ME+A LEIFR VV+EGG+TRAAERL+RVQSNVTTRI+QLE+S+GVPLF+RDR+R++LT A Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 61 GEILLDYSERILGLVQEARQAVLPQGPRGRLRVGAMESTAASRLPAPLAAFHQRWPEVQL 120 GE LLDY+ERIL L QEARQAV PQ PRGRLR+G+MES AASRLP PLA FHQRWPEV+L Sbjct: 70 GEALLDYAERILDLAQEARQAVAPQSPRGRLRIGSMESAAASRLPGPLAEFHQRWPEVRL 129 Query: 121 ELTTSASQMLIDQVRAFKLDAALVAGPIDDDVFVATPLYQEELVIVVPRGHARVKSPDDL 180 EL+T+ + +L+ QVRA KLDAALVAGP+ D F ATPL++EEL++V PR H RV++P+++ Sbjct: 130 ELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFREELLLVTPRSHRRVRAPEEV 189 Query: 181 TVETLIVFEQGCAYRKRAEHWFASGTIKGRRPARLLELGSYHAMLACVAAGAGIAFVPRT 240 ++TLIVFEQGCAYR+ AE WFA G GR+ R LEL SYHA+LACV+AGAG+A VPR+ Sbjct: 190 MLDTLIVFEQGCAYRRHAEAWFA-GHGAGRQLPRTLELASYHAILACVSAGAGVAVVPRS 248 Query: 241 ILNMHGQ-QNFSTYSLGKEGRITTYLICRHDQQTTVYDALRTLLL 284 ++ M + F+T+SLG++GRITT+LI R ++ + + ALR LL+ Sbjct: 249 VIAMQMEPHGFATHSLGRDGRITTFLISRRERYSASFLALRALLM 293 >gi|300312614|ref|YP_003776706.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 93.6 bits (231), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 78/250 (31%), Positives = 118/250 (47%), Gaps = 22/250 (8%) Query: 1 MEIAALEIFRAVVSEGGITRAAERLHRVQSNVTTRIRQLEESVGVPLFIRDRKRLLLTPA 60 M + +E F S ITRAAE+LH QS +++RI LEE +GV L R K+ LT A Sbjct: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 Query: 61 GEILLDYSERILGLVQEARQAV--LPQGPRGRLRVGAMESTAASRLPAPLAAFHQRWPEV 118 G+ + ++L + ++ RQ + GP LR+G++ES S LPA L R+P+ Sbjct: 61 GQRFQRLAVKLLDMQRQIRQELGGHSAGPLA-LRIGSIESVVHSWLPAWLQEIRCRYPDF 119 Query: 119 QLELTTSASQMLIDQVRAFKLDAALVAGPIDDDVFVATPLYQEELVIVVPRGH-----AR 173 LELT S +L +Q+R D + D + + E+V V GH R Sbjct: 120 ALELTVETSPVLTEQIRRGAQDLVFTSTVGSDTAVRSRLMTPMEMVFV---GHRERFGTR 176 Query: 174 VKSPDDLTVETLIVFEQGC----AYRKRAEHWFASGTIKGRRPARLLELGSYHAMLACVA 229 + ++L LI F++G + + W G R+ + S AM+ V Sbjct: 177 SHTLEELAAHDLITFQRGSQPHQGLLQLCQEW-------GVANPRIHAISSISAMVQLVE 229 Query: 230 AGAGIAFVPR 239 G G+A +PR Sbjct: 230 GGFGVATLPR 239 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 91.3 bits (225), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 70/253 (27%), Positives = 123/253 (48%), Gaps = 11/253 (4%) Query: 1 MEIAALEIFRAVVSEGGITRAAERLHRVQSNVTTRIRQLEESVGVPLFIRDRKRLLLTPA 60 ME+ L+ F AV S +RAAE LH Q ++ +IRQLEE +GV L R + + LT A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GEILLDYSERILGLVQEARQA--VLPQGPRGRLRVGAMESTAASRLPAPLAAFHQRWPEV 118 G+ + + ++L +++ + V+ +G + +G + S LP + F PE+ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 119 QLELTTSASQMLIDQVRAFKLDAALVAGPIDDDVFVATPLYQEELVIVVPRGH---ARVK 175 ++ + + ++ +++ ++D PI D V + +E LV V P GH AR K Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLARNK 180 Query: 176 -SPDDLTVETLIVF--EQGCAYRKRAEHWFASGTIKGRRPARLLELGSYHAMLACVAAGA 232 + L + I++ +Y + F+S + RP+ + E + VAAG Sbjct: 181 VTLAQLAAQRFILYPARPRPSYADQVLDIFSS---RALRPSIVKEANEMQTAIGLVAAGV 237 Query: 233 GIAFVPRTILNMH 245 G+ VPR++ +H Sbjct: 238 GVTLVPRSVQGLH 250 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 89.0 bits (219), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 74/254 (29%), Positives = 116/254 (45%), Gaps = 13/254 (5%) Query: 1 MEIAALEIFRAVVSEGGITRAAERLHRVQSNVTTRIRQLEESVGVPLFIRDRKRLLLTPA 60 +E+ L FR V RAAE LH Q +T +I LE+ +G LF R ++ + LT A Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 61 GEILLDYSERILGLVQEARQAVLPQ--GPRGRLRVGAMESTAASRLPAPLAAFHQRWPEV 118 G+ + I ++ A++ V G G L+VG M STA + LP+ + +PEV Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 119 QLELTTSASQMLIDQVRAFKLDAALVAGPIDDDVFVATPLYQEELVIVVPRGH----ARV 174 + LT +L + K+D ++ P D + +Y E L+ V+PR H + Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQS 181 Query: 175 KSPDDLTVETLIVFEQGCA---YRKRAEHWFASGTIKGRRPARLLELGSYHAMLACVAAG 231 S +L + I + A Y +H + G RP +LE ++ V G Sbjct: 182 ISAAELAEDAFISIPRMIAPVVYDLIQQHC----QLHGFRPRIVLETNLQQTIVNLVGEG 237 Query: 232 AGIAFVPRTILNMH 245 G+A VP ++ MH Sbjct: 238 LGVALVPTSMQAMH 251 >gi|300312835|ref|YP_003776927.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 116/251 (46%), Gaps = 21/251 (8%) Query: 1 MEIAALEIFRAVVSEGGITRAAERLHRVQSNVTTRIRQLEESVGVPLFIRDRKRLLLTPA 60 +++ L + AV G +RAAE +HR QS V+ +I+ LE ++G PLF+R + ++ T Sbjct: 4 LDLDVLAMIVAVADTGNFSRAAELVHRTQSAVSMQIKTLELALGKPLFLRKPRSVVPTQD 63 Query: 61 GEILLDYSERILGLVQEARQAVLPQGPRGRLRVGAMESTAASRLPAPLAAFHQRWPEVQL 120 GE+LL Y+ R+L L EA AV+ GR+ +G + A+S LP+ L F +P+V++ Sbjct: 64 GEVLLTYARRMLTLRDEAWAAVVRPDVTGRVVIGVPDDYASSLLPSILKKFSATYPKVEI 123 Query: 121 ELTTSASQMLIDQVRAFKLD---AALVAGPIDDDVFVATPLYQEELVIVVPRGHARVKSP 177 ++ S L V+ +D A V G E + P A V S Sbjct: 124 QVVGLPSSALAPMVKDGTVDLVCATRVKG------------ISGEFIRFEPMVWATVPSA 171 Query: 178 DDLTVE---TLIVFEQGCAYRKRAEHWFASGTIKGRRPARLLELGSYHAMLACVAAGAGI 234 DL E + VF G R+ A I R E S +L+ V AG I Sbjct: 172 SDLWRERPLPIAVFLPGSVARENAIRSLEKARIGYRTS---YESPSLMGLLSMVEAGLAI 228 Query: 235 AFVPRTILNMH 245 A + R + H Sbjct: 229 APLARCAVPPH 239 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 0.323 0.136 0.392 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: 860,272 Number of extensions: 36152 Number of successful extensions: 252 Number of sequences better than 1.0e-08: 68 Number of HSP's gapped: 208 Number of HSP's successfully gapped: 68 Length of query: 287 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 203 Effective length of database: 1,222,130 Effective search space: 248092390 Effective search space used: 248092390 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 (22.0 bits) S2: 130 (54.7 bits)