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= 0020.0449.p (300 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 578 e-166 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 175 5e-45 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 173 1e-44 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 161 5e-41 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 160 1e-40 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 578 bits (1489), Expect = e-166, Method: Compositional matrix adjust. Identities = 297/300 (99%), Positives = 298/300 (99%) Query: 1 MSDLPRLELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRS 60 MSDLPRLELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRS Sbjct: 1 MSDLPRLELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRS 60 Query: 61 VALTAAGAALLPEAQRLLQQATALPDLVRRPSSGASGLLSLSFISSADYSILPPLLQRFR 120 VALTAAGAALLPEAQRLLQQA ALPDLVRR +SGASGLLSLSFISSADYSILPPLLQRFR Sbjct: 61 VALTAAGAALLPEAQRLLQQAAALPDLVRRAASGASGLLSLSFISSADYSILPPLLQRFR 120 Query: 121 AHYPQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPE 180 AHYPQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPE Sbjct: 121 AHYPQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPE 180 Query: 181 GAVRKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGL 240 GAVRKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGL Sbjct: 181 GAVRKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGL 240 Query: 241 VSAGMGMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRALLELLDEPA 300 VSAGMGMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRALLELLDEPA Sbjct: 241 VSAGMGMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRALLELLDEPA 300 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 175 bits (443), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 156/289 (53%), Gaps = 5/289 (1%) Query: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 +ELR L YF VAE +HFGRAA LH++QPPL++ IAALE+ LG LF R+KR++ LTAA Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 67 GAALLPEAQRLLQQATALPDLVRRPSSGASGLLSLSFISSADYSILPPLLQRFRAHYPQV 126 G + + + V S+G SG L + F+ S Y+ILP + + + A YP+V Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 127 QIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALP-EGAVRK 185 + L E ++ D+ KID G++ P + L+ + +EPL+A LP + + Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRP---EDCRRLDSHTIYAEPLLAVLPRDHRLAG 178 Query: 186 RGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 R +S L E I PR IAP +D I + G P I E QTIV LV G+ Sbjct: 179 RQSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGL 238 Query: 246 GMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRALLE 294 G+ALVP S+ + ++ L AP ++ ++ W +D+ + +R E Sbjct: 239 GVALVPTSMQAMHLDTTVFKPLIG-APMVEVAVIWNKDNTNPCIRTFAE 286 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 173 bits (439), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 104/287 (36%), Positives = 156/287 (54%), Gaps = 4/287 (1%) Query: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 +ELR L+YF AVA + F RAA LH+ QPPLS+ I LEE+LG L R R +ALT A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 67 GAALLPEAQRLLQQATALPDLVRRPSSGASGLLSLSFISSADYSILPPLLQRFRAHYPQV 126 G + ++L + + + R + G ++ F+ SA Y +LP +++RFR P++ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 127 QIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPEGA-VRK 185 +I E T Q+E L G+ID G P+ + + ++ EPL+A P G + Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPD---IVCETIVEEPLVAVFPLGHPLLA 177 Query: 186 RGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 R V+L L I++P R P++ D +L F + P I +EA +MQT +GLV+AG+ Sbjct: 178 RNKVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGV 237 Query: 246 GMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRAL 292 G+ LVP+SV L R V YR LS+ + +R + S +L L Sbjct: 238 GVTLVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRANDRSLLLERL 284 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 161 bits (408), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 103/287 (35%), Positives = 150/287 (52%), Gaps = 4/287 (1%) Query: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 L+L Q+R F A E++F RAAA L+MTQPPLS+ I LE LG LF+R R+V LT Sbjct: 2 LDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTE 61 Query: 67 GAALLPEAQRLLQQATALPDLVRRPSSGASGLLSLSFISSADYSILPPLLQRFRAHYPQV 126 G L +A RLLQ + VRR S G +G + + F +A Y ++P LL + R P++ Sbjct: 62 GRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPEI 121 Query: 127 QIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPEG-AVRK 185 + L E + QLE ID G L P + LE++ V E L+ A+P+G A+ Sbjct: 122 DVVLFELISVAQLEAFTANTIDIGFLRPVASRQP---LELQLVDEEALVLAMPQGHALAA 178 Query: 186 RGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 ++ L P I+ F++ I++ A V P Q Q TI+ LV AG+ Sbjct: 179 YDRIATTQLDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGL 238 Query: 246 GMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRAL 292 G+ ++P S V++R L+D AP + S+AWR D + + A Sbjct: 239 GVGILPASAQRFHYDRVEFRPLADEAPRAEMSMAWRPDQDNPAVTAF 285 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 160 bits (404), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 104/281 (37%), Positives = 162/281 (57%), Gaps = 6/281 (2%) Query: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 +ELR LRYF AVAE+ F RAA ++ + QPPLS I ALEE +G LF R+ + V L+ Sbjct: 1 MELRHLRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEV 60 Query: 67 GAALLPEAQRLLQQATALPDLVRRPSSGASGLLSLSFISSADYS-ILPPLLQRFRAHYPQ 125 G LLP AQR + QA R+ +SG +GLL + F SSA + ++ LQ+FR + + Sbjct: 61 GRVLLPHAQRAVDQAEQALRAARQAASGETGLLRMGFTSSAVFHPLVSHALQQFRERHRK 120 Query: 126 VQIELREATTDVQLEDLLQGKIDAGLL-LPPLPEKAAALLEVRPVLSEPLIAALPEGA-V 183 ++I L E T+ L D+ ++DA + + P A ++E+ P +E L ALP + Sbjct: 121 LEISLSEGITEQLLADIAASQLDAAFVRIVTTPSAALGVVEL-P--AEKLKVALPRSHPL 177 Query: 184 RKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSA 243 +R + L+ L I+ PR A +D+I S + AG P + Q A Q+ + + LV++ Sbjct: 178 ARRKSLRLQDLASENFIMVPRGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVAS 237 Query: 244 GMGMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDS 284 G+G+++VP+++ ++ V Y + +PAP Q SLA+ R S Sbjct: 238 GLGISIVPEAIEQVQLAQVRYVEIVEPAPRAQLSLAYHRQS 278 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 0.320 0.135 0.382 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: 850,012 Number of extensions: 33222 Number of successful extensions: 301 Number of sequences better than 1.0e-08: 75 Number of HSP's gapped: 259 Number of HSP's successfully gapped: 75 Length of query: 300 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 215 Effective length of database: 1,217,395 Effective search space: 261739925 Effective search space used: 261739925 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 (21.8 bits) S2: 130 (54.7 bits)