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= 0006.0040.p (330 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312750|ref|YP_003776842.1| LysR family transcription regul... 612 e-176 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 201 9e-53 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 154 1e-38 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 149 4e-37 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 142 4e-35 >gi|300312750|ref|YP_003776842.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 612 bits (1578), Expect = e-176, Method: Compositional matrix adjust. Identities = 306/308 (99%), Positives = 307/308 (99%) Query: 1 MPPSIDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGME 60 MPPSIDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGME Sbjct: 15 MPPSIDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGME 74 Query: 61 LTDSGAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRA 120 LTDSGAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRA Sbjct: 75 LTDSGAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRA 134 Query: 121 DAPDVAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHP 180 DAPDVAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHP Sbjct: 135 DAPDVAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHP 194 Query: 181 LVDGGKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLS 240 LVDGGKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLS Sbjct: 195 LVDGGKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLS 254 Query: 241 LVAAGVGVTVIPASMTRVNAEGVVYLKLTGTPDLKAPLHLAYRTGSISGAARLMREEALK 300 LVAAGVGVTVIPASMTRVNAEGVVYLKLTG PDLKAPLHLAYRTGSISGAARLMREEALK Sbjct: 255 LVAAGVGVTVIPASMTRVNAEGVVYLKLTGAPDLKAPLHLAYRTGSISGAARLMREEALK 314 Query: 301 LSAGRKRQ 308 LSAGRKR+ Sbjct: 315 LSAGRKRR 322 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 201 bits (510), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 120/294 (40%), Positives = 177/294 (60%), Gaps = 7/294 (2%) Query: 5 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDS 64 ++LR LRYF+AVAE+ T+AAE++GI QPPLS QI+ LE E+G LF R +G+EL++ Sbjct: 1 MELRHLRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEV 60 Query: 65 GAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 124 G LL A+ + Q + + + R+ A G+ G + +GFT SA HP V ++ FR Sbjct: 61 GRVLLPHAQRAVDQAEQALRAARQAASGETGLLRMGFTSSAVFHPLVSHALQQFRERHRK 120 Query: 125 VAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPLVDG 184 + +++ E T +L+ + +LD AFVR S L + + E + ALP HPL Sbjct: 121 LEISLSEGITEQLLADIAASQLDAAFVRIVTTPSAALGVVELPAEKLKVALPRSHPL--- 177 Query: 185 GKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLVAA 244 +RKS+ L LA E+FIM R G LYD+I +AC AAGF PQVIQ A + S ++LVA+ Sbjct: 178 ARRKSLRLQDLASENFIMVPRGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVAS 237 Query: 245 GVGVTVIPASMTRVNAEGVVYLKLTGTPDLKAPLHLAYRTGSISG---AARLMR 295 G+G++++P ++ +V V Y+++ P +A L LAY SI+ AA L R Sbjct: 238 GLGISIVPEAIEQVQLAQVRYVEIV-EPAPRAQLSLAYHRQSIAASRFAAHLQR 290 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 154 bits (388), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 96/281 (34%), Positives = 155/281 (55%), Gaps = 6/281 (2%) Query: 5 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDS 64 ++LR L+YF AVA ++AAE + I QPPLS+QIR LE LGV L +R R + LT + Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 65 GAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 124 G +L++L+ R IA+G+ +GF SA L+ + +I+ FR + P+ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSA-LYGLLPEMIKRFRTEMPE 119 Query: 125 VAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPLVDG 184 + + E T E +EAL+ R+D+ F R P+ D + ET++EE +VA P+ HPL+ Sbjct: 120 IEIGFSEIVTMEQVEALKSGRIDVGFGRLPISDP-DIVCETIVEEPLVAVFPLGHPLL-- 176 Query: 185 GKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLVAA 244 R + L LA + FI+ P D ++ + P +++EA + + + LVAA Sbjct: 177 -ARNKVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAA 235 Query: 245 GVGVTVIPASMTRVNAEGVVYLKLTGTPDLKAPLHLAYRTG 285 GVGVT++P S+ ++ VVY L+ + +P+ + +R Sbjct: 236 GVGVTLVPRSVQGLHRSDVVYRPLSNK-GVHSPVIMNFRAN 275 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 149 bits (375), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 94/268 (35%), Positives = 142/268 (52%), Gaps = 5/268 (1%) Query: 5 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDS 64 I+LR L YF VAE H +AAE + I QPPL++QI LE+ELG LF+R R ++LT + Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 65 GAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 124 G D + L+ +V + GK G + VGF S + + + SV R + A P+ Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTA-YNILPSVTRHYSAAYPE 120 Query: 125 VAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPLVDG 184 V M + E N L + +++D+ + P D L T+ E ++A LP DH L Sbjct: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRP-EDCRRLDSHTIYAEPLLAVLPRDHRL--- 176 Query: 185 GKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLVAA 244 R+SI+ LAE++FI R P +YD I C GF P+++ E + ++LV Sbjct: 177 AGRQSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGE 236 Query: 245 GVGVTVIPASMTRVNAEGVVYLKLTGTP 272 G+GV ++P SM ++ + V+ L G P Sbjct: 237 GLGVALVPTSMQAMHLDTTVFKPLIGAP 264 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 142 bits (358), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 106/299 (35%), Positives = 164/299 (54%), Gaps = 14/299 (4%) Query: 3 PSIDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELT 62 P ++LR LRYF AVAEE H +AA R+ + QPPLSQ I LE LG LF R R + LT Sbjct: 5 PRLELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALT 64 Query: 63 DSGAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADA 122 +GAALL +A+ LL Q VRR A G G +++ F SA + + +++ FRA Sbjct: 65 AAGAALLPEAQRLLQQAAALPDLVRRAASGASGLLSLSFISSAD-YSILPPLLQRFRAHY 123 Query: 123 PDVAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGG--LTIETMLEEDMVAALPIDHP 180 P V + + E+ T+ +E L ++D + P+ + L + +L E ++AALP Sbjct: 124 PQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALP---- 179 Query: 181 LVDGG--KRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLST 238 +G KR ++L +L E I+ R P +DTI++ AG +P + QEA + + Sbjct: 180 --EGAVRKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTI 237 Query: 239 LSLVAAGVGVTVIPASMTRVNAEGVVYLKLTG-TPDLKAPLHLAYRTGSISGAARLMRE 296 + LV+AG+G+ ++P S++ + GV Y +L+ P ++ LA+R S S R + E Sbjct: 238 VGLVSAGMGMALVPQSVSNLKRPGVDYRRLSDPAPAIQT--SLAWRRDSPSSVLRALLE 294 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 0.134 0.369 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: 952,070 Number of extensions: 38525 Number of successful extensions: 309 Number of sequences better than 1.0e-08: 53 Number of HSP's gapped: 272 Number of HSP's successfully gapped: 53 Length of query: 330 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 244 Effective length of database: 1,212,660 Effective search space: 295889040 Effective search space used: 295889040 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: 131 (55.1 bits)