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= 0003.0077.p (298 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 581 e-167 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 189 2e-49 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 162 2e-41 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 152 3e-38 gi|300312750|ref|YP_003776842.1| LysR family transcription regul... 147 7e-37 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 581 bits (1498), Expect = e-167, Method: Compositional matrix adjust. Identities = 278/298 (93%), Positives = 290/298 (97%) Query: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALERELGAQLFDRSKRAIQLTS 60 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALE+ELGAQLFDRSKRAIQLT+ Sbjct: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 Query: 61 AGKYFYRDTTEIFKALERAKRNAASSSTGQSGALKVGFMMSSAYNILPAVTRHYSAAYPE 120 AGKYFYRDTTEIFKALERAKRN +SSSTG+SGALKVGFMMS+AYNILP+VTRHYSAAYPE Sbjct: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE 120 Query: 121 VDMRLSEYVPNLLATDLEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRGHRLAHKP 180 VDMRL+EYVPNLLATD+EDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPR HRLA + Sbjct: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQ 180 Query: 181 DISAAELAEDAFISIPRPIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV 240 ISAAELAEDAFISIPR IAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV Sbjct: 181 SISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV 240 Query: 241 ALVPTSMQAMHLDTTVFKPLIGAPTVEVAVIWNRENTNPCIRTFAETAVEVWGKMQTG 298 ALVPTSMQAMHLDTTVFKPLIGAP VEVAVIWN++NTNPCIRTFAETAVEVWG+MQ G Sbjct: 241 ALVPTSMQAMHLDTTVFKPLIGAPMVEVAVIWNKDNTNPCIRTFAETAVEVWGRMQPG 298 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 189 bits (481), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 105/259 (40%), Positives = 142/259 (54%) Query: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALERELGAQLFDRSKRAIQLTSA 61 +ELRHL YF VA TL F RAAELLHI+QPPL+RQI LE LG +L DR+ R I LT A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 62 GKYFYRDTTEIFKALERAKRNAASSSTGQSGALKVGFMMSSAYNILPAVTRHYSAAYPEV 121 GK+FY T ++ LE+ + + G+ +GF+ S+ Y +LP + + + PE+ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 122 DMRLSEYVPNLLATDLEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRGHRLAHKPD 181 ++ SE V L+ +IDVG P + TI EPL+AV P GH L + Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLARNK 180 Query: 182 ISAAELAEDAFISIPRPIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGVA 241 ++ A+LA FI P P D + RP IV E N QT + LV G+GV Sbjct: 181 VTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGVGVT 240 Query: 242 LVPTSMQAMHLDTTVFKPL 260 LVP S+Q +H V++PL Sbjct: 241 LVPRSVQGLHRSDVVYRPL 259 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 162 bits (411), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 110/292 (37%), Positives = 158/292 (54%), Gaps = 11/292 (3%) Query: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALERELGAQLFDRSKRAIQLTSA 61 +ELR L YF VAE +HFGRAA LH++QPPL++ IAALE LG LF R+KR++ LT+A Sbjct: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 Query: 62 GKYFYRDTTEIFK---ALERAKRNAASSSTGQSGALKVGFMMSSAYNILPAVTRHYSAAY 118 G + + + AL R AAS G SG L + F+ S+ Y+ILP + + + A Y Sbjct: 67 GAALLPEAQRLLQQAAALPDLVRRAAS---GASGLLSLSFISSADYSILPPLLQRFRAHY 123 Query: 119 PEVDMRLSEYVPNLLATDLEDEKIDVGIMYRP---EDCRRLDSHTIYAEPLLAVLPRGHR 175 P+V + L E ++ DL KID G++ P + L+ + +EPL+A LP G Sbjct: 124 PQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPEGAV 183 Query: 176 LAHKPDISAAELAEDAFISIPRPIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVG 235 P +S L E I PR IAP +D I + G P I E QTIV LV Sbjct: 184 RKRGP-VSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVS 242 Query: 236 EGLGVALVPTSMQAMHLDTTVFKPLIG-APTVEVAVIWNRENTNPCIRTFAE 286 G+G+ALVP S+ + ++ L AP ++ ++ W R++ + +R E Sbjct: 243 AGMGMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRALLE 294 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 152 bits (384), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 91/286 (31%), Positives = 146/286 (51%), Gaps = 3/286 (1%) Query: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALERELGAQLFDRSKRAIQLTS 60 M++L + F A L+F RAA LL+++QPPL+RQI LE LG QLF+R R ++LT+ Sbjct: 1 MLDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTT 60 Query: 61 AGKYFYRDTTEIFKALERAKRNAASSSTGQSGALKVGFMMSSAYNILPAVTRHYSAAYPE 120 G+ F D + + + E+A+ +S G++G ++VGF ++ Y ++P + + PE Sbjct: 61 EGRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPE 120 Query: 121 VDMRLSEYVPNLLATDLEDEKIDVGIMYRPEDCRR-LDSHTIYAEPLLAVLPRGHRLAHK 179 +D+ L E + ID+G + RP R+ L+ + E L+ +P+GH LA Sbjct: 121 IDVVLFELISVAQLEAFTANTIDIGFL-RPVASRQPLELQLVDEEALVLAMPQGHALAAY 179 Query: 180 PDISAAELAEDAFISIPRPIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLG 239 I+ +L FI Y+ I +P + TI++LV GLG Sbjct: 180 DRIATTQLDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGLG 239 Query: 240 VALVPTSMQAMHLDTTVFKPLIG-APTVEVAVIWNRENTNPCIRTF 284 V ++P S Q H D F+PL AP E+++ W + NP + F Sbjct: 240 VGILPASAQRFHYDRVEFRPLADEAPRAEMSMAWRPDQDNPAVTAF 285 >gi|300312750|ref|YP_003776842.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 147 bits (372), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 92/271 (33%), Positives = 143/271 (52%), Gaps = 5/271 (1%) Query: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALERELGAQLFDRSKRAIQLTSA 61 I+LR L YF VAE H +AAE + I QPPL++QI LERELG LF+R R ++LT + Sbjct: 19 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDS 78 Query: 62 GKYFYRDTTEIFKALERAKRNAASSSTGQSGALKVGFMMSSAYN-ILPAVTRHYSAAYPE 120 G D + L+ + + G+ G + VGF S++ + + +V R + A P+ Sbjct: 79 GAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 138 Query: 121 VDMRLSEYVPNLLATDLEDEKIDVGIMYRP-EDCRRLDSHTIYAEPLLAVLPRGHRL--- 176 V M + E N L L +++D+ + P D L T+ E ++A LP H L Sbjct: 139 VAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPLVDG 198 Query: 177 AHKPDISAAELAEDAFISIPRPIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGE 236 + I+ LAE++FI RP P +YD I C GF P+++ E + ++LV Sbjct: 199 GKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLVAA 258 Query: 237 GLGVALVPTSMQAMHLDTTVFKPLIGAPTVE 267 G+GV ++P SM ++ + V+ L GAP ++ Sbjct: 259 GVGVTVIPASMTRVNAEGVVYLKLTGAPDLK 289 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 0.394 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: 900,521 Number of extensions: 37360 Number of successful extensions: 228 Number of sequences better than 1.0e-08: 61 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 61 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 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)