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= 0029.0275.p (302 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... 607 e-175 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 191 7e-50 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 161 5e-41 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 156 2e-39 gi|300312750|ref|YP_003776842.1| LysR family transcription regul... 151 8e-38 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 607 bits (1565), Expect = e-175, Method: Compositional matrix adjust. Identities = 292/296 (98%), Positives = 295/296 (99%) Query: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA Sbjct: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 Query: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE 120 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE Sbjct: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE 120 Query: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQ 180 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQ Sbjct: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQ 180 Query: 181 SISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV 240 SISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV Sbjct: 181 SISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV 240 Query: 241 ALVPTSMQAMHLDTTVFKPLIGAPMVEVAVIWNKDNTNPCIRTFADTAVEVWRKLQ 296 ALVPTSMQAMHLDTTVFKPLIGAPMVEVAVIWNKDNTNPCIRTFA+TAVEVW ++Q Sbjct: 241 ALVPTSMQAMHLDTTVFKPLIGAPMVEVAVIWNKDNTNPCIRTFAETAVEVWGRMQ 296 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 191 bits (484), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 108/283 (38%), Positives = 147/283 (51%), Gaps = 11/283 (3%) Query: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 +ELRHL YF VA TL F RAAELLHI+QPPL+RQI LE+ LG +L DR+ R I LT A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 GK+FY T ++ LE+ + + G+ +GF+ S Y +LP + + + PE+ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQS 181 ++ +E V ++ +IDVG P + TI EPL+AV P H L R Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLARNK 180 Query: 182 ISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGVA 241 ++ A+LA FI P P D + RP IV E N QT + LV G+GV Sbjct: 181 VTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGVGVT 240 Query: 242 LVPTSMQAMHLDTTVFKPLIGAPMVEVAVIWNKDNTNPCIRTF 284 LVP S+Q +H V++PL NK +P I F Sbjct: 241 LVPRSVQGLHRSDVVYRPL-----------SNKGVHSPVIMNF 272 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 161 bits (408), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 103/287 (35%), Positives = 156/287 (54%), Gaps = 5/287 (1%) Query: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 +ELR L YF VAE +HFGRAA LH++QPPL++ IAALE+ LG LF R+KR++ LTAA Sbjct: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 Query: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 G + + + V +++G SG L + F+ S Y+ILP + + + A YP+V Sbjct: 67 GAALLPEAQRLLQQAAALPDLVRRAASGASGLLSLSFISSADYSILPPLLQRFRAHYPQV 126 Query: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRP---EDCRRLDSHTIYAEPLLAVLPRDHRLAG 178 + L E ++ D+ KID G++ P + L+ + +EPL+A LP + + Sbjct: 127 QIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALP-EGAVRK 185 Query: 179 RQSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGL 238 R +S L E I PR IAP +D I + G P I E QTIV LV G+ Sbjct: 186 RGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 Query: 239 GVALVPTSMQAMHLDTTVFKPLIG-APMVEVAVIWNKDNTNPCIRTF 284 G+ALVP S+ + ++ L AP ++ ++ W +D+ + +R Sbjct: 246 GMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRAL 292 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 156 bits (394), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 93/286 (32%), Positives = 144/286 (50%), Gaps = 3/286 (1%) Query: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 M++L + F A L+F RAA LL+++QPPL+RQI LE LG QLF+R R ++LT Sbjct: 1 MLDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTT 60 Query: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE 120 G+ F D + + + E+A+ V +S GK+G ++VGF + Y ++P + + PE Sbjct: 61 EGRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPE 120 Query: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRR-LDSHTIYAEPLLAVLPRDHRLAGR 179 +D+ L E + ID+G + RP R+ L+ + E L+ +P+ H LA Sbjct: 121 IDVVLFELISVAQLEAFTANTIDIGFL-RPVASRQPLELQLVDEEALVLAMPQGHALAAY 179 Query: 180 QSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLG 239 I+ +L FI Y+ I +P + TI++LV GLG Sbjct: 180 DRIATTQLDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGLG 239 Query: 240 VALVPTSMQAMHLDTTVFKPLIG-APMVEVAVIWNKDNTNPCIRTF 284 V ++P S Q H D F+PL AP E+++ W D NP + F Sbjct: 240 VGILPASAQRFHYDRVEFRPLADEAPRAEMSMAWRPDQDNPAVTAF 285 >gi|300312750|ref|YP_003776842.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 151 bits (381), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 95/268 (35%), Positives = 143/268 (53%), Gaps = 5/268 (1%) Query: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 I+LR L YF VAE H +AAE + I QPPL++QI LE+ELG LF+R R ++LT + Sbjct: 19 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDS 78 Query: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYN-ILPSVTRHYSAAYPE 120 G D + L+ +V + GK G + VGF S + + + SV R + A P+ Sbjct: 79 GAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 138 Query: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRP-EDCRRLDSHTIYAEPLLAVLPRDHRL--- 176 V M + E N L + +++D+ + P D L T+ E ++A LP DH L Sbjct: 139 VAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPLVDG 198 Query: 177 AGRQSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGE 236 R+SI+ LAE++FI R P +YD I C GF P+++ E + ++LV Sbjct: 199 GKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLVAA 258 Query: 237 GLGVALVPTSMQAMHLDTTVFKPLIGAP 264 G+GV ++P SM ++ + V+ L GAP Sbjct: 259 GVGVTVIPASMTRVNAEGVVYLKLTGAP 286 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 0.322 0.135 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: 904,956 Number of extensions: 37040 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 63 Number of HSP's gapped: 197 Number of HSP's successfully gapped: 63 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 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)