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= 0008.0136.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|300312961|ref|YP_003777053.1| transcription regulator protein... 575 e-165 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 250 1e-67 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 194 6e-51 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 165 4e-42 gi|300312750|ref|YP_003776842.1| LysR family transcription regul... 163 2e-41 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 575 bits (1481), Expect = e-165, Method: Compositional matrix adjust. Identities = 279/299 (93%), Positives = 294/299 (98%) Query: 1 VELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGAELIDRASRPIALTMA 60 +ELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLG ELIDRASRPIALTMA Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GKFFYEQTLQVLSRLEQIEEGTRVIAHGQQHWFNIGFVPSALYGLLPEMIKRFRADMPDI 120 GKFFYEQTLQVLSRLEQIEEGTRVIA G+QHWFNIGFVPSALYGLLPEMIKRFR +MP+I Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 121 EIGFSEIVTMEQIEALKSGRIDVGFGRLPISDPDILCETIVEEPLVAVFPLGHPLLARSK 180 EIGFSEIVTMEQ+EALKSGRIDVGFGRLPISDPDI+CETIVEEPLVAVFPLGHPLLAR+K Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLARNK 180 Query: 181 VTLAQLAEERFILYPAKPRPSYADQVLDIFSSRALRPAIVKEANEMQTAIGLVAAGVGVT 240 VTLAQLA +RFILYPA+PRPSYADQVLDIFSSRALRP+IVKEANEMQTAIGLVAAGVGVT Sbjct: 181 VTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGVGVT 240 Query: 241 LVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRANDRSLLLQTLRSTAASIARMHAEEY 299 LVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRANDRSLLL+ LR+TAA+IAR+HA+EY Sbjct: 241 LVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRANDRSLLLERLRTTAATIARLHAQEY 299 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 250 bits (638), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 132/301 (43%), Positives = 199/301 (66%), Gaps = 6/301 (1%) Query: 1 VELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGAELIDRASRPIALTMA 60 +++R LKYF AVA+T +F+RA+E LHIAQPPLSRQI+ LEE LG +L+ R SRP+ LT A Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 61 GKFFYEQTLQVLSRLEQIEEGTRVIAHGQQHWFNIGFVPSALYGLLPEMIKRFRADMPDI 120 G+ FYEQ LQ+L+RL+Q++ T+ I Q+ +IGFV S LYG LP ++++ R P++ Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 Query: 121 EIGFSEIVTMEQIEALKSGRIDVGFGRLPISDPDILCETIVEEPLVAVFPLGHPLL-ARS 179 +I E+ +M+Q ALKSGRIDVGFGR+ +D + + EE LV P L + Sbjct: 121 DIQLLELTSMQQFAALKSGRIDVGFGRIRSNDATVARIVLREEKLVLAIPPSFALAGSNQ 180 Query: 180 KVTLAQLAEERFILYPAKPRPSYADQVLDIFSSRALRPAIVKEANEMQTAIGLVAAGVGV 239 +V+L ++ ++ I+YP +PRPS+AD +L + + + + PA V E E+QTA+GLVAA G+ Sbjct: 181 RVSLKEVHGQKLIVYPKEPRPSFADHILSLLNDQDIHPAEVHEVREIQTALGLVAAESGI 240 Query: 240 TLVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRANDRSLLLQTLRSTAASIARMHAEEY 299 L+P S + R+D+ YR + + SP+I+ R ND + ++ ++ +A M+AE Sbjct: 241 CLIPASAR--LRNDLHYRLIDDARATSPIILTHRINDNAWYIEAVKRL---VADMYAEHP 295 Query: 300 A 300 A Sbjct: 296 A 296 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 194 bits (494), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 110/283 (38%), Positives = 151/283 (53%), Gaps = 11/283 (3%) Query: 1 VELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGAELIDRASRPIALTMA 60 +ELRHL YF VA TL F RAAELLHI+QPPL+RQI LE+ LGA+L DR+ R I LT A Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 61 GKFFYEQTLQVLSRLEQIEEGTRVIAHGQQHWFNIGFVPSALYGLLPEMIKRFRADMPDI 120 GK+FY T ++ LE+ + + G+ +GF+ S Y +LP + + + A P++ Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 121 EIGFSEIVTMEQIEALKSGRIDVGFGRLPISDPDILCETIVEEPLVAVFPLGHPLLARSK 180 ++ +E V ++ +IDVG P + TI EPL+AV P H L R Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQS 181 Query: 181 VTLAQLAEERFILYPAKPRPSYADQVLDIFSSRALRPAIVKEANEMQTAIGLVAAGVGVT 240 ++ A+LAE+ FI P P D + RP IV E N QT + LV G+GV Sbjct: 182 ISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGVA 241 Query: 241 LVPRSVQGLHRSDVVYRPL-----------SNKGVHSPVIMNF 272 LVP S+Q +H V++PL NK +P I F Sbjct: 242 LVPTSMQAMHLDTTVFKPLIGAPMVEVAVIWNKDNTNPCIRTF 284 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 165 bits (417), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 106/287 (36%), Positives = 158/287 (55%), Gaps = 4/287 (1%) Query: 1 VELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGAELIDRASRPIALTMA 60 +ELR L+YF AVA + F RAA LH+ QPPLS+ I LEE+LG L R R +ALT A Sbjct: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 Query: 61 GKFFYEQTLQVLSRLEQIEEGTRVIAHGQQHWFNIGFVPSALYGLLPEMIKRFRADMPDI 120 G + ++L + + + R A G ++ F+ SA Y +LP +++RFRA P + Sbjct: 67 GAALLPEAQRLLQQAAALPDLVRRAASGASGLLSLSFISSADYSILPPLLQRFRAHYPQV 126 Query: 121 EIGFSEIVTMEQIEALKSGRIDVGFGRLPISDPD---ILCETIVEEPLVAVFPLGHPLLA 177 +I E T Q+E L G+ID G P+ + + ++ EPL+A P G + Sbjct: 127 QIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPEGA-VRK 185 Query: 178 RSKVTLAQLAEERFILYPAKPRPSYADQVLDIFSSRALRPAIVKEANEMQTAIGLVAAGV 237 R V+L L E I++P + P++ D +L F + P I +EA +MQT +GLV+AG+ Sbjct: 186 RGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 Query: 238 GVTLVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRANDRSLLLQTL 284 G+ LVP+SV L R V YR LS+ + +R + S +L+ L Sbjct: 246 GMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRAL 292 >gi|300312750|ref|YP_003776842.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 163 bits (412), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 105/294 (35%), Positives = 160/294 (54%), Gaps = 6/294 (2%) Query: 1 VELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGAELIDRASRPIALTMA 60 ++LR L+YF AVA ++AAE + I QPPLS+QIR LE LG L +R R + LT + Sbjct: 19 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDS 78 Query: 61 GKFFYEQTLQVLSRLEQIEEGTRVIAHGQQHWFNIGFVPSA-LYGLLPEMIKRFRADMPD 119 G +L++L+ R IA G+ +GF SA L+ + +I+ FRAD PD Sbjct: 79 GAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 138 Query: 120 IEIGFSEIVTMEQIEALKSGRIDVGFGRLPISDPDILC-ETIVEEPLVAVFPLGHPLL-- 176 + + E T E IEAL+ R+D+ F R P+ D L ET++EE +VA P+ HPL+ Sbjct: 139 VAMTVEESNTNELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPLVDG 198 Query: 177 -ARSKVTLAQLAEERFILYPAKPRPSYADQVLDIFSSRALRPAIVKEANEMQTAIGLVAA 235 R + L LAEE FI+ P D ++ + P +++EA + + + LVAA Sbjct: 199 GKRKSIALHALAEESFIMTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLVAA 258 Query: 236 GVGVTLVPRSVQGLHRSDVVYRPLSNK-GVHSPVIMNFRANDRSLLLQTLRSTA 288 GVGVT++P S+ ++ VVY L+ + +P+ + +R S + +R A Sbjct: 259 GVGVTVIPASMTRVNAEGVVYLKLTGAPDLKAPLHLAYRTGSISGAARLMREEA 312 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 0.137 0.387 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: 827,285 Number of extensions: 32005 Number of successful extensions: 229 Number of sequences better than 1.0e-08: 60 Number of HSP's gapped: 192 Number of HSP's successfully gapped: 60 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 (21.9 bits) S2: 130 (54.7 bits)