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= 0029.0287.p (184 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... 369 e-104 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 142 2e-35 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 116 1e-27 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 114 5e-27 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 111 3e-26 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 369 bits (948), Expect = e-104, Method: Compositional matrix adjust. Identities = 179/180 (99%), Positives = 180/180 (100%) Query: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA Sbjct: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 Query: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE 120 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE Sbjct: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE 120 Query: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRR 180 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGR+ Sbjct: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQ 180 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 142 bits (357), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 73/178 (41%), Positives = 101/178 (56%) 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 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGR 179 ++ +E V ++ +IDVG P + TI EPL+AV P H L R Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLAR 178 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 116 bits (290), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 68/173 (39%), Positives = 102/173 (58%), Gaps = 3/173 (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---EDCRRLDSHTIYAEPLLAVLP 171 + L E ++ D+ KID G++ P + L+ + +EPL+A LP Sbjct: 127 QIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALP 179 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 114 bits (285), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 65/177 (36%), Positives = 94/177 (53%) Query: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 +++R L YF VA T +F RA+E LHI+QPPL+RQI LE+ELG QL R+ R ++LT A Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 G+ FY +I L++ K + L +GF+ ST Y LP + R YPEV Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 Query: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAG 178 D++L E ++ +IDVG + + + E L+ +P LAG Sbjct: 121 DIQLLELTSMQQFAALKSGRIDVGFGRIRSNDATVARIVLREEKLVLAIPPSFALAG 177 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 111 bits (278), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 64/185 (34%), Positives = 102/185 (55%), Gaps = 5/185 (2%) 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-RPVASRQPLELQLVDEEALVLAMPQGHALAA- 178 Query: 180 RXYNR 184 Y+R Sbjct: 179 --YDR 181 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 0.384 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: 528,448 Number of extensions: 19778 Number of successful extensions: 159 Number of sequences better than 1.0e-08: 60 Number of HSP's gapped: 149 Number of HSP's successfully gapped: 60 Length of query: 184 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 104 Effective length of database: 1,241,070 Effective search space: 129071280 Effective search space used: 129071280 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: 127 (53.5 bits)