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= 0001.1123.p (317 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 601 e-173 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 259 2e-70 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 144 8e-36 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 133 2e-32 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 125 4e-30 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 601 bits (1549), Expect = e-173, Method: Compositional matrix adjust. Identities = 292/316 (92%), Positives = 307/316 (97%) Query: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLILRNSRPLRLTEA 60 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQL+LRNSRPLRLTEA Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 61 GRMFYEQALQILNRLDQLKHATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 GR+FYEQALQILNRLDQLK+ATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 Query: 121 DIQLLELTSMQQFAALKSGRIDIGFGRIRGNDATVARTVLREERLVLAIPPAFPLATSQQ 180 DIQLLELTSMQQFAALKSGRID+GFGRIR NDATVAR VLREE+LVLAIPP+F LA S Q Sbjct: 121 DIQLLELTSMQQFAALKSGRIDVGFGRIRSNDATVARIVLREEKLVLAIPPSFALAGSNQ 180 Query: 181 RVSLKELHGQKLIVYPKEPRPSFADHILSLLNDQDIQPAEVHEVREIQTALGLVAAESGL 240 RVSLKE+HGQKLIVYPKEPRPSFADHILSLLNDQDI PAEVHEVREIQTALGLVAAESG+ Sbjct: 181 RVSLKEVHGQKLIVYPKEPRPSFADHILSLLNDQDIHPAEVHEVREIQTALGLVAAESGI 240 Query: 241 CLIPASARLRNDLHYRLIDDTRATSPIILTHRINDNAWYIDAVKQLVADMYAEHPAWLDI 300 CLIPASARLRNDLHYRLIDD RATSPIILTHRINDNAWYI+AVK+LVADMYAEHPAWLDI Sbjct: 241 CLIPASARLRNDLHYRLIDDARATSPIILTHRINDNAWYIEAVKRLVADMYAEHPAWLDI 300 Query: 301 ETSSFPAAAFPMPERR 316 +T+SFPA FP+P+R+ Sbjct: 301 DTNSFPATGFPIPQRK 316 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 259 bits (663), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 133/296 (44%), Positives = 198/296 (66%), Gaps = 3/296 (1%) Query: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLILRNSRPLRLTEA 60 M++R LKYF AVA+T +F+RA+E LHIAQPPLSRQI+ LEE LGV+LI R SRP+ LT A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GRMFYEQALQILNRLDQLKHATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 G+ FYEQ LQ+L+RL+Q++ T+ I ++ +IGFV S LYG LP ++++ R PE+ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 121 DIQLLELTSMQQFAALKSGRIDIGFGRIRGNDATVARTVLREERLVLAIPPAFPLATSQQ 180 +I E+ +M+Q ALKSGRID+GFGR+ +D + + EE LV P PL ++ Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPL-LARN 179 Query: 181 RVSLKELHGQKLIVYPKEPRPSFADHILSLLNDQDIQPAEVHEVREIQTALGLVAAESGL 240 +V+L +L Q+ I+YP PRPS+AD +L + + + ++P+ V E E+QTA+GLVAA G+ Sbjct: 180 KVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGVGV 239 Query: 241 CLIPASAR--LRNDLHYRLIDDTRATSPIILTHRINDNAWYIDAVKQLVADMYAEH 294 L+P S + R+D+ YR + + SP+I+ R ND + ++ ++ A + H Sbjct: 240 TLVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRANDRSLLLERLRTTAATIARLH 295 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 144 bits (363), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 89/255 (34%), Positives = 138/255 (54%), Gaps = 4/255 (1%) Query: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLILRNSRPLRLTEA 60 +D+ Q++ FV A NF RA+ L++ QPPLSRQI LLE LGVQL R R +RLT Sbjct: 2 LDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTE 61 Query: 61 GRMFYEQALQILNRLDQLKHATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 GR+F A ++L +Q + ++ + + +GF + Y +P L+ + R PE+ Sbjct: 62 GRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPEI 121 Query: 121 DIQLLELTSMQQFAALKSGRIDIGFGRIRGNDATVARTVLREERLVLAIPPAFPLATSQQ 180 D+ L EL S+ Q A + IDIGF R + + ++ EE LVLA+P LA + Sbjct: 122 DVVLFELISVAQLEAFTANTIDIGFLRPVASRQPLELQLVDEEALVLAMPQGHALA-AYD 180 Query: 181 RVSLKELHGQKLIVYPKEPRPSFADHILSLLNDQDIQPAEVHEVREIQTALGLVAAESGL 240 R++ +L GQ I++ F + I+++L D++P + + T L LV A G+ Sbjct: 181 RIATTQLDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGLGV 240 Query: 241 CLIPASARLRNDLHY 255 ++PASA+ HY Sbjct: 241 GILPASAQ---RFHY 252 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 98/266 (36%), Positives = 141/266 (53%), Gaps = 9/266 (3%) Query: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLILRNSRPLRLTEA 60 +++RQL+YF AVA +F RA+ +LH+ QPPLS+ I LEE LG L R R + LT A Sbjct: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 Query: 61 GRMFYEQALQILNRLDQLKHATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 G +A ++L + L ++ LS+ F++S Y LP L+++ R HYP+V Sbjct: 67 GAALLPEAQRLLQQAAALPDLVRRAASGASGLLSLSFISSADYSILPPLLQRFRAHYPQV 126 Query: 121 DIQLLELTSMQQFAALKSGRIDIGFGRIRGNDATVARTVLREERLVLAIP--PAFPLATS 178 I+L E T+ Q L G+ID G + A L E R VL+ P A P Sbjct: 127 QIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAA---LLEVRPVLSEPLIAALPEGAV 183 Query: 179 QQR--VSLKELHGQKLIVYPKEPRPSFADHILSLLNDQDIQPAEVHEVREIQTALGLVAA 236 ++R VSLK L LI++P+ P+F D ILS D + P E ++QT +GLV+A Sbjct: 184 RKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSA 243 Query: 237 ESGLCLIPASAR--LRNDLHYRLIDD 260 G+ L+P S R + YR + D Sbjct: 244 GMGMALVPQSVSNLKRPGVDYRRLSD 269 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 125 bits (314), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 83/246 (33%), Positives = 120/246 (48%), Gaps = 1/246 (0%) Query: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLILRNSRPLRLTEA 60 +++R L YF VA T +F RA+E LHI+QPPL+RQI LE+ELG QL R+ R ++LT A Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 61 GRMFYEQALQILNRLDQLKHATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 G+ FY +I L++ K + L +GF+ ST Y LP + R YPEV Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 121 DIQLLELTSMQQFAALKSGRIDIGFGRIRGNDATVARTVLREERLVLAIPPAFPLATSQQ 180 D++L E ++ +ID+G + + + E L+ +P LA +Q Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLA-GRQ 180 Query: 181 RVSLKELHGQKLIVYPKEPRPSFADHILSLLNDQDIQPAEVHEVREIQTALGLVAAESGL 240 +S EL I P+ P D I +P V E QT + LV G+ Sbjct: 181 SISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGV 240 Query: 241 CLIPAS 246 L+P S Sbjct: 241 ALVPTS 246 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 0.136 0.390 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: 891,320 Number of extensions: 33777 Number of successful extensions: 209 Number of sequences better than 1.0e-08: 67 Number of HSP's gapped: 190 Number of HSP's successfully gapped: 67 Length of query: 317 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 232 Effective length of database: 1,217,395 Effective search space: 282435640 Effective search space used: 282435640 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)