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= 0007.0108.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|300310792|ref|YP_003774884.1| LysR family transcription regul... 605 e-174 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 162 2e-41 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 144 1e-35 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 114 9e-27 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 101 7e-23 >gi|300310792|ref|YP_003774884.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 605 bits (1560), Expect = e-174, Method: Compositional matrix adjust. Identities = 302/302 (100%), Positives = 302/302 (100%) Query: 1 MRINIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVS 60 MRINIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVS Sbjct: 1 MRINIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVS 60 Query: 61 LTPAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARS 120 LTPAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARS Sbjct: 61 LTPAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARS 120 Query: 121 HANVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLA 180 HANVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLA Sbjct: 121 HANVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLA 180 Query: 181 AHASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRPVIQYETNHVAGAISLVAAGLG 240 AHASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRPVIQYETNHVAGAISLVAAGLG Sbjct: 181 AHASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRPVIQYETNHVAGAISLVAAGLG 240 Query: 241 VALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAISTRS 300 VALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAISTRS Sbjct: 241 VALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAISTRS 300 Query: 301 GK 302 GK Sbjct: 301 GK 302 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 162 bits (411), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 108/305 (35%), Positives = 169/305 (55%), Gaps = 14/305 (4%) Query: 3 INIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVSLT 62 + I+ +QAF+A+A SF+ AA L +TQ A++ R+ LE L L +RTTR ++LT Sbjct: 1 MKIDILGVQAFVAIADHGSFQGAAGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSIALT 60 Query: 63 PAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARSHA 122 G FL A+ ++ EL A+ + + RR V++ACVP+V LP++L+ Y+ + Sbjct: 61 EIGRDFLPQARRLLAELAGALVEIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYP 120 Query: 123 NVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLAAH 182 + R++I+D +++ V E+V + E +FG++ G E+ LT +RY+ + P HPLA Sbjct: 121 HNRIKILDHASSAVAEAVLRREVEFGIHIAGEHHPELISVALTEDRYVLICPKDHPLARR 180 Query: 183 ASLNWKSLAGEKLVSVSSSSGNRSLID-----NAFSRVPQRPVIQYETNHVAGAISLVAA 237 + W+ L L+ S NR+L+D N F+ R YE + A+ LVA Sbjct: 181 RRIAWRQLQSYPLIFAGEVSSNRALLDPTLKANGFA---LRSF--YEVQRSSTAVGLVAQ 235 Query: 238 GLGVALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAIS 297 G+GVA++P+LAI+ Y + + PV+SR++ LIT K L PA AQAL D I Sbjct: 236 GVGVAVVPKLAIQEGAYPTVRVIELVDPVVSRSLVLITRKAAHLSPA----AQALYDMIR 291 Query: 298 TRSGK 302 G Sbjct: 292 EHEGD 296 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 144 bits (363), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 97/292 (33%), Positives = 153/292 (52%), Gaps = 9/292 (3%) Query: 1 MRINIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVS 60 M+ NI T LQAF+A+A F AA+ ++Q A S I+ +E A RLF+R TR V+ Sbjct: 1 MQTNISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVT 60 Query: 61 LTPAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARS 120 LTP GELF+ A+ ++ ++E A + +A+R+ V +A +PS+A LP VL Y + Sbjct: 61 LTPEGELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQR 120 Query: 121 HANVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLA 180 + V V + D + L+ +R G+ D + G E D L + + V H LA Sbjct: 121 YPGVTVELFDAISDQCLDLLRHGKVDIALTAPGPNLLEFDTRPLCSDPFYLVCRKDHKLA 180 Query: 181 AHASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRP--VIQ--YETNHVAGAISLVA 236 + + LAG +++ ++ S+ R +D RP VI E H+A +L+ Sbjct: 181 SKRRIKVPQLAGCEMIHLARSTSVRQHLDAVL-----RPGGVIHTGLEVEHLATVAALIE 235 Query: 237 AGLGVALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATL 288 +GLGV+++PEL + +VA P+ +P L R + ++T K R L AA L Sbjct: 236 SGLGVSVVPELTLFQFRLPNLVAIPLDAPELKRPLLIVTPKERSLSVAAQGL 287 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 114 bits (285), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 87/273 (31%), Positives = 136/273 (49%), Gaps = 14/273 (5%) Query: 5 IETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVSLTPA 64 +E L+ F AVA SF AAE L I QP LSR+I LE+ L L DR +R ++LT A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 65 GELFLVHAQAVMEELELAVKSVEQRMAQRREH-VTVACVPSVANNLLPQVLKRYARSHAN 123 G+ F V+ LE ++ + +A+ R+H + VPS LLP+++KR+ Sbjct: 61 GKFFYEQTLQVLSRLE-QIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPE 119 Query: 124 VRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLAAHA 183 + + + + +E+++ G D G + + +I + E +AV P HPL A Sbjct: 120 IEIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLARN 179 Query: 184 SLNWKSLAGEKLVSVSS----SSGNRSLIDNAFSRVPQRPVIQYETNHVAGAISLVAAGL 239 + LA ++ + + S ++ L + FS RP I E N + AI LVAAG+ Sbjct: 180 KVTLAQLAAQRFILYPARPRPSYADQVL--DIFSSRALRPSIVKEANEMQTAIGLVAAGV 237 Query: 240 GVALLPELAIRNAPYKGIVARP-----VTSPVL 267 GV L+P +++ +V RP V SPV+ Sbjct: 238 GVTLVPR-SVQGLHRSDVVYRPLSNKGVHSPVI 269 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 101 bits (252), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 76/248 (30%), Positives = 118/248 (47%), Gaps = 12/248 (4%) Query: 5 IETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVSLTPA 64 IE L F VA F AAE L I+QP L+R+I LE+ L +LFDR+ R + LT A Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 65 GELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARSHANV 124 G+ F + + LE A ++V + + V + S A N+LP V + Y+ ++ V Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 125 RVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLAAHAS 184 +R+ + + + + D G+ + +D + E LAV+P H LA S Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQS 181 Query: 185 LNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQ-------RPVIQYETNHVAGAISLVAA 237 ++ LA + +S+ R + + + Q RP I ETN ++LV Sbjct: 182 ISAAELAEDAFISIP-----RMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGE 236 Query: 238 GLGVALLP 245 GLGVAL+P Sbjct: 237 GLGVALVP 244 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 0.319 0.130 0.354 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: 703,697 Number of extensions: 23711 Number of successful extensions: 213 Number of sequences better than 1.0e-08: 87 Number of HSP's gapped: 196 Number of HSP's successfully gapped: 87 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 (21.8 bits) S2: 130 (54.7 bits)