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= 0001.0094.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 513 e-147 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 135 3e-33 gi|300310792|ref|YP_003774884.1| LysR family transcription regul... 135 4e-33 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 102 3e-23 gi|300312482|ref|YP_003776574.1| LysR family transcription regul... 94 1e-20 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 513 bits (1320), Expect = e-147, Method: Compositional matrix adjust. Identities = 245/297 (82%), Positives = 275/297 (92%) Query: 1 MQANISTRLLQGFLALNDCRHFGHAAERCHVSQSAFSVMIQKLEAAAGAKLFVRDTRNVT 60 MQ NISTRLLQ FLAL DCRHFGHAA+RCHVSQSAFS MIQK+EAAAGA+LF RDTRNVT Sbjct: 1 MQTNISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVT 60 Query: 61 LTAEGELFVEVARQLMTDIEAAFSNMSDYVARRKGKVSIAALPSLAAGWLPPVLAAYRAQ 120 LT EGELFV+VARQL++DIEAAFS+MSDYVARRKG+V+IAALPSLAAGWLPPVLA YR + Sbjct: 61 LTPEGELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQR 120 Query: 121 YPGVTVELFDALSDHCLNYLRQGKADIALTAPGPNLMEFDTQPLCEDPFYLVCRRDHKLA 180 YPGVTVELFDA+SD CL+ LR GK DIALTAPGPNL+EFDT+PLC DPFYLVCR+DHKLA Sbjct: 121 YPGVTVELFDAISDQCLDLLRHGKVDIALTAPGPNLLEFDTRPLCSDPFYLVCRKDHKLA 180 Query: 181 KKRVIQVPQLAGCELIHLARSTSVRQHLDALLQPVGVVNTGLEVEHLATVAGLIESGLGV 240 KR I+VPQLAGCE+IHLARSTSVRQHLDA+L+P GV++TGLEVEHLATVA LIESGLGV Sbjct: 181 SKRRIKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGVIHTGLEVEHLATVAALIESGLGV 240 Query: 241 SLVPELTLFQFRHPNLVAIPLNAPDLVRPLLIVKAKERSLSIAAQGLLELIQEKSRS 297 S+VPELTLFQFR PNLVAIPL+AP+L RPLLIV KERSLS+AAQGLLEL++ K+++ Sbjct: 241 SVVPELTLFQFRLPNLVAIPLDAPELKRPLLIVTPKERSLSVAAQGLLELVEGKAKA 297 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 135 bits (341), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 93/285 (32%), Positives = 155/285 (54%), Gaps = 1/285 (0%) Query: 10 LQGFLALNDCRHFGHAAERCHVSQSAFSVMIQKLEAAAGAKLFVRDTRNVTLTAEGELFV 69 +Q F+A+ D F AA HV+Q+A ++ ++KLE G L R TR++ LT G F+ Sbjct: 8 VQAFVAIADHGSFQGAAGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSIALTEIGRDFL 67 Query: 70 EVARQLMTDIEAAFSNMSDYVARRKGKVSIAALPSLAAGWLPPVLAAYRAQYPGVTVELF 129 AR+L+ ++ A + + R+G VSIA +P++ +LP +L AY A+YP +++ Sbjct: 68 PQARRLLAELAGALVEIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYPHNRIKIL 127 Query: 130 DALSDHCLNYLRQGKADIALTAPGPNLMEFDTQPLCEDPFYLVCRRDHKLAKKRVIQVPQ 189 D S + + + + + G + E + L ED + L+C +DH LA++R I Q Sbjct: 128 DHASSAVAEAVLRREVEFGIHIAGEHHPELISVALTEDRYVLICPKDHPLARRRRIAWRQ 187 Query: 190 LAGCELIHLARSTSVRQHLDALLQPVG-VVNTGLEVEHLATVAGLIESGLGVSLVPELTL 248 L LI +S R LD L+ G + + EV+ +T GL+ G+GV++VP+L + Sbjct: 188 LQSYPLIFAGEVSSNRALLDPTLKANGFALRSFYEVQRSSTAVGLVAQGVGVAVVPKLAI 247 Query: 249 FQFRHPNLVAIPLNAPDLVRPLLIVKAKERSLSIAAQGLLELIQE 293 + +P + I L P + R L+++ K LS AAQ L ++I+E Sbjct: 248 QEGAYPTVRVIELVDPVVSRSLVLITRKAAHLSPAAQALYDMIRE 292 >gi|300310792|ref|YP_003774884.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 135 bits (340), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 99/305 (32%), Positives = 156/305 (51%), Gaps = 11/305 (3%) Query: 1 MQANISTRLLQGFLALNDCRHFGHAAERCHVSQSAFSVMIQKLEAAAGAKLFVRDTRNVT 60 M+ NI T LQ F+A+ F AAE ++Q A S I+ LE A +LF R TR V+ Sbjct: 1 MRINIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVS 60 Query: 61 LTAEGELFVEVARQLMTDIEAAFSNMSDYVARRKGKVSIAALPSLAAGWLPPVLAAYRAQ 120 LT GELF+ A+ +M ++E A ++ +A+R+ V++A +PS+A LP VL Y Sbjct: 61 LTPAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARS 120 Query: 121 YPGVTVELFDALSDHCLNYLRQGKADIALTAPGPNLMEFDTQPLCEDPFYLVCRRDHKLA 180 + V V + D + L +R+G+AD + G E D L + + V H LA Sbjct: 121 HANVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLA 180 Query: 181 KKRVIQVPQLAGCELIHLARSTSVRQHLDALL-----QPVGVVNTGLEVEHLATVAGLIE 235 + LAG +L+ ++ S+ R +D +PV E H+A L+ Sbjct: 181 AHASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRPV----IQYETNHVAGAISLVA 236 Query: 236 SGLGVSLVPELTLFQFRHPNLVAIPLNAPDLVRPLLIVKAKERSLSIAAQGLLELIQE-- 293 +GLGV+L+PEL + + +VA P+ +P L R + ++ K R L AA L + +++ Sbjct: 237 AGLGVALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAI 296 Query: 294 KSRSG 298 +RSG Sbjct: 297 STRSG 301 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 102 bits (255), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 113/247 (45%), Gaps = 11/247 (4%) Query: 5 ISTRLLQGFLALNDCRHFGHAAERCHVSQSAFSVMIQKLEAAAGAKLFVRDTRNVTLTAE 64 I R L F + + HFG AAE H+SQ + I LE GA+LF R R + LTA Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 65 GELFVEVARQLMTDIEAAFSNMSDYVARRKGKVSIAALPSLAAGWLPPVLAAYRAQYPGV 124 G+ F ++ +E A N+S + G + + + S A LP V Y A YP V Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 125 TVELFDALSDHCLNYLRQGKADIALTAPGPNLMEFDTQPLCEDPFYLVCRRDHKLAKKRV 184 + L + + + + K D+ + + D+ + +P V RDH+LA ++ Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQS 181 Query: 185 IQVPQLAGCELIHLARSTS------VRQHLDAL-LQPVGVVNTGLEVEHLATVAGLIESG 237 I +LA I + R + ++QH +P V+ T L+ T+ L+ G Sbjct: 182 ISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQ----QTIVNLVGEG 237 Query: 238 LGVSLVP 244 LGV+LVP Sbjct: 238 LGVALVP 244 >gi|300312482|ref|YP_003776574.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 94.4 bits (233), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 63/203 (31%), Positives = 99/203 (48%), Gaps = 6/203 (2%) Query: 10 LQGFLALNDCRHFGHAAERCHVSQSAFSVMIQKLEAAAGAKLFVRDTRNVTLTAEGELFV 69 L+ FL + C A++R +V+ SA S I LE LF R R + L+A GE+ Sbjct: 11 LRYFLEVVRCGSISEASQRLNVASSAISRQISSLEQILDTVLFERRPRGMVLSAGGEMLA 70 Query: 70 EVARQLMTDIEAAFSNMSDYVARRKGKVSIAALPSLAAGWLPPVLAAYRAQYPGVTVELF 129 AR++ + + +++ R G+V ++A A +LP ++ A++ +YPG +LF Sbjct: 71 AHARKMALEADRVVADLQALKGLRSGRVRLSASEGFAIDFLPRLINAFQKKYPGFVFQLF 130 Query: 130 DALSDHCLNYLRQGKADIALT---APGPNLMEFDTQPLCEDPFYLVCRRDHKLAKKRVIQ 186 +R+G ADI LT P P + QP P L+ R+DH LA+ R I Sbjct: 131 VGAPALVSRQVREGNADIGLTFARLPEPEIKVVHRQP---GPIALIMRKDHPLARFRQIS 187 Query: 187 VPQLAGCELIHLARSTSVRQHLD 209 V QL + +T++RQ D Sbjct: 188 VGQLKPYPMALPDPTTTLRQLFD 210 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 0.394 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: 902,365 Number of extensions: 37139 Number of successful extensions: 243 Number of sequences better than 1.0e-08: 64 Number of HSP's gapped: 225 Number of HSP's successfully gapped: 64 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 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 (22.0 bits) S2: 130 (54.7 bits)