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= 0001.2076.p (329 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... 557 e-160 gi|300310792|ref|YP_003774884.1| LysR family transcription regul... 144 1e-35 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 141 6e-35 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 105 6e-24 gi|300312482|ref|YP_003776574.1| LysR family transcription regul... 99 5e-22 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 557 bits (1435), Expect = e-160, Method: Compositional matrix adjust. Identities = 282/330 (85%), Positives = 295/330 (89%), Gaps = 8/330 (2%) Query: 1 MQSNISTRLLQAFLALADCRHFGHAAERCHVSQSAFSAMIQKLEAATGARLFERDTRNVS 60 MQ+NISTRLLQAFLALADCRHFGHAA+RCHVSQSAFSAMIQK+EAA GARLFERDTRNV+ Sbjct: 1 MQTNISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVT 60 Query: 61 LTPEGELFVQVARQLVTDIEAALADMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQR 120 LTPEGELFVQVARQLV+DIEAA +DMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQR Sbjct: 61 LTPEGELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQR 120 Query: 121 YPGVTVELFDAISDHCLDLLRQGKADIALTAAGPNLVEFDTRALCSDPFYLVCRQDHKLA 180 YPGVTVELFDAISD CLDLLR GK DIALTA GPNL+EFDTR LCSDPFYLVCR+DHKLA Sbjct: 121 YPGVTVELFDAISDQCLDLLRHGKVDIALTAPGPNLLEFDTRPLCSDPFYLVCRKDHKLA 180 Query: 181 GKRRIKVAQLAGCEMIHLARSTSVRQHLDAVLRPGGVIHTGLEVEHLATVAALIESGLGV 240 KRRIKV QLAGCEMIHLARSTSVRQHLDAVLRPGGVIHTGLEVEHLATVAALIESGLGV Sbjct: 181 SKRRIKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGVIHTGLEVEHLATVAALIESGLGV 240 Query: 241 SVVPELTLFQFRLPKLVAIPLEAPELRRPLLIVTPKERSLSMAAQGLLELVRQKA----E 296 SVVPELTLFQFRLP LVAIPL+APEL+RPLLIVTPKERSLS+AAQGLLELV KA E Sbjct: 241 SVVPELTLFQFRLPNLVAIPLDAPELKRPLLIVTPKERSLSVAAQGLLELVEGKAKAETE 300 Query: 297 GRAPGDDGRNDKG----DAPTKSPATRRGA 322 A R + G TK A R+GA Sbjct: 301 TEAAVAGKRQESGRRASSPKTKEKAPRQGA 330 >gi|300310792|ref|YP_003774884.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 144 bits (363), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 103/304 (33%), Positives = 160/304 (52%), Gaps = 9/304 (2%) Query: 1 MQSNISTRLLQAFLALADCRHFGHAAERCHVSQSAFSAMIQKLEAATGARLFERDTRNVS 60 M+ NI T LQAF+A+A F AAE ++Q A S I+ LE A RLF+R TR VS Sbjct: 1 MRINIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVS 60 Query: 61 LTPEGELFVQVARQLVTDIEAALADMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQR 120 LTP GELF+ A+ ++ ++E A+ + +A+R+ V +A +PS+A LP VL Y + Sbjct: 61 LTPAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARS 120 Query: 121 YPGVTVELFDAISDHCLDLLRQGKADIALTAAGPNLVEFDTRALCSDPFYLVCRQDHKLA 180 + V V + D + L+ +R+G+AD + G E D L + + V H LA Sbjct: 121 HANVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLA 180 Query: 181 GKRRIKVAQLAGCEMIHLARSTSVRQHLDAVL-----RPGGVIHTGLEVEHLATVAALIE 235 + LAG +++ ++ S+ R +D RP VI E H+A +L+ Sbjct: 181 AHASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSRVPQRP--VIQ--YETNHVAGAISLVA 236 Query: 236 SGLGVSVVPELTLFQFRLPKLVAIPLEAPELRRPLLIVTPKERSLSMAAQGLLELVRQKA 295 +GLGV+++PEL + +VA P+ +P L R + ++T K R L AA L + +R Sbjct: 237 AGLGVALLPELAIRNAPYKGIVARPVTSPVLSRAMGLITLKGRVLKPAAATLAQALRDAI 296 Query: 296 EGRA 299 R+ Sbjct: 297 STRS 300 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 141 bits (356), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 99/295 (33%), Positives = 162/295 (54%), Gaps = 6/295 (2%) Query: 10 LQAFLALADCRHFGHAAERCHVSQSAFSAMIQKLEAATGARLFERDTRNVSLTPEGELFV 69 +QAF+A+AD F AA HV+Q+A + ++KLE G L ER TR+++LT G F+ Sbjct: 8 VQAFVAIADHGSFQGAAGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSIALTEIGRDFL 67 Query: 70 QVARQLVTDIEAALADMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGVTVELF 129 AR+L+ ++ AL ++ + R+G V+IA +P++ +LP +L Y RYP +++ Sbjct: 68 PQARRLLAELAGALVEIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYPHNRIKIL 127 Query: 130 DAISDHCLDLLRQGKADIALTAAGPNLVEFDTRALCSDPFYLVCRQDHKLAGKRRIKVAQ 189 D S + + + + + + AG + E + AL D + L+C +DH LA +RRI Q Sbjct: 128 DHASSAVAEAVLRREVEFGIHIAGEHHPELISVALTEDRYVLICPKDHPLARRRRIAWRQ 187 Query: 190 LAGCEMIHLARSTSVRQHLDAVLRPGGV-IHTGLEVEHLATVAALIESGLGVSVVPELTL 248 L +I +S R LD L+ G + + EV+ +T L+ G+GV+VVP+L + Sbjct: 188 LQSYPLIFAGEVSSNRALLDPTLKANGFALRSFYEVQRSSTAVGLVAQGVGVAVVPKLAI 247 Query: 249 FQFRLPKLVAIPLEAPELRRPLLIVTPKERSLSMAAQGLLELVRQKAEGRAPGDD 303 + P + I L P + R L+++T K LS AAQ L +++R+ GDD Sbjct: 248 QEGAYPTVRVIELVDPVVSRSLVLITRKAAHLSPAAQALYDMIREH-----EGDD 297 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 105 bits (261), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 117/247 (47%), Gaps = 11/247 (4%) Query: 5 ISTRLLQAFLALADCRHFGHAAERCHVSQSAFSAMIQKLEAATGARLFERDTRNVSLTPE 64 I R L F +A+ HFG AAE H+SQ + I LE GA+LF+R R + LT Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 65 GELFVQVARQLVTDIEAALADMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGV 124 G+ F + ++ +E A ++S + G + + + S A LP V Y YP V Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 125 TVELFDAISDHCLDLLRQGKADIALTAAGPNLVEFDTRALCSDPFYLVCRQDHKLAGKRR 184 + L + + + + K D+ + + D+ + ++P V +DH+LAG++ Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQS 181 Query: 185 IKVAQLAGCEMIHLARSTS------VRQHLDAV-LRPGGVIHTGLEVEHLATVAALIESG 237 I A+LA I + R + ++QH RP V+ T L+ T+ L+ G Sbjct: 182 ISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQ----QTIVNLVGEG 237 Query: 238 LGVSVVP 244 LGV++VP Sbjct: 238 LGVALVP 244 >gi|300312482|ref|YP_003776574.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 99.0 bits (245), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 114/240 (47%), Gaps = 1/240 (0%) Query: 10 LQAFLALADCRHFGHAAERCHVSQSAFSAMIQKLEAATGARLFERDTRNVSLTPEGELFV 69 L+ FL + C A++R +V+ SA S I LE LFER R + L+ GE+ Sbjct: 11 LRYFLEVVRCGSISEASQRLNVASSAISRQISSLEQILDTVLFERRPRGMVLSAGGEMLA 70 Query: 70 QVARQLVTDIEAALADMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGVTVELF 129 AR++ + + +AD+ R GRV ++A A +LP ++ ++++YPG +LF Sbjct: 71 AHARKMALEADRVVADLQALKGLRSGRVRLSASEGFAIDFLPRLINAFQKKYPGFVFQLF 130 Query: 130 DAISDHCLDLLRQGKADIALTAAGPNLVEFDTRALCSDPFYLVCRQDHKLAGKRRIKVAQ 189 +R+G ADI LT A E P L+ R+DH LA R+I V Q Sbjct: 131 VGAPALVSRQVREGNADIGLTFARLPEPEIKVVHRQPGPIALIMRKDHPLARFRQISVGQ 190 Query: 190 LAGCEMIHLARSTSVRQHLD-AVLRPGGVIHTGLEVEHLATVAALIESGLGVSVVPELTL 248 L M +T++RQ D A R VI + ++ ++ + +S+ E+T+ Sbjct: 191 LKPYPMALPDPTTTLRQLFDIACSRQQVVIEPVMTSNYIQSLHNYVLDNDALSITGEVTV 250 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 0.390 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: 970,223 Number of extensions: 38173 Number of successful extensions: 292 Number of sequences better than 1.0e-08: 81 Number of HSP's gapped: 256 Number of HSP's successfully gapped: 81 Length of query: 329 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 243 Effective length of database: 1,212,660 Effective search space: 294676380 Effective search space used: 294676380 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: 131 (55.1 bits)