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= 0036.0406.p (299 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 548 e-157 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 100 1e-22 gi|300311571|ref|YP_003775663.1| LysR family transcription regul... 98 9e-22 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 89 6e-19 gi|300313131|ref|YP_003777223.1| LysR family transcription regul... 84 1e-17 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 548 bits (1413), Expect = e-157, Method: Compositional matrix adjust. Identities = 268/299 (89%), Positives = 286/299 (95%), Gaps = 1/299 (0%) Query: 1 MDIRALRYFTETVRLASFSRAADALHVTQSTVSKMVRQLEDEVDAPLLVRDGRRLQLTDT 60 MDIRALRYFTETVR +SFSRAADALHVTQSTVSKMVRQLE+EVDAPLL+RDGRRLQLTDT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 61 GRVVYEQGQQILASMQRLDAEVRDTKALRCGRLEIGIPPMINILCTPVLKAFRERHPEIA 120 GRVVYEQGQQILA+MQRL AEVRDTKALR GRLEIGIPPMINILCTPVLKAFRERHP+IA Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMINILCTPVLKAFRERHPDIA 120 Query: 121 IVLKEDTGPQIEERVANGELEIGMTVLPADPELELQTLPVARYPMWAVAQAGRFQKNRAT 180 +VL+EDTGPQIE+RVANGELEIGMTVLPADPEL L+TLPVA YPMWAVAQAG FQKNRA+ Sbjct: 121 VVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRAS 180 Query: 181 LRCAQLDGMPLVLLNNEFGLTRSLRGMFGELGIRPEIVAQSAQWDWLVAMALAGMGAALL 240 LRCAQLDGMPLVLLNNEFGLTRSLRG+F E GI+PEIVAQSAQWDWLVAMALAGMG ALL Sbjct: 181 LRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTALL 240 Query: 241 PEPFIHRLATDQLQAVRLVEPEVQWQVAYVTRGGGYLSHAARAWMALSEELFAGGRVRR 299 PEPFIHRLAT QLQAVRLVEPEVQW+VAYVTR GGYLSHAA AWMA+S +LFAGG++R+ Sbjct: 241 PEPFIHRLATQQLQAVRLVEPEVQWKVAYVTR-GGYLSHAAHAWMAVSAQLFAGGKLRK 298 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 122/247 (49%), Gaps = 10/247 (4%) Query: 1 MDIRALRYFTETVRLASFSRAADALHVTQSTVSKMVRQLEDEVDAPLLVRDGRRLQLTDT 60 M++R L+YF SFSRAA+ LH+ Q +S+ +RQLE+ + L+ R R + LT Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GRVVYEQGQQILASMQRLDAEVRDTKALRCGRLEIG-IPPMINILCTPVLKAFRERHPEI 119 G+ YEQ Q+L+ +++++ R R IG +P + L ++K FR PEI Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 120 AIVLKEDTGPQIEERVANGELEIGMTVLP-ADPELELQTLPVARYPMWAVAQAGR--FQK 176 I E + E + +G +++G LP +DP++ +T + P+ AV G + Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCET--IVEEPLVAVFPLGHPLLAR 178 Query: 177 NRATLRCAQLDGMPLVLL--NNEFGLTRSLRGMFGELGIRPEIVAQSAQWDWLVAMALAG 234 N+ TL AQL +L + +F +RP IV ++ + + + AG Sbjct: 179 NKVTL--AQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAG 236 Query: 235 MGAALLP 241 +G L+P Sbjct: 237 VGVTLVP 243 >gi|300311571|ref|YP_003775663.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 97.8 bits (242), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 86/309 (27%), Positives = 144/309 (46%), Gaps = 19/309 (6%) Query: 1 MDIRALRYFTETVRLASFSRAADALHVTQSTVSKMVRQLEDEVDAPLLVRDGRRLQLTDT 60 M++R LRYF V S SRAA ALH+ Q +++ +RQLEDE+ A LL R + + TD Sbjct: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 Query: 61 GRVVYEQGQQILASMQRLDAEVRDTKALRCGRLEIGIPPMI-NILCTPVLKAFRERHPEI 119 G+V YE IL +Q V + G + +GIP + N L P+L A R +PEI Sbjct: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI 120 Query: 120 AIVLKEDTGPQIEERVANGELEIG-------MTVLPADPELELQTLPVARYPMWAVAQAG 172 + L E+ + ++ +G + + ++ A P +E + + + R A +Q G Sbjct: 121 TLQLTEELTGNLITQLKSGRINLAVLFDDGQLSSFAATPMIEEEMMYITR----AKSQYG 176 Query: 173 RFQKNRATLRCAQLDGMPLVLLNNEFGLTRSLRGMFGELGIRPEIVAQSAQWDWLVAMAL 232 R ++ A+ PL+L G+ + + G+ + V + L + L Sbjct: 177 --VAGRKSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAIL 234 Query: 233 AGMGAALLP-EPFIHRLATDQLQAVRLVEPEVQWQVAYVTRGGGYLSHAARA----WMAL 287 A +GA +LP P + + ++ A R+ + +A L+ AA A + + Sbjct: 235 ADIGATILPVAPLLADIERGEMVAHRIAGERISRTLALCASRNIPLTTAAAAVEQLVLDV 294 Query: 288 SEELFAGGR 296 ++EL GR Sbjct: 295 TDELCRSGR 303 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 88.6 bits (218), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 73/294 (24%), Positives = 137/294 (46%), Gaps = 11/294 (3%) Query: 1 MDIRALRYFTETVRLASFSRAADALHVTQSTVSKMVRQLEDEVDAPLLVRDGRRLQLTDT 60 + R L+ F F AA HV+QS S M++++E A L RD R + LT Sbjct: 5 ISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTPE 64 Query: 61 GRVVYEQGQQILASMQRLDAEVRDTKALRCGRLEIG-IPPMINILCTPVLKAFRERHPEI 119 G + + +Q+++ ++ +++ D A R GR+ I +P + PVL +R+R+P + Sbjct: 65 GELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGV 124 Query: 120 AIVLKEDTGPQIEERVANGELEIGMTVLPADPELELQTLPVARYPMWAVAQAGRFQKNRA 179 + L + Q + + +G+++I +T P LE T P+ P + V + ++ Sbjct: 125 TVELFDAISDQCLDLLRHGKVDIALTA-PGPNLLEFDTRPLCSDPFYLVCRKDHKLASKR 183 Query: 180 TLRCAQLDGMPLVLLNNEFGLTRSLRGMFGELGIRPEIVAQSA----QWDWLVAMALAGM 235 ++ QL G ++ L + + L + +RP V + + A+ +G+ Sbjct: 184 RIKVPQLAGCEMIHLARSTSVRQHLDAV-----LRPGGVIHTGLEVEHLATVAALIESGL 238 Query: 236 GAALLPEPFIHRLATDQLQAVRLVEPEVQWQVAYVTRGGGYLSHAARAWMALSE 289 G +++PE + + L A+ L PE++ + VT LS AA+ + L E Sbjct: 239 GVSVVPELTLFQFRLPNLVAIPLDAPELKRPLLIVTPKERSLSVAAQGLLELVE 292 >gi|300313131|ref|YP_003777223.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/295 (27%), Positives = 132/295 (44%), Gaps = 41/295 (13%) Query: 1 MDIRALRYFTETVRLASFSRAADALHVTQSTVSKMVRQLEDEVDAPLLVRDGRRLQLTDT 60 + IR LRYF E V ++RAA+ L V QS +S+ +++LE ++D LL R+ + +LT Sbjct: 2 ISIRQLRYFVEIVEARGYTRAAERLFVAQSALSRQIKELEADLDVVLLRREAKTFELTQA 61 Query: 61 GRVVYEQGQQILASMQRLDAEVRDTKALRCGRLEI----GIP------PMINILCTPVLK 110 G+ YE+ ++IL + R A+ R G L + +P PM+N LK Sbjct: 62 GQDFYERSRKILLDLDRAVAQARTIGKGEHGALRLLHSSSVPLTAPLGPMLN----EALK 117 Query: 111 AFRERHPEIAIVLKEDTGPQIEERVANGELEIGMTVLP---ADPELELQTLPVARYPMWA 167 AF P I++ + + + G +IG+ LP A+P L L R + A Sbjct: 118 AF----PGISLEISQAPSEYQAREIVEGSADIGLARLPILRANPNLASTVL--YRERLVA 171 Query: 168 VAQAGRFQKNRATLRCAQLDGMPLVLLNNEFGLT--RSLRGMFGEL--------GIRPEI 217 AG R AQ + + L +EF +T RG L G P + Sbjct: 172 AVPAGH--------RLAQRQEVEIAELRDEFFVTVPHRDRGGLSYLVAERCIAHGFYPRV 223 Query: 218 VAQSAQWDWLVAMALAGMGAALLPEPFIHRLATDQLQAVRLVEPEVQWQVAYVTR 272 +++ + L+++ AG G A++P+ + L +P+ +VA + R Sbjct: 224 ARATSRKNSLLSLVNAGFGIAVVPQSMASTSLAAGVSFPALKDPDFHSEVALLRR 278 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 0.323 0.137 0.403 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: 925,556 Number of extensions: 37588 Number of successful extensions: 290 Number of sequences better than 1.0e-08: 56 Number of HSP's gapped: 259 Number of HSP's successfully gapped: 56 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)