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= 0001.0052.p (298 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|300311571|ref|YP_003775663.1| LysR family transcription regul... 103 2e-23 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 100 1e-22 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 88 1e-18 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 86 5e-18 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 548 bits (1411), Expect = e-157, Method: Compositional matrix adjust. Identities = 266/298 (89%), Positives = 282/298 (94%) Query: 1 MDIRALRYFTETVRLNSFSRAADTLHVTQSTVSKMVRQLEDEVDAPLLIRDGRRLQLTDT 60 MDIRALRYFTETVR +SFSRAAD LHVTQSTVSKMVRQLE+EVDAPLLIRDGRRLQLTDT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 61 GRVVYEQGQQILASMQRLDAEVRDTKALRCGRLEIGIPPMINILCTPVLKAFRERHPEIA 120 GRVVYEQGQQILA+MQRL AEVRDTKALR GRLEIGIPPMINILCTPVLKAFRERHP+IA Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMINILCTPVLKAFRERHPDIA 120 Query: 121 IVLKEDTGPQIEQRVASGELEIGMTVLPADPDLELQTLPVARYPMWAVAQAGSFQKNRAT 180 +VL+EDTGPQIEQRVA+GELEIGMTVLPADP+L L+TLPVA YPMWAVAQAGSFQKNRA+ Sbjct: 121 VVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSFQKNRAS 180 Query: 181 LRCAQLDGMPLVLLNNEFGLTRSLRGVFREQEITPRIVAQSAQWDWLVAMALAGMGAALL 240 LRCAQLDGMPLVLLNNEFGLTRSLRGVFRE I P IVAQSAQWDWLVAMALAGMG ALL Sbjct: 181 LRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMGTALL 240 Query: 241 PEPFIHRLSSDQLQAVRLVEPEVQWQVAYVTRGAYLSHAARAWMDISAELFAGGRGRK 298 PEPFIHRL++ QLQAVRLVEPEVQW+VAYVTRG YLSHAA AWM +SA+LFAGG+ RK Sbjct: 241 PEPFIHRLATQQLQAVRLVEPEVQWKVAYVTRGGYLSHAAHAWMAVSAQLFAGGKLRK 298 >gi|300311571|ref|YP_003775663.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 103 bits (257), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 91/305 (29%), Positives = 143/305 (46%), Gaps = 12/305 (3%) Query: 1 MDIRALRYFTETVRLNSFSRAADTLHVTQSTVSKMVRQLEDEVDAPLLIRDGRRLQLTDT 60 M++R LRYF V S SRAA LH+ 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 AIVLKEDTGPQIEQRVASGELEIGMTVLPADPDL-ELQTLPVARYPMWAVAQAGSFQ--K 176 + L E+ + ++ SG I + VL D L P+ M + +A S Sbjct: 121 TLQLTEELTGNLITQLKSG--RINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVA 178 Query: 177 NRATLRCAQLDGMPLVLLNNEFGLTRSLRGVFREQEITPRIVAQSAQWDWLVAMALAGMG 236 R ++ A+ PL+L G+ + + R Q ++ V + L + LA +G Sbjct: 179 GRKSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIG 238 Query: 237 AALLP-EPFIHRLSSDQLQAVRLVEPEVQWQVAYV-TRGAYLSHAARA----WMDISAEL 290 A +LP P + + ++ A R+ + +A +R L+ AA A +D++ EL Sbjct: 239 ATILPVAPLLADIERGEMVAHRIAGERISRTLALCASRNIPLTTAAAAVEQLVLDVTDEL 298 Query: 291 FAGGR 295 GR Sbjct: 299 CRSGR 303 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 122/247 (49%), Gaps = 10/247 (4%) Query: 1 MDIRALRYFTETVRLNSFSRAADTLHVTQSTVSKMVRQLEDEVDAPLLIRDGRRLQLTDT 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 AIVLKEDTGPQIEQRVASGELEIGMTVLP-ADPDLELQTLPVARYPMWAVAQAGS--FQK 176 I E + + + SG +++G LP +DPD+ +T + P+ AV G + Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCET--IVEEPLVAVFPLGHPLLAR 178 Query: 177 NRATLRCAQLDGMPLVLL--NNEFGLTRSLRGVFREQEITPRIVAQSAQWDWLVAMALAG 234 N+ TL AQL +L + +F + + P IV ++ + + + AG Sbjct: 179 NKVTL--AQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAG 236 Query: 235 MGAALLP 241 +G L+P Sbjct: 237 VGVTLVP 243 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 87/317 (27%), Positives = 142/317 (44%), Gaps = 38/317 (11%) Query: 1 MDIRALRYFTETVRLNSFSRAADTLHVTQSTVSKMVRQLEDEVDAPLLIRDGRRLQLTDT 60 MDIR L+YF +F+RA++ LH+ Q +S+ ++ LE+E+ LL+R+ R L+LT+ Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 61 GRVVYEQGQQILASMQRLDAEVRDTKALRCGRLEIGIPPMINILCTPVL-KAFRERHPEI 119 GRV YEQ QIL + +L + + L IG P+L + R+ +PE+ Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHYPEV 120 Query: 120 AIVLKEDTGPQIEQRVASGELEIGMTVLPADPD------LELQTLPVARYPMWAVAQAGS 173 I L E T Q + SG +++G + ++ L + L +A P +A+ AGS Sbjct: 121 DIQLLELTSMQQFAALKSGRIDVGFGRIRSNDATVARIVLREEKLVLAIPPSFAL--AGS 178 Query: 174 FQKNRATLRCAQLDGMPLVLLNNE--FGLTRSLRGVFREQEITPRIVAQSAQWDWLVAMA 231 Q R +L+ ++ G L++ E + + +Q+I P V + + + + Sbjct: 179 NQ--RVSLK--EVHGQKLIVYPKEPRPSFADHILSLLNDQDIHPAEVHEVREIQTALGLV 234 Query: 232 LAGMGAALLP------EPFIHRLSSDQLQAVRLVEPEV--------QWQVAYVTR---GA 274 A G L+P +RL D R P + W + V R Sbjct: 235 AAESGICLIPASARLRNDLHYRLIDD----ARATSPIILTHRINDNAWYIEAVKRLVADM 290 Query: 275 YLSHAARAWMDISAELF 291 Y H AW+DI F Sbjct: 291 YAEHP--AWLDIDTNSF 305 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 85.5 bits (210), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 70/288 (24%), Positives = 134/288 (46%), Gaps = 4/288 (1%) Query: 1 MDIRALRYFTETVRLNSFSRAADTLHVTQSTVSKMVRQLEDEVDAPLLIRDGRRLQLTDT 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 AIVLKEDTGPQIEQRVASGELEIGMTVLPADPDLELQTLPVARYPMWAVAQAGSFQKNRA 179 + L + Q + G+++I +T P LE T P+ P + V + ++ Sbjct: 125 TVELFDAISDQCLDLLRHGKVDIALTA-PGPNLLEFDTRPLCSDPFYLVCRKDHKLASKR 183 Query: 180 TLRCAQLDGMPLVLLNNEFGLTRSLRGVFREQEITPRIVAQSAQWDWLVAMALAGMGAAL 239 ++ QL G ++ L + + L V R + + + A+ +G+G ++ Sbjct: 184 RIKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGVI-HTGLEVEHLATVAALIESGLGVSV 242 Query: 240 LPEPFIHRLSSDQLQAVRLVEPEVQWQVAYVT-RGAYLSHAARAWMDI 286 +PE + + L A+ L PE++ + VT + LS AA+ +++ Sbjct: 243 VPELTLFQFRLPNLVAIPLDAPELKRPLLIVTPKERSLSVAAQGLLEL 290 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 0.398 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: 883,453 Number of extensions: 34641 Number of successful extensions: 253 Number of sequences better than 1.0e-08: 57 Number of HSP's gapped: 225 Number of HSP's successfully gapped: 57 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 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)