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= 0027.0246.p (311 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310605|ref|YP_003774697.1| LysR family transcription regul... 617 e-178 gi|300309577|ref|YP_003773669.1| transcription regulator protein... 112 5e-26 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 100 2e-22 gi|300313964|ref|YP_003778056.1| LysR family transcription regul... 99 6e-22 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 97 1e-21 >gi|300310605|ref|YP_003774697.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 617 bits (1590), Expect = e-178, Method: Compositional matrix adjust. Identities = 310/311 (99%), Positives = 310/311 (99%) Query: 1 MSLPLAKLPPLDLLRGFVAVGRRMSFTLAAQDLFLTQSAVSRQVLLLEQYMQTPLLQRHH 60 MSLPLAKLPPLDLLRGFVAVGRRMSFTLAAQDLFLTQSAVSRQVLLLEQYMQTPLLQRHH Sbjct: 1 MSLPLAKLPPLDLLRGFVAVGRRMSFTLAAQDLFLTQSAVSRQVLLLEQYMQTPLLQRHH 60 Query: 61 RSISFTPMGERLFRSADAALLQLQDSLGELRAAQAARPVTITASIGMTGLWLLPRLSRLQ 120 RSISFTPMGERLFRSADAALLQLQDSLGELRAAQAARPVTITASIGMTGLWLLPRLSRLQ Sbjct: 61 RSISFTPMGERLFRSADAALLQLQDSLGELRAAQAARPVTITASIGMTGLWLLPRLSRLQ 120 Query: 121 QQVPGVDVRVAASDSTIDLRHEGIDLALRYTRRVHAPADAIRLFGESVAPVAHPLLLKNG 180 QQVPGVDVRVAASDSTIDLRHEGIDLALRYTRRVHAPADAIRLFGESVAPVAHPLLLKNG Sbjct: 121 QQVPGVDVRVAASDSTIDLRHEGIDLALRYTRRVHAPADAIRLFGESVAPVAHPLLLKNG 180 Query: 181 KLPADATLLEFDQANPHLRWKSWLDHESLGKAGKIGKLGTISKKARMLRLNQYDMVIQAA 240 KLPADATLLEFDQANPHLRWKSWLDHESLGKAGKIGKLGTISKKARMLRLNQYDMVIQAA Sbjct: 181 KLPADATLLEFDQANPHLRWKSWLDHESLGKAGKIGKLGTISKKARMLRLNQYDMVIQAA 240 Query: 241 LAGQGVALGRLELIAPQLEGGQLVLLADPRTQGDDGYAYWLIQAEPSPRREVQLIANWIC 300 LAGQGVALGRLELIAPQLEGGQLVLLADPRTQGDDGYAYWLIQAEPSPRREVQLIANWIC Sbjct: 241 LAGQGVALGRLELIAPQLEGGQLVLLADPRTQGDDGYAYWLIQAEPSPRREVQLIANWIC 300 Query: 301 AQARAGRGLIG 311 AQARAGR LIG Sbjct: 301 AQARAGRSLIG 311 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 112 bits (279), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 94/315 (29%), Positives = 147/315 (46%), Gaps = 33/315 (10%) Query: 5 LAKLPPLDLLRGFVAVGRRMSFTLAAQDLFLTQSAVSRQVLLLEQYMQTPLLQRHHRSIS 64 ++ LPPL L F A R SFT AA +L LTQSA+SRQ+ LE+++ L R R++ Sbjct: 3 ISPLPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRALR 62 Query: 65 FTPMGERLFRSADAALLQLQDSLGELRAAQAARPVTITASIGMTGLWLLPRLSRLQQQVP 124 T G+R L+ ++ ++ + + +T+ S G+ LWL PRL+R + + P Sbjct: 63 LTVSGQRYAALVQRLLVDCAEATEDIMKRKGHQELTVACSQGVAVLWLTPRLARFRARHP 122 Query: 125 GVDVRVAASDSTIDLRHEGIDLALRYTRRVHAPAD--AIRLFGESVAPVAHPLLLKNGKL 182 +R+ +DS L D+ + Y R PA A RL+ E V PV P L +G+L Sbjct: 123 DCHLRLVVNDSLAQLSETDFDMGI-YFLRDGPPAGLAARRLYDEEVFPVCSPGYL-DGRL 180 Query: 183 --PAD---ATLLEFDQANPH-LRWKSWLDHESLGKAGKIGKLGTISKKARMLRLNQYDMV 236 P D TLL + + W++W+ H + + + NQY ++ Sbjct: 181 LAPEDLRHQTLLTLEDGQRQWMSWQNWMAHNGMPDV----------RIEHQILSNQYPVL 230 Query: 237 IQAALAGQGVALGRLELIAPQLEGGQLVLLADPRTQ-GDDGYAYWLIQAEPSPRREVQLI 295 +Q A+ GQGV L +I +E G LV G YA W PR ++ Sbjct: 231 LQLAMEGQGVVLAWRHMIDACMEQGLLVRACQASASLGGGYYAVW-------PRDRIEHA 283 Query: 296 A-----NWICAQARA 305 A +W+ A++ + Sbjct: 284 AARAFRSWLVAESES 298 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 100 bits (248), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/292 (29%), Positives = 124/292 (42%), Gaps = 11/292 (3%) Query: 10 PLDLLRGFVAVGRRMSFTLAAQDLFLTQSAVSRQVLLLEQYMQTPLLQRHHRSISFTPMG 69 PL+ +R F+A R SFTLAA +L +T A+SRQ+ LE Y+ PL +R R + T G Sbjct: 7 PLNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLTERG 66 Query: 70 ERLFRSADAALLQLQDSLGELRAAQAARPVTITASIGMTGLWLLPRLSRLQQQVPGVDVR 129 + F A AL L ++ + R V I WL+P LS ++ PG+ + Sbjct: 67 RQFFEEASPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERYPGIAPQ 126 Query: 130 VAASDSTIDLRHEGIDLALRYTRRVHAPADAIRLFGE-SVAPVAHPLLLKNGKLPADATL 188 V S +T+ D+A+R ++ F E + VA P LL+ L + L Sbjct: 127 VVTSTATVGKAGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPLEDVSGL 186 Query: 189 LEFDQANPHLRWKSWLDHESLGKAGKIGKLGTISKKARMLRLNQYDMVIQAALAGQGVAL 248 R W D L + S+ ML + V+QA + G GVAL Sbjct: 187 ARHTVLLSRSRRNDWEDWRKLAGLKR-------SRSQAMLHFDHVHFVLQAVVDGLGVAL 239 Query: 249 GRLELIAPQLEGGQLVLLADPRTQGDDGYAYWLIQAEPSPRREVQLIANWIC 300 + L L G+LV P + Y I A+ E QL A W+ Sbjct: 240 SPVSLADNDLRSGRLV-CPFPDLRLTLAPYYLGINAQAGS--EAQLFARWLA 288 >gi|300313964|ref|YP_003778056.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 98.6 bits (244), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 77/263 (29%), Positives = 127/263 (48%), Gaps = 29/263 (11%) Query: 5 LAKLPPLDLLRGFVAVGRRMSFTLAAQDLFLTQSAVSRQVLLLEQYMQTPLLQRHHRSIS 64 + KLPPL LR F A R +SFT AA +L +TQSAVSRQV +LE +++ L R R I Sbjct: 1 MNKLPPLTALRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIE 60 Query: 65 FTPMGERLFRSADAALLQLQDSLGELRAAQAARPVTITASIGMTGLWLLPRLSRLQQQVP 124 T G F+ A ++ + +L A + +TI G+ LWL+PRL ++ Sbjct: 61 LTRAGAAYFQQIRQAFERICAAGEQLHARRQRHTLTIGVLPGLASLWLVPRLELFWRENK 120 Query: 125 GVDVRVAASDSTIDLRHEGIDLALRY-------------TRRVHAPADAIR---LFGESV 168 +DVR+ + D +D++++ +R+ +R LF +++ Sbjct: 121 EIDVRIVVATGAADFGRTTMDMSIQVGNLPGTTSQGLPLKKRMAVDWHDLRADLLFPDAL 180 Query: 169 APVAHPLLLKNGKLPADATLLEFDQANPHLR---WKSWLDHESLGKAGKIGKLGTISKKA 225 + HP L + + + A L + + +R W WL +LG +++A Sbjct: 181 VALCHPRLWRQHPVRSVADLSQHRLIHTAIRPDAWAHWLQQHG-------SRLG--ARQA 231 Query: 226 RMLRLNQYDMVIQAALAGQGVAL 248 M +QY + +QAA+ G+G+AL Sbjct: 232 GM-ECSQYPVALQAAMNGEGIAL 253 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 97.4 bits (241), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 86/284 (30%), Positives = 131/284 (46%), Gaps = 22/284 (7%) Query: 10 PLDLLRGFVAVGRRMSFTLAAQDLFLTQSAVSRQVLLLEQYMQTPLLQRHHRSISFTPMG 69 PL+ LR F R +SFT AA++L +TQ+AVS QV LEQ + L +R R ++ T G Sbjct: 4 PLNALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALTDEG 63 Query: 70 ERLFRSADAALLQLQDSLGELRAAQAARPVTITASIGMTGL-WLLPRLSRLQQQVPGVDV 128 L + ++ D L + + R V +G + WL+PRL + QQQ P VD+ Sbjct: 64 LALLPVVAQSFGRIADVLAQFEDGRR-REVLTVGVVGTFAVGWLMPRLRQFQQQHPFVDL 122 Query: 129 RVAASDSTIDLRHEGIDLALRYTRRVHAPADAIRLFGESVAPVAHPLLLKNGKLPAD--- 185 R+ +++ +DL EG+D A+R+ A RLF +AP+ P + + PAD Sbjct: 123 RLLTNNNRVDLAGEGLDYAIRFGDGAWHGTQAERLFEAPLAPMCAPAIAARLRSPADLGA 182 Query: 186 ATLLEFDQANPHLRWKSWLDHESLGKAGKIGKLGTISKKARMLRLNQYDMVIQAALAGQG 245 TLL +++ RW G R + + +AA G Sbjct: 183 ETLLRSYRSDEWGRW--------------FAAAGAACPPLRGFVFDSSLALAEAAAQEAG 228 Query: 246 VALGRLELIAPQLEGGQLVLLADPRTQGDDGYAYWLIQAEPSPR 289 VAL + + +L+ G+LV P Q AYWL + P+ Sbjct: 229 VALLPVLMFERELQQGRLVC---PFGQRIVLGAYWLTSLKSRPQ 269 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 0.137 0.402 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: 902,152 Number of extensions: 35540 Number of successful extensions: 227 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 223 Number of HSP's successfully gapped: 40 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 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)