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= 0001.1468.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|300310906|ref|YP_003774998.1| LysR family transcription regul... 535 e-153 gi|300312460|ref|YP_003776552.1| LysR family transcription regul... 135 5e-33 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 133 2e-32 gi|300313122|ref|YP_003777214.1| transcription regulator protein... 125 3e-30 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 122 3e-29 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 535 bits (1377), Expect = e-153, Method: Compositional matrix adjust. Identities = 260/296 (87%), Positives = 277/296 (93%) Query: 1 MADLTLPLNAIRAFLAAARHQSFTLAAQELNVTHGAISRQIKNLEDYLGMPLFERRIRQV 60 MADLTLPLNAIRAFLAAARHQSFTLAA ELNVTHGAISRQIKNLE YLGMPLFERR RQV Sbjct: 1 MADLTLPLNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQV 60 Query: 61 LLTERGRQFFEEASPAFDILATAARRVMRDAPTRTVVINVRPSFAVRWLIPHLADFVERY 120 LLTERGRQFFEEASPA +ILA AARRVMRDAPTRTVVINVRPSFAVRWLIPHL+DFVERY Sbjct: 61 LLTERGRQFFEEASPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERY 120 Query: 121 PGIAPQVVTSTASVGKAGSSFDMAIRRGENNWPERLKVQRFMEDELVLVASPALLQTMPL 180 PGIAPQVVTSTA+VGKAGSSFD+A+RRGE NWPE LKVQRFMEDELVLVASPALLQ MPL Sbjct: 121 PGIAPQVVTSTATVGKAGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPL 180 Query: 181 VDVSQIVGHTLLVSRSRRNDWDDWRKLVGLKRWRGQAMLHFDHVHFVLQAVVDGLGLALS 240 DVS + HT+L+SRSRRNDW+DWRKL GLKR R QAMLHFDHVHFVLQAVVDGLG+ALS Sbjct: 181 EDVSGLARHTVLLSRSRRNDWEDWRKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALS 240 Query: 241 PVSLADNDLRSGRLVCPFPHLRMSLAPYYLGIDAQAGAEALLFAKWLGEYRGSLVM 296 PVSLADNDLRSGRLVCPFP LR++LAPYYLGI+AQAG+EA LFA+WL EYRG+ +M Sbjct: 241 PVSLADNDLRSGRLVCPFPDLRLTLAPYYLGINAQAGSEAQLFARWLAEYRGASLM 296 >gi|300312460|ref|YP_003776552.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 135 bits (339), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 99/288 (34%), Positives = 144/288 (50%), Gaps = 8/288 (2%) Query: 7 PLNAIRAFLAAARHQSFTLAAQELNVTHGAISRQIKNLEDYLGMPLFERRIRQVLLTERG 66 PL A++ F AA R +S TLAA EL +TH A+S+QIK+LE+Y PLF R+ R V TE Sbjct: 7 PLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGVEPTEAA 66 Query: 67 RQFFEEASPAFDILATAARRVMRDAPTRTVVINVRPSFAVRWLIPHLADFVERYPGIAPQ 126 F+ E + D +A AA ++ +R V + PS A+RWLIP L+ F P I + Sbjct: 67 LSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVR 126 Query: 127 VVTSTASVGK-AGSSFDMAIRRGENNWPER--LKVQRFMEDELVLVASPALLQTMPLVDV 183 V T+ + + FD+ I R ER + RF++D V +ASP L+T P+ Sbjct: 127 VTTTMSEYFEDVKDPFDVIIWRSPL---ERSGYECMRFLDDVSVPLASPHFLETHPIRVP 183 Query: 184 SQIVGHTLLVSRSRRNDWDDWRKLVGLKRWRGQAMLHFDHVHFVLQAVVDGLGLALSPVS 243 V L+ SR W W G+ R ++H LQA G+ + ++ Sbjct: 184 RDFVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLA 243 Query: 244 LADNDLRSGRLVCPFPHLRMSLAPYYLGIDAQAGAEALL--FAKWLGE 289 L D+DL +GRLV FP + + Y++ + A L F WL + Sbjct: 244 LVDDDLAAGRLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFITWLKQ 291 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 133 bits (334), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 99/295 (33%), Positives = 152/295 (51%), Gaps = 12/295 (4%) Query: 4 LTLPLNAIRAFLAAARHQSFTLAAQELNVTHGAISRQIKNLEDYLGMPLFERRIRQVLLT 63 + LPLNA+RAF +ARH SFT AA+EL+VT A+S Q+KNLE LG+ LF R R + LT Sbjct: 1 MYLPLNALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALT 60 Query: 64 ERGRQFFEEASPAFDILATAARRVMRDAPTRTVVINVRPSFAVRWLIPHLADFVERYPGI 123 + G + +F +A + + + V +FAV WL+P L F +++P + Sbjct: 61 DEGLALLPVVAQSFGRIADVLAQFEDGRRREVLTVGVVGTFAVGWLMPRLRQFQQQHPFV 120 Query: 124 APQVVTSTASVGKAGSSFDMAIRRGENNWPERLKVQRFMEDELVLVASPALLQTMPLVDV 183 +++T+ V AG D AIR G+ W + +R E L + +PA+ L Sbjct: 121 DLRLLTNNNRVDLAGEGLDYAIRFGDGAW-HGTQAERLFEAPLAPMCAPAI--AARLRSP 177 Query: 184 SQIVGHTLLVSRSRRNDWDDWRKLVG--LKRWRGQAMLHFDHVHFVLQAVVDGLGLALSP 241 + + TLL S R ++W W G RG FD + +A G+AL P Sbjct: 178 ADLGAETLLRS-YRSDEWGRWFAAAGAACPPLRG---FVFDSSLALAEAAAQEAGVALLP 233 Query: 242 VSLADNDLRSGRLVCPFPHLRMSLAPYYL-GIDAQAGAEAL-LFAKWLGEYRGSL 294 V + + +L+ GRLVCPF R+ L Y+L + ++ A+ F +WL + G++ Sbjct: 234 VLMFERELQQGRLVCPFGQ-RIVLGAYWLTSLKSRPQTAAMAAFRQWLQSHAGAM 287 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 125 bits (315), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 90/273 (32%), Positives = 140/273 (51%), Gaps = 6/273 (2%) Query: 1 MADLTLPLNAIRAFLAAARHQSFTLAAQELNVTHGAISRQIKNLEDYLGMPLFERRIRQV 60 MA P++A+ AF AAARH SF +AA+EL +T A+S +I+ LE+++G LF R R + Sbjct: 1 MATRLPPVHALSAFEAAARHNSFAIAAEELCITPSALSHRIRLLEEFVGERLFYRDGRSI 60 Query: 61 LLTERGRQFFEEASPAFDILATAARRVMRDAPTRTVVINVRPSFAVRWLIPHLADFVERY 120 L+E GR++ + A L A + + + P+FA L+P +ADF +R+ Sbjct: 61 GLSEFGRRYLDVVRSALRTLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRH 120 Query: 121 PGIAPQVVTSTASVGKAGSSFDMAIRRGENNWPERLKVQRFMEDELVLVASPALLQTMPL 180 P I ++ S + S D+ IR G N+P + ++ E+ VASPA L+T+P Sbjct: 121 PEIVVELYLSVPLYDLSLSESDVEIRFGAGNYPN-IITEKLFEEPAFAVASPAYLKTLPP 179 Query: 181 VDVSQIVGHTLLVSRSRRNDWDDWRKLVGLKRW-RGQAMLHFDHVHFVLQAVVDGLGLAL 239 + + L+ RS W W + GLK W A L D + +L+AV G G+ L Sbjct: 180 MKSPADLKQATLL-RSALEPWQPWFEAAGLKDWVEPSAGLRVDDLGLLLEAVRHGYGVGL 238 Query: 240 SPVSLADNDLRSGRLVCPFPHLRMSLAP--YYL 270 + A+ L G +V F +R+ P YY+ Sbjct: 239 TRQHFAEELLARGEIVELF-DIRLRTPPHAYYV 270 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 84/248 (33%), Positives = 119/248 (47%), Gaps = 2/248 (0%) Query: 7 PLNAIRAFLAAARHQSFTLAAQELNVTHGAISRQIKNLEDYLGMPLFERRIRQVLLTERG 66 PL ++AF A AR +SF LAA EL++T A+S Q+ LE YLG+ LFER V +T G Sbjct: 6 PLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITTAG 65 Query: 67 RQFFEEASPAFDILATAARRVMRDAPTRTVVINVRPSFAVRWLIPHLADFVERYPGIAPQ 126 + A + TAA +R + T+ I+ PS A WL+ L DF YP I Sbjct: 66 EAYLARIQGAISAI-TAASMDVRQGVSNTLYIHSAPSIASLWLMARLNDFARSYPEITFN 124 Query: 127 VVTSTASVGKAGSSFDMAIRRGENNWPERLKVQRFMEDELVLVASPALLQTMPLVDVSQI 186 + + + D+ IR G NWP L V+ E+ +V +ASPA ++ L + + Sbjct: 125 LSAAHSQSNFELGEVDIDIRYGIPNWPG-LVVEPLFEERIVPLASPAFIREYRLRKPADL 183 Query: 187 VGHTLLVSRSRRNDWDDWRKLVGLKRWRGQAMLHFDHVHFVLQAVVDGLGLALSPVSLAD 246 +G L+ S W DW R Q + FD L A GLG+AL ++A Sbjct: 184 LGVKLIRSNVSVVQWADWFGEFADVRAPEQFAVRFDRAQMSLDAATQGLGVALESATVAA 243 Query: 247 NDLRSGRL 254 L +L Sbjct: 244 RHLEEKKL 251 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 0.325 0.138 0.416 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: 918,657 Number of extensions: 37126 Number of successful extensions: 306 Number of sequences better than 1.0e-08: 49 Number of HSP's gapped: 267 Number of HSP's successfully gapped: 49 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: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)