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= 0005.0023.p (303 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 553 e-159 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 268 4e-73 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 224 7e-60 gi|300313017|ref|YP_003777109.1| LysR family transcription regul... 218 6e-58 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 214 8e-57 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 553 bits (1425), Expect = e-159, Method: Compositional matrix adjust. Identities = 262/298 (87%), Positives = 284/298 (95%) Query: 1 LNKLREIECFIAVADLGSFVKAADALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 +NKLREIECFIAVADLGSFVKAA+ALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGSLYLERCKQIVAALEEADDLLLAGSAKPAGLLRINAPVTFGILHLAPLWPIFLERHPE 120 AG+LYLERCKQIVAALEEADDLL +GSAKP GLLRINAP+TFG+LHLAPLWP+FLERHPE Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 VELDITLSDRIVDIIDEGYDLAIRIARLADSTLIHRKLTSTSLPICASPGYLEQHGTPRH 180 + LDITLSDRIVDIIDEGYD+AIRIARL+DSTL+HRKLTSTSL +CASP YL+ HGTP H Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 PHELAQHQIISYSYNHGKDEWQFSGPEGPVSVRVNARMHVNNGDSCVQAALGGIGITRQP 240 PHELAQHQ ISYSYN KDEWQF+GPEGPVSVRV++R+HVNNGDSCVQAALGGIGITRQP Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 241 TFMIDQYLRSGQLVPLLTDYTVPDLGIYAVYPSRAHLPAKVRAMLDFLSEAFAQVHWS 298 TFMIDQYLRSGQLV +L DY P+LGIYAVYPSRAHLPAK+RAMLDFL+EAFAQVHW+ Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFAQVHWN 298 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 268 bits (685), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 135/299 (45%), Positives = 192/299 (64%), Gaps = 2/299 (0%) Query: 1 LNKLREIECFIAVADLGSFVKAADALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 ++KL+ ++ F+AV + GSFV A D G SK AVSR V ELE LG RL+ RTTRRLSLT+ Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 61 AGSLYLERCKQIVAALEEADDLLLAGSAKPAGLLRINAPVTFGILHLAPLWPIFLERHPE 120 G +Y RCK+++ +++ + + S + G LRI AP FG+ LAPLW F E+HP Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 121 VELDITLSDRIVDIIDEGYDLAIRIARLADSTLIHRKLTSTSLPICASPGYLEQHGTPRH 180 + L+ITLSDR +D+++EG+D+AIRI+ L DS ++ R L + CA+P +L +HGTP Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 181 PHELAQHQIISYSYNHGKDEWQFSGPEG-PVSVRVNARMHVNNGDSCVQAALGGIGITRQ 239 P EL + ISYSY G D+W F G VRV + ++VNNG +C A+ G GI Q Sbjct: 181 PAELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQ 240 Query: 240 PTFMIDQYLRSGQLVPLLTDYTVPD-LGIYAVYPSRAHLPAKVRAMLDFLSEAFAQVHW 297 P F+++ +++GQLV L ++ + L ++ +YP+R HLP KV+ M DFL E F W Sbjct: 241 PDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFRVPPW 299 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 224 bits (571), Expect = 7e-60, Method: Compositional matrix adjust. Identities = 122/295 (41%), Positives = 176/295 (59%), Gaps = 2/295 (0%) Query: 1 LNKLREIECFIAVADLGSFVKAADALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 +++ ++I F VA GS AA A GI+ A + R + LE RLG +L+QRTTR++ LT Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 AGSLYLERCKQIVAALEEADDLLLAGSAKPAGLLRINAPVTFGILHLAPLWPIFLERHPE 120 G+ +LE C++I+A LE+A+ + SA+ +G L I+AP FG H+APL P FL H + Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 VELDITLSDRIVDIIDEGYDLAIRIARLADSTLIHRKLTSTSLPICASPGYLEQHGTPRH 180 V L + L+DRI D+I EG D+AIRIA L DS L+ KL I A+P YL +HGTP+ Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQS 180 Query: 181 PHELAQHQIISYSYNHGKDEWQFSGPEGPVSV-RVNARMHVNNGDSCVQAALGGIGITRQ 239 P EL +H ++ S + W G VSV +V M N+G+ AL G G+ + Sbjct: 181 PDELMRHNCLAMSSEGSQRGWTLR-QSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWR 239 Query: 240 PTFMIDQYLRSGQLVPLLTDYTVPDLGIYAVYPSRAHLPAKVRAMLDFLSEAFAQ 294 + + + +G+LV +L + P IYAV+ R HLP ++RA +DFL A+AQ Sbjct: 240 SMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQ 294 >gi|300313017|ref|YP_003777109.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 218 bits (554), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 117/299 (39%), Positives = 187/299 (62%), Gaps = 2/299 (0%) Query: 1 LNKLREIECFIAVADLGSFVKAADALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 +++ + E F+ VA+LGS +AA+ALG+S AA SR + LE RLG+RL++R+TRRL L+ Sbjct: 1 MDRWSQFELFVQVAELGSLSRAAEALGLSNAAASRALAALEQRLGARLVERSTRRLGLSR 60 Query: 61 AGSLYLERCKQIVAALEEADDLLLAGSAKPAGLLRINAPVTFGILHLAPLWPIFLERHPE 120 AG + CK + ++EA+ + A SA P+G LRI + ++F + H++PL P F +R+PE Sbjct: 61 AGEDFYRHCKAALTQMKEAEQQVNAASAAPSGTLRITSSLSFCMKHISPLLPRFHQRYPE 120 Query: 121 VELDITLSDRIVDIIDEGYDLAIRIARLA-DSTLIHRKLTSTSLPICASPGYLEQHGTPR 179 V L++ ++R +D++D DLAIR D+ + R+L +T + A+PGYL GTPR Sbjct: 121 VRLEVIAANRYMDLLDSDIDLAIRTREFEPDANIAVRRLATTRRILAAAPGYLAARGTPR 180 Query: 180 HPHELAQHQIISYSYNHGKDEWQFSGPEGPV-SVRVNARMHVNNGDSCVQAALGGIGITR 238 +LAQH ++ YS+ + SG +G ++ + + M N+G AAL G+GI Sbjct: 181 TLDDLAQHDLLVYSHAKEPNRLHLSGRDGSQRTLEIKSLMQSNDGQIIRAAALEGLGILI 240 Query: 239 QPTFMIDQYLRSGQLVPLLTDYTVPDLGIYAVYPSRAHLPAKVRAMLDFLSEAFAQVHW 297 QP ++I + +G+LVP+L ++ +P L I Y R HLPA+VR +DFL + F ++ + Sbjct: 241 QPNYIIYDDIVAGRLVPVLDEWDLPRLSINIAYQGRKHLPARVRVFIDFLVQHFEEMDY 299 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 214 bits (545), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 117/292 (40%), Positives = 185/292 (63%), Gaps = 2/292 (0%) Query: 1 LNKLREIECFIAVADLGSFVKAADALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 ++ L+ + F V + GSF +AA +G++ A VSR V +LE L +RLM RTTRR++LTE Sbjct: 2 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 61 Query: 61 AGSLYLERCKQIVAALEEADDLLLAGSAKPAGLLRINAPVTFGILHLAPLWPIFLERHPE 120 AG YL RC+QI++ ++EA+ A KP+G LRI+A +FG ++ P + +R+P+ Sbjct: 62 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 121 Query: 121 VELDITLSDRIVDIIDEGYDLAIRIAR-LADSTLIHRKLTSTSLPICASPGYLEQHGTPR 179 V +++TL+ RI D+++EGYD+++ +AR L DS LI+R+L ST +CASP YL+++G P+ Sbjct: 122 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 181 Query: 180 HPHELAQHQIIS-YSYNHGKDEWQFSGPEGPVSVRVNARMHVNNGDSCVQAALGGIGITR 238 P +L H + S DEW GPEG V V + VN ++ + A G+GI Sbjct: 182 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 241 Query: 239 QPTFMIDQYLRSGQLVPLLTDYTVPDLGIYAVYPSRAHLPAKVRAMLDFLSE 290 P + LR+G +V +L + + ++G+YA+YPSR +L AK+ +D++ E Sbjct: 242 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHE 293 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 0.321 0.137 0.405 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: 937,998 Number of extensions: 39260 Number of successful extensions: 239 Number of sequences better than 1.0e-08: 61 Number of HSP's gapped: 174 Number of HSP's successfully gapped: 61 Length of query: 303 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 218 Effective length of database: 1,217,395 Effective search space: 265392110 Effective search space used: 265392110 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)