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= 0001.0548.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|300309921|ref|YP_003774013.1| LysR family transcription regul... 562 e-161 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 268 4e-73 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 228 4e-61 gi|300313017|ref|YP_003777109.1| LysR family transcription regul... 216 3e-57 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 214 6e-57 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 562 bits (1449), Expect = e-161, Method: Compositional matrix adjust. Identities = 268/299 (89%), Positives = 287/299 (95%) Query: 1 LNKLREIECFIAVADLGSFVKAADALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 +NKLREIECFIAVADLGSFVKAA+ALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGALYLERCKQIVAALEEADDLLAAGSTKPTGLLRINAPLTFGVLHLAPLWPMFLERYPE 120 AGALYLERCKQIVAALEEADDLL++GS KPTGLLRINAPLTFGVLHLAPLWPMFLER+PE Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 VELDITLSDRIIDIIDEGYDLAIRIARLSDSTLVHRKLTSTSLPICASPAYLEKHGTPRH 180 + LDITLSDRI+DIIDEGYD+AIRIARLSDSTLVHRKLTSTSL +CASPAYL+ HGTP H Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 PHELAQHQIISYSYNHGKDEWQFNGPEGPVSVRVNARMHVNNGDSCVQAALGGIGITRQP 240 PHELAQHQ ISYSYN KDEWQFNGPEGPVSVRV++R+HVNNGDSCVQAALGGIGITRQP Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 241 TFMIDQYLRSGQLVPLLTDFPAPDLGIYAVYPSRAHLPAKVRAMLDFLADAFAQVHWSD 299 TFMIDQYLRSGQLV +L D+ AP+LGIYAVYPSRAHLPAK+RAMLDFL +AFAQVHW+D Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFAQVHWND 299 >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 = 136/299 (45%), Positives = 191/299 (63%), 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 AGALYLERCKQIVAALEEADDLLAAGSTKPTGLLRINAPLTFGVLHLAPLWPMFLERYPE 120 G +Y RCK+++ +++ + + S + G LRI AP FGV LAPLW F E++P Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 121 VELDITLSDRIIDIIDEGYDLAIRIARLSDSTLVHRKLTSTSLPICASPAYLEKHGTPRH 180 + L+ITLSDR ID+++EG+D+AIRI+ L DS +V R L + CA+P +L +HGTP Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 181 PHELAQHQIISYSYNHGKDEWQFNGPEG-PVSVRVNARMHVNNGDSCVQAALGGIGITRQ 239 P EL + ISYSY G D+W F G VRV + ++VNNG +C A+ G GI Q Sbjct: 181 PAELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQ 240 Query: 240 PTFMIDQYLRSGQLVPLLTDFPAPD-LGIYAVYPSRAHLPAKVRAMLDFLADAFAQVHW 297 P F+++ +++GQLV L + + L ++ +YP+R HLP KV+ M DFL + F W Sbjct: 241 PDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFRVPPW 299 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 228 bits (581), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 125/295 (42%), Positives = 179/295 (60%), 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 AGALYLERCKQIVAALEEADDLLAAGSTKPTGLLRINAPLTFGVLHLAPLWPMFLERYPE 120 GA +LE C++I+A LE+A+ ++ S + +G L I+AP FG H+APL P FL + + Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 VELDITLSDRIIDIIDEGYDLAIRIARLSDSTLVHRKLTSTSLPICASPAYLEKHGTPRH 180 V L + L+DRI D+I EG D+AIRIA L+DS LV KL I A+PAYL +HGTP+ Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQS 180 Query: 181 PHELAQHQIISYSYNHGKDEWQFNGPEGPVSV-RVNARMHVNNGDSCVQAALGGIGITRQ 239 P EL +H ++ S + W G VSV +V M N+G+ AL G G+ + Sbjct: 181 PDELMRHNCLAMSSEGSQRGWTLR-QSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWR 239 Query: 240 PTFMIDQYLRSGQLVPLLTDFPAPDLGIYAVYPSRAHLPAKVRAMLDFLADAFAQ 294 + + + +G+LV +L F AP 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 = 216 bits (549), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 116/299 (38%), Positives = 183/299 (61%), 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 AGALYLERCKQIVAALEEADDLLAAGSTKPTGLLRINAPLTFGVLHLAPLWPMFLERYPE 120 AG + CK + ++EA+ + A S P+G LRI + L+F + H++PL P F +RYPE Sbjct: 61 AGEDFYRHCKAALTQMKEAEQQVNAASAAPSGTLRITSSLSFCMKHISPLLPRFHQRYPE 120 Query: 121 VELDITLSDRIIDIIDEGYDLAIRIARLS-DSTLVHRKLTSTSLPICASPAYLEKHGTPR 179 V L++ ++R +D++D DLAIR D+ + R+L +T + A+P YL GTPR Sbjct: 121 VRLEVIAANRYMDLLDSDIDLAIRTREFEPDANIAVRRLATTRRILAAAPGYLAARGTPR 180 Query: 180 HPHELAQHQIISYSYNHGKDEWQFNGPEGPV-SVRVNARMHVNNGDSCVQAALGGIGITR 238 +LAQH ++ YS+ + +G +G ++ + + M N+G AAL G+GI Sbjct: 181 TLDDLAQHDLLVYSHAKEPNRLHLSGRDGSQRTLEIKSLMQSNDGQIIRAAALEGLGILI 240 Query: 239 QPTFMIDQYLRSGQLVPLLTDFPAPDLGIYAVYPSRAHLPAKVRAMLDFLADAFAQVHW 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 = 6e-57, Method: Compositional matrix adjust. Identities = 118/290 (40%), Positives = 184/290 (63%), Gaps = 2/290 (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 AGALYLERCKQIVAALEEADDLLAAGSTKPTGLLRINAPLTFGVLHLAPLWPMFLERYPE 120 AG YL RC+QI++ ++EA+ +A KP+G LRI+A +FG ++ P + +RYP+ Sbjct: 62 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 121 Query: 121 VELDITLSDRIIDIIDEGYDLAIRIAR-LSDSTLVHRKLTSTSLPICASPAYLEKHGTPR 179 V +++TL+ RI D+++EGYD+++ +AR L DS L++R+L ST +CASPAYL+K+G P+ Sbjct: 122 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 181 Query: 180 HPHELAQHQIIS-YSYNHGKDEWQFNGPEGPVSVRVNARMHVNNGDSCVQAALGGIGITR 238 P +L H + S DEW GPEG V V + VN ++ + A G+GI Sbjct: 182 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 241 Query: 239 QPTFMIDQYLRSGQLVPLLTDFPAPDLGIYAVYPSRAHLPAKVRAMLDFL 288 P + LR+G +V +L ++G+YA+YPSR +L AK+ +D++ Sbjct: 242 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWM 291 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 0.407 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: 914,066 Number of extensions: 38634 Number of successful extensions: 238 Number of sequences better than 1.0e-08: 62 Number of HSP's gapped: 180 Number of HSP's successfully gapped: 62 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)