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= 0001.2998.p (302 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312334|ref|YP_003776426.1| transcription regulator protein... 603 e-174 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 232 2e-62 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 189 2e-49 gi|300313065|ref|YP_003777157.1| LysR family transcription regul... 181 5e-47 gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 181 5e-47 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 603 bits (1554), Expect = e-174, Method: Compositional matrix adjust. Identities = 294/300 (98%), Positives = 299/300 (99%) Query: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRHHVAPLLPSFLAEHRD 120 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGR HVAPLLPSFLAEHRD Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPSYLRRHGTPQT 180 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAP+YLRRHGTPQ+ Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQS 180 Query: 181 PDELVRHNCLAMSSEGSQRGWTLKQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRS 240 PDEL+RHNCLAMSSEGSQRGWTL+QSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRS Sbjct: 181 PDELMRHNCLAMSSEGSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRS 240 Query: 241 MWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQPDYWKQ 300 MWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQPDYWK+ Sbjct: 241 MWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQPDYWKK 300 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 232 bits (592), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 125/295 (42%), Positives = 181/295 (61%), Gaps = 2/295 (0%) Query: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 M++ ++I F VA GS AA A GI+ A + R + LE RLG +L+QRTTR++ LT Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRHHVAPLLPSFLAEHRD 120 GA +LE C++I+A LE+A+ +S SA+ +G L I+AP FG H+APL P FL H + Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPSYLRRHGTPQT 180 ++L + L+DRI D+I EG D+AIRIA L+DS LV KL + A+P+YL HGTP Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 PDELVRHNCLAMSSEGSQRGWTLK-QSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWR 239 P EL +H ++ S S+ W G VSV +V + N+G+ AL G G+ + Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVSV-RVSSRLHVNNGDSCVQAALGGIGITRQ 239 Query: 240 SMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQ 294 + + + +G+LV++L + AP IYAV+ R HLP ++RA +DFL A+AQ Sbjct: 240 PTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFAQ 294 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 189 bits (480), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 104/299 (34%), Positives = 165/299 (55%), Gaps = 2/299 (0%) Query: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 MD+ + + TF V GS AA G + + R++ LE+ LG++LL RTTR++ LT+ Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRHHVAPLLPSFLAEHRD 120 EG + C+ +L ++D ES V S +A G+L I AP FG +APL F +H Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPSYLRRHGTPQT 180 +TL + L+DR D++ EG D+AIRI+ L DS +V+ LA + AAP +L RHGTP T Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 181 PDELVRHNCLAMSSEGSQRGWTLKQ-SGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWR 239 P EL + ++ S W+ + G +V + N+G A+AG+G+A + Sbjct: 181 PAELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQ 240 Query: 240 SMWEVGAAIEAGELVTVLDKFAAPAP-SIYAVFAQRRHLPLRIRAFVDFLRHAYAQPDY 297 + V AAI+AG+LV + + ++ ++ ++ R HLP +++ DFL + P + Sbjct: 241 PDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFRVPPW 299 >gi|300313065|ref|YP_003777157.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 181 bits (460), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 105/303 (34%), Positives = 172/303 (56%), Gaps = 4/303 (1%) Query: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 M + + ++ F A GSLSAAAR + PA+ + LE LG +LL R+TR + LT Sbjct: 1 MIRLEDLAIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60 Query: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRHHVAPLLPSFLAEHRD 120 +G +L+ + +LA++ AV+ G L +SAP+ FGR+ + L F A+H Sbjct: 61 DGERYLQHARNVLAEVNAGRDAVAHGRRVIGGNLSLSAPSDFGRNLIGQWLDEFQAQHPA 120 Query: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLA-ENHRVIVAAPSYLRRHGTPQ 179 V+L ++++DR+AD+ + +DVAIR + DS+LV++ LA +N RV+ A+P YL RHG P+ Sbjct: 121 VSLQVHVSDRVADMYRQPVDVAIRYSAPDDSSLVALPLAPDNRRVLCASPDYLARHGRPR 180 Query: 180 TPDELVRHNCL-AMSSEGSQRGWTLKQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAW 238 +P +L +HNCL + S+ W + + +V G+ C+DGE++ WA+ GRG+A+ Sbjct: 181 SPADLRQHNCLRYVLSDTLHSQWNFFKDDEPVQVQVSGDRTCDDGELVRRWAVNGRGIAY 240 Query: 239 RSMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQPDYW 298 +S +V A + G L +L+ + ++ V R + +RA + L A+ Y Sbjct: 241 KSRLDVLADLRNGRLEALLEDYEGEPSPLHLVCTHRMCVSPTVRALRELLGERIAR--YL 298 Query: 299 KQR 301 K R Sbjct: 299 KDR 301 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 181 bits (460), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 103/287 (35%), Positives = 155/287 (54%), Gaps = 2/287 (0%) Query: 4 FKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTNEGA 63 + + F VA S + +AR G +PA I +R+ LE+ LGV+L RTTR +V+T EG Sbjct: 7 LEDLRLFCVVARHSSFAGSAREVGASPAYISKRIALLEQALGVRLFHRTTRSVVMTEEGG 66 Query: 64 AFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRHHVAPLLPSFLAEHRDVTL 123 E +RIL D+E VS G L IS G GR V+PLL F +EH ++ + Sbjct: 67 NVHEWARRILDDVEQMMETVSSAKRVPRGLLKISTSFGLGRKVVSPLLSRFASEHPELKI 126 Query: 124 TLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPSYLRRHGTPQTPDE 183 L L DR D++ EGID+ IR+ + +L S ++ + RV+ A+P+YL++HG P Sbjct: 127 QLELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILPSQRVLCASPAYLKKHGLPADLAA 186 Query: 184 LVRHNCLAMSSEGSQRG-WTLKQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRSMW 242 L +H CL + G W + V KV G + N GE++H WA+ G G+ RS W Sbjct: 187 LRQHQCLVIRERNQSFGIWRMMGPKGVETVKVSGMLASNHGEIIHQWAVDGHGIILRSAW 246 Query: 243 EVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLR 289 +V +++ G LV VL ++ A + AV+ + ++R V FL+ Sbjct: 247 DVADSLKRGRLVRVLPQYYQEA-DLCAVYPLQLKNSAKVRECVRFLQ 292 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 0.134 0.393 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: 915,618 Number of extensions: 38506 Number of successful extensions: 231 Number of sequences better than 1.0e-08: 48 Number of HSP's gapped: 187 Number of HSP's successfully gapped: 48 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 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)