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= 0028.0034.p (249 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313065|ref|YP_003777157.1| LysR family transcription regul... 204 4e-54 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 136 1e-33 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 125 5e-30 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 120 7e-29 gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 116 2e-27 >gi|300313065|ref|YP_003777157.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 204 bits (520), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 127/288 (44%), Positives = 157/288 (54%), Gaps = 51/288 (17%) Query: 1 LQLLIHTADTGSLSQAARLLGILPATASASLKRVEQRLNTRLFARSTRSMRLTPEGEIFL 60 L + + AD GSLS AAR + PA ASA++KR+E L RL ARSTRS+RLTP+GE +L Sbjct: 7 LAIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTPDGERYL 66 Query: 61 EYCRDALALLQEGETLLSSGKDAIQGHIRLSMPSDIGRNVLFPWLNEFQALHPAVKFTMQ 120 ++ R+ LA + G ++ G+ I G++ LS PSD GRN++ WL+EFQA HPAV + Sbjct: 67 QHARNVLAEVNAGRDAVAHGRRVIGGNLSLSAPSDFGRNLIGQWLDEFQAQHPAVSLQVH 126 Query: 121 FSDRIADLFRDAVDVAIRSGKLADSSLVSQQLAT-GRRVLVASPDYLNR----RXP---- 171 SDR+AD++R VDVAIR DSSLV+ LA RRVL ASPDYL R R P Sbjct: 127 VSDRVADMYRQPVDVAIRYSAPDDSSLVALPLAPDNRRVLCASPDYLARHGRPRSPADLR 186 Query: 172 ------------------------------------------REWAVAGVGIAYKSWIDV 189 R WAV G GIAYKS +DV Sbjct: 187 QHNCLRYVLSDTLHSQWNFFKDDEPVQVQVSGDRTCDDGELVRRWAVNGRGIAYKSRLDV 246 Query: 190 RDDVRAGRLATLLDAYCQEEIPLNAVYPHRNSASPTVRALLAFLRVRF 237 D+R GRL LL+ Y E PL+ V HR SPTVRAL L R Sbjct: 247 LADLRNGRLEALLEDYEGEPSPLHLVCTHRMCVSPTVRALRELLGERI 294 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 136 bits (343), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 95/277 (34%), Positives = 131/277 (47%), Gaps = 49/277 (17%) Query: 7 TADTGSLSQAARLLGILPATASASLKRVEQRLNTRLFARSTRSMRLTPEGEIFLEYCRDA 66 A GSLS AAR GI PA L +E+RL +L R+TR + LT EG FLE C+ Sbjct: 13 VAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTNEGAAFLEDCQRI 72 Query: 67 LALLQEGETLLSSGKDAIQGHIRLSMPSDIGRNVLFPWLNEFQALHPAVKFTMQFSDRIA 126 LA L++ E+ +S G + +S P+ GR + P L F A H V T+ +DRIA Sbjct: 73 LADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRDVTLTLNLNDRIA 132 Query: 127 DLFRDAVDVAIRSGKLADSSLVSQQLATGRRVLVASPDYLNR----RXPRE--------- 173 D+ + +DVAIR L DS+LVS +LA RV+VA+P YL R + P E Sbjct: 133 DVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQSPDELMRHNCLAM 192 Query: 174 ------------------------------------WAVAGVGIAYKSWIDVRDDVRAGR 197 WA+AG G+A++S +V + AG Sbjct: 193 SSEGSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRSMWEVGAAIEAGE 252 Query: 198 LATLLDAYCQEEIPLNAVYPHRNSASPTVRALLAFLR 234 L T+LD + + AV+ R +RA + FLR Sbjct: 253 LVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLR 289 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 125 bits (313), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 86/286 (30%), Positives = 131/286 (45%), Gaps = 49/286 (17%) Query: 1 LQLLIHTADTGSLSQAARLLGILPATASASLKRVEQRLNTRLFARSTRSMRLTPEGEIFL 60 ++ I AD GS +AA LGI A S ++ +E RL +RL R+TR + LT G ++L Sbjct: 7 IECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGALYL 66 Query: 61 EYCRDALALLQEGETLLSSGKDAIQGHIRLSMPSDIGRNVLFPWLNEFQALHPAVKFTMQ 120 E C+ +A L+E + LLSSG G +R++ P G L P F HP + + Sbjct: 67 ERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISLDIT 126 Query: 121 FSDRIADLFRDAVDVAIRSGKLADSSLVSQQLATGRRVLVASPDYLN------------- 167 SDRI D+ + D+AIR +L+DS+LV ++L + + ASP YL+ Sbjct: 127 LSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPHELAQ 186 Query: 168 --------RRXPREW----------------------------AVAGVGIAYKSWIDVRD 191 + EW A+ G+GI + + Sbjct: 187 HQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFMIDQ 246 Query: 192 DVRAGRLATLLDAYCQEEIPLNAVYPHRNSASPTVRALLAFLRVRF 237 +R+G+L ++L Y E+ + AVYP R +RA+L FL F Sbjct: 247 YLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAF 292 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 120 bits (302), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 83/287 (28%), Positives = 124/287 (43%), Gaps = 53/287 (18%) Query: 1 LQLLIHTADTGSLSQAARLLGILPATASASLKRVEQRLNTRLFARSTRSMRLTPEGEIFL 60 ++L A+ GS + AA LG+ PA+ S S+ R+E RL RLFAR+TR +RLT EGE++ Sbjct: 12 IELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREGELYR 71 Query: 61 EYCRDALALLQEGETLLSSGKDAIQGHIRLSMPSDIGRNVLFPWLNEFQALHPAVKFTMQ 120 + C+ AL + + E +L+ + G +R+S+ + L P L FQ +P ++ + Sbjct: 72 DQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIEVELS 131 Query: 121 FSDRIADLFRDAVDVAIRSGKLADSSLVSQQLATGRRVLVASPDYLNRR-XPR------- 172 ++R+ D + D+AIR G DS L++ L L A+P YL RR PR Sbjct: 132 IANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSIAELEQ 191 Query: 173 ---------------------------------------------EWAVAGVGIAYKSWI 187 WA+AG G+ Sbjct: 192 HDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAIAGGGLFQIYHF 251 Query: 188 DVRDDVRAGRLATLLDAYCQEEIPLNAVYPHRNSASPTVRALLAFLR 234 VR G L +L + +YPH S VRA + FLR Sbjct: 252 IADAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLR 298 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 116 bits (291), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 81/280 (28%), Positives = 118/280 (42%), Gaps = 49/280 (17%) Query: 3 LLIHTADTGSLSQAARLLGILPATASASLKRVEQRLNTRLFARSTRSMRLTPEGEIFLEY 62 L +H GS + A R L + P T S L+ +E + RL RSTR + +T G F E Sbjct: 9 LFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTAAGREFFER 68 Query: 63 CRDALALLQEGETLLSSGKDAIQGHIRLSMPSDIGRNVLFPWLNEFQALHPAVKFTMQFS 122 C L ++ L+ + G +R++ P D N W++EF L+P V+ + Sbjct: 69 CAPGLEDIEHASASLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPKVQLEFVLN 128 Query: 123 DRIADLFRDAVDVAIRSGKLADSSLVSQQLATGRRVLVASPDYLNRR------------- 169 D ADL + +D+A R G L DSSLV+++L L+ASP YL R+ Sbjct: 129 DGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLERQGTPQSLTDLTAHA 188 Query: 170 --------------------------XPR----------EWAVAGVGIAYKSWIDVRDDV 193 PR A AG+GIA + +D+ Sbjct: 189 CLATSQAPQHTVWKLEGPHGPESVKVTPRLCVNTAQGQLRAARAGLGIALLPTMLASEDL 248 Query: 194 RAGRLATLLDAYCQEEIPLNAVYPHRNSASPTVRALLAFL 233 R G L +L Y ++ + AVY HR V AL+ F Sbjct: 249 RNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFF 288 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 0.135 0.388 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: 749,712 Number of extensions: 29757 Number of successful extensions: 213 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 42 Length of query: 249 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 166 Effective length of database: 1,226,865 Effective search space: 203659590 Effective search space used: 203659590 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 (22.0 bits) S2: 129 (54.3 bits)