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= 0001.0097.p (304 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 613 e-177 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 191 7e-50 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 178 6e-46 gi|300312244|ref|YP_003776336.1| LysR family transcription regul... 168 4e-43 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 166 2e-42 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 613 bits (1581), Expect = e-177, Method: Compositional matrix adjust. Identities = 303/304 (99%), Positives = 304/304 (100%) Query: 1 MRSFDPVQLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQ 60 MRSFDPVQLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQ Sbjct: 1 MRSFDPVQLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQ 60 Query: 61 IRLTREGELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQ 120 IRLTREGELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQ Sbjct: 61 IRLTREGELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQ 120 Query: 121 QAYPQIEVELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARR 180 QAYPQIEVELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARR Sbjct: 121 QAYPQIEVELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARR 180 Query: 181 GQPRSIAELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAI 240 GQPRSIAELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAI Sbjct: 181 GQPRSIAELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAI 240 Query: 241 AGGGLFQIYHFIAEAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQA 300 AGGGLFQIYHFIA+AAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQA Sbjct: 241 AGGGLFQIYHFIADAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQA 300 Query: 301 VASP 304 VASP Sbjct: 301 VASP 304 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 191 bits (485), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 108/296 (36%), Positives = 169/296 (57%), Gaps = 6/296 (2%) Query: 8 QLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREG 67 +L IE F A+LGSF AAEALG++ A+VSR++ LE+RLG RL RTTR++ LT G Sbjct: 3 KLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAG 62 Query: 68 ELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIE 127 LY ++C+Q + + +A+ +L+ P+GLLRI+ + L PL P F + +P+I Sbjct: 63 ALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEIS 122 Query: 128 VELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSIA 187 +++++++R+VD ++EGYD+AIR+ DS L+ L +L + A+PAYL G P Sbjct: 123 LDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPH 182 Query: 188 ELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIH-DDVLGCVNWAIAGGGLF 246 EL QH I + S W F +G + R+H ++ CV A+ G G+ Sbjct: 183 ELAQHQTISYSYNQSKDE--WQFNGPEG---PVSVRVSSRLHVNNGDSCVQAALGGIGIT 237 Query: 247 QIYHFIAEAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQAVA 302 + F+ + +R G+LV +L G +YP HL A++RA ++FL +A A Sbjct: 238 RQPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFA 293 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 178 bits (451), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 108/297 (36%), Positives = 155/297 (52%), Gaps = 4/297 (1%) Query: 8 QLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREG 67 Q I F + A GS +AAA A G+ PA + R + LE RLGV+L RTTR+I LT EG Sbjct: 3 QFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTNEG 62 Query: 68 ELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIE 127 + + CQ+ L + DAE ++ + SG L IS + + PLLP F + + Sbjct: 63 AAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRDVT 122 Query: 128 VELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSIA 187 + L++ +R+ D + EG D+AIR+ DS L++ L E + AAPAYL R G P+S Sbjct: 123 LTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQSPD 182 Query: 188 ELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAIAGGGLFQ 247 EL +H+C+ + S G W + Q + + + +D NWA+AG GL Sbjct: 183 ELMRHNCLA--MSSEGSQRGWTLR--QSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAW 238 Query: 248 IYHFIAEAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQAVASP 304 + AA+ GELV VL + ++ RHL R+RAFV+FLR A A P Sbjct: 239 RSMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFLRHAYAQP 295 >gi|300312244|ref|YP_003776336.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 168 bits (426), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 104/298 (34%), Positives = 168/298 (56%), Gaps = 10/298 (3%) Query: 7 VQLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTRE 66 +Q + F E G+ +AAAE L T + VSR++SRLE +LG L RTTR++ LT E Sbjct: 3 LQSEELRTFVAVVEAGTLSAAAELLAQTTSGVSRALSRLEDKLGASLLTRTTRRMELTEE 62 Query: 67 GELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQI 126 G + +Q + L + A+ + + + P G LR+ P+ + ++P + +F+ AYP I Sbjct: 63 GRAFLEQARAILAAMESAQDSIRLRTRKPVGKLRVDASAPFMLHCVVPHVGQFRAAYPDI 122 Query: 127 EVELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSI 186 E+EL+ +R +D VE D+AIR+G DS L A L A L + A+PAYLAR G+P S+ Sbjct: 123 ELELTTNDRFIDLVEHRADIAIRIGELQDSSLHARALSSARLNVVASPAYLARHGEPESV 182 Query: 187 AELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCV-NWAIAGGGL 245 LEQH I F P + W + + G +++R I + + A+ G G+ Sbjct: 183 EALEQHQLIGFSQPD--QLNHWPLRHSAGD----RYQTRPAIRASSGETIRHLALQGQGI 236 Query: 246 FQIYHFIAEAAVRRGELVEVLQQA--GYRTRRFSILYPHNRHLSARVRAFVEFLRQAV 301 + +F+++A + G LV +L QA GYR ++ S +Y ++ LS R+ F++FL++ + Sbjct: 237 ACLSNFMSDADIAAGRLVRLLPQADSGYR-QKISAVYYYSTQLSRRISCFLDFLQEKL 293 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 166 bits (420), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 101/294 (34%), Positives = 153/294 (52%), Gaps = 4/294 (1%) Query: 11 SIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREGELY 70 ++++F + SFT AA+ L L +V+ + LES L VRL RTTR+I LT +G Y Sbjct: 6 AMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTPDGAAY 65 Query: 71 RDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIEVEL 130 ++C + L + + E+ + P G LRI V LLP L F YP IE+ + Sbjct: 66 YERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPDIELMM 125 Query: 131 SIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSIAELE 190 + +R VD V+E D IR+G DS ++A + AAPAYL R G P +I +L+ Sbjct: 126 GMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHTIEDLQ 185 Query: 191 QHDCIQFILPSSGRAMPWIF-KDAQGRDMDFHFKSRQRIHDDVLGCVNWAIAGGGLFQIY 249 QH + + +GR + W F + R++ + K D + C A+ G G+ Q Sbjct: 186 QHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVEC---ALQGFGMVQAP 242 Query: 250 HFIAEAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQAVAS 303 ++ + G LVEVL Q S++Y HNRHLS +VRAFV+++ + A+ Sbjct: 243 LYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVAELFAT 296 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 0.139 0.409 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: 937,231 Number of extensions: 40005 Number of successful extensions: 342 Number of sequences better than 1.0e-08: 70 Number of HSP's gapped: 291 Number of HSP's successfully gapped: 70 Length of query: 304 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 219 Effective length of database: 1,217,395 Effective search space: 266609505 Effective search space used: 266609505 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)