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= 0001.2655.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|300311929|ref|YP_003776021.1| LysR family transcription regul... 555 e-159 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 197 8e-52 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 182 4e-47 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 173 2e-44 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 170 1e-43 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 555 bits (1430), Expect = e-159, Method: Compositional matrix adjust. Identities = 270/301 (89%), Positives = 288/301 (95%) Query: 1 MRSFDPVQLGSIELFCKAAELGSFTAAAEALGVTPASVSRSISRLETRLGVRLFARTTRQ 60 MRSFDPVQLGSIELFCKAAELGSFTAAAEALG+TPASVSRSISRLE+RLGVRLFARTTRQ Sbjct: 1 MRSFDPVQLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQ 60 Query: 61 IRLTREGQLYHEQCRQALEQIAETERFLTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQ 120 IRLTREG+LY +QC+QALEQIA+ ER LTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQ Sbjct: 61 IRLTREGELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQ 120 Query: 121 ARYPQIEVEVSIANRVIDFVEEGYDLAIRLGIPQDSRLIAHPLEDATLGVFAAPAYLQRR 180 YPQIEVE+SIANRV+DFVEEGYDLAIRLG+P DSRLIAH LE+ATLG+FAAPAYL RR Sbjct: 121 QAYPQIEVELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARR 180 Query: 181 GTPHSVAELEQHDCIQFILPSTGRAMPWIFKDAQGRDVDFHFKSRQRIHDDVLGCVNWAI 240 G P S+AELEQHDCIQFILPS+GRAMPWIFKDAQGRD+DFHFKSRQRIHDDVLGCVNWAI Sbjct: 181 GQPRSIAELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAI 240 Query: 241 AGGGLFQIYHFIAQAAVQRGELVEVLQAAGHRTRRFSILYPHNRHLSARVRAFVDFLIEA 300 AGGGLFQIYHFIA AAV+RGELVEVLQ AG+RTRRFSILYPHNRHLSARVRAFV+FL +A Sbjct: 241 AGGGLFQIYHFIADAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQA 300 Query: 301 V 301 V Sbjct: 301 V 301 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 197 bits (501), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 111/293 (37%), Positives = 165/293 (56%), Gaps = 4/293 (1%) Query: 8 QLGSIELFCKAAELGSFTAAAEALGVTPASVSRSISRLETRLGVRLFARTTRQIRLTREG 67 +L IE F A+LGSF AAEALG++ A+VSR++ LE RLG RL RTTR++ LT G Sbjct: 3 KLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAG 62 Query: 68 QLYHEQCRQALEQIAETERFLTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQARYPQIE 127 LY E+C+Q + + E + L+ P+GLLRI+ + L PL P F R+P+I Sbjct: 63 ALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEIS 122 Query: 128 VEVSIANRVIDFVEEGYDLAIRLGIPQDSRLIAHPLEDATLGVFAAPAYLQRRGTPHSVA 187 +++++++R++D ++EGYD+AIR+ DS L+ L +L V A+PAYL GTP Sbjct: 123 LDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPH 182 Query: 188 ELEQHDCIQFILPSTGRAMPWIFKDAQGRDVDFHFKSRQRIHDDVLGCVNWAIAGGGLFQ 247 EL QH I + + W F +G V SR +++ CV A+ G G+ + Sbjct: 183 ELAQHQTISYSYNQSKDE--WQFNGPEG-PVSVRVSSRLHVNNGD-SCVQAALGGIGITR 238 Query: 248 IYHFIAQAAVQRGELVEVLQAAGHRTRRFSILYPHNRHLSARVRAFVDFLIEA 300 F+ ++ G+LV +L G +YP HL A++RA +DFL EA Sbjct: 239 QPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEA 291 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 182 bits (461), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 105/290 (36%), Positives = 156/290 (53%), Gaps = 4/290 (1%) Query: 11 SIELFCKAAELGSFTAAAEALGVTPASVSRSISRLETRLGVRLFARTTRQIRLTREGQLY 70 ++++F + SFT AA+ L + +V+ + LE+ L VRL RTTR+I LT +G Y Sbjct: 6 AMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTPDGAAY 65 Query: 71 HEQCRQALEQIAETERFLTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQARYPQIEVEV 130 +E+C + L + ETE+ + P G LRI V LLP L F RYP IE+ + Sbjct: 66 YERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPDIELMM 125 Query: 131 SIANRVIDFVEEGYDLAIRLGIPQDSRLIAHPLEDATLGVFAAPAYLQRRGTPHSVAELE 190 + +R +D V+E D IR+G QDS ++A + AAPAYL+R G PH++ +L+ Sbjct: 126 GMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHTIEDLQ 185 Query: 191 QHDCIQFILPSTGRAMPWIF-KDAQGRDVDFHFKSRQRIHDDVLGCVNWAIAGGGLFQIY 249 QH + + TGR + W F + R+V + K D + C A+ G G+ Q Sbjct: 186 QHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVEC---ALQGFGMVQAP 242 Query: 250 HFIAQAAVQRGELVEVLQAAGHRTRRFSILYPHNRHLSARVRAFVDFLIE 299 ++ + G LVEVL S++Y HNRHLS +VRAFVD++ E Sbjct: 243 LYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVAE 292 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 173 bits (438), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 104/290 (35%), Positives = 152/290 (52%), Gaps = 4/290 (1%) Query: 8 QLGSIELFCKAAELGSFTAAAEALGVTPASVSRSISRLETRLGVRLFARTTRQIRLTREG 67 Q I F + A GS +AAA A G+ PA + R + LE RLGV+L RTTR+I LT EG Sbjct: 3 QFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTNEG 62 Query: 68 QLYHEQCRQALEQIAETERFLTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQARYPQIE 127 + E C++ L + + E ++ + SG L IS + + PLLP F A + + Sbjct: 63 AAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRDVT 122 Query: 128 VEVSIANRVIDFVEEGYDLAIRLGIPQDSRLIAHPLEDATLGVFAAPAYLQRRGTPHSVA 187 + +++ +R+ D + EG D+AIR+ DS L++ L + + AAPAYL+R GTP S Sbjct: 123 LTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQSPD 182 Query: 188 ELEQHDCIQFILPSTGRAMPWIFKDAQGRDVDFHFKSRQRIHDDVLGCVNWAIAGGGLFQ 247 EL +H+C+ + S G W + Q V + + +D NWA+AG GL Sbjct: 183 ELMRHNCLA--MSSEGSQRGWTLR--QSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAW 238 Query: 248 IYHFIAQAAVQRGELVEVLQAAGHRTRRFSILYPHNRHLSARVRAFVDFL 297 + AA++ GELV VL ++ RHL R+RAFVDFL Sbjct: 239 RSMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFL 288 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 170 bits (431), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 103/296 (34%), Positives = 157/296 (53%), Gaps = 4/296 (1%) Query: 8 QLGSIELFCKAAELGSFTAAAEALGVTPASVSRSISRLETRLGVRLFARTTRQIRLTREG 67 +L +++ F E GSF AA + G + +VSR +S LE LG+RL RTTR++ LT EG Sbjct: 3 KLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTDEG 62 Query: 68 QLYHEQCRQALEQIAETERFLTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQARYPQIE 127 ++Y +C++ LE I + E + G LRI + +L PL +F ++P I Sbjct: 63 RVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPLIT 122 Query: 128 VEVSIANRVIDFVEEGYDLAIRLGIPQDSRLIAHPLEDATLGVFAAPAYLQRRGTPHSVA 187 + +++++R ID +EEG+D+AIR+ DSR++A PL + AAP +L R GTP + A Sbjct: 123 LNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGTPA 182 Query: 188 ELEQHDCIQFILPSTGRAMPWIFKDAQGRDVDFHFKSRQRIHDDVLGCVNWAIAGGGLFQ 247 EL + I + + G W F+ G +S +++ C AIAG G+ Sbjct: 183 ELRDYPFISYSYRAGGDD--WSFRHVHGDTCQVRVRSTVYVNNGAT-CRAMAIAGQGIAI 239 Query: 248 IYHFIAQAAVQRGELVEVLQA-AGHRTRRFSILYPHNRHLSARVRAFVDFLIEAVR 302 FI AA+Q G+LVE+ + + LYP HL +V+ DFLIE R Sbjct: 240 QPDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFR 295 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 0.326 0.139 0.414 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: 924,954 Number of extensions: 39465 Number of successful extensions: 299 Number of sequences better than 1.0e-08: 67 Number of HSP's gapped: 245 Number of HSP's successfully gapped: 67 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: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 130 (54.7 bits)