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= 0002.0356.p (294 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311935|ref|YP_003776027.1| LysR family transcription regul... 181 6e-47 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 93 2e-20 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 89 4e-19 gi|300313689|ref|YP_003777781.1| LysR family transcription regul... 79 5e-16 gi|300313085|ref|YP_003777177.1| LysR family transcription regul... 78 8e-16 >gi|300311935|ref|YP_003776027.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 286 Score = 181 bits (459), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 97/275 (35%), Positives = 160/275 (58%) Query: 8 IRSFHAVAKTRSFTAAATYLQIGQPTISEQVKALEDRFAVELLYRSGRHVELTDAGQRLY 67 +R+F AVA+ R F+AAA L + QPT++ QV++LE VEL +R GR V+L++ QRL Sbjct: 6 LRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSETAQRLL 65 Query: 68 EITEGIFGQEDEAVQLLQSLHSQKTGLLRIGAVSPPVVMNLTYDLMHRHPGIEFAISINS 127 I + I E +A+ LL + + G LRIGAV P V+ + R+P +E +I + + Sbjct: 66 PIAQNIAELELDALNLLVNSGALHVGHLRIGAVGPFHVIEMVDAYRARYPRVELSIRLGN 125 Query: 128 EKETLSRLYDFTIDIAILAYVDPDKRLYVIPYRTYPIVAVVRDDHAWANKASVPLKQIQH 187 +TL+ L ++ D+A+LA D R + +PY + +V H + + SV L ++ Sbjct: 126 SAQTLADLENYVTDVAVLASFTDDARFHALPYADHAVVLFAHRSHPFYQRDSVTLAELDQ 185 Query: 188 EAIIMRESGSKTRELLEQACSKQDIRINCVMELNSREAIMHAIAEGLGIGFVAEIEYTAI 247 + ++MRE GS TR LE+A + +++ VME+ SREA+ A+A GLG+G V+E E+ Sbjct: 186 QPMLMREQGSTTRLALEKALQQAGVKVQVVMEIGSREALREAVARGLGLGAVSEAEFVPD 245 Query: 248 PGTKAIRLRDAQVNINYYMCALAVRKNRPLIKNVL 282 + +R+ V+ + Y+ LA R+ L+ + + Sbjct: 246 ERFRMVRIEGDPVSTHTYVYCLAERREGRLVGSFM 280 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 93.2 bits (230), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 115/239 (48%), Gaps = 15/239 (6%) Query: 11 FHAVAKTRSFTAAATYLQIGQPTISEQVKALEDRFAVELLYRSGRHVELTDAGQRLYEIT 70 F VA+T F AA L I QP ++ Q+ ALE +L RS R ++LT AG+ Y T Sbjct: 10 FRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAAGKYFYRDT 69 Query: 71 EGIFGQEDEAVQLLQSLHSQKTGLLRIGAVSPPVVMNLTYDLM---HRH-----PGIEFA 122 IF + A + + S + K+G L++G +M+ Y+++ RH P ++ Sbjct: 70 TEIFKALERAKRNVSSSSTGKSGALKVG-----FMMSTAYNILPSVTRHYSAAYPEVDMR 124 Query: 123 ISINSEKETLSRLYDFTIDIAILAYVDPDKRLYVIPYRTYPIVAVVRDDHAWANKASVPL 182 ++ + + D ID+ I+ + +RL P++AV+ DH A + S+ Sbjct: 125 LTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQSISA 184 Query: 183 KQIQHEAIIM--RESGSKTRELLEQACSKQDIRINCVMELNSREAIMHAIAEGLGIGFV 239 ++ +A I R +L++Q C R V+E N ++ I++ + EGLG+ V Sbjct: 185 AELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLGVALV 243 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 89.0 bits (219), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 78/280 (27%), Positives = 134/280 (47%), Gaps = 12/280 (4%) Query: 6 KWIRSFHAVAKTRSFTAAATYLQIGQPTISEQVKALEDRFAVELLYRSGRHVELTDAGQR 65 + +R F AVA+ RSFT AA + IGQP +S Q+KALE+ L RS + VEL++ G+ Sbjct: 4 RHLRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEVGRV 63 Query: 66 LYEITEGIFGQEDEAVQLLQSLHSQKTGLLRIG----AVSPPVVMNLTYDLMHRHPGIEF 121 L + Q ++A++ + S +TGLLR+G AV P+V + RH +E Sbjct: 64 LLPHAQRAVDQAEQALRAARQAASGETGLLRMGFTSSAVFHPLVSHALQQFRERHRKLEI 123 Query: 122 AISINSEKETLSRLYDFTIDIAILAYV-DPDKRLYVIPYRTYPIVAVVRDDHAWANKASV 180 ++S ++ L+ + +D A + V P L V+ + + H A + S+ Sbjct: 124 SLSEGITEQLLADIAASQLDAAFVRIVTTPSAALGVVELPAEKLKVALPRSHPLARRKSL 183 Query: 181 PLKQIQHEAIIM--RESGSKTRELLEQACSKQDIRINCVMELNSREAIMHAIAEGLGIGF 238 L+ + E IM R GS + + AC + + ++ +A GLGI Sbjct: 184 RLQDLASENFIMVPRGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVASGLGISI 243 Query: 239 VAE-IEYTAIPGTKAIRLRD----AQVNINYYMCALAVRK 273 V E IE + + + + + AQ+++ Y+ ++A + Sbjct: 244 VPEAIEQVQLAQVRYVEIVEPAPRAQLSLAYHRQSIAASR 283 >gi|300313689|ref|YP_003777781.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 79.0 bits (193), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 52/222 (23%), Positives = 106/222 (47%), Gaps = 3/222 (1%) Query: 8 IRSFHAVAKTRSFTAAATYLQIGQPTISEQVKALEDRFAVELLYRSGRHVELTDAGQRLY 67 +R F+ V +T S TAAA L + +S Q+ +E+ V L R R + LT AG+ L Sbjct: 6 LRYFYQVGRTGSLTAAAERLDVAVSAVSRQIAKMEEETGVPLFERRARGMVLTPAGEVLM 65 Query: 68 EITEGIFGQEDEAVQLLQSLHSQKTGLLRIG---AVSPPVVMNLTYDLMHRHPGIEFAIS 124 + ++ + ++ LH+ G++ + + ++ N+T ++PG++F + Sbjct: 66 AYARRNLLEMEQVLAEVRGLHAVGQGVITLACSEGFAWDLLPNVTAQFREQYPGLQFKLH 125 Query: 125 INSEKETLSRLYDFTIDIAILAYVDPDKRLYVIPYRTYPIVAVVRDDHAWANKASVPLKQ 184 + + D DI++ + P + L V + P+ A+++ DH A++ + L Sbjct: 126 VVGAARASQMVIDGEADISVTYSLAPAEGLAVAYRESGPVFALMKRDHPLASRTLLALSD 185 Query: 185 IQHEAIIMRESGSKTRELLEQACSKQDIRINCVMELNSREAI 226 + + + E G+ R+L + ACS + + + V +S A+ Sbjct: 186 LSPYPLALPEVGTTVRQLFDIACSMRGLLFSPVFTSHSLGAV 227 >gi|300313085|ref|YP_003777177.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 78.2 bits (191), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/233 (24%), Positives = 103/233 (44%), Gaps = 9/233 (3%) Query: 13 AVAKTRSFTAAATYLQIGQPTISEQVKALEDRFAVELLYRSGRHVELTDAGQRLYEITEG 72 AVA+ + F AA + QPT+S +K LED V + R G V +T G ++ E Sbjct: 11 AVAREKHFGHAAEACFVAQPTLSVAIKKLEDELGVVIFERGGTEVSVTPLGAQIVAQAER 70 Query: 73 IFGQEDEAVQLLQSLHSQKTGLLRIG---AVSPPVVMNLTYDLMHRHPGIEFAISINSEK 129 + Q ++ +G LR+G + P ++ +L ++ R P + + N Sbjct: 71 VLEQTAAIKEIANQNKDPLSGPLRLGIIYTIGPYLLPSLVKTMIERVPQMPLILQENFTT 130 Query: 130 ETLSRLYDFTIDIAILAYVDPDKRLYVIPYRTYPIVAVVRDDHAWANKASVPLKQIQHEA 189 + L +D AI+A P+ L V+P + + H WA + + ++++ E Sbjct: 131 RLIELLRQGELDAAIMALPFPEHGLNVLPLYDEEFMVALPRQHKWAERKEIDARELKSET 190 Query: 190 IIMRESGSKTRELLEQAC------SKQDIRINCVMELNSREAIMHAIAEGLGI 236 +++ +G R+ + + C S I E +S E I H ++ G+G+ Sbjct: 191 MLLLGNGHCFRDQVLEVCPEMSRFSTNGDGIARTFEGSSLETIRHMVSSGIGV 243 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 0.135 0.385 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: 833,282 Number of extensions: 31813 Number of successful extensions: 206 Number of sequences better than 1.0e-08: 36 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 36 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 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)