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= 0257.0018.p (258 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313630|ref|YP_003777722.1| LysR family transcription regul... 119 3e-28 gi|300312018|ref|YP_003776110.1| transcription regulator protein... 112 3e-26 gi|300313065|ref|YP_003777157.1| LysR family transcription regul... 104 6e-24 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 104 6e-24 gi|300313746|ref|YP_003777838.1| LysR family transcription regul... 100 1e-22 >gi|300313630|ref|YP_003777722.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 119 bits (297), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 75/205 (36%), Positives = 120/205 (58%), Gaps = 8/205 (3%) Query: 50 AGRLRLN-VPLAASKLVLPRIVPQFLAAYPEICLEVIVEDRFVELLQSGCDAGIRYEEGM 108 +GRLR+N + +AA ++ PR+ +F A+P++ L+++V+D +++ DAGIR + Sbjct: 93 SGRLRINTLGIAARTIIAPRLA-RFHQAHPDVVLDIVVDDTLTDIVAGRFDAGIRVGNRV 151 Query: 109 DQDMVAIPVGPRRQRMALAASPSYLAQHGRPRHPDDLRKHLCLRGRFS-SGLMPQWFFER 167 ++DMVAI + P M ASP YLA+ G PR P DL H C+ R G +W F++ Sbjct: 152 EKDMVAIRLTPDLN-MVAVASPDYLARRGVPRSPKDLHDHTCINWRLQMDGRHYRWEFKK 210 Query: 168 KGKSVTIETDGPLIVNLGAAADLAVDSAVAGAGVIYLFE-EWLQPYIDRGELEPLLESWW 226 +G+ + + DGP+I N AD+ + +A+ G G+ Y FE + + + +G L +L W Sbjct: 211 RGQQLEVAVDGPIITN---HADIGIAAALGGLGIAYHFERDGVSELLSQGRLVQVLADWS 267 Query: 227 PSFTGPSLYYPGRRYLPAPLRVFVD 251 S G LYYP R++ PA L F+D Sbjct: 268 ISRPGLFLYYPNRQHRPALLGAFID 292 >gi|300312018|ref|YP_003776110.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 112 bits (280), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 76/244 (31%), Positives = 121/244 (49%), Gaps = 4/244 (1%) Query: 11 AASAVRXSSPSPRTAASLTPALGAIESALDVVNGFRDRPAGRLRLNVPLAASKLVLPRIV 70 ++ A+ ++ AA L I +AL ++ G LR+NV A+ L++ + Sbjct: 57 SSRAISPTAAGSELAARLEQGFEQIGAALSQLDSSAAGSLGELRINVFADAAHLLIEPAI 116 Query: 71 PQFLAAYPEICLEVIVEDRFVELLQSGCDAGIRYEEGMDQDMVAIPVGPRRQRMALAASP 130 P+F+ P++ L ++V+D+ ++++ G DAGIRY + + MV P+ R R AA+P Sbjct: 117 PEFVRQCPKVRLTIVVDDKPIDIVSEGYDAGIRYGHYVPEGMVTAPL-TRAHRWVAAAAP 175 Query: 131 SYLAQHGRPRHPDDLRKHLCLRGRFSSGLMPQWFFERKGKSVTIETDGPLIVNLGAAADL 190 +YL +HGRP DL++H CL+ QW F R I G + +N AA Sbjct: 176 AYLDRHGRPLTLQDLQQHTCLQLLLGDNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIA 235 Query: 191 AVDSAVAGAGVIYLFEEWLQPYIDRGELEPLLESWWPSFTGPSLYYPGRRYLPAPLRVFV 250 A AG G+ YL E + I+ G LE +LE W +YY RR+ LR + Sbjct: 236 AAK---AGVGIAYLLEGRISKEIEEGSLETILEEWAAPSEPFHMYYSSRRHAHPALRKLI 292 Query: 251 DFVQ 254 D ++ Sbjct: 293 DIIR 296 >gi|300313065|ref|YP_003777157.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 104 bits (260), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 66/194 (34%), Positives = 98/194 (50%), Gaps = 4/194 (2%) Query: 32 LGAIESALDVVNGFRDRPAGRLRLNVPLAASKLVLPRIVPQFLAAYPEICLEVIVEDRFV 91 L + + D V R G L L+ P + ++ + + +F A +P + L+V V DR Sbjct: 73 LAEVNAGRDAVAHGRRVIGGNLSLSAPSDFGRNLIGQWLDEFQAQHPAVSLQVHVSDRVA 132 Query: 92 ELLQSGCDAGIRYEEGMDQDMVAIPVGPRRQRMALAASPSYLAQHGRPRHPDDLRKHLCL 151 ++ + D IRY D +VA+P+ P +R+ L ASP YLA+HGRPR P DLR+H CL Sbjct: 133 DMYRQPVDVAIRYSAPDDSSLVALPLAPDNRRV-LCASPDYLARHGRPRSPADLRQHNCL 191 Query: 152 RGRFSSGLMPQWFFERKGKSVTIETDGPLIVNLGAAADLAVDSAVAGAGVIYLFEEWLQP 211 R S L QW F + + V ++ G + G +L AV G G+ Y + Sbjct: 192 RYVLSDTLHSQWNFFKDDEPVQVQVSGDRTCDDG---ELVRRWAVNGRGIAYKSRLDVLA 248 Query: 212 YIDRGELEPLLESW 225 + G LE LLE + Sbjct: 249 DLRNGRLEALLEDY 262 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 104 bits (260), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 67/222 (30%), Positives = 107/222 (48%), Gaps = 6/222 (2%) Query: 32 LGAIESALDVVNGFRDRPAGRLRLNVPLAASKLVLPRIVPQFLAAYPEICLEVIVEDRFV 91 + A+E A D+++ +P G LR+N PL L L + P FL +PEI L++ + DR V Sbjct: 73 VAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISLDITLSDRIV 132 Query: 92 ELLQSGCDAGIRYEEGMDQDMVAIPVGPRRQRMALAASPSYLAQHGRPRHPDDLRKHLCL 151 +++ G D IR D +V + + + ASP+YL HG P HP +L +H + Sbjct: 133 DIIDEGYDMAIRIARLSDSTLVHRKLTS--TSLHVCASPAYLDAHGTPAHPHELAQHQTI 190 Query: 152 RGRFSSGLMPQWFFERKGKSVTIETDGPLIVNLGAAADLAVDSAVAGAGVIYLFEEWLQP 211 ++ +W F V++ L VN G D V +A+ G G+ + Sbjct: 191 SYSYNQS-KDEWQFNGPEGPVSVRVSSRLHVNNG---DSCVQAALGGIGITRQPTFMIDQ 246 Query: 212 YIDRGELEPLLESWWPSFTGPSLYYPGRRYLPAPLRVFVDFV 253 Y+ G+L +L + G YP R +LPA +R +DF+ Sbjct: 247 YLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFL 288 >gi|300313746|ref|YP_003777838.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 74/217 (34%), Positives = 118/217 (54%), Gaps = 15/217 (6%) Query: 43 NGFRDRPAGRLRLNVPLAASKLVLPRIVPQFLAAYPEICLEVIVEDRFVELLQSGCDAGI 102 N R P G+LR++V + ++ VL +P FLA YP+I +++ V DR V+L+ D I Sbjct: 84 NAARGNPRGKLRIDVGGSTARDVLIPALPDFLARYPDISIDLGVSDRPVDLIGDSVDCVI 143 Query: 103 RYEEGMDQDMVAIPVGPRRQRMALAASPSYLAQHGRPRHPDDLRKHLCLRGRFSSGLMPQ 162 R + +VA +G + RM A+P+YL Q G P +PD+L+ R S L PQ Sbjct: 144 RGGPLDNSSLVARQIG--QARMVTCATPAYLKQFGVPAYPDELKNG----HRLISYLSPQ 197 Query: 163 ------WFFERKGKSVTIETDGPLIVNLGAAADLAVDSAVAGAGVIYLFEEWLQPYIDRG 216 + FERKG+ + I+T+ + VN ++ + +A+AG G++ F P + RG Sbjct: 198 SGRAFPFRFERKGEKIEIKTEHRIGVN---ESNAHLAAALAGLGIVQTFRYAAGPALARG 254 Query: 217 ELEPLLESWWPSFTGPSLYYPGRRYLPAPLRVFVDFV 253 EL +L W P+ + YP R++ LRVF+D++ Sbjct: 255 ELVEILTKWRPAPYPFHVVYPNNRHVSHRLRVFIDWL 291 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 0.138 0.431 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: 729,349 Number of extensions: 29978 Number of successful extensions: 202 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 23 Length of query: 258 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 175 Effective length of database: 1,226,865 Effective search space: 214701375 Effective search space used: 214701375 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: 129 (54.3 bits)