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= 0250.0038.p (212 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310408|ref|YP_003774500.1| LysR family transcription regul... 154 5e-39 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 105 2e-24 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 94 7e-21 gi|300311868|ref|YP_003775960.1| LysR family transcription regul... 84 1e-17 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 78 6e-16 >gi|300310408|ref|YP_003774500.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 154 bits (389), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 77/151 (50%), Positives = 99/151 (65%), Gaps = 3/151 (1%) Query: 55 IXLGQLADSSYQAIPVGTVRRVVCASPSYLREHGTPQTPDDLRQHVIVSSNGVATSPDWR 114 + +G L DS + AI VG+VRRV+CA+P YLR HG P +P DL+QH IV+S SP+WR Sbjct: 143 VRIGHLPDSGFTAIQVGSVRRVICAAPDYLRRHGVPTSPADLKQHRIVTSTSAWASPEWR 202 Query: 115 FTKGDTSTIVRVQPRMTVMSNDEAIIAALDGFGITRVLSYMVAAQLSDGRLVEVLREHET 174 F G V V+ + +N+ AI A G+G+TRVL+Y VAA L GRL V+ E E Sbjct: 203 FADGQR---VLVEAALQTNTNEAAIATARQGWGLTRVLAYQVAADLQAGRLQRVMSEFEE 259 Query: 175 PTLPVHVVQHEGRHAARKVRAFLDLAVGELR 205 P LP+HV+ EGR + KVRAF+DLAV LR Sbjct: 260 PPLPIHVLYPEGRRSPAKVRAFIDLAVCRLR 290 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 105 bits (263), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 60/152 (39%), Positives = 86/152 (56%), Gaps = 3/152 (1%) Query: 55 IXLGQLADSSYQAIPVGTVRRVVCASPSYLREHGTPQTPDDLRQHVIVS--SNGVATSPD 112 I +G+L DSS A +GT + V CA+P+YL HG P T +DL+QH V S+ + D Sbjct: 143 IRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHTIEDLQQHKAVHYFSSRTGRTID 202 Query: 113 WRFTKGDTSTIVRVQPRMTVMSNDEAIIAALDGFGITRVLSYMVAAQLSDGRLVEVLREH 172 W F + V++ ++ V D + AL GFG+ + YMV + +GRLVEVL + Sbjct: 203 WDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQAPLYMVTRHIDEGRLVEVLSQW 262 Query: 173 ETPTLPVHVVQHEGRHAARKVRAFLDLAVGEL 204 + +P+ VV RH + KVRAF+D V EL Sbjct: 263 KPAPMPISVVYLHNRHLSPKVRAFVDW-VAEL 293 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 94.4 bits (233), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 51/145 (35%), Positives = 78/145 (53%) Query: 55 IXLGQLADSSYQAIPVGTVRRVVCASPSYLREHGTPQTPDDLRQHVIVSSNGVATSPDWR 114 I + +L+DS+ + + VCASP+YL HGTP P +L QH +S + + +W+ Sbjct: 143 IRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPHELAQHQTISYSYNQSKDEWQ 202 Query: 115 FTKGDTSTIVRVQPRMTVMSNDEAIIAALDGFGITRVLSYMVAAQLSDGRLVEVLREHET 174 F + VRV R+ V + D + AAL G GITR ++M+ L G+LV +L ++ Sbjct: 203 FNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFMIDQYLRSGQLVSILGDYGA 262 Query: 175 PTLPVHVVQHEGRHAARKVRAFLDL 199 P L ++ V H K+RA LD Sbjct: 263 PELGIYAVYPSRAHLPAKMRAMLDF 287 >gi|300311868|ref|YP_003775960.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 52/147 (35%), Positives = 78/147 (53%), Gaps = 8/147 (5%) Query: 58 GQLADSSYQAIPVGTVRRVVCASPSYLREHGTPQTPDDLRQHVIVSSNGV--ATSPDWRF 115 G L DSS A P+G + ++ CASP YLR +GTPQT +DL QH +V V SP W + Sbjct: 146 GTLDDSSLVARPIGHLVQINCASPEYLRRYGTPQTLEDLAQHRLVHYRQVLGGRSPGWEW 205 Query: 116 TKGDTSTIVRVQPRMTVMSNDEAIIAALDGFGITRVLSYMVAAQ----LSDGRLVEVLRE 171 G + + + +TV S + A L G G+ ++ +V AQ L G +VEVL + Sbjct: 206 FDGQQTRSLPMAGSITVNSTETYYAACLAGLGLIQL--PLVGAQKRQMLDGGHVVEVLPQ 263 Query: 172 HETPTLPVHVVQHEGRHAARKVRAFLD 198 + +PV ++ RH ++ F+D Sbjct: 264 YRPAPMPVSLLYASRRHVPARLAGFMD 290 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 77.8 bits (190), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 44/147 (29%), Positives = 76/147 (51%), Gaps = 4/147 (2%) Query: 55 IXLGQLADSSYQAIPVGTVRRVVCASPSYLREHGTPQTPDDLRQHVIVSSNGVATSPDWR 114 I + L DS+ ++ + RV+ A+P+YLR HGTPQ+PD+L +H ++ + + W Sbjct: 143 IRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQSPDELMRHNCLAMSSEGSQRGWT 202 Query: 115 FTKGDTSTIVRVQPRMTVMSNDEAII--AALDGFGITRVLSYMVAAQLSDGRLVEVLREH 172 + ++ +V M + ND ++ AL G G+ + V A + G LV VL + Sbjct: 203 LRQSGKVSVYKVGGNM--VCNDGEVLHNWALAGRGLAWRSMWEVGAAIEAGELVTVLDKF 260 Query: 173 ETPTLPVHVVQHEGRHAARKVRAFLDL 199 P ++ V + RH ++RAF+D Sbjct: 261 AAPAPSIYAVFAQRRHLPLRIRAFVDF 287 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 0.134 0.381 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: 640,334 Number of extensions: 24597 Number of successful extensions: 195 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 19 Length of query: 212 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 131 Effective length of database: 1,236,335 Effective search space: 161959885 Effective search space used: 161959885 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: 128 (53.9 bits)