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= 0210.0003.p (149 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 84 5e-18 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 83 1e-17 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 64 6e-12 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 61 5e-11 gi|300312894|ref|YP_003776986.1| LysR family transcription regul... 59 2e-10 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 84.0 bits (206), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 53/142 (37%), Positives = 77/142 (54%), Gaps = 11/142 (7%) Query: 1 VHCSPSFATKWLGPRLPRFMQQYPDINISMSSGAEPVDLLRHEELDLAIAYGSAPQRAGI 60 +H +PS A+ WL RL F + YP+I ++S+ A E+D+ I YG P G+ Sbjct: 96 IHSAPSIASLWLMARLNDFARSYPEITFNLSA-AHSQSNFELGEVDIDIRYG-IPNWPGL 153 Query: 61 VSEAIGSETIVPLCSPALLRD----KPDALRLADIAGMTLIQSTLNPVRWSDWFALNGMK 116 V E + E IVPL SPA +R+ KP AD+ G+ LI+S ++ V+W+DWF Sbjct: 154 VVEPLFEERIVPLASPAFIREYRLRKP-----ADLLGVKLIRSNVSVVQWADWFGEFADV 208 Query: 117 LPPGRPMPSFDRASLALAAAVN 138 P + FDRA ++L AA Sbjct: 209 RAPEQFAVRFDRAQMSLDAATQ 230 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 82.8 bits (203), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 78/142 (54%), Gaps = 11/142 (7%) Query: 1 VHCSPSFATKWLGPRLPRFMQQYPDINISMSSGAEPVDLLRHEELDLAIAYGSAPQRAGI 60 +H SPSFA+ WL PR+ RF Q++PDI + +S+ E D ++DL I G P + Sbjct: 94 IHSSPSFASLWLMPRIGRFTQRHPDIALGLSASPEISD-FEIGQVDLDIRCG-VPHWPDL 151 Query: 61 VSEAIGSETIVPLCSPALLR----DKPDALRLADIAGMTLIQSTLNPVRWSDWFALNGMK 116 EA+ SE ++P+ SP L D PD L LA LIQS + ++W +WFA Sbjct: 152 EIEAVLSERVIPMASPDFLARHRIDTPDDLVLA-----PLIQSRGSLLQWPEWFARYAPD 206 Query: 117 LPPGRPMPSFDRASLALAAAVN 138 L P R FDRA +++ AAV Sbjct: 207 LRPERIALRFDRAMMSIEAAVQ 228 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 63.9 bits (154), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 44/149 (29%), Positives = 76/149 (51%), Gaps = 4/149 (2%) Query: 1 VHCSPSFATKWLGPRLPRFMQQYPDINISMSSGAEPVDLLRHEELDLAIAYGSAPQRAGI 60 + +PSFA++WL PRL RF+ +P++ + + S A D LR + +D+ + +G +G+ Sbjct: 100 ISTTPSFASRWLAPRLWRFIDAHPELEVVLQSAAHLND-LRLDGIDVGLRFGRG-NYSGL 157 Query: 61 VSEAIGSETIVPLCSPALLRDKPDAL-RLADIAGMTLIQSTLNPVRWSDWFALNGMKLPP 119 VSE + + P+ +P + L R AD+A +L++ + W W A G++LP Sbjct: 158 VSEKLSDDYYYPVAAPGYRGKRSKKLARPADLAHCSLLRVD-SRESWQPWLAEAGLELPE 216 Query: 120 GRPMPSFDRASLALAAAVNPXLAASAKGV 148 + +SL L A A A+ V Sbjct: 217 PTGGLLVEDSSLTLRQAAEGKGVALARHV 245 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 60.8 bits (146), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 42/119 (35%), Positives = 61/119 (51%), Gaps = 12/119 (10%) Query: 6 SFATKWLGPRLPRFMQQYPDINISMSSGAEPVDLLRHEELDLAIAYGSAPQRAGIVSEAI 65 +FA WL PRL +F QQ+P +++ + + VDL E LD AI +G G +E + Sbjct: 100 TFAVGWLMPRLRQFQQQHPFVDLRLLTNNNRVDLA-GEGLDYAIRFGDGAWH-GTQAERL 157 Query: 66 GSETIVPLCSPALLRDKPDALRL---ADIAGMTLIQSTLNPVRWSDWFALNGMKLPPGR 121 + P+C+PA+ A RL AD+ TL++S + W WFA G PP R Sbjct: 158 FEAPLAPMCAPAI------AARLRSPADLGAETLLRSYRSD-EWGRWFAAAGAACPPLR 209 >gi|300312894|ref|YP_003776986.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 58.9 bits (141), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 41/135 (30%), Positives = 64/135 (47%), Gaps = 5/135 (3%) Query: 3 CSPSFATKWLGPRLPRFMQQYPDINISMSSGAEPVDLLRHEELDLAIAYGSAPQRAGIVS 62 SP+FA +WL PRLPRF +P I + +S EP LL LD AI + P G+ + Sbjct: 101 VSPTFAMRWLIPRLPRFAALHPHITVHLSERMEPF-LLPGSGLDAAIHF-LHPAWTGMQT 158 Query: 63 EAIGSETIVPLCSPALLRDKPDALRLADIAGMTLIQSTLNPVRWSDWFALNGMKLPPGRP 122 ++ E +VP+C PAL+ + + + + N W + A G+ L Sbjct: 159 YSLLDEVLVPVCHPALVAGTSG---VPALDALPRLHRRQNHDAWQRYAAQTGISLSHSAQ 215 Query: 123 MPSFDRASLALAAAV 137 P +D + + AA+ Sbjct: 216 GPRYDLHGMLIEAAL 230 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 0.319 0.134 0.408 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: 470,370 Number of extensions: 19023 Number of successful extensions: 105 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 103 Number of HSP's successfully gapped: 8 Length of query: 149 Length of database: 1,619,870 Length adjustment: 77 Effective length of query: 72 Effective length of database: 1,255,275 Effective search space: 90379800 Effective search space used: 90379800 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 (21.8 bits) S2: 126 (53.1 bits)