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= 0034.0413.p (215 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309577|ref|YP_003773669.1| transcription regulator protein... 82 3e-17 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 82 4e-17 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 81 8e-17 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 80 1e-16 gi|300312894|ref|YP_003776986.1| LysR family transcription regul... 74 7e-15 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 82.0 bits (201), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 60/168 (35%), Positives = 77/168 (45%), Gaps = 37/168 (22%) Query: 5 LPPLSSLRFFEAAGRHQSFKLAAAELNVTPSAVSHGIVTLEQTLGVELFIRAPR------ 58 LPPL SL FEAA RH SF AAAEL++T SA+S I LE+ LG +LF+R PR Sbjct: 6 LPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRALRLTV 65 Query: 59 ------------------------------RLTLTPXPTLASRWLLPRLQDFRTLWPDTN 88 LT+ +A WL PRL FR PD + Sbjct: 66 SGQRYAALVQRLLVDCAEATEDIMKRKGHQELTVACSQGVAVLWLTPRLARFRARHPDCH 125 Query: 89 VTVDTSPRQVNLPTDGFDFAIRMSR-APVADPSWRKLFGEQLVPVCSP 135 + + + L FD I R P A + R+L+ E++ PVCSP Sbjct: 126 LRLVVNDSLAQLSETDFDMGIYFLRDGPPAGLAARRLYDEEVFPVCSP 173 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 82.0 bits (201), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 53/166 (31%), Positives = 76/166 (45%), Gaps = 35/166 (21%) Query: 5 LPPLSSLRFFEAAGRHQSFKLAAAELNVTPSAVSHGIVTLEQTLGVELFIRAPRRLTLTP 64 +PPL+SL FEA R +SF LAAAEL++TPSA+SH + LE+ LG+ LF R+ + + LTP Sbjct: 2 IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61 Query: 65 X-----------------------------------PTLASRWLLPRLQDFRTLWPDTNV 89 P+ AS WL+PR+ F PD + Sbjct: 62 AGQSYLNRVAGALGAINSATDDLRHGVENSLQIHSSPSFASLWLMPRIGRFTQRHPDIAL 121 Query: 90 TVDTSPRQVNLPTDGFDFAIRMSRAPVADPSWRKLFGEQLVPVCSP 135 + SP + D IR D + E+++P+ SP Sbjct: 122 GLSASPEISDFEIGQVDLDIRCGVPHWPDLEIEAVLSERVIPMASP 167 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 80.9 bits (198), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 56/165 (33%), Positives = 76/165 (46%), Gaps = 36/165 (21%) Query: 7 PLSSLRFFEAAGRHQSFKLAAAELNVTPSAVSHGIVTLEQTLGVELFIRAPRRLTLTP-- 64 PL++LR FE + RH SF AA EL+VT +AVS + LEQ LGV LF R PR L LT Sbjct: 4 PLNALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALTDEG 63 Query: 65 ----------------------------------XPTLASRWLLPRLQDFRTLWPDTNVT 90 T A WL+PRL+ F+ P ++ Sbjct: 64 LALLPVVAQSFGRIADVLAQFEDGRRREVLTVGVVGTFAVGWLMPRLRQFQQQHPFVDLR 123 Query: 91 VDTSPRQVNLPTDGFDFAIRMSRAPVADPSWRKLFGEQLVPVCSP 135 + T+ +V+L +G D+AIR +LF L P+C+P Sbjct: 124 LLTNNNRVDLAGEGLDYAIRFGDGAWHGTQAERLFEAPLAPMCAP 168 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 80.5 bits (197), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 55/171 (32%), Positives = 75/171 (43%), Gaps = 45/171 (26%) Query: 5 LPPLSSLRFFEAAGRHQSFKLAAAELNVTPSAVSHGIVTLEQTLGVELFIRAPR------ 58 LPPL +L+ FEA R +SF LAAAEL++T SAVSH + LE LG+ LF R+ Sbjct: 4 LPPLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITT 63 Query: 59 -----------------------------RLTLTPXPTLASRWLLPRLQDFRTLWPDTNV 89 L + P++AS WL+ RL DF +P+ Sbjct: 64 AGEAYLARIQGAISAITAASMDVRQGVSNTLYIHSAPSIASLWLMARLNDFARSYPEITF 123 Query: 90 TVDTSPRQVNLPTDGFDFAIRMSRAPVADPSW-----RKLFGEQLVPVCSP 135 + + Q N D IR P+W LF E++VP+ SP Sbjct: 124 NLSAAHSQSNFELGEVDIDIRYGI-----PNWPGLVVEPLFEERIVPLASP 169 >gi|300312894|ref|YP_003776986.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 74.3 bits (181), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 61/174 (35%), Positives = 68/174 (39%), Gaps = 47/174 (27%) Query: 4 RLPPLSSLRFFEAAGRHQSFKLAAAELNVTPSAVSHGIVTLEQTLGVELFIRAPRRLTLT 63 R+P SSL FEAA RH SF AA EL +T A+S I LE LGV LF R R+ L Sbjct: 4 RIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERIGNRVRLL 63 Query: 64 P-------------------------------------XPTLASRWLLPRLQDFRTLWPD 86 P PT A RWL+PRL F L P Sbjct: 64 PHGQRYASHVRETLERLDRDSQHLMSQPPNGASLDIAVSPTFAMRWLIPRLPRFAALHPH 123 Query: 87 TNVTVDTSPRQVNLPTDGFDFAIRMSRAPVADPSW-----RKLFGEQLVPVCSP 135 V + LP G D AI P+W L E LVPVC P Sbjct: 124 ITVHLSERMEPFLLPGSGLDAAIHF-----LHPAWTGMQTYSLLDEVLVPVCHP 172 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 0.324 0.135 0.405 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: 371,496 Number of extensions: 11529 Number of successful extensions: 153 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 153 Number of HSP's successfully gapped: 10 Length of query: 215 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 134 Effective length of database: 1,236,335 Effective search space: 165668890 Effective search space used: 165668890 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 128 (53.9 bits)