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= 0013.0181.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|300313122|ref|YP_003777214.1| transcription regulator protein... 70 1e-13 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 67 8e-13 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 65 5e-12 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 65 6e-12 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 64 1e-11 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 70.1 bits (170), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 46/117 (39%), Positives = 62/117 (52%), Gaps = 4/117 (3%) Query: 6 TLTDL----REQKGRVRLKVSTTYSFALKWLLPRLPGLSRLHPEILVTLETTDKAIHFSS 61 TLTD R + ++KV +FA L+PR+ ++ HPEI+V L + S Sbjct: 79 TLTDFPMPHRNAAVQPKIKVMLPPTFARHLLMPRIADFTQRHPEIVVELYLSVPLYDLSL 138 Query: 62 TEPDVAIRFGNGNYPGLHSEFMFREQIFPVASPDLLARLGTPRKPAELLCYPLLTRA 118 +E DV IRFG GNYP + +E +F E F VASP L L + PA+L LL A Sbjct: 139 SESDVEIRFGAGNYPNIITEKLFEEPAFAVASPAYLKTLPPMKSPADLKQATLLRSA 195 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 67.4 bits (163), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 44/122 (36%), Positives = 62/122 (50%), Gaps = 1/122 (0%) Query: 10 LREQKGRVRLKVSTTYSFALKWLLPRLPGLSRLHPEILVTLETTDKAIHFSSTEPDVAIR 69 LR Q + RL +STT SFA +WL PRL HPE+ V L++ DV +R Sbjct: 89 LRSQNRQQRLVISTTPSFASRWLAPRLWRFIDAHPELEVVLQSAAHLNDLRLDGIDVGLR 148 Query: 70 FGNGNYPGLHSEFMFREQIFPVASPDLLARLGTP-RKPAELLCYPLLTRAGADLVRPPVV 128 FG GNY GL SE + + +PVA+P + +PA+L LL + +P + Sbjct: 149 FGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKLARPADLAHCSLLRVDSRESWQPWLA 208 Query: 129 ES 130 E+ Sbjct: 209 EA 210 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 65.1 bits (157), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 40/122 (32%), Positives = 65/122 (53%), Gaps = 1/122 (0%) Query: 19 LKVSTTYSFALKWLLPRLPGLSRLHPEILVTLETTDKAIHFSSTEPDVAIRFGNGNYPGL 78 L++ ++ SFA WL+PR+ ++ HP+I + L + + F + D+ IR G ++P L Sbjct: 92 LQIHSSPSFASLWLMPRIGRFTQRHPDIALGLSASPEISDFEIGQVDLDIRCGVPHWPDL 151 Query: 79 HSEFMFREQIFPVASPDLLARLGTPRKPAELLCYPLLTRAGADLVRPPVVESYSAKLIGE 138 E + E++ P+ASPD LAR P +L+ PL+ G+ L P Y+ L E Sbjct: 152 EIEAVLSERVIPMASPDFLARHRI-DTPDDLVLAPLIQSRGSLLQWPEWFARYAPDLRPE 210 Query: 139 MI 140 I Sbjct: 211 RI 212 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 64.7 bits (156), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 44/121 (36%), Positives = 59/121 (48%), Gaps = 9/121 (7%) Query: 19 LKVSTTYSFALKWLLPRLPGLSRLHPEILVTLETTDKAIHFSSTEPDVAIRFGNGNYPGL 78 L + + S A WL+ RL +R +PEI L +F E D+ IR+G N+PGL Sbjct: 94 LYIHSAPSIASLWLMARLNDFARSYPEITFNLSAAHSQSNFELGEVDIDIRYGIPNWPGL 153 Query: 79 HSEFMFREQIFPVASPDLLARLGTPRKPAELLCYPLLTRAGADLVRPPVVESYSAKLIGE 138 E +F E+I P+ASP + R RKPA+LL G L+R V A GE Sbjct: 154 VVEPLFEERIVPLASPAFI-REYRLRKPADLL--------GVKLIRSNVSVVQWADWFGE 204 Query: 139 M 139 Sbjct: 205 F 205 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 63.5 bits (153), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 36/110 (32%), Positives = 56/110 (50%), Gaps = 3/110 (2%) Query: 6 TLTDLREQKGRVRLKVSTTYSFALKWLLPRLPGLSRLHPEILVTLETTDKAIHFSSTEPD 65 L + + R L V +FA+ WL+PRL + HP + + L T + + + D Sbjct: 80 VLAQFEDGRRREVLTVGVVGTFAVGWLMPRLRQFQQQHPFVDLRLLTNNNRVDLAGEGLD 139 Query: 66 VAIRFGNGNYPGLHSEFMFREQIFPVASPDLLARLGTPRKPAELLCYPLL 115 AIRFG+G + G +E +F + P+ +P + ARL R PA+L LL Sbjct: 140 YAIRFGDGAWHGTQAERLFEAPLAPMCAPAIAARL---RSPADLGAETLL 186 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 0.137 0.398 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: 658,362 Number of extensions: 27327 Number of successful extensions: 127 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 132 Number of HSP's successfully gapped: 6 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 (21.8 bits) S2: 128 (53.9 bits)