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= 0029.0062.p (165 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 256 6e-70 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 167 3e-43 gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 116 8e-28 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 75 2e-15 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 66 1e-12 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 256 bits (654), Expect = 6e-70, Method: Compositional matrix adjust. Identities = 132/162 (81%), Positives = 144/162 (88%), Gaps = 1/162 (0%) Query: 3 APAPVVRKGRKGAG-LTLRDVARLAGVAPITASRALNTPDAVSETVLKKVRDAVERTGYV 61 A +P R RK AG +TLRDVA+LAGVAPITASRALNTP AVS VL+KVR+AVE+TGYV Sbjct: 21 AASPRRRGSRKSAGGVTLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYV 80 Query: 62 PNLLAGGLASKKSRLVAAVVPTIVGPIFLETVQSLTEALADAGYQLMLGQSGYENSREDA 121 PNLLAGGLAS KSRLVA VVPT++GP+F E V +LTE LA AGYQ+MLGQSGYENSREDA Sbjct: 81 PNLLAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDA 140 Query: 122 LLEAIIGRRPDGVVLTGIMRSPESRKRLLASGIPVVETWDLT 163 LLEAIIGRRPDGVVLTGIMRS E+RKRLLASGIPVVETWDLT Sbjct: 141 LLEAIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVETWDLT 182 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 167 bits (424), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 82/147 (55%), Positives = 107/147 (72%) Query: 17 LTLRDVARLAGVAPITASRALNTPDAVSETVLKKVRDAVERTGYVPNLLAGGLASKKSRL 76 +T DVAR AGV+ IT SR +N+P+ VS ++V + GY+PNLLAGGLAS+++R+ Sbjct: 15 VTKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRI 74 Query: 77 VAAVVPTIVGPIFLETVQSLTEALADAGYQLMLGQSGYENSREDALLEAIIGRRPDGVVL 136 VAA+VPTI IF ET++ L+E L GYQL+LGQ+ Y E L+E IGRR DG+VL Sbjct: 75 VAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVL 134 Query: 137 TGIMRSPESRKRLLASGIPVVETWDLT 163 TG+ SP +R+RL A+GIPVVETWDLT Sbjct: 135 TGVQHSPMTRQRLKAAGIPVVETWDLT 161 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 116 bits (291), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 58/157 (36%), Positives = 95/157 (60%) Query: 6 PVVRKGRKGAGLTLRDVARLAGVAPITASRALNTPDAVSETVLKKVRDAVERTGYVPNLL 65 P VR R +T+ DVA AGV+P+T SRAL TP V E +++ +A+++ GYVPN Sbjct: 15 PAVRGSRATGRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQA 74 Query: 66 AGGLASKKSRLVAAVVPTIVGPIFLETVQSLTEALADAGYQLMLGQSGYENSREDALLEA 125 A LAS +S++VA +VP++ +F+ET+ + + LA GYQ ++G++GY+ +E+ L+ Sbjct: 75 AATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIAT 134 Query: 126 IIGRRPDGVVLTGIMRSPESRKRLLASGIPVVETWDL 162 + P G +L+ + + R + IP V +DL Sbjct: 135 YLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDL 171 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 75.5 bits (184), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 41/120 (34%), Positives = 64/120 (53%) Query: 18 TLRDVARLAGVAPITASRALNTPDAVSETVLKKVRDAVERTGYVPNLLAGGLASKKSRLV 77 +++ VA LAGV+ T SR LN P +VS +K+ ++ G+ PN L + SR V Sbjct: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 Query: 78 AAVVPTIVGPIFLETVQSLTEALADAGYQLMLGQSGYENSREDALLEAIIGRRPDGVVLT 137 VVPT+ +F + +Q + A Y +M + Y E A +E ++G R DG++LT Sbjct: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILT 123 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 66.2 bits (160), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 38/119 (31%), Positives = 63/119 (52%) Query: 18 TLRDVARLAGVAPITASRALNTPDAVSETVLKKVRDAVERTGYVPNLLAGGLASKKSRLV 77 T++DVARLAGV+ T S LN VS ++V AV+ YVP+ LA L SK + + Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 78 AAVVPTIVGPIFLETVQSLTEALADAGYQLMLGQSGYENSREDALLEAIIGRRPDGVVL 136 ++P P F E + + + AGY ++L S + ++ L+ + + DG+++ Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLII 121 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 0.316 0.133 0.369 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: 523,538 Number of extensions: 20911 Number of successful extensions: 102 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 101 Number of HSP's successfully gapped: 7 Length of query: 165 Length of database: 1,619,870 Length adjustment: 78 Effective length of query: 87 Effective length of database: 1,250,540 Effective search space: 108796980 Effective search space used: 108796980 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 127 (53.5 bits)