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= 0020.0465.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 589 e-170 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 200 1e-52 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 179 3e-46 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 102 3e-23 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 91 2e-19 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 589 bits (1519), Expect = e-170, Method: Compositional matrix adjust. Identities = 287/287 (100%), Positives = 287/287 (100%) Query: 19 KLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDR 78 KLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDR Sbjct: 66 KLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDR 125 Query: 79 HKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQT 138 HKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQT Sbjct: 126 HKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQT 185 Query: 139 RAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPTTVD 198 RAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPTTVD Sbjct: 186 RAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPTTVD 245 Query: 199 MGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACAT 258 MGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACAT Sbjct: 246 MGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACAT 305 Query: 259 PSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 305 PSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST Sbjct: 306 PSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 352 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 200 bits (509), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 107/301 (35%), Positives = 169/301 (56%), Gaps = 3/301 (0%) Query: 5 PAWRWASRWPWCCPKLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLAS 64 PA R R +GY+PN A LAS R+++VA +VP++++++F ETL G+ + L Sbjct: 43 PATR--ERVEAFIASMGYIPNLLAGGLASRRTRIVAAIVPTISHSIFAETLRGLSEQLCM 100 Query: 65 VGYQFLIGETGYDRHKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDL 124 GYQ L+G+T Y E L+ ++ G +L+ Q + + R + IP V +DL Sbjct: 101 QGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVLTGVQHSPMTRQRLKAAGIPVVETWDL 160 Query: 125 GRSQQDYSVGFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLA 184 + D GF AG A+ +L ++GYRR AF+ DPR M R G R+ L+ G A Sbjct: 161 TDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAFVGGD-DPRGMARVAGLRESLRHHGAA 219 Query: 185 ADIEVLLPQPTTVDMGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMA 244 + +++P + G + + R+L HP+ D+ F ND +A GA EC R+GI+VP ++A Sbjct: 220 EPVHLVMPMGAFLQAGREAIGRLLTQHPEVDAAFFSNDVIAAGAALECARRGIAVPGRIA 279 Query: 245 IAGFNDLSWAACATPSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVRES 304 +AGF +L A P++TTV + IG +AEML+ + G+ + + DLG+ + R+S Sbjct: 280 LAGFANLEIATEVLPALTTVQISAHQIGLTAAEMLLTRFDGDPLDQAVHDLGYSILERDS 339 Query: 305 T 305 T Sbjct: 340 T 340 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 179 bits (453), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 105/308 (34%), Positives = 169/308 (54%), Gaps = 7/308 (2%) Query: 2 PSMPAWRWASRWPWCCPKLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDY 61 PS + + + K GYVPN A LAS +S++VAV+VP++ VF E + + + Sbjct: 59 PSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTET 118 Query: 62 LASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRM 121 LA+ GYQ ++G++GY+ +E+ L+ + P G +L+ + + R + IP V Sbjct: 119 LAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVET 178 Query: 122 FDLGRSQQDYSVGFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRK----- 176 +DL + D VGFS G VAR+L +RG ++ A + + D R +R F + Sbjct: 179 WDLTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAVVGGR-DERSQRRMNAFAQECVAL 237 Query: 177 GLQEAGLAADIEVLLPQPTTVDMGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQG 236 G+ E G A + PTT+ G Q L +LQ PD D++FC +D LALG + E Q +G Sbjct: 238 GMHE-GRAPLPMHHVTAPTTLGQGRQGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRG 296 Query: 237 ISVPRQMAIAGFNDLSWAACATPSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLG 296 I++P Q+A+ GF DL ++ P +TTV IG ++A ++ + G E+A+ +D+G Sbjct: 297 IAIPEQLAVVGFGDLEFSRDLQPRLTTVRIDGTGIGQRAARFIIDRAAGIEVAERVVDVG 356 Query: 297 FELAVRES 304 F + R+S Sbjct: 357 FSIIARDS 364 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 102 bits (255), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 141/299 (47%), Gaps = 22/299 (7%) Query: 19 KLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDR 78 +L YVP+ A +L S + + +++P+ TN F E GI D+ GY ++ + D Sbjct: 42 ELDYVPSALARSLRSKVTGSIGLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDP 101 Query: 79 HKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRA-IPAV------RMFDLGRSQQDY 131 K+ + + G ++++ Q D+ PA + IP V + D+ D Sbjct: 102 DKQRDYLQVLQTKHCDGLIIATLNQADL---NPAGKLDIPTVLLDRAPKELDIDLVSTDN 158 Query: 132 SVGFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRR-EGFRKGLQEAGLA-ADIEV 189 +VG G ARHL + R A +A + R GFR+ L++ GLA AD ++ Sbjct: 159 AVG------GSLAARHLLDLRRCRVACIAGPDGLELSDERVRGFRQTLEQGGLALADSDL 212 Query: 190 LLPQPTTVDMGAQLLRRVLQDHP---DCDSVFCCNDDLALGALFECQRQGISVPRQMAIA 246 L + + G Q R+LQ P D++FCCND +A+G L I VP ++++ Sbjct: 213 LHADFSGIG-GYQAAMRLLQGRPADQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVV 271 Query: 247 GFNDLSWAACATPSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 305 GF+D+ A P +TTV +G +A+ L+ ++ + R + +L +R ST Sbjct: 272 GFDDIELAQFVHPPLTTVAQNTRKLGNLTAQFLLERIADPSLPARRETVAPQLQLRGST 330 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 80/297 (26%), Positives = 132/297 (44%), Gaps = 21/297 (7%) Query: 2 PSMPAWRWASRWPWCCPKLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDY 61 P + A + +LG+ PN L + S+ V V+VP+L+N VF + L GI Sbjct: 26 PGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTVGVVVPTLSNTVFAQCLQGIELA 85 Query: 62 LASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLL-----SSSQQHDILQSRPASRAI 116 ++ Y + T Y +E + L H G +L S++ D+L+ I Sbjct: 86 ARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILTVADASANATLDLLE----RERI 141 Query: 117 PAVRMFD-LGRSQQ----DYSVGFSQTRAGHAVARHLAERGYRRPAFLAAQLDP--RMMK 169 P V ++ LG Q SV A HL G+RR L+ + + R M+ Sbjct: 142 PFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIGLGHRRIQMLSGRFNASDRAMQ 201 Query: 170 RREGFRKGLQEAGLA--ADIEVLLPQPTTVDMGAQLLRRVLQDHPDCDSVFCCNDDLALG 227 R G+ ++ AGLA A IEV + T+ A + + ++FC ND LA+ Sbjct: 202 RYYGYLDAMRAAGLAPMAVIEV---ERHTLTAAADYQQMMADPRQRPTALFCSNDLLAMS 258 Query: 228 ALFECQRQGISVPRQMAIAGFNDLSWAACATPSITTVVTPRYDIGYQSAEMLVRQLK 284 A+ + + G+ VP +++ GF+ + A P + +VV P IG + +LV ++ Sbjct: 259 AMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSEQIGEVALRVLVEAIE 315 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 0.322 0.135 0.411 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: 971,427 Number of extensions: 40240 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 8 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 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 (22.0 bits) S2: 130 (54.7 bits)