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= 0020.0464.p (362 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... 713 0.0 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 229 4e-61 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 219 2e-58 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 129 4e-31 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 112 6e-26 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 713 bits (1840), Expect = 0.0, Method: Compositional matrix adjust. Identities = 351/352 (99%), Positives = 351/352 (99%) Query: 11 MTQRAAPKSKPKSPPAVRGSRATGRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRI 70 MTQRAA KSKPKSPPAVRGSRATGRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRI Sbjct: 1 MTQRAASKSKPKSPPAVRGSRATGRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRI 60 Query: 71 LEAIDKLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGE 130 LEAIDKLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGE Sbjct: 61 LEAIDKLGYVPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGE 120 Query: 131 TGYDRHKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSV 190 TGYDRHKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSV Sbjct: 121 TGYDRHKEEELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSV 180 Query: 191 GFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQ 250 GFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQ Sbjct: 181 GFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQ 240 Query: 251 PTTVDMGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSW 310 PTTVDMGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSW Sbjct: 241 PTTVDMGAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSW 300 Query: 311 AACATPSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 362 AACATPSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST Sbjct: 301 AACATPSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 352 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 229 bits (583), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 127/343 (37%), Positives = 197/343 (57%), Gaps = 6/343 (1%) Query: 20 KPKSPPAVRGSRATGRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGY 79 KP+ PPA+ T VT DVA AGVS +TVSR + +P V +R+R+ I +GY Sbjct: 4 KPE-PPAM----PTRAVTKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGY 58 Query: 80 VPNQAAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEE 139 +PN A LAS R+++VA +VP++++++F ETL G+ + L GYQ L+G+T Y E Sbjct: 59 IPNLLAGGLASRRTRIVAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAET 118 Query: 140 ELIATYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQTRAGH 199 L+ ++ G +L+ Q + + R + IP V +DL + D GF AG Sbjct: 119 GLVEVFIGRRVDGLVLTGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGR 178 Query: 200 AVARHLAERGYRRPAFLAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPTTVDMGAQ 259 A+ +L ++GYRR AF+ DPR M R G R+ L+ G A + +++P + G + Sbjct: 179 AMGDYLYQKGYRRMAFVGGD-DPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGRE 237 Query: 260 LLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSIT 319 + R+L HP+ D+ F ND +A GA EC R+GI+VP ++A+AGF +L A P++T Sbjct: 238 AIGRLLTQHPEVDAAFFSNDVIAAGAALECARRGIAVPGRIALAGFANLEIATEVLPALT 297 Query: 320 TVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 362 TV + IG +AEML+ + G+ + + DLG+ + R+ST Sbjct: 298 TVQISAHQIGLTAAEMLLTRFDGDPLDQAVHDLGYSILERDST 340 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 219 bits (559), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 129/343 (37%), Positives = 200/343 (58%), Gaps = 8/343 (2%) Query: 25 PAVRGSR-ATGRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQ 83 P RGSR + G VT+ DVA AGV+P+T SRAL TP+ V + Q++ EA++K GYVPN Sbjct: 24 PRRRGSRKSAGGVTLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNL 83 Query: 84 AAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIA 143 A LAS +S++VAV+VP++ VF E + + + LA+ GYQ ++G++GY+ +E+ L+ Sbjct: 84 LAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLE 143 Query: 144 TYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQTRAGHAVAR 203 + P G +L+ + + R + IP V +DL + D VGFS G VAR Sbjct: 144 AIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVETWDLTPTPIDMLVGFSHEAIGREVAR 203 Query: 204 HLAERGYRRPAFLAAQLDPRMMKRREGFRK-----GLQEAGLAADIEVLLPQPTTVDMGA 258 +L +RG ++ A + + D R +R F + G+ E G A + PTT+ G Sbjct: 204 YLHQRGRKKVAVVGGR-DERSQRRMNAFAQECVALGMHE-GRAPLPMHHVTAPTTLGQGR 261 Query: 259 QLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSI 318 Q L +LQ PD D++FC +D LALG + E Q +GI++P Q+A+ GF DL ++ P + Sbjct: 262 QGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRGIAIPEQLAVVGFGDLEFSRDLQPRL 321 Query: 319 TTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVRES 361 TTV IG ++A ++ + G E+A+ +D+GF + R+S Sbjct: 322 TTVRIDGTGIGQRAARFIIDRAAGIEVAERVVDVGFSIIARDS 364 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 129 bits (323), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 102/338 (30%), Positives = 163/338 (48%), Gaps = 22/338 (6%) Query: 37 TIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQAAATLASARSQVV 96 TI DVA AGVS TVS L V +R+R+L A+ +L YVP+ A +L S + + Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 97 AVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLLS 156 +++P+ TN F E GI D+ GY ++ + D K+ + + G +++ Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 Query: 157 SSQQHDILQSRPASRA-IPAVRM------FDLGRSQQDYSVGFSQTRAGHAVARHLAERG 209 + Q D+ PA + IP V + D+ D +VG G ARHL + Sbjct: 123 TLNQADL---NPAGKLDIPTVLLDRAPKELDIDLVSTDNAVG------GSLAARHLLDLR 173 Query: 210 YRRPAFLAAQLDPRMMKRR-EGFRKGLQEAGLA-ADIEVLLPQPTTVDMGAQLLRRVLQD 267 R A +A + R GFR+ L++ GLA AD ++L + + G Q R+LQ Sbjct: 174 RCRVACIAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIG-GYQAAMRLLQG 232 Query: 268 HPDC---DSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSITTVVTP 324 P D++FCCND +A+G L I VP ++++ GF+D+ A P +TTV Sbjct: 233 RPADQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQN 292 Query: 325 RYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 362 +G +A+ L+ ++ + R + +L +R ST Sbjct: 293 TRKLGNLTAQFLLERIADPSLPARRETVAPQLQLRGST 330 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 112 bits (279), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 95/321 (29%), Positives = 151/321 (47%), Gaps = 21/321 (6%) Query: 35 RVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQAAATLASARSQ 94 R +I VA AGVS TVSR L P V ++ ++I +I +LG+ PN L + S+ Sbjct: 2 RPSIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSR 61 Query: 95 VVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFL 154 V V+VP+L+N VF + L GI ++ Y + T Y +E + L H G + Sbjct: 62 TVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMI 121 Query: 155 L-----SSSQQHDILQSRPASRAIPAVRMFD-LGRSQQD----YSVGFSQTRAGHAVARH 204 L S++ D+L+ IP V ++ LG Q SV A H Sbjct: 122 LTVADASANATLDLLE----RERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAH 177 Query: 205 LAERGYRRPAFLAAQLDP--RMMKRREGFRKGLQEAGLA--ADIEVLLPQPTTVDMGAQL 260 L G+RR L+ + + R M+R G+ ++ AGLA A IEV + T+ A Sbjct: 178 LIGLGHRRIQMLSGRFNASDRAMQRYYGYLDAMRAAGLAPMAVIEV---ERHTLTAAADY 234 Query: 261 LRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSITT 320 + + ++FC ND LA+ A+ + + G+ VP +++ GF+ + A P + + Sbjct: 235 QQMMADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLAS 294 Query: 321 VVTPRYDIGYQSAEMLVRQLK 341 VV P IG + +LV ++ Sbjct: 295 VVQPSEQIGEVALRVLVEAIE 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 0.320 0.133 0.380 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: 1,075,598 Number of extensions: 44606 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 185 Number of HSP's successfully gapped: 8 Length of query: 362 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 276 Effective length of database: 1,212,660 Effective search space: 334694160 Effective search space used: 334694160 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: 131 (55.1 bits)