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= 0029.0033.p (366 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310825|ref|YP_003774917.1| LacI family transcription regul... 739 0.0 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 121 9e-29 gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 103 2e-23 gi|300309618|ref|YP_003773710.1| LacI family transcription regul... 101 8e-23 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 89 4e-19 >gi|300310825|ref|YP_003774917.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 382 Score = 739 bits (1909), Expect = 0.0, Method: Compositional matrix adjust. Identities = 366/366 (100%), Positives = 366/366 (100%) Query: 1 VRQSIKTGTDRVTIAQVAREAGVSKTSVSRYLGGEFDALSVRLREQIGKTIARLGYQPSQ 60 VRQSIKTGTDRVTIAQVAREAGVSKTSVSRYLGGEFDALSVRLREQIGKTIARLGYQPSQ Sbjct: 17 VRQSIKTGTDRVTIAQVAREAGVSKTSVSRYLGGEFDALSVRLREQIGKTIARLGYQPSQ 76 Query: 61 MARGLKGGRTRLIGMLVADILNPYSVAVLHGAEAACQKHGYTLMLCNTGNDEAREKQSLA 120 MARGLKGGRTRLIGMLVADILNPYSVAVLHGAEAACQKHGYTLMLCNTGNDEAREKQSLA Sbjct: 77 MARGLKGGRTRLIGMLVADILNPYSVAVLHGAEAACQKHGYTLMLCNTGNDEAREKQSLA 136 Query: 121 ALHSYSVEGLLFNTQGRNVTPLHELGQAAFPVVLLDRHVEGCDFDLVGLDNVKAAQLATR 180 ALHSYSVEGLLFNTQGRNVTPLHELGQAAFPVVLLDRHVEGCDFDLVGLDNVKAAQLATR Sbjct: 137 ALHSYSVEGLLFNTQGRNVTPLHELGQAAFPVVLLDRHVEGCDFDLVGLDNVKAAQLATR 196 Query: 181 HLLAQGYTDIALVVQSLYGVSSRQGRQAGFLQAMSERRDCHGQTLEVDVEQPGHVATVLR 240 HLLAQGYTDIALVVQSLYGVSSRQGRQAGFLQAMSERRDCHGQTLEVDVEQPGHVATVLR Sbjct: 197 HLLAQGYTDIALVVQSLYGVSSRQGRQAGFLQAMSERRDCHGQTLEVDVEQPGHVATVLR 256 Query: 241 EFFLRRARSGGRVALLAGNGMVSLQIALALQSMKLSFPDDVGLLCFDELAWSPLVGSGIS 300 EFFLRRARSGGRVALLAGNGMVSLQIALALQSMKLSFPDDVGLLCFDELAWSPLVGSGIS Sbjct: 257 EFFLRRARSGGRVALLAGNGMVSLQIALALQSMKLSFPDDVGLLCFDELAWSPLVGSGIS 316 Query: 301 TIEQPTYEIGFTAIERLLVRIQGERSVRMEMLLDGRLISRGSTAAVTAQEGRACSARLAA 360 TIEQPTYEIGFTAIERLLVRIQGERSVRMEMLLDGRLISRGSTAAVTAQEGRACSARLAA Sbjct: 317 TIEQPTYEIGFTAIERLLVRIQGERSVRMEMLLDGRLISRGSTAAVTAQEGRACSARLAA 376 Query: 361 KLGVTG 366 KLGVTG Sbjct: 377 KLGVTG 382 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 121 bits (304), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 98/334 (29%), Positives = 154/334 (46%), Gaps = 7/334 (2%) Query: 13 TIAQVAREAGVSKTSVSRYLGGEFDALSVRLREQIGKTIARLGYQPSQMARGLKGGRTRL 72 TI VAR AGVS T+VS L + +S RE++ + L Y PS +AR L+ T Sbjct: 3 TIKDVARLAGVSYTTVSHVLN-QTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGS 61 Query: 73 IGMLVADILNPYSVAVLHGAEAACQKHGYTLMLCNTGNDEAREKQSLAALHSYSVEGLLF 132 IG+++ + NPY + G E C GY+++LCN+ +D +++ L L + +GL+ Sbjct: 62 IGLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLII 121 Query: 133 NTQGRNVTPLHELGQAAFPVVLLDRHVEGCDFDLVGLDNVKAAQLATRHLLAQGYTDIAL 192 T N L+ G+ P VLLDR + D DLV DN LA RHLL +A Sbjct: 122 ATL--NQADLNPAGKLDIPTVLLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRVAC 179 Query: 193 VVQSLYGVSSRQGRQAGFLQAMSE--RRDCHGQTLEVDVEQPGHVATVLREFFLRRARSG 250 + G+ R GF Q + + L D G +R R A Sbjct: 180 IAGP-DGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQR 238 Query: 251 GRVALLAGNGMVSLQIALALQSMKLSFPDDVGLLCFDELAWSPLVGSGISTIEQPTYEIG 310 A+ N M+++ + A +++ P ++ ++ FD++ + V ++T+ Q T ++G Sbjct: 239 PD-AIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLG 297 Query: 311 FTAIERLLVRIQGERSVRMEMLLDGRLISRGSTA 344 + LL RI + +L RGSTA Sbjct: 298 NLTAQFLLERIADPSLPARRETVAPQLQLRGSTA 331 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 103 bits (257), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 93/346 (26%), Positives = 155/346 (44%), Gaps = 13/346 (3%) Query: 1 VRQSIKTGTDRVTIAQVAREAGVSKTSVSRYLGGEFDALSVRLREQIGKTIARLGYQPSQ 60 VR S TG RVTI VA EAGVS +VSR L + + R++I + I +LGY P+Q Sbjct: 17 VRGSRATG--RVTIIDVAAEAGVSPMTVSRALKTP-ALVQEQSRQRILEAIDKLGYVPNQ 73 Query: 61 MARGLKGGRTRLIGMLVADILNPYSVAVLHGAEAACQKHGYTLMLCNTGNDEAREKQSLA 120 A L R++++ +LV + N + L G GY ++ TG D +E++ +A Sbjct: 74 AAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIA 133 Query: 121 ALHSYSVEGLLFNTQGRNVTPLHELGQAAFPVV-LLDRHVEGCDFDLVGLDNVKAAQLAT 179 +++ G L ++ ++ A P V + D D+ VG +A Sbjct: 134 TYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYS-VGFSQTRAGHAVA 192 Query: 180 RHLLAQGYTDIALVVQSLYGVSSRQGRQAGFLQAMSERRDCHGQTLEVDVEQPGHVATVL 239 RHL +GY A + L R+ GF + + E G +++V P + Sbjct: 193 RHLAERGYRRPAFLAAQLD--PRMMKRREGFRKGLQE----AGLAADIEVLLPQPTTVDM 246 Query: 240 REFFLRRARSGGR--VALLAGNGMVSLQIALALQSMKLSFPDDVGLLCFDELAWSPLVGS 297 LRR ++ N ++L Q +S P + + F++L+W+ Sbjct: 247 GAQLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATP 306 Query: 298 GISTIEQPTYEIGFTAIERLLVRIQGERSVRMEMLLDGRLISRGST 343 I+T+ P Y+IG+ + E L+ +++GE + + L L R ST Sbjct: 307 SITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVREST 352 >gi|300309618|ref|YP_003773710.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 101 bits (252), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 95/341 (27%), Positives = 160/341 (46%), Gaps = 19/341 (5%) Query: 13 TIAQVAREAGVSKTSVSRYLGGEFDALSVRLREQIGKTIARLGYQPSQMARGLKGGRTRL 72 T+++VAR AGV+ +VS L + + + R+++ +A+LGY+P AR L GR Sbjct: 3 TLSEVARLAGVTSATVSNVLR-QRGKVGEQTRQRVLDAVAQLGYRPHLTARALAEGRAPT 61 Query: 73 IGMLVADILNPYSVAVLHGAEAACQKHGYTLMLCNTGNDEAREKQSLAALHSYSVEGLLF 132 + ++V+ I NP+ AE A + HG L++CNT +D + L + +G+L Sbjct: 62 LALVVSSIANPFYPEFALAAERAARDHGRFLIVCNTNDDPDIGRAYLDQIAGTLSDGVLI 121 Query: 133 NTQGRNVTPLHELGQAAFPVVL--LDRHVEGCDFDLVGLDNVKAAQLATRHLLAQGYTDI 190 + L + Q PVVL ++ + + +D +A +A RHLL G+ Sbjct: 122 MNANLPMDELRKTEQRGAPVVLCMWEKPDAPPELPCIAVDFFEAGAIAARHLLGLGHQCF 181 Query: 191 ALVVQSLY-GVSSRQGRQAGFLQAMSERRDCHG--QTLEV-DVEQPGHVATV--LREFFL 244 A +V S G+ + + R GF A E H +T + D + G+ AT+ LRE Sbjct: 182 AALVGSKKSGIHAERYR--GFASACKEAGHPHPTQRTRYINDTVESGYRATMELLREH-- 237 Query: 245 RRARSGGRVALLAGNGMVSLQIALALQSMKLSFPDDVGLLCFDELAWSPLVGSGISTIEQ 304 A+ A N + +L A+ M ++ P DV + ++ W+ + ++T+ Sbjct: 238 -----PQVTAIFASNDLPALGAMNAIADMGMNVPRDVSVTGITDIQWARVSRPALTTVAV 292 Query: 305 PTYEIGFTAIERLLVRIQ-GERSVRMEMLLDGRLISRGSTA 344 PT +IE LL I+ S M + +L+ R STA Sbjct: 293 PTEAAARMSIELLLALIERRSPSPVMHVTAAPQLVERASTA 333 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 89.4 bits (220), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 86/321 (26%), Positives = 148/321 (46%), Gaps = 16/321 (4%) Query: 11 RVTIAQVAREAGVSKTSVSRYLGGEFDALSVRLREQIGKTIARLGYQPSQMARGLKGGRT 70 R +I QVA AGVS +VSR L + ++S E+I ++IA LG++P+ R L+ G + Sbjct: 2 RPSIKQVAHLAGVSIATVSRLLN-KPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNS 60 Query: 71 RLIGMLVADILNPYSVAVLHGAEAACQKHGYTLMLCNTGNDEAREKQSLAALHSYSVEGL 130 R +G++V + N L G E A + Y++M T E ++ L + V+G+ Sbjct: 61 RTVGVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGM 120 Query: 131 LFNTQ--GRNVTPLHELGQAAFPVVLLDRHVEGCDFDL------VGLDNVKAAQLATRHL 182 + N T L L + P VL + G D V +DN AA A HL Sbjct: 121 ILTVADASANAT-LDLLERERIPFVLAYNQL-GTDQTAAPARASVSVDNRAAACDAVAHL 178 Query: 183 LAQGYTDIALVVQSLYGVSSRQGRQAGFLQAMSERRDCHGQTLEVDVEQPGHVATVLREF 242 + G+ I ++ R G+L AM R ++VE+ H T ++ Sbjct: 179 IGLGHRRIQMLSGRFNASDRAMQRYYGYLDAM--RAAGLAPMAVIEVER--HTLTAAADY 234 Query: 243 FLRRARSGGR-VALLAGNGMVSLQIALALQSMKLSFPDDVGLLCFDELAWSPLVGSGIST 301 A R AL N ++++ L+++ + P+D+ ++ FD + L+ +++ Sbjct: 235 QQMMADPRQRPTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLAS 294 Query: 302 IEQPTYEIGFTAIERLLVRIQ 322 + QP+ +IG A+ L+ I+ 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 0.321 0.135 0.383 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: 1,141,782 Number of extensions: 48520 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 187 Number of HSP's successfully gapped: 7 Length of query: 366 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 280 Effective length of database: 1,212,660 Effective search space: 339544800 Effective search space used: 339544800 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 (21.9 bits) S2: 131 (55.1 bits)