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= 0003.0033.p (313 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... 531 e-152 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 240 1e-64 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 202 3e-53 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 123 2e-29 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 122 3e-29 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 531 bits (1367), Expect = e-152, Method: Compositional matrix adjust. Identities = 254/313 (81%), Positives = 279/313 (89%) Query: 1 MTVSRALKSPELVQQEARDRIAAAIGKLGYVPNQAASTLASARSQVIGVLVPSLTNAVFI 60 MTVSRALK+P LVQ+++R RI AI KLGYVPNQAA+TLASARSQV+ VLVPSLTNAVFI Sbjct: 40 MTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQAAATLASARSQVVAVLVPSLTNAVFI 99 Query: 61 ETLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYLAHAPDGFLLSSSDQHDILRRQLA 120 ETLSGIRDYL+ GYQFLIGETGY + KE LI+TYLAHAP GFLLSSS QHDIL+ + A Sbjct: 100 ETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLLSSSQQHDILQSRPA 159 Query: 121 AANIPAVRMFDLGKSNSDMSVGFSQTKAGYAAARHLIERGYRRPAFLAAQLDPRMMKRRE 180 + IPAVRMFDLG+S D SVGFSQT+AG+A ARHL ERGYRRPAFLAAQLDPRMMKRRE Sbjct: 160 SRAIPAVRMFDLGRSQQDYSVGFSQTRAGHAVARHLAERGYRRPAFLAAQLDPRMMKRRE 219 Query: 181 GFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLLARVLEIAPDCDAVFCCNDDLALGALFEC 240 GFRKGL EAGL D+EVLLP PTTVDMGAQLL RVL+ PDCD+VFCCNDDLALGALFEC Sbjct: 220 GFRKGLQEAGLAADIEVLLPQPTTVDMGAQLLRRVLQDHPDCDSVFCCNDDLALGALFEC 279 Query: 241 QRRGIKVPQQMAIAGFNDLSWAACATPSITTIVTPRYDIGYKAAEMLIRQLKGEPVEKAR 300 QR+GI VP+QMAIAGFNDLSWAACATPSITT+VTPRYDIGY++AEML+RQLKGE + K R Sbjct: 280 QRQGISVPRQMAIAGFNDLSWAACATPSITTVVTPRYDIGYQSAEMLVRQLKGEEIAKGR 339 Query: 301 LDLGFELAVREST 313 LDLGFELAVREST Sbjct: 340 LDLGFELAVREST 352 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 240 bits (613), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 122/313 (38%), Positives = 186/313 (59%), Gaps = 1/313 (0%) Query: 1 MTVSRALKSPELVQQEARDRIAAAIGKLGYVPNQAASTLASARSQVIGVLVPSLTNAVFI 60 +TVSR + SPE V R+R+ A I +GY+PN A LAS R++++ +VP++++++F Sbjct: 29 ITVSRVINSPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRIVAAIVPTISHSIFA 88 Query: 61 ETLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYLAHAPDGFLLSSSDQHDILRRQLA 120 ETL G+ + L GYQ L+G+T YS+E E+ L+ ++ DG +L+ + R++L Sbjct: 89 ETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVLTGVQHSPMTRQRLK 148 Query: 121 AANIPAVRMFDLGKSNSDMSVGFSQTKAGYAAARHLIERGYRRPAFLAAQLDPRMMKRRE 180 AA IP V +DL + DM GF AG A +L ++GYRR AF+ DPR M R Sbjct: 149 AAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAFVGGD-DPRGMARVA 207 Query: 181 GFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLLARVLEIAPDCDAVFCCNDDLALGALFEC 240 G R+ L G V +++P + G + + R+L P+ DA F ND +A GA EC Sbjct: 208 GLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPEVDAAFFSNDVIAAGAALEC 267 Query: 241 QRRGIKVPQQMAIAGFNDLSWAACATPSITTIVTPRYDIGYKAAEMLIRQLKGEPVEKAR 300 RRGI VP ++A+AGF +L A P++TT+ + IG AAEML+ + G+P+++A Sbjct: 268 ARRGIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTAAEMLLTRFDGDPLDQAV 327 Query: 301 LDLGFELAVREST 313 DLG+ + R+ST Sbjct: 328 HDLGYSILERDST 340 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 202 bits (514), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 115/317 (36%), Positives = 179/317 (56%), Gaps = 7/317 (2%) Query: 1 MTVSRALKSPELVQQEARDRIAAAIGKLGYVPNQAASTLASARSQVIGVLVPSLTNAVFI 60 +T SRAL +P V + ++ A+ K GYVPN A LAS +S+++ V+VP++ VF Sbjct: 50 ITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLVAVVVPTVIGPVFQ 109 Query: 61 ETLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYLAHAPDGFLLSSSDQHDILRRQLA 120 E + + + L+ AGYQ ++G++GY +E L+ + PDG +L+ + R++L Sbjct: 110 EIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLTGIMRSAEARKRLL 169 Query: 121 AANIPAVRMFDLGKSNSDMSVGFSQTKAGYAAARHLIERGYRRPAFLAAQLDPRMMKRRE 180 A+ IP V +DL + DM VGFS G AR+L +RG ++ A + + D R +R Sbjct: 170 ASGIPVVETWDLTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAVVGGR-DERSQRRMN 228 Query: 181 GFRK-----GLSEAGLDPDVEVLLPAPTTVDMGAQLLARVLEIAPDCDAVFCCNDDLALG 235 F + G+ E G P + APTT+ G Q LA +L+ PD DA+FC +D LALG Sbjct: 229 AFAQECVALGMHE-GRAPLPMHHVTAPTTLGQGRQGLAELLQAQPDLDAIFCSSDLLALG 287 Query: 236 ALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTIVTPRYDIGYKAAEMLIRQLKGEP 295 + E Q RGI +P+Q+A+ GF DL ++ P +TT+ IG +AA +I + G Sbjct: 288 VMIEAQSRGIAIPEQLAVVGFGDLEFSRDLQPRLTTVRIDGTGIGQRAARFIIDRAAGIE 347 Query: 296 VEKARLDLGFELAVRES 312 V + +D+GF + R+S Sbjct: 348 VAERVVDVGFSIIARDS 364 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 94/322 (29%), Positives = 155/322 (48%), Gaps = 18/322 (5%) Query: 2 TVSRALKSPELVQQEARDRIAAAIGKLGYVPNQAASTLASARSQVIGVLVPSLTNAVFIE 61 TVS L V +AR+R+ AA+ +L YVP+ A +L S + IG+++P+ TN F E Sbjct: 17 TVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSIGLIIPNNTNPYFSE 76 Query: 62 TLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYLAHAPDGFLLSSSDQHDILRRQLAA 121 GI D+ AGY ++ + +K+ + DG ++++ +Q D+ Sbjct: 77 LARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIATLNQADL--NPAGK 134 Query: 122 ANIPAV------RMFDLGKSNSDMSVGFSQTKAGYAAARHLIERGYRRPAFLAAQLDPRM 175 +IP V + D+ ++D +VG G AARHL++ R A +A + Sbjct: 135 LDIPTVLLDRAPKELDIDLVSTDNAVG------GSLAARHLLDLRRCRVACIAGPDGLEL 188 Query: 176 MKRR-EGFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLLARVLEIAP---DCDAVFCCNDD 231 R GFR+ L + GL LL A + G Q R+L+ P DA+FCCND Sbjct: 189 SDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQRPDAIFCCNDM 248 Query: 232 LALGALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTIVTPRYDIGYKAAEMLIRQL 291 +A+G L I+VP ++++ GF+D+ A P +TT+ +G A+ L+ ++ Sbjct: 249 MAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLGNLTAQFLLERI 308 Query: 292 KGEPVEKARLDLGFELAVREST 313 + R + +L +R ST Sbjct: 309 ADPSLPARRETVAPQLQLRGST 330 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 90/303 (29%), Positives = 144/303 (47%), Gaps = 17/303 (5%) Query: 2 TVSRALKSPELVQQEARDRIAAAIGKLGYVPNQAASTLASARSQVIGVLVPSLTNAVFIE 61 TVSR L P V E ++I +I +LG+ PN L + S+ +GV+VP+L+N VF + Sbjct: 18 TVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTVGVVVPTLSNTVFAQ 77 Query: 62 TLSGIRDYLSQAGYQFLIGETGYSKEKESRLISTYLAHAPDGFLLSSSDQH-----DILR 116 L GI Y + T Y E+E+ + L H DG +L+ +D D+L Sbjct: 78 CLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILTVADASANATLDLLE 137 Query: 117 RQLAAANIPAVRMFD-LGKSNS----DMSVGFSQTKAGYAAARHLIERGYRRPAFLAAQL 171 R+ IP V ++ LG + SV A A HLI G+RR L+ + Sbjct: 138 RE----RIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIGLGHRRIQMLSGRF 193 Query: 172 DP--RMMKRREGFRKGLSEAGLDPDVEVLLPAPTTVDMGAQLLARVLEIAPDCDAVFCCN 229 + R M+R G+ + AGL P + V+ T+ A + + A+FC N Sbjct: 194 NASDRAMQRYYGYLDAMRAAGLAP-MAVIEVERHTLTAAADYQQMMADPRQRPTALFCSN 252 Query: 230 DDLALGALFECQRRGIKVPQQMAIAGFNDLSWAACATPSITTIVTPRYDIGYKAAEMLIR 289 D LA+ A+ + + G+KVP +++ GF+ + A P + ++V P IG A +L+ Sbjct: 253 DLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSEQIGEVALRVLVE 312 Query: 290 QLK 292 ++ Sbjct: 313 AIE 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 0.134 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: 952,298 Number of extensions: 39484 Number of successful extensions: 150 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 140 Number of HSP's successfully gapped: 8 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 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: 130 (54.7 bits)