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= 0020.0388.p (365 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... 725 0.0 gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 276 1e-75 gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 219 2e-58 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 126 3e-30 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 119 3e-28 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 725 bits (1872), Expect = 0.0, Method: Compositional matrix adjust. Identities = 363/365 (99%), Positives = 363/365 (99%) Query: 1 MSENRLSSSEFPAASHQDGDAASPRRRGSRKSAGGVTLRDVAQLAGVAPITASRALNTPS 60 MSENRLSSSEFPAASHQDGDAASPRRRGSRKSAGGVTLRDVAQLAGVAPITASRALNTPS Sbjct: 1 MSENRLSSSEFPAASHQDGDAASPRRRGSRKSAGGVTLRDVAQLAGVAPITASRALNTPS 60 Query: 61 AVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLA 120 AVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLA Sbjct: 61 AVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLA 120 Query: 121 AAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVETWD 180 AAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVETWD Sbjct: 121 AAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVETWD 180 Query: 181 LTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAVVGGRDERSQRRMNAFAQECVALGMQ 240 LTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAVVGGRDERSQRRMNAFAQECVALGM Sbjct: 181 LTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAVVGGRDERSQRRMNAFAQECVALGMH 240 Query: 241 EGRAPLPMHHVTAPTTLGQGRQGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRGFAIP 300 EGRAPLPMHHVTAPTTLGQGRQGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRG AIP Sbjct: 241 EGRAPLPMHHVTAPTTLGQGRQGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRGIAIP 300 Query: 301 EQLAVVGFGDLEFSRDLQPRLTTVRIDGTGIGQRAARFIIDRAAGIEVAERVVDVGFSII 360 EQLAVVGFGDLEFSRDLQPRLTTVRIDGTGIGQRAARFIIDRAAGIEVAERVVDVGFSII Sbjct: 301 EQLAVVGFGDLEFSRDLQPRLTTVRIDGTGIGQRAARFIIDRAAGIEVAERVVDVGFSII 360 Query: 361 ARDSA 365 ARDSA Sbjct: 361 ARDSA 365 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 276 bits (707), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 152/351 (43%), Positives = 211/351 (60%), Gaps = 14/351 (3%) Query: 15 SHQDGDAASPRRRGSRKSAGGVTLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAV 74 SH+ A P R VT DVA+ AGV+ IT SR +N+P VSP ++V + Sbjct: 2 SHKPEPPAMPTR--------AVTKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFI 53 Query: 75 EKTGYVPNLLAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYE 134 GY+PNLLAGGLAS ++R+VA +VPT+ +F E + L+E L GYQ++LGQ+ Y Sbjct: 54 ASMGYIPNLLAGGLASRRTRIVAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYS 113 Query: 135 NSREDALLEAIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVETWDLTPTPIDMLVGFSH 194 E L+E IGRR DG+VLTG+ S R+RL A+GIPVVETWDLT TPIDML GF + Sbjct: 114 EEAETGLVEVFIGRRVDGLVLTGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDN 173 Query: 195 EAIGREVARYLHQRGRKKVAVVGGRDERSQRRMNAFAQECVALGMQEGRAPLPMHHVTAP 254 A GR + YL+Q+G +++A VGG D R R+ + G E P+H V Sbjct: 174 HAAGRAMGDYLYQKGYRRMAFVGGDDPRGMARVAGLRESLRHHGAAE-----PVHLVMPM 228 Query: 255 TTLGQ-GRQGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRGFAIPEQLAVVGFGDLEF 313 Q GR+ + LL P++DA F S+D++A G +E RG A+P ++A+ GF +LE Sbjct: 229 GAFLQAGREAIGRLLTQHPEVDAAFFSNDVIAAGAALECARRGIAVPGRIALAGFANLEI 288 Query: 314 SRDLQPRLTTVRIDGTGIGQRAARFIIDRAAGIEVAERVVDVGFSIIARDS 364 + ++ P LTTV+I IG AA ++ R G + + V D+G+SI+ RDS Sbjct: 289 ATEVLPALTTVQISAHQIGLTAAEMLLTRFDGDPLDQAVHDLGYSILERDS 339 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 219 bits (559), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 129/343 (37%), Positives = 200/343 (58%), Gaps = 8/343 (2%) Query: 24 PRRRGSRKSAGGVTLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNL 83 P RGSR + G VT+ DVA AGV+P+T SRAL TP+ V + Q++ EA++K GYVPN Sbjct: 15 PAVRGSRAT-GRVTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQ 73 Query: 84 LAGGLASNKSRLVAVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLE 143 A LAS +S++VAV+VP++ VF E + + + LA+ GYQ ++G++GY+ +E+ L+ Sbjct: 74 AAATLASARSQVVAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIA 133 Query: 144 AIIGRRPDGVVLTGIMRSAEARKRLLASGIPVVETWDLTPTPIDMLVGFSHEAIGREVAR 203 + P G +L+ + + R + IP V +DL + D VGFS G VAR Sbjct: 134 TYLAHAPAGFLLSSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQTRAGHAVAR 193 Query: 204 YLHQRGRKKVAVVGGR-DERSQRRMNAFAQECVALGMQE-GRAPLPMHHVTAPTTLGQGR 261 +L +RG ++ A + + D R +R F + G+QE G A + PTT+ G Sbjct: 194 HLAERGYRRPAFLAAQLDPRMMKRREGFRK-----GLQEAGLAADIEVLLPQPTTVDMGA 248 Query: 262 QGLAELLQAQPDLDAIFCSSDLLALGVMIEAQSRGFAIPEQLAVVGFGDLEFSRDLQPRL 321 Q L +LQ PD D++FC +D LALG + E Q +G ++P Q+A+ GF DL ++ P + Sbjct: 249 QLLRRVLQDHPDCDSVFCCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSI 308 Query: 322 TTVRIDGTGIGQRAARFIIDRAAGIEVAERVVDVGFSIIARDS 364 TTV IG ++A ++ + G E+A+ +D+GF + R+S Sbjct: 309 TTVVTPRYDIGYQSAEMLVRQLKGEEIAKGRLDLGFELAVRES 351 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 126 bits (316), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 97/314 (30%), Positives = 160/314 (50%), Gaps = 13/314 (4%) Query: 37 TLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLV 96 T++DVA+LAGV+ T S LN VS ++V AV++ YVP+ LA L S + + Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 97 AVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLT 156 +++P P F E+ + + AGY V+L S + ++ L+ + + DG+++ Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 Query: 157 GIMRSAEARKRLLASGIPVVETWDLTPTPIDMLVGFSHEAIGREV-ARYLHQRGRKKVAV 215 + ++ L IP V D P +D+ + + A+G + AR+L R +VA Sbjct: 123 TLNQADLNPAGKL--DIPTV-LLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRVAC 179 Query: 216 VGGRD--ERSQRRMNAFAQECVALGMQEGRAPLPMHHVTAPTTLGQGRQGLAELLQAQP- 272 + G D E S R+ F Q G+ + L +H A + G Q LLQ +P Sbjct: 180 IAGPDGLELSDERVRGFRQTLEQGGLALADSDL-LH---ADFSGIGGYQAAMRLLQGRPA 235 Query: 273 --DLDAIFCSSDLLALGVMIEAQSRGFAIPEQLAVVGFGDLEFSRDLQPRLTTVRIDGTG 330 DAIFC +D++A+GV+ A +P +L+VVGF D+E ++ + P LTTV + Sbjct: 236 DQRPDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRK 295 Query: 331 IGQRAARFIIDRAA 344 +G A+F+++R A Sbjct: 296 LGNLTAQFLLERIA 309 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 119 bits (299), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 93/312 (29%), Positives = 150/312 (48%), Gaps = 10/312 (3%) Query: 37 TLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRLV 96 +++ VA LAGV+ T SR LN P +VS + +K+ ++ + G+ PN L + SR V Sbjct: 4 SIKQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTV 63 Query: 97 AVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVLT 156 VVVPT+ VF + + + A Y VM + Y E A +E ++G R DG++LT Sbjct: 64 GVVVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILT 123 Query: 157 GIMRSAEARKRLLA-SGIPVVETW-----DLTPTPIDMLVGFSHEAIGREVARYLHQRGR 210 SA A LL IP V + D T P V + A + +L G Sbjct: 124 VADASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIGLGH 183 Query: 211 KKVAVVGGRDERSQRRMNAFAQECVALGMQEGRAPLPMHHVTAPT-TLGQGRQGLAELLQ 269 +++ ++ GR S R M + A+ G AP+ + V T T Q + + Sbjct: 184 RRIQMLSGRFNASDRAMQRYYGYLDAM-RAAGLAPMAVIEVERHTLTAAADYQQMMADPR 242 Query: 270 AQPDLDAIFCSSDLLALGVMIEAQSRGFAIPEQLAVVGFGDLEFSRDLQPRLTTVRIDGT 329 +P A+FCS+DLLA+ M + ++ G +P ++V+GF + ++P L +V Sbjct: 243 QRP--TALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSE 300 Query: 330 GIGQRAARFIID 341 IG+ A R +++ Sbjct: 301 QIGEVALRVLVE 312 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 0.319 0.134 0.375 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: 1,125,422 Number of extensions: 48969 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 211 Number of HSP's successfully gapped: 8 Length of query: 365 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 279 Effective length of database: 1,212,660 Effective search space: 338332140 Effective search space used: 338332140 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 (21.7 bits) S2: 131 (55.1 bits)