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= 0037.0108.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311238|ref|YP_003775330.1| LacI family transcription regul... 653 0.0 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 279 2e-76 gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 226 3e-60 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 127 1e-30 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 119 2e-28 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 653 bits (1685), Expect = 0.0, Method: Compositional matrix adjust. Identities = 323/326 (99%), Positives = 324/326 (99%) Query: 1 VTKEDVARAAGVSHITVSRVINTPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRI 60 VTKEDVARAAGVSHITVSRVIN+PEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRI Sbjct: 15 VTKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRI 74 Query: 61 VAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEAFIGRRVDGLVL 120 VAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVE FIGRRVDGLVL Sbjct: 75 VAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVDGLVL 134 Query: 121 TGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAF 180 TGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAF Sbjct: 135 TGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAF 194 Query: 181 VGGDDPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPEVDAAFF 240 VGGDDPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPEVDAAFF Sbjct: 195 VGGDDPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPEVDAAFF 254 Query: 241 SNDVIAAGAALECARRSIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTAAEML 300 SNDVIAAGAALECARR IAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTAAEML Sbjct: 255 SNDVIAAGAALECARRGIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTAAEML 314 Query: 301 LTRFDGDPLDQAVHDLGYSILERDST 326 LTRFDGDPLDQAVHDLGYSILERDST Sbjct: 315 LTRFDGDPLDQAVHDLGYSILERDST 340 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 279 bits (714), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 150/330 (45%), Positives = 207/330 (62%), Gaps = 6/330 (1%) Query: 1 VTKEDVARAAGVSHITVSRVINTPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRI 60 VT DVA+ AGV+ IT SR +NTP VSP ++V + GY+PNLLAGGLAS ++R+ Sbjct: 36 VTLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRL 95 Query: 61 VAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEAFIGRRVDGLVL 120 VA +VPT+ +F E + L+E L GYQ++LGQ+ Y E L+EA IGRR DG+VL Sbjct: 96 VAVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVL 155 Query: 121 TGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAF 180 TG+ S R+RL A+GIPVVETWDLT TPIDML GF + A GR + YL+Q+G +++A Sbjct: 156 TGIMRSAEARKRLLASGIPVVETWDLTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAV 215 Query: 181 VGGDDPRGMARVAGLRESL----RHHGAAE-PVHLVMPMGAFLQAGREAIGRLLTQHPEV 235 VGG D R R+ + H G A P+H V Q GR+ + LL P++ Sbjct: 216 VGGRDERSQRRMNAFAQECVALGMHEGRAPLPMHHVTAPTTLGQ-GRQGLAELLQAQPDL 274 Query: 236 DAAFFSNDVIAAGAALECARRSIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLT 295 DA F S+D++A G +E R IA+P ++A+ GF +LE + ++ P LTTV+I IG Sbjct: 275 DAIFCSSDLLALGVMIEAQSRGIAIPEQLAVVGFGDLEFSRDLQPRLTTVRIDGTGIGQR 334 Query: 296 AAEMLLTRFDGDPLDQAVHDLGYSILERDS 325 AA ++ R G + + V D+G+SI+ RDS Sbjct: 335 AARFIIDRAAGIEVAERVVDVGFSIIARDS 364 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 226 bits (575), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 121/327 (37%), Positives = 188/327 (57%), Gaps = 1/327 (0%) Query: 1 VTKEDVARAAGVSHITVSRVINTPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRI 60 VT DVA AGVS +TVSR + TP V +R+R+ I +GY+PN A LAS R+++ Sbjct: 26 VTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQAAATLASARSQV 85 Query: 61 VAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEAFIGRRVDGLVL 120 VA +VP++++++F ETL G+ + L GYQ L+G+T Y E L+ ++ G +L Sbjct: 86 VAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLL 145 Query: 121 TGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRRMAF 180 + Q + + R + IP V +DL + D GF AG A+ +L ++GYRR AF Sbjct: 146 SSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQTRAGHAVARHLAERGYRRPAF 205 Query: 181 VGGD-DPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPEVDAAF 239 + DPR M R G R+ L+ G A + +++P + G + + R+L HP+ D+ F Sbjct: 206 LAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPTTVDMGAQLLRRVLQDHPDCDSVF 265 Query: 240 FSNDVIAAGAALECARRSIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTAAEM 299 ND +A GA EC R+ I+VP ++A+AGF +L A P++TTV + IG +AEM Sbjct: 266 CCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSITTVVTPRYDIGYQSAEM 325 Query: 300 LLTRFDGDPLDQAVHDLGYSILERDST 326 L+ + G+ + + DLG+ + R+ST Sbjct: 326 LVRQLKGEEIAKGRLDLGFELAVREST 352 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 127 bits (318), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 98/317 (30%), Positives = 153/317 (48%), Gaps = 18/317 (5%) Query: 2 TKEDVARAAGVSHITVSRVINTPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRIV 61 T +DVAR AGVS+ TVS V+N VS RERV A + + Y+P+ LA L S+ T + Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 62 AAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEAFIGRRVDGLVLT 121 I+P ++ F+E RG+ + GY ++L ++ + + ++ + DGL++ Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLII- 121 Query: 122 GVQHSPMTRQRLKAAGIPVVETWDLTDTPIDM---LAGFDNHAAGRAMGDYLYQKGYRRM 178 + + + L AG + T L P ++ L DN G +L R+ Sbjct: 122 ----ATLNQADLNPAGKLDIPTVLLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRV 177 Query: 179 AFVGGDDPRGMA--RVAGLRESLRHHGAA----EPVHLVMP-MGAFLQAGREAIGRLLTQ 231 A + G D ++ RV G R++L G A + +H +G + A R GR Q Sbjct: 178 ACIAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGIGGYQAAMRLLQGRPADQ 237 Query: 232 HPEVDAAFFSNDVIAAGAALECARRSIAVPGRIALAGFANLEIATEVLPALTTVQISAHQ 291 P DA F ND++A G I VPG +++ GF ++E+A V P LTTV + + Sbjct: 238 RP--DAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRK 295 Query: 292 IGLTAAEMLLTRFDGDP 308 +G A+ LL R DP Sbjct: 296 LGNLTAQFLLERI-ADP 311 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 119 bits (299), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 95/307 (30%), Positives = 144/307 (46%), Gaps = 10/307 (3%) Query: 4 EDVARAAGVSHITVSRVINTPEKVSPATRERVEAFIASMGYIPNLLAGGLASRRTRIVAA 63 + VA AGVS TVSR++N P VS T E++ IA +G+ PN L + +R V Sbjct: 6 KQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTVGV 65 Query: 64 IVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEAFIGRRVDGLVLTGV 123 +VPT+S+++FA+ L+G+ Y ++ T Y E ET VE +G RVDG++LT Sbjct: 66 VVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILTVA 125 Query: 124 QHSP-MTRQRLKAAGIPVVETW-----DLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYRR 177 S T L+ IP V + D T P DN AA +L G+RR Sbjct: 126 DASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIGLGHRR 185 Query: 178 MAFVGGD---DPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPE 234 + + G R M R G +++R G A P+ ++ L A + + Sbjct: 186 IQMLSGRFNASDRAMQRYYGYLDAMRAAGLA-PMAVIEVERHTLTAAADYQQMMADPRQR 244 Query: 235 VDAAFFSNDVIAAGAALECARRSIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGL 294 A F SND++A A + + VP I++ GF + + + P L +V + QIG Sbjct: 245 PTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSEQIGE 304 Query: 295 TAAEMLL 301 A +L+ Sbjct: 305 VALRVLV 311 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 0.387 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: 1,048,041 Number of extensions: 46441 Number of successful extensions: 210 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 8 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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)