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= 0030.0118.p (343 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... 462 e-131 gi|300310488|ref|YP_003774580.1| LacI family transcription regul... 269 3e-73 gi|300310423|ref|YP_003774515.1| GntR family transcription regul... 202 4e-53 gi|300309932|ref|YP_003774024.1| transcription regulator protein... 128 5e-31 gi|300311611|ref|YP_003775703.1| transcription regulator DNA-bin... 120 1e-28 >gi|300311238|ref|YP_003775330.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 462 bits (1189), Expect = e-131, Method: Compositional matrix adjust. Identities = 233/330 (70%), Positives = 268/330 (81%), Gaps = 1/330 (0%) Query: 13 PARAVTKEDVARVAGVSHITVSRVINSPDKVAPATREKVQAEITRMGYIPNLLAGGLASR 72 P RAVTKEDVAR AGVSHITVSRVINSP+KV+PATRE+V+A I MGYIPNLLAGGLASR Sbjct: 11 PTRAVTKEDVARAAGVSHITVSRVINSPEKVSPATRERVEAFIASMGYIPNLLAGGLASR 70 Query: 73 RTRIVAAVVPTIGHSIFAETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVD 132 RTRIVAA+VPTI HSIFAET+RG+SE L GYQLLLGQ++YSE+ ET LVE FIGRRVD Sbjct: 71 RTRIVAAIVPTISHSIFAETLRGLSEQLCMQGYQLLLGQTNYSEEAETGLVEVFIGRRVD 130 Query: 133 GLVLTGVQHTPATLQRLKTAGIPVVETWDLTSEPIDMLAGFSNYDAGAAMGDYLVEQGYR 192 GLVLTGVQH+P T QRLK AGIPVVETWDLT PIDMLAGF N+ AG AMGDYL ++GYR Sbjct: 131 GLVLTGVQHSPMTRQRLKAAGIPVVETWDLTDTPIDMLAGFDNHAAGRAMGDYLYQKGYR 190 Query: 193 RIAFVGGEDPRGVARLAGLSAALKRHRLHAPVRITASPGSFLQGGREAMVTLLEQHRDVD 252 R+AFVGG+DPRG+AR+AGL +L+ H PV + G+FLQ GREA+ LL QH +VD Sbjct: 191 RMAFVGGDDPRGMARVAGLRESLRHHGAAEPVHLVMPMGAFLQAGREAIGRLLTQHPEVD 250 Query: 253 AAFFSNDVIAAGAVLECDRRKVRIPQDIAIAGFANLDIASEINPPLTTVHVSSHRIGETA 312 AAFFSNDVIAAGA LEC RR + +P IA+AGFANL+IA+E+ P LTTV +S+H+IG TA Sbjct: 251 AAFFSNDVIAAGAALECARRGIAVPGRIALAGFANLEIATEVLPALTTVQISAHQIGLTA 310 Query: 313 ARMLLARLGGKDAEADTVSDLGFSIVRRGS 342 A MLL R G D V DLG+SI+ R S Sbjct: 311 AEMLLTRFDG-DPLDQAVHDLGYSILERDS 339 >gi|300310488|ref|YP_003774580.1| LacI family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 269 bits (687), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 146/332 (43%), Positives = 211/332 (63%), Gaps = 7/332 (2%) Query: 17 VTKEDVARVAGVSHITVSRVINSPDKVAPATREKVQAEITRMGYIPNLLAGGLASRRTRI 76 VT DVA++AGV+ IT SR +N+P V+P +KV+ + + GY+PNLLAGGLAS ++R+ Sbjct: 36 VTLRDVAQLAGVAPITASRALNTPSAVSPKVLQKVREAVEKTGYVPNLLAGGLASNKSRL 95 Query: 77 VAAVVPTIGHSIFAETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVDGLVL 136 VA VVPT+ +F E V ++E L A GYQ++LGQS Y E L+EA IGRR DG+VL Sbjct: 96 VAVVVPTVIGPVFQEIVHTLTETLAAAGYQVMLGQSGYENSREDALLEAIIGRRPDGVVL 155 Query: 137 TGVQHTPATLQRLKTAGIPVVETWDLTSEPIDMLAGFSNYDAGAAMGDYLVEQGYRRIAF 196 TG+ + +RL +GIPVVETWDLT PIDML GFS+ G + YL ++G +++A Sbjct: 156 TGIMRSAEARKRLLASGIPVVETWDLTPTPIDMLVGFSHEAIGREVARYLHQRGRKKVAV 215 Query: 197 VGGEDPRGVARLAGLS---AALKRHRLHAPVRI--TASPGSFLQGGREAMVTLLEQHRDV 251 VGG D R R+ + AL H AP+ + +P + Q GR+ + LL+ D+ Sbjct: 216 VGGRDERSQRRMNAFAQECVALGMHEGRAPLPMHHVTAPTTLGQ-GRQGLAELLQAQPDL 274 Query: 252 DAAFFSNDVIAAGAVLECDRRKVRIPQDIAIAGFANLDIASEINPPLTTVHVSSHRIGET 311 DA F S+D++A G ++E R + IP+ +A+ GF +L+ + ++ P LTTV + IG+ Sbjct: 275 DAIFCSSDLLALGVMIEAQSRGIAIPEQLAVVGFGDLEFSRDLQPRLTTVRIDGTGIGQR 334 Query: 312 AARMLLARLGGKDAEADTVSDLGFSIVRRGSA 343 AAR ++ R G + A+ V D+GFSI+ R SA Sbjct: 335 AARFIIDRAAGIEV-AERVVDVGFSIIARDSA 365 >gi|300310423|ref|YP_003774515.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 202 bits (513), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 115/327 (35%), Positives = 182/327 (55%), Gaps = 2/327 (0%) Query: 17 VTKEDVARVAGVSHITVSRVINSPDKVAPATREKVQAEITRMGYIPNLLAGGLASRRTRI 76 VT DVA AGVS +TVSR + +P V +R+++ I ++GY+PN A LAS R+++ Sbjct: 26 VTIIDVAAEAGVSPMTVSRALKTPALVQEQSRQRILEAIDKLGYVPNQAAATLASARSQV 85 Query: 77 VAAVVPTIGHSIFAETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVDGLVL 136 VA +VP++ +++F ET+ G+ +YL + GYQ L+G++ Y E L+ ++ G +L Sbjct: 86 VAVLVPSLTNAVFIETLSGIRDYLASVGYQFLIGETGYDRHKEEELIATYLAHAPAGFLL 145 Query: 137 TGVQHTPATLQRLKTAGIPVVETWDLTSEPIDMLAGFSNYDAGAAMGDYLVEQGYRRIAF 196 + Q R + IP V +DL D GFS AG A+ +L E+GYRR AF Sbjct: 146 SSSQQHDILQSRPASRAIPAVRMFDLGRSQQDYSVGFSQTRAGHAVARHLAERGYRRPAF 205 Query: 197 VGGE-DPRGVARLAGLSAALKRHRLHAPVRITASPGSFLQGGREAMVTLLEQHRDVDAAF 255 + + DPR + R G L+ L A + + + + G + + +L+ H D D+ F Sbjct: 206 LAAQLDPRMMKRREGFRKGLQEAGLAADIEVLLPQPTTVDMGAQLLRRVLQDHPDCDSVF 265 Query: 256 FSNDVIAAGAVLECDRRKVRIPQDIAIAGFANLDIASEINPPLTTVHVSSHRIGETAARM 315 ND +A GA+ EC R+ + +P+ +AIAGF +L A+ P +TTV + IG +A M Sbjct: 266 CCNDDLALGALFECQRQGISVPRQMAIAGFNDLSWAACATPSITTVVTPRYDIGYQSAEM 325 Query: 316 LLARLGGKDAEADTVSDLGFSIVRRGS 342 L+ +L G++ + DLGF + R S Sbjct: 326 LVRQLKGEEIAKGRL-DLGFELAVRES 351 >gi|300309932|ref|YP_003774024.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 128 bits (322), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 92/307 (29%), Positives = 152/307 (49%), Gaps = 10/307 (3%) Query: 20 EDVARVAGVSHITVSRVINSPDKVAPATREKVQAEITRMGYIPNLLAGGLASRRTRIVAA 79 + VA +AGVS TVSR++N P V+ T EK+ I +G+ PN L + +R V Sbjct: 6 KQVAHLAGVSIATVSRLLNKPGSVSAETAEKIHRSIAELGFRPNFTGRNLRAGNSRTVGV 65 Query: 80 VVPTIGHSIFAETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVDGLVLTGV 139 VVPT+ +++FA+ ++G+ A Y ++ ++Y + ET VE +G RVDG++LT Sbjct: 66 VVPTLSNTVFAQCLQGIELAARALDYSVMFTTTEYLPEEETAAVELLLGHRVDGMILTVA 125 Query: 140 QHTP-ATLQRLKTAGIPVVETW-----DLTSEPIDMLAGFSNYDAGAAMGDYLVEQGYRR 193 + ATL L+ IP V + D T+ P N A +L+ G+RR Sbjct: 126 DASANATLDLLERERIPFVLAYNQLGTDQTAAPARASVSVDNRAAACDAVAHLIGLGHRR 185 Query: 194 IAFVGGE---DPRGVARLAGLSAALKRHRLHAPVRITASPGSFLQGGREAMVTLLEQHRD 250 I + G R + R G A++ L AP+ + L + + + + Sbjct: 186 IQMLSGRFNASDRAMQRYYGYLDAMRAAGL-APMAVIEVERHTLTAAADYQQMMADPRQR 244 Query: 251 VDAAFFSNDVIAAGAVLECDRRKVRIPQDIAIAGFANLDIASEINPPLTTVHVSSHRIGE 310 A F SND++A A+ + +++P DI++ GF + + + + P L +V S +IGE Sbjct: 245 PTALFCSNDLLAMSAMRDLRALGMKVPNDISVMGFDGIPVGALMEPVLASVVQPSEQIGE 304 Query: 311 TAARMLL 317 A R+L+ Sbjct: 305 VALRVLV 311 >gi|300311611|ref|YP_003775703.1| transcription regulator DNA-binding repressor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 120 bits (301), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 88/310 (28%), Positives = 159/310 (51%), Gaps = 11/310 (3%) Query: 18 TKEDVARVAGVSHITVSRVINSPDKVAPATREKVQAEITRMGYIPNLLAGGLASRRTRIV 77 T +DVAR+AGVS+ TVS V+N V+ RE+V A + + Y+P+ LA L S+ T + Sbjct: 3 TIKDVARLAGVSYTTVSHVLNQTRPVSSDARERVLAAVKELDYVPSALARSLRSKVTGSI 62 Query: 78 AAVVPTIGHSIFAETVRGMSEYLMAHGYQLLLGQSDYSEDIETRLVEAFIGRRVDGLVLT 137 ++P + F+E RG+ ++ GY ++L SD D + ++ + DGL++ Sbjct: 63 GLIIPNNTNPYFSELARGIEDHCYGAGYSVILCNSDDDPDKQRDYLQVLQTKHCDGLIIA 122 Query: 138 GVQHTPATLQRLKTAGIPVVETWDLTSEPIDM-LAGFSNYDAGAAMGDYLVEQGYRRIAF 196 + A L IP V D + +D+ L N G+ +L++ R+A Sbjct: 123 TLNQ--ADLNPAGKLDIPTV-LLDRAPKELDIDLVSTDNAVGGSLAARHLLDLRRCRVAC 179 Query: 197 VGGEDPRGVA--RLAGLSAALKRHRLH-APVRITASPGSFLQGGREAMVTLLE---QHRD 250 + G D ++ R+ G L++ L A + + S + GG +A + LL+ + Sbjct: 180 IAGPDGLELSDERVRGFRQTLEQGGLALADSDLLHADFSGI-GGYQAAMRLLQGRPADQR 238 Query: 251 VDAAFFSNDVIAAGAVLECDRRKVRIPQDIAIAGFANLDIASEINPPLTTVHVSSHRIGE 310 DA F ND++A G + ++ +P ++++ GF ++++A ++PPLTTV ++ ++G Sbjct: 239 PDAIFCCNDMMAIGVLRAAGELQIEVPGELSVVGFDDIELAQFVHPPLTTVAQNTRKLGN 298 Query: 311 TAARMLLARL 320 A+ LL R+ Sbjct: 299 LTAQFLLERI 308 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 0.135 0.381 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: 1,093,543 Number of extensions: 47180 Number of successful extensions: 184 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 176 Number of HSP's successfully gapped: 8 Length of query: 343 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 257 Effective length of database: 1,212,660 Effective search space: 311653620 Effective search space used: 311653620 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)