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= 0030.0055.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 469 e-133 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 180 1e-46 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 176 3e-45 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 161 6e-41 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 157 1e-39 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 469 bits (1207), Expect = e-133, Method: Compositional matrix adjust. Identities = 246/299 (82%), Positives = 267/299 (89%) Query: 1 MNTESRLELRQLRYFVAVAEEKHFGRAAIRLHMTQPPLSQTIQALEEMLGTPLFARTKRS 60 M+ RLELRQLRYF AVAEE HFGRAA RLHMTQPPLSQTI ALEE+LGTPLF RTKRS Sbjct: 1 MSDLPRLELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRS 60 Query: 61 VALTPAGLALLPEAQRLLQQASALPDLARRAASGASGLLSLSFISTADYSILPPLLQRFR 120 VALT AG ALLPEAQRLLQQA+ALPDL RRAASGASGLLSLSFIS+ADYSILPPLLQRFR Sbjct: 61 VALTAAGAALLPEAQRLLQQAAALPDLVRRAASGASGLLSLSFISSADYSILPPLLQRFR 120 Query: 121 ARYPQVQIDLREATTDIQLEDLMQGKIDAGLLLPPLPDKSKAALDYLPLLSEPLVAAVPS 180 A YPQVQI+LREATTD+QLEDL+QGKIDAGLLLPPLP+K+ A L+ P+LSEPL+AA+P Sbjct: 121 AHYPQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPE 180 Query: 181 GVVRGKNAVALKSLRELPLIIFPRRISPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGL 240 G VR + V+LKSLRELPLIIFPRRI+PAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGL Sbjct: 181 GAVRKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGL 240 Query: 241 VSAGMGMALVPQSVSNLQRPGVDYRPLSGKTPLIETGLAWRRDSASPVLRAFLDMVASP 299 VSAGMGMALVPQSVSNL+RPGVDYR LS P I+T LAWRRDS S VLRA L+++ P Sbjct: 241 VSAGMGMALVPQSVSNLKRPGVDYRRLSDPAPAIQTSLAWRRDSPSSVLRALLELLDEP 299 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 180 bits (456), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 105/265 (39%), Positives = 148/265 (55%), Gaps = 4/265 (1%) Query: 7 LELRQLRYFVAVAEEKHFGRAAIRLHMTQPPLSQTIQALEEMLGTPLFARTKRSVALTPA 66 +ELR L+YF AVA F RAA LH+ QPPLS+ I+ LEEMLG L R R +ALT A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 67 GLALLPEAQRLLQQASALPDLARRAASGASGLLSLSFISTADYSILPPLLQRFRARYPQV 126 G + ++L + + + R A G ++ F+ +A Y +LP +++RFR P++ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 127 QIDLREATTDIQLEDLMQGKIDAGLLLPPLPDKSKAALDYLPLLSEPLVAAVPSGV-VRG 185 +I E T Q+E L G+ID G P+ D ++ EPLVA P G + Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCET---IVEEPLVAVFPLGHPLLA 177 Query: 186 KNAVALKSLRELPLIIFPRRISPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 +N V L L I++P R P++ D +L F + P I +EA +MQT +GLV+AG+ Sbjct: 178 RNKVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAGV 237 Query: 246 GMALVPQSVSNLQRPGVDYRPLSGK 270 G+ LVP+SV L R V YRPLS K Sbjct: 238 GVTLVPRSVQGLHRSDVVYRPLSNK 262 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 176 bits (445), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 101/287 (35%), Positives = 156/287 (54%), Gaps = 5/287 (1%) Query: 7 LELRQLRYFVAVAEEKHFGRAAIRLHMTQPPLSQTIQALEEMLGTPLFARTKRSVALTPA 66 +ELR L YF VAE HFGRAA LH++QPPL++ I ALE+ LG LF R+KR++ LT A Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 67 GLALLPEAQRLLQQASALPDLARRAASGASGLLSLSFISTADYSILPPLLQRFRARYPQV 126 G + + + +++G SG L + F+ + Y+ILP + + + A YP+V Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 127 QIDLREATTDIQLEDLMQGKIDAGLLLPPLPDKSKAALDYLPLLSEPLVAAVP-SGVVRG 185 + L E ++ D+ KID G++ P + LD + +EPL+A +P + G Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRP---EDCRRLDSHTIYAEPLLAVLPRDHRLAG 178 Query: 186 KNAVALKSLRELPLIIFPRRISPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 + +++ L E I PR I+P +D I + G P I E QTIV LV G+ Sbjct: 179 RQSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGL 238 Query: 246 GMALVPQSVSNLQRPGVDYRPLSGKTPLIETGLAWRRDSASPVLRAF 292 G+ALVP S+ + ++PL G P++E + W +D+ +P +R F Sbjct: 239 GVALVPTSMQAMHLDTTVFKPLIG-APMVEVAVIWNKDNTNPCIRTF 284 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 161 bits (408), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 103/287 (35%), Positives = 146/287 (50%), Gaps = 4/287 (1%) Query: 7 LELRQLRYFVAVAEEKHFGRAAIRLHMTQPPLSQTIQALEEMLGTPLFARTKRSVALTPA 66 L+L Q+R FV A E +F RAA L+MTQPPLS+ I LE LG LF R R+V LT Sbjct: 2 LDLAQVRCFVVAATELNFRRAAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTE 61 Query: 67 GLALLPEAQRLLQQASALPDLARRAASGASGLLSLSFISTADYSILPPLLQRFRARYPQV 126 G L +A RLLQ + RRA+ G +G + + F A Y ++P LL + R P++ Sbjct: 62 GRVFLADASRLLQLSEQAESTVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPEI 121 Query: 127 QIDLREATTDIQLEDLMQGKIDAGLLLPPLPDKSKAALDYLPLLSEPLVAAVPSG-VVRG 185 + L E + QLE ID G L P S+ L+ + E LV A+P G + Sbjct: 122 DVVLFELISVAQLEAFTANTIDIGFLRPV---ASRQPLELQLVDEEALVLAMPQGHALAA 178 Query: 186 KNAVALKSLRELPLIIFPRRISPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAGM 245 + +A L P I+ F++ I++ A V P Q Q TI+ LV AG+ Sbjct: 179 YDRIATTQLDGQPFIMHSPTHGKYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGL 238 Query: 246 GMALVPQSVSNLQRPGVDYRPLSGKTPLIETGLAWRRDSASPVLRAF 292 G+ ++P S V++RPL+ + P E +AWR D +P + AF Sbjct: 239 GVGILPASAQRFHYDRVEFRPLADEAPRAEMSMAWRPDQDNPAVTAF 285 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 157 bits (397), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 103/280 (36%), Positives = 163/280 (58%), Gaps = 4/280 (1%) Query: 7 LELRQLRYFVAVAEEKHFGRAAIRLHMTQPPLSQTIQALEEMLGTPLFARTKRSVALTPA 66 +ELR LRYF+AVAE++ F RAA ++ + QPPLS I+ALEE +G LF R+ + V L+ Sbjct: 1 MELRHLRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEV 60 Query: 67 GLALLPEAQRLLQQASALPDLARRAASGASGLLSLSFISTADYS-ILPPLLQRFRARYPQ 125 G LLP AQR + QA AR+AASG +GLL + F S+A + ++ LQ+FR R+ + Sbjct: 61 GRVLLPHAQRAVDQAEQALRAARQAASGETGLLRMGFTSSAVFHPLVSHALQQFRERHRK 120 Query: 126 VQIDLREATTDIQLEDLMQGKIDAGLLLPPLPDKSKAALDYLPLLSEPLVAAVP-SGVVR 184 ++I L E T+ L D+ ++DA + + AAL + L +E L A+P S + Sbjct: 121 LEISLSEGITEQLLADIAASQLDAAFV--RIVTTPSAALGVVELPAEKLKVALPRSHPLA 178 Query: 185 GKNAVALKSLRELPLIIFPRRISPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSAG 244 + ++ L+ L I+ PR A +D+I S + AG P + Q A Q+ + + LV++G Sbjct: 179 RRKSLRLQDLASENFIMVPRGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVASG 238 Query: 245 MGMALVPQSVSNLQRPGVDYRPLSGKTPLIETGLAWRRDS 284 +G+++VP+++ +Q V Y + P + LA+ R S Sbjct: 239 LGISIVPEAIEQVQLAQVRYVEIVEPAPRAQLSLAYHRQS 278 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 0.136 0.384 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: 914,143 Number of extensions: 38351 Number of successful extensions: 277 Number of sequences better than 1.0e-08: 78 Number of HSP's gapped: 236 Number of HSP's successfully gapped: 78 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 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: 130 (54.7 bits)