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= 0001.0085.p (296 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310408|ref|YP_003774500.1| LysR family transcription regul... 529 e-151 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 196 3e-51 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 189 3e-49 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 171 8e-44 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 170 1e-43 >gi|300310408|ref|YP_003774500.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 529 bits (1363), Expect = e-151, Method: Compositional matrix adjust. Identities = 279/296 (94%), Positives = 287/296 (96%) Query: 1 MDRWLAMRIFVQVAETASFAKAARQMQLSAPVVTRTVAGLEELVGARLLVRTTRSVKTTE 60 MDRWLAMRIFVQVAE ASFAKAARQMQLSAP VTRTVA LEELVGARLLVRTTRSVKTTE Sbjct: 1 MDRWLAMRIFVQVAEAASFAKAARQMQLSAPAVTRTVATLEELVGARLLVRTTRSVKTTE 60 Query: 61 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQLHVLPIVTEYLDLYPG 120 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQ+HVLPIVTEYLDLYPG Sbjct: 61 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQMHVLPIVTEYLDLYPG 120 Query: 121 MRARTFFVDRPVNIVEEGMDVAVRIGHLPDSGFTAIQVGSVSRVICASPDYLRQHGTPAS 180 MRARTFF+DRPVNIVEEGMDVAVRIGHLPDSGFTAIQVGSV RVICA+PDYLR+HG P S Sbjct: 121 MRARTFFIDRPVNIVEEGMDVAVRIGHLPDSGFTAIQVGSVRRVICAAPDYLRRHGVPTS 180 Query: 181 PADLKQHRIVTSTSAWASPEWRFADGQRVVVDAALQTNTNEAAISTARQGWGLTRVLAYQ 240 PADLKQHRIVTSTSAWASPEWRFADGQRV+V+AALQTNTNEAAI+TARQGWGLTRVLAYQ Sbjct: 181 PADLKQHRIVTSTSAWASPEWRFADGQRVLVEAALQTNTNEAAIATARQGWGLTRVLAYQ 240 Query: 241 VAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFIDLAVSRLRAHPAFH 296 VAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFIDLAV RLR H AF+ Sbjct: 241 VAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFIDLAVCRLREHAAFY 296 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 196 bits (497), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 104/287 (36%), Positives = 165/287 (57%), Gaps = 3/287 (1%) Query: 1 MDRWLAMRIFVQVAETASFAKAARQMQLSAPVVTRTVAGLEELVGARLLVRTTRSVKTTE 60 M++ + F+ VA+ SF KAA + +S V+RTV LE +G+RL+ RTTR + TE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQLHVLPIVTEYLDLYPG 120 AGA YLE C++I+A + EA+ + +P+G L + A L FG LH+ P+ +L+ +P Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 MRARTFFVDRPVNIVEEGMDVAVRIGHLPDSGFTAIQVGSVSRVICASPDYLRQHGTPAS 180 + DR V+I++EG D+A+RI L DS ++ S S +CASP YL HGTPA Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 PADLKQHRIVTSTSAWASPEWRFADGQ---RVVVDAALQTNTNEAAISTARQGWGLTRVL 237 P +L QH+ ++ + + EW+F + V V + L N ++ + A G G+TR Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 238 AYQVAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFIDL 284 + + L++G+L ++ ++ P L I+ +YP PAK+RA +D Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDF 287 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 189 bits (480), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 106/288 (36%), Positives = 158/288 (54%), Gaps = 5/288 (1%) Query: 1 MDRWLAMRIFVQVAETASFAKAARQMQLSAPVVTRTVAGLEELVGARLLVRTTRSVKTTE 60 MDR+ AM++F V + SF +AA + L VT V GLE ++ RLL RTTR + T Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQLHVLPIVTEYLDLYPG 120 GA Y E C RILA++ E E + P G L + G+L +LP + ++ YP Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 121 MRARTFFVDRPVNIVEEGMDVAVRIGHLPDSGFTAIQVGSVSRVICASPDYLRQHGTPAS 180 + DRPV++V+E +D +RIG L DS A ++G+ V CA+P YL +HG P + Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 181 PADLKQHRIVT--STSAWASPEWRF-ADG--QRVVVDAALQTNTNEAAISTARQGWGLTR 235 DL+QH+ V S+ + +W F +G + V ++ L N +A + A QG+G+ + Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 236 VLAYQVAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFID 283 Y V + GRL V+S+++ P+PI V+Y R KVRAF+D Sbjct: 241 APLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVD 288 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 171 bits (432), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 97/287 (33%), Positives = 158/287 (55%), Gaps = 3/287 (1%) Query: 1 MDRWLAMRIFVQVAETASFAKAARQMQLSAPVVTRTVAGLEELVGARLLVRTTRSVKTTE 60 MD++ + F +VA S + AAR ++ ++ R + LEE +G +LL RTTR + T Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQLHVLPIVTEYLDLYPG 120 GA +LEDC+RILA++ +AE+A + + SG L ++A FG+ HV P++ +L + Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 MRARTFFVDRPVNIVEEGMDVAVRIGHLPDSGFTAIQVGSVSRVICASPDYLRQHGTPAS 180 + DR +++ EG+DVA+RI L DS ++++ RVI A+P YLR+HGTP S Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQS 180 Query: 181 PADLKQHRIVTSTSAWASPEWRFADGQRVV---VDAALQTNTNEAAISTARQGWGLTRVL 237 P +L +H + +S + W +V V + N E + A G GL Sbjct: 181 PDELMRHNCLAMSSEGSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRS 240 Query: 238 AYQVAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFIDL 284 ++V A ++AG L V+ +F P I+ ++ + R P ++RAF+D Sbjct: 241 MWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDF 287 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 170 bits (430), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 108/289 (37%), Positives = 159/289 (55%), Gaps = 7/289 (2%) Query: 1 MDRWLAMRIFVQVAETASFAKAARQMQLSAPVVTRTVAGLEELVGARLLVRTTRSVKTTE 60 MD MR+F +V E SF +AA+QM L+ V+R VA LE + RL+ RTTR + TE Sbjct: 2 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 61 Query: 61 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQLHVLPIVTEYLDLYPG 120 AG RYL C++I++ + EAEA A+ Y +PSG L + A FGQ +V+P ++ Y YP Sbjct: 62 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 121 Query: 121 MRARTFFVDRPVNIVEEGMDVAVRIG-HLPDSGFTAIQVGSVSRVICASPDYLRQHGTPA 179 + R +++EEG DV++ + LPDSG Q+GS ++CASP YL ++G P Sbjct: 122 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 181 Query: 180 SPADLKQHRIVTSTSAWASP--EWRF---ADGQRVVVDAALQTNTNEAAISTARQGWGLT 234 PADL H + S SP EW G V V + Q N EA ++ R+G G+ Sbjct: 182 QPADLLNHACLQLVSP-ISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIG 240 Query: 235 RVLAYQVAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFID 283 + Y L+AG + RV+ + + ++ LYP + AK+ ++D Sbjct: 241 VLPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVD 289 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 0.322 0.133 0.389 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: 900,009 Number of extensions: 36613 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 50 Number of HSP's gapped: 186 Number of HSP's successfully gapped: 50 Length of query: 296 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 211 Effective length of database: 1,217,395 Effective search space: 256870345 Effective search space used: 256870345 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)