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= 0027.0057.p (311 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 537 e-154 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 123 2e-29 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 116 2e-27 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 111 7e-26 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 106 3e-24 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 537 bits (1383), Expect = e-154, Method: Compositional matrix adjust. Identities = 248/305 (81%), Positives = 282/305 (92%) Query: 7 MMDWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEEQVGSQLFDRNNHGYSLTA 66 M+DWDNLR+FLELTRSQGLVDAAKKLGIDHSTVSRR+KRFEEQVGSQLFDRNNHGY LTA Sbjct: 1 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA 60 Query: 67 DGYRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHFCARNPH 126 DGYRLVEYAE++EST+YAA EELGGHN LSGQVRLGATEGFGTFVLAPHIAHFCARNPH Sbjct: 61 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH 120 Query: 127 ISVDMLPMPRFVNLSKREADISVTIERPVSGNYVVTKLADYALRLYATPAYLESHPPLRS 186 I+VDMLPMPRFVNLSK EADISV+IERP+SGNYVVTKL+DY L+LYA+ YL HPP+ + Sbjct: 121 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHT 180 Query: 187 VADLESHAFIGYIDDLVFSEELRYKENIAPEAFRAFRSTSVIAQYTAARSGQALAILPCF 246 + DL H FIGYIDDLVFSEELRYK+ +AP+AFRAFRSTSV+AQYTAA +G+ALAILPCF Sbjct: 181 MDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCF 240 Query: 247 LAQQSDDLVPVLPDEVEIKRSFWLVAASEQRHVARVSALWSYLRDCMEPNKEFLMGKSRQ 306 LAQQS++L PVLP ++ I RSFWLVA+SEQRHVARVSALWSYLR+C+E N++FLMG+SR+ Sbjct: 241 LAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVELNRDFLMGQSRR 300 Query: 307 MTWIK 311 M W++ Sbjct: 301 MRWLE 305 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 123 bits (308), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 87/287 (30%), Positives = 144/287 (50%), Gaps = 10/287 (3%) Query: 8 MDWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEEQVGSQLFDRNNHGYSLTAD 67 + WD++R FL L+R L +A+ L ++HSTV+R + E+ + +LFDR G+ LT + Sbjct: 23 LQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTE 82 Query: 68 GYRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 127 G L + AE++E +++ N LSG+VR+ A + L P + F + P I Sbjct: 83 GAELSKQAEQLEVEMHSLWRA-ALANTTLSGKVRVSAPPILMSDFLVPRLPAFQEKYPDI 141 Query: 128 SVDMLPMPRFVNLSKREADISVTIERPVSGNYVVTKLADYALRLYATPAYLESHPPLRSV 187 ++++ R V+L++ EADI++ + PVS V L + + +Y PA+LE RS Sbjct: 142 ELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLERPESERS- 200 Query: 188 ADLESHAFIGYIDDLVFSEELRYKENIAPEAFRAFRSTSVIAQYTAARSGQALAILPCFL 247 FIG +D + + E+ + A R+ + A AA SG LA+LP F+ Sbjct: 201 -------FIG-LDQESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLALLPRFM 252 Query: 248 AQQSDDLVPVLPDEVEIKRSFWLVAASEQRHVARVSALWSYLRDCME 294 + LV + E +LV S+ R R+ A +L D ++ Sbjct: 253 VAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLIDLIQ 299 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 116 bits (290), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 77/284 (27%), Positives = 133/284 (46%), Gaps = 8/284 (2%) Query: 9 DWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEEQVGSQLFDRNNHGYSLTADG 68 DW++LR F + AA+ LG+ H+T+ RR+++ E+ + + LF R LT G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 69 YRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIS 128 ++ A ++ A L G + + G++RL T+ GT LAP + + P + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 129 VDMLPMPRFVNLSKREADISVTIERPVSGNYVVTKLADYALRLYATPAYLESHPPLRSVA 188 +++ + ++L++READ+++ RP G + +L L T + + R Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQRG-- 181 Query: 189 DLESHAFIGYIDDLVFSEELRYKENIAPEAFRAFRSTSVIAQYTAARSGQALAILPCFLA 248 S IGY D + E R+ A RS S++AQ AAR+G LA+LP +L Sbjct: 182 ---SAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLPSYLL 238 Query: 249 QQSDDLVPVLPDEVEIKRSFWLVAASEQRHVARVSALWSYLRDC 292 V P ++ R W V + + + R+ A+ +L+ C Sbjct: 239 APELQTVESTP---QLVRELWAVFHRDLKALPRLRAVLEWLQAC 279 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 111 bits (278), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 85/287 (29%), Positives = 134/287 (46%), Gaps = 12/287 (4%) Query: 9 DWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEEQVGSQLFDRNNHGYSLTADG 68 +W+ R FL++ + L A +++G+ TV R I+ E +G +LF R+ G+S T Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 69 YRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIS 128 L YA I + A + + G VRL A+E VL P +A R+P + Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 129 VDMLPMPRFVNLSKREADISVTIERPVSGNYVVTKLADYALRLYATPAYLESHPPLRSVA 188 V+++ + +L +READI+V + RP V +L L L+A +YL H +SV Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 189 DLESHAFIGYIDDLVFSEELRYKENIAPE------AFRAFRSTSVIAQYTAARSGQALAI 242 L H IG F +E Y N+ + A A R+ S +AQ A R+G + I Sbjct: 187 ALADHTLIG------FDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGI 240 Query: 243 LPCFLAQQSDDLVPVLPDEVEIKRSFWLVAASEQRHVARVSALWSYL 289 LA + LV +LP + +K W+ + R R + ++ L Sbjct: 241 CQVALAARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVTFAAL 287 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 106 bits (264), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 81/278 (29%), Positives = 128/278 (46%), Gaps = 1/278 (0%) Query: 8 MDWDNLRVFLELTRSQGLVDAAKKLGIDHSTVSRRIKRFEEQVGSQLFDRNNHGYSLTAD 67 MDWDN R+FL + R L AA+ L +D +TV RR+ E +G++LF R +GY T Sbjct: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 Query: 68 GYRLVEYAEKIESTVYAAAEELGGHNRLLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 127 G A+++E ++ G + L G VRL AT+ L P + +PHI Sbjct: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 Query: 128 SVDMLPMPRFVNLSKREADISVTIERPVSGNYVVTKLADYALRLYATPAYLESHPPLRSV 187 V + + NL+KREADI+V RP + + + L +YA+ +Y++ Sbjct: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 Query: 188 ADLESHAFIGYIDDLVFSEELRYKENIAPEAFRAFRSTSVIAQYTAARSGQALAILPCFL 247 L+ H + Y + ++ + A A ++ + Y ++G L LP + Sbjct: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 Query: 248 AQQSDDLVPVLPDEVEIKRSFWLVAASEQRHVARVSAL 285 ++ LV V P E WLV S+ ARV A+ Sbjct: 241 GDKASGLVRVWPQR-ETPYDMWLVLHSDLNRTARVRAV 277 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 0.398 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: 951,924 Number of extensions: 37838 Number of successful extensions: 204 Number of sequences better than 1.0e-08: 46 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 46 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 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)