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= 0011.0245.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 552 e-158 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 129 4e-31 gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 110 1e-25 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 110 2e-25 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 105 4e-24 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 552 bits (1423), Expect = e-158, Method: Compositional matrix adjust. Identities = 279/283 (98%), Positives = 281/283 (99%) Query: 23 LHADWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELT 82 +HADWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELT Sbjct: 1 MHADWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELT 60 Query: 83 RLGESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWP 142 RLGESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWP Sbjct: 61 RLGESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWP 120 Query: 143 ALDIELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTAEQVAAWRRQR 202 ALDIELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTA+QVAAWR QR Sbjct: 121 ALDIELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQR 180 Query: 203 GSAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMGARAGVGLALLPSYLLAP 262 GSAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCM ARAGVGLALLPSYLLAP Sbjct: 181 GSAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLPSYLLAP 240 Query: 263 ELQTVESTPQLVRELWAVFHRDLKALPRLRAVLEWLQACCGEL 305 ELQTVESTPQLVRELWAVFHRDLKALPRLRAVLEWLQACCGEL Sbjct: 241 ELQTVESTPQLVRELWAVFHRDLKALPRLRAVLEWLQACCGEL 283 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 129 bits (323), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 88/276 (31%), Positives = 138/276 (50%), Gaps = 10/276 (3%) Query: 27 WESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLGE 86 W+ +R F GS S +ARVL V H+T+ R + LE+TL LF R A LT G Sbjct: 25 WDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTEGA 84 Query: 87 SVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALDI 146 + A ++ + L R A + + GK+R++ + + FL PRLP+ +++P +++ Sbjct: 85 ELSKQAEQLEVEMHSLWRA-ALANTTLSGKVRVSAPPILMSDFLVPRLPAFQEKYPDIEL 143 Query: 147 ELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTAEQVAAW-RRQRGSA 205 E+ + + L R EAD+ALR P L+AR L V + + G + AW R Sbjct: 144 EVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYG----IPAWLERPESER 199 Query: 206 PVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMGARAGVGLALLPSYLLAPELQ 265 IG D P + WL + D LR+ + A C A +G+GLALLP +++A + + Sbjct: 200 SFIGLDQESP-CRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLALLPRFMVAEDTR 258 Query: 266 TV---ESTPQLVRELWAVFHRDLKALPRLRAVLEWL 298 V L+ V H D++ PR+RA ++L Sbjct: 259 LVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFL 294 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 110 bits (275), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 73/285 (25%), Positives = 130/285 (45%), Gaps = 8/285 (2%) Query: 26 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 85 DW++LR F + AA+ LG+ H+T+ RR+++ E+ + + LF R +LT G Sbjct: 3 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 62 Query: 86 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 145 ++ A ++ L G + ++ G++RL T+ GT LAP + + P + Sbjct: 63 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 122 Query: 146 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTAEQVAAW-----RR 200 +++ + ++L++ EAD+++ RP G + +L L + + +A Sbjct: 123 VDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTMD 182 Query: 201 QRGSAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMGARAGVGLALLPSYLL 260 IGY D + E R+ A RS S+VAQ A AG LA+LP +L Sbjct: 183 DLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFLA 242 Query: 261 APELQTVESTPQ---LVRELWAVFHRDLKALPRLRAVLEWLQACC 302 + PQ + R W V + + + R+ A+ +L+ C Sbjct: 243 QQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECV 287 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 92/302 (30%), Positives = 139/302 (46%), Gaps = 30/302 (9%) Query: 21 AALHADWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIE 80 A + +WE RSF ++ GS S A R +G+T T+GR ++ LE TL LF+R D Sbjct: 2 ADIEPNWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFS 61 Query: 81 LTRLGESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQ 140 T + A A+ + L R + + + G +RL ++ + L P L +L + Sbjct: 62 PTDAALELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHR 121 Query: 141 WPALDIELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRF-------YLC--GT 191 P L +EL + ++ L +READ+A+R RP L+A+RLG + YL G Sbjct: 122 HPELRVELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGA 181 Query: 192 AEQVAAWRRQRGSAPVIGYD-------DSVPDIPETRWLAAHADGNPVRLRSASLVAQCM 244 + V A +IG+D + + IP WL+ A + LR+ S +AQ Sbjct: 182 PKSVDAL----ADHTLIGFDQESAYVRNVLKQIP---WLSRAA----LALRTDSDLAQLA 230 Query: 245 GARAGVGLALLPSYLLAPELQTVESTPQ---LVRELWAVFHRDLKALPRLRAVLEWLQAC 301 RAG G+ + L A ++ V P+ L E W H DL+A PR L A Sbjct: 231 AIRAGFGIGICQVALAARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVTFAALVAG 290 Query: 302 CG 303 G Sbjct: 291 LG 292 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 105 bits (263), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 93/286 (32%), Positives = 137/286 (47%), Gaps = 15/286 (5%) Query: 26 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 85 DW++ R F A G+ GAA L + AT+GRRL LE++L A LF+R + T G Sbjct: 2 DWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPAG 61 Query: 86 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 145 E AAA+ M+ QL R + G D R+ G +RLA TD FL P L L Q+ P + Sbjct: 62 EMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHIR 121 Query: 146 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTAEQVAAWRRQRG-- 203 + L+ Q +L +READ+A+R RP +LIAR L R + A + ++ ++RG Sbjct: 122 VVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLK--RLHTAIYASR--SYVKKRGLP 177 Query: 204 -------SAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMGARAGVGLALLP 256 V+ Y SV + V + ++ + +AG GL LP Sbjct: 178 EPGTGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELP 237 Query: 257 SYLLAPELQTVESTPQ--LVRELWAVFHRDLKALPRLRAVLEWLQA 300 +++ V PQ ++W V H DL R+RAV + + A Sbjct: 238 THVGDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIA 283 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 0.324 0.135 0.404 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: 960,416 Number of extensions: 42055 Number of successful extensions: 372 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 356 Number of HSP's successfully gapped: 44 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)