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= 0017.0068.p (288 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 588 e-169 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 133 1e-32 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 118 6e-28 gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 116 2e-27 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 116 3e-27 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 588 bits (1515), Expect = e-169, Method: Compositional matrix adjust. Identities = 288/288 (100%), Positives = 288/288 (100%) Query: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA Sbjct: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 Query: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI Sbjct: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 Query: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG Sbjct: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 Query: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV Sbjct: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 Query: 241 GDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIAAYEAA 288 GDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIAAYEAA Sbjct: 241 GDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIAAYEAA 288 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 133 bits (335), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 89/289 (30%), Positives = 144/289 (49%), Gaps = 5/289 (1%) Query: 2 DWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPAG 61 +W+ R FL + G+L A + L Q TVGR + LE +LG +LF+R+ +G+ PT A Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 62 EMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHIR 121 A + + L+R + + G VRL A++V + L P L LR HP +R Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 122 VVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPGT 181 V L S + +L +READIAVR RP L+A+ L + ++A +SY+ G P+ Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 182 GLKGHDVVIYQRSVSPAKS--EQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTH 239 L H ++ + + + ++ +QI S A +A+ + L ++AGFG+G Sbjct: 187 ALADHTLIGFDQESAYVRNVLKQIPWLS--RAALALRTDSDLAQLAAIRAGFGIGICQVA 244 Query: 240 VGDKASGLVRVWP-QRETPYDMWLVLHSDLNRTARVRAVADAIIAAYEA 287 + + LVR+ P Q + W+ +H DL + R A++A A Sbjct: 245 LAARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVTFAALVAGLGA 293 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 118 bits (295), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 93/286 (32%), Positives = 136/286 (47%), Gaps = 15/286 (5%) Query: 2 DWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPAG 61 DW++ R F A G+ GAA L + AT+GRRL LE++L A LF+R + T G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 62 EMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHIR 121 E AAA+ M+ QL R + G D R+ G +RLA TD FL P L L Q+ P + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 122 VVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLK--RLHTAIYASR--SYVKKRGLP 177 + L+ Q +L +READ+A+R RP +LIAR L R + A + ++ +RG Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQRG-- 181 Query: 178 EPGTGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELP 237 V+ Y SV + V + ++ + +AG GL LP Sbjct: 182 -------SAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLP 234 Query: 238 THVGDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIA 283 +++ V PQ ++W V H DL R+RAV + + A Sbjct: 235 SYLLAPELQTVESTPQ--LVRELWAVFHRDLKALPRLRAVLEWLQA 278 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 116 bits (290), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 127/278 (45%), Gaps = 1/278 (0%) Query: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 +DWDN RIFL + R L AA+ L +D +TV RR+ E +G++LF R +GY T Sbjct: 2 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61 Query: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 G A+Q+E ++ G + +L G VRL AT+ L P + +PHI Sbjct: 62 GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 121 Query: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 V + + NL+K EADI+V RP + + + L +YASR Y+ + Sbjct: 122 TVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTM 181 Query: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 L H + Y + ++ + +A A ++ + Y AG L LP + Sbjct: 182 DDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFL 241 Query: 241 GDKASGLVRVWPQR-ETPYDMWLVLHSDLNRTARVRAV 277 ++ L V PQ+ WLV S+ ARV A+ Sbjct: 242 AQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSAL 279 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 116 bits (290), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 83/283 (29%), Positives = 143/283 (50%), Gaps = 11/283 (3%) Query: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 + WD+ R FL + R G+L +A L+++ +TV R + LE++L +LF R G+V T Sbjct: 23 LQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTE 82 Query: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 G + A+Q+E L R + L G VR++A + FL+P L ++++P I Sbjct: 83 GAELSKQAEQLEVEMHSLWRAALA-NTTLSGKVRVSAPPILMSDFLVPRLPAFQEKYPDI 141 Query: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 + + + +LT+ EADIA+R P +P L+AR L + ++Y +++++ PE Sbjct: 142 ELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLER---PESE 198 Query: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 G D SP + + + + A+ + M +G GL LP + Sbjct: 199 RSFIGLD------QESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLALLPRFM 252 Query: 241 GDKASGLVRV-WPQRETPYDMWLVLHSDLNRTARVRAVADAII 282 + + LV + P+ P ++LV+HSD+ R R+RA AD +I Sbjct: 253 VAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLI 295 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 0.134 0.391 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: 788,608 Number of extensions: 29557 Number of successful extensions: 225 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 230 Number of HSP's successfully gapped: 43 Length of query: 288 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 204 Effective length of database: 1,222,130 Effective search space: 249314520 Effective search space used: 249314520 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)