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= 0030.0186.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|300310322|ref|YP_003774414.1| LysR family transcription regul... 508 e-145 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 141 7e-35 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 117 1e-27 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 113 2e-26 gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 111 9e-26 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 508 bits (1307), Expect = e-145, Method: Compositional matrix adjust. Identities = 260/287 (90%), Positives = 274/287 (95%) Query: 1 MDWDNARIFLAIYRVGTLRGAAEYLEIDQATAGRRLAALESSLGARLFLRTPSGYVPTPA 60 MDWDNARIFLAIYRVGTLRGAAE LE+DQAT GRRLAALE SLGARLFLRTP+GYVPTPA Sbjct: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 Query: 61 GEMAAAAATQMEQGAEQLQRQMQGMDERLCGVVRLAATDITARHFLLPALHRLRQEHPKI 120 GEMAAAAA QMEQGAEQLQRQMQG+DERLCGVVRLAATD+TARHFL+PALHRLRQEHP I Sbjct: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 Query: 121 RVVLSTSTQITNLTKREADIAVRTVRPDAPDLIARHLKRLHTGMYASKAYVKKRGLPDPG 180 RVVLSTSTQITNLTKREADIAVRT+RPDAPDLIARHLKRLHT +YAS++YVKKRGLP+PG Sbjct: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 Query: 181 TGLKGHDVVIYPRSVSPSKSEQICGESIAHANVAMEVSTGLVMYDSLQAGFGIGELPTHV 240 TGLKGHDVVIY RSVSP+KSEQICGESI +A VAMEVSTGLVMYD LQAGFG+GELPTHV Sbjct: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 Query: 241 GDKTSGLVRIWPQRAVPYDMWLVLHSDLNRTARVRAVADAIIAAYEA 287 GDK SGLVR+WPQR PYDMWLVLHSDLNRTARVRAVADAIIAAYEA Sbjct: 241 GDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIAAYEA 287 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 141 bits (355), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 87/288 (30%), Positives = 146/288 (50%), Gaps = 1/288 (0%) Query: 2 DWDNARIFLAIYRVGTLRGAAEYLEIDQATAGRRLAALESSLGARLFLRTPSGYVPTPAG 61 +W+ R FL + G+L A + + Q T GR + LES+LG +LF+R+ G+ PT A Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 62 EMAAAAATQMEQGAEQLQRQMQGMDERLCGVVRLAATDITARHFLLPALHRLRQEHPKIR 121 A + + L+R + + G VRL A+++ + L P L LR HP++R Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 122 VVLSTSTQITNLTKREADIAVRTVRPDAPDLIARHLKRLHTGMYASKAYVKKRGLPDPGT 181 V L S + +L +READIAVR RP L+A+ L + G++A ++Y+ G P Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 182 GLKGHDVVIYPRSVSPSKSEQICGESIAHANVAMEVSTGLVMYDSLQAGFGIGELPTHVG 241 L H ++ + + + ++ ++ A +A+ + L +++AGFGIG + Sbjct: 187 ALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGICQVALA 246 Query: 242 DKTSGLVRIWP-QRAVPYDMWLVLHSDLNRTARVRAVADAIIAAYEAY 288 + LVR+ P Q A+ + W+ +H DL + R A++A AY Sbjct: 247 ARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVTFAALVAGLGAY 294 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 117 bits (293), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 97/288 (33%), Positives = 138/288 (47%), Gaps = 17/288 (5%) Query: 2 DWDNARIFLAIYRVGTLRGAAEYLEIDQATAGRRLAALESSLGARLFLRTPSGYVPTPAG 61 DW++ R F A G+ GAA L + AT GRRL LE +L A LF+R T G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 62 EMAAAAATQMEQGAEQLQRQMQGMDERLCGVVRLAATDITARHFLLPALHRLRQEHPKIR 121 E AAA M+ QL R + G D R+ G +RLA TD FL P L L Q+ P + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 122 VVLSTSTQITNLTKREADIAVRTVRPDAPDLIARHLK--RLHTGMYASK--AYVKKRGLP 177 + L+ Q +L +READ+A+R RP +LIAR L R + A + A+ +RG Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQRG-- 181 Query: 178 DPGTGLKGHDVVIYPRSVSPSKSEQICGESIAHAN-VAMEVSTGLVMYDSLQAGFGIGEL 236 V+ Y SV P E + A N V + ++ + + +AG G+ L Sbjct: 182 -------SAPVIGYDDSV-PDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALL 233 Query: 237 PTHVGDKTSGLVRIWPQRAVPYDMWLVLHSDLNRTARVRAVADAIIAA 284 P+++ V PQ + ++W V H DL R+RAV + + A Sbjct: 234 PSYLLAPELQTVESTPQ--LVRELWAVFHRDLKALPRLRAVLEWLQAC 279 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 113 bits (283), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 83/289 (28%), Positives = 143/289 (49%), Gaps = 23/289 (7%) Query: 1 MDWDNARIFLAIYRVGTLRGAAEYLEIDQATAGRRLAALESSLGARLFLRTPSGYVPTPA 60 + WD+ R FL + R G+L +A L+++ +T R + LE +L +LF R G+V T Sbjct: 23 LQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTE 82 Query: 61 GEMAAAAATQMEQGAEQLQRQMQGM------DERLCGVVRLAATDITARHFLLPALHRLR 114 G ++ + AEQL+ +M + + L G VR++A I FL+P L + Sbjct: 83 G-------AELSKQAEQLEVEMHSLWRAALANTTLSGKVRVSAPPILMSDFLVPRLPAFQ 135 Query: 115 QEHPKIRVVLSTSTQITNLTKREADIAVRTVRPDAPDLIARHLKRLHTGMYASKAYVKKR 174 +++P I + + + +LT+ EADIA+R P +P L+AR L + +Y A++++ Sbjct: 136 EKYPDIELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLER- 194 Query: 175 GLPDPGTGLKGHDVVIYPRSVSPSKSEQICGESIAHANVAMEVSTGLVMYDSLQAGFGIG 234 P+ G D SP + + + A+ + M + +G G+ Sbjct: 195 --PESERSFIGLD------QESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLA 246 Query: 235 ELPTHVGDKTSGLVRI-WPQRAVPYDMWLVLHSDLNRTARVRAVADAII 282 LP + + + LV I P+ P ++LV+HSD+ R R+RA AD +I Sbjct: 247 LLPRFMVAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLI 295 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 111 bits (277), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 81/278 (29%), Positives = 125/278 (44%), Gaps = 1/278 (0%) Query: 1 MDWDNARIFLAIYRVGTLRGAAEYLEIDQATAGRRLAALESSLGARLFLRTPSGYVPTPA 60 +DWDN RIFL + R L AA+ L ID +T RR+ E +G++LF R GY T Sbjct: 2 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61 Query: 61 GEMAAAAATQMEQGAEQLQRQMQGMDERLCGVVRLAATDITARHFLLPALHRLRQEHPKI 120 G A Q+E ++ G + +L G VRL AT+ L P + +P I Sbjct: 62 GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 121 Query: 121 RVVLSTSTQITNLTKREADIAVRTVRPDAPDLIARHLKRLHTGMYASKAYVKKRGLPDPG 180 V + + NL+K EADI+V RP + + + L +YAS+ Y+ + Sbjct: 122 TVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTM 181 Query: 181 TGLKGHDVVIYPRSVSPSKSEQICGESIAHANVAMEVSTGLVMYDSLQAGFGIGELPTHV 240 L H + Y + S+ + A A ++ + Y + AG + LP + Sbjct: 182 DDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFL 241 Query: 241 GDKTSGLVRIWPQR-AVPYDMWLVLHSDLNRTARVRAV 277 ++ L + PQ+ A+ WLV S+ ARV A+ Sbjct: 242 AQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSAL 279 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 0.319 0.132 0.385 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: 786,028 Number of extensions: 29207 Number of successful extensions: 212 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 215 Number of HSP's successfully gapped: 41 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: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 130 (54.7 bits)