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= 0001.0782.p (290 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... 493 e-141 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 136 2e-33 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 122 3e-29 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 121 9e-29 gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 118 6e-28 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 493 bits (1270), Expect = e-141, Method: Compositional matrix adjust. Identities = 251/287 (87%), Positives = 274/287 (95%) Query: 1 VDWDNARIFLAIYRVGTLRGAAEQLDIDQATVGRRLAALEKSLGARLFLRTPSGYVPTPA 60 +DWDNARIFLAIYRVGTLRGAAE L++DQATVGRRLAALE+SLGARLFLRTP+GYVPTPA Sbjct: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 Query: 61 GELAGAAASQMEQGAEQLQRQMQGLDERLCGVVRLAATDLTARYFLMPALQHLRQEHPNI 120 GE+A AAA QMEQGAEQLQRQMQG+DERLCGVVRLAATD+TAR+FL+PAL LRQEHP+I Sbjct: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 Query: 121 KVVLSTSTQLTNLTKREADIAVRTVRPDAPDLIARHLKRLYTGIYAAKAYVKKRGLPEPG 180 +VVLSTSTQ+TNLTKREADIAVRT+RPDAPDLIARHLKRL+T IYA+++YVKKRGLPEPG Sbjct: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 Query: 181 TGLKGHDVVIYPRSVSPVKSEQISGESITHANVAMEVSTGLVMYDCLQAGVGIGELPTHM 240 TGLKGHDVVIY RSVSP KSEQI GESI +A VAMEVSTGLVMYDCLQAG G+GELPTH+ Sbjct: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 Query: 241 GDKASGLVRIWPQRATPYDMWLVLHSDLNRTARVRAVADAIIAAFEA 287 GDKASGLVR+WPQR TPYDMWLVLHSDLNRTARVRAVADAIIAA+EA Sbjct: 241 GDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIAAYEA 287 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 136 bits (342), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 85/288 (29%), Positives = 146/288 (50%), Gaps = 1/288 (0%) Query: 2 DWDNARIFLAIYRVGTLRGAAEQLDIDQATVGRRLAALEKSLGARLFLRTPSGYVPTPAG 61 +W+ R FL + G+L A ++ + Q TVGR + LE +LG +LF+R+ G+ PT A Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 62 ELAGAAASQMEQGAEQLQRQMQGLDERLCGVVRLAATDLTARYFLMPALQHLRQEHPNIK 121 A+ + + L+R + + G VRL A+++ + L P L LR HP ++ Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 122 VVLSTSTQLTNLTKREADIAVRTVRPDAPDLIARHLKRLYTGIYAAKAYVKKRGLPEPGT 181 V L S + +L +READIAVR RP L+A+ L + G++A ++Y+ G P+ Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 182 GLKGHDVVIYPRSVSPVKSEQISGESITHANVAMEVSTGLVMYDCLQAGVGIGELPTHMG 241 L H ++ + + + V++ ++ A +A+ + L ++AG GIG + Sbjct: 187 ALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGICQVALA 246 Query: 242 DKASGLVRIWP-QRATPYDMWLVLHSDLNRTARVRAVADAIIAAFEAH 288 + LVR+ P Q A + W+ +H DL + R A++A A+ Sbjct: 247 ARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVTFAALVAGLGAY 294 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 122 bits (306), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 95/287 (33%), Positives = 136/287 (47%), Gaps = 15/287 (5%) Query: 2 DWDNARIFLAIYRVGTLRGAAEQLDIDQATVGRRLAALEKSLGARLFLRTPSGYVPTPAG 61 DW++ R F A G+ GAA L + AT+GRRL LE++L A LF+R T G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 62 ELAGAAASQMEQGAEQLQRQMQGLDERLCGVVRLAATDLTARYFLMPALQHLRQEHPNIK 121 E AAA M+ QL R + G D R+ G +RLA TD FL P L L Q+ P + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 122 VVLSTSTQLTNLTKREADIAVRTVRPDAPDLIARHLK--RLYTGIYAAK--AYVKKRGLP 177 + L+ Q +L +READ+A+R RP +LIAR L R Y A + A+ +RG Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQRG-- 181 Query: 178 EPGTGLKGHDVVIYPRSVSPVKSEQISGESITHANVAMEVSTGLVMYDCLQAGVGIGELP 237 V+ Y SV + + V + ++ + +AGVG+ LP Sbjct: 182 -------SAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLP 234 Query: 238 THMGDKASGLVRIWPQRATPYDMWLVLHSDLNRTARVRAVADAIIAA 284 +++ V PQ ++W V H DL R+RAV + + A Sbjct: 235 SYLLAPELQTVESTPQLVR--ELWAVFHRDLKALPRLRAVLEWLQAC 279 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 121 bits (303), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 87/289 (30%), Positives = 147/289 (50%), Gaps = 23/289 (7%) Query: 1 VDWDNARIFLAIYRVGTLRGAAEQLDIDQATVGRRLAALEKSLGARLFLRTPSGYVPTPA 60 + WD+ R FL + R G+L +A L ++ +TV R + LEK+L +LF R G+V T Sbjct: 23 LQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVLTTE 82 Query: 61 GELAGAAASQMEQGAEQLQRQMQGL------DERLCGVVRLAATDLTARYFLMPALQHLR 114 G +++ + AEQL+ +M L + L G VR++A + FL+P L + Sbjct: 83 G-------AELSKQAEQLEVEMHSLWRAALANTTLSGKVRVSAPPILMSDFLVPRLPAFQ 135 Query: 115 QEHPNIKVVLSTSTQLTNLTKREADIAVRTVRPDAPDLIARHLKRLYTGIYAAKAYVKKR 174 +++P+I++ + + +LT+ EADIA+R P +P L+AR L + +Y A++++ Sbjct: 136 EKYPDIELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLER- 194 Query: 175 GLPEPGTGLKGHDVVIYPRSVSPVKSEQISGESITHANVAMEVSTGLVMYDCLQAGVGIG 234 PE G D SP + + + A+ + M +G+G+ Sbjct: 195 --PESERSFIGLD------QESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLA 246 Query: 235 ELPTHMGDKASGLVRI-WPQRATPYDMWLVLHSDLNRTARVRAVADAII 282 LP M + + 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 = 118 bits (295), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 84/280 (30%), Positives = 132/280 (47%), Gaps = 5/280 (1%) Query: 1 VDWDNARIFLAIYRVGTLRGAAEQLDIDQATVGRRLAALEKSLGARLFLRTPSGYVPTPA 60 +DWDN RIFL + R L AA++L ID +TV RR+ E+ +G++LF R GY T Sbjct: 2 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61 Query: 61 GELAGAAASQMEQGAEQLQRQMQGLDERLCGVVRLAATDLTARYFLMPALQHLRQEHPNI 120 G A Q+E ++ G + +L G VRL AT+ + L P + H +P+I Sbjct: 62 GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 121 Query: 121 KVVLSTSTQLTNLTKREADIAVRTVRPDAPDLIARHLKRLYTGIYAAKAYVKKRGLPEPG 180 V + + NL+K EADI+V RP + + + L +YA++ Y+ + Sbjct: 122 TVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTM 181 Query: 181 TGLKGHDVVIYPRSVSPVKSEQISGESIT--HANVAMEVSTGLVMYDCLQAGVGIGELPT 238 L H + Y + V SE++ + A A ++ + Y AG + LP Sbjct: 182 DDLAQHHFIGYIDDL--VFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPC 239 Query: 239 HMGDKASGLVRIWPQR-ATPYDMWLVLHSDLNRTARVRAV 277 + ++ L + PQ+ A WLV S+ ARV A+ Sbjct: 240 FLAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSAL 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 0.320 0.134 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: 880,677 Number of extensions: 36432 Number of successful extensions: 275 Number of sequences better than 1.0e-08: 42 Number of HSP's gapped: 275 Number of HSP's successfully gapped: 42 Length of query: 290 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 206 Effective length of database: 1,222,130 Effective search space: 251758780 Effective search space used: 251758780 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)