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= 0002.0016.p (315 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... 635 0.0 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 114 1e-26 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 111 8e-26 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 107 1e-24 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 106 2e-24 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 635 bits (1638), Expect = 0.0, Method: Compositional matrix adjust. Identities = 305/305 (100%), Positives = 305/305 (100%) Query: 11 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA 70 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA Sbjct: 1 MLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTA 60 Query: 71 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH 130 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH Sbjct: 61 DGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPH 120 Query: 131 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHT 190 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHT Sbjct: 121 ITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHT 180 Query: 191 MDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCF 250 MDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCF Sbjct: 181 MDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCF 240 Query: 251 LAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVELNRDFLMGQSRR 310 LAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVELNRDFLMGQSRR Sbjct: 241 LAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVELNRDFLMGQSRR 300 Query: 311 MRWLE 315 MRWLE Sbjct: 301 MRWLE 305 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 114 bits (285), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 75/285 (26%), Positives = 131/285 (45%), Gaps = 8/285 (2%) Query: 13 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 72 DW++LR F + AA+ LG+ H+T+ RR+++ E+ + + LF R +LT G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 73 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 132 ++ A ++ L G + ++ G++RL T+ GT LAP + + P + Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 133 VDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTMD 192 +++ + ++L++ EAD+++ RP G + +L L + D +A Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAW-----RH 178 Query: 193 DLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFLA 252 IGY D + E R+ A RS S+VAQ AA AG LA+LP +L Sbjct: 179 QRGSAPVIGYDDSVPDIPETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLPSYLL 238 Query: 253 QQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECV 297 + PQ + R W V + + + R+ A+ +L+ C Sbjct: 239 APELQTVESTPQ---LVRELWAVFHRDLKALPRLRAVLEWLQACC 280 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 111 bits (277), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 80/293 (27%), Positives = 143/293 (48%), Gaps = 10/293 (3%) Query: 6 NYGDHMLDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHG 65 N + L WD++R FL L+R L +A+ L ++HSTV+R + E+ + +LFDR G Sbjct: 17 NTPMNTLQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARG 76 Query: 66 YKLTADGYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFC 125 + LT +G L + AEQ+E +++ N+ LSG+VR+ A + L P + F Sbjct: 77 WVLTTEGAELSKQAEQLEVEMHSLWRA-ALANTTLSGKVRVSAPPILMSDFLVPRLPAFQ 135 Query: 126 ARNPHITVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQH 185 + P I ++++ R V+L++ EADI++ + P+S V L + +Y +L + Sbjct: 136 EKYPDIELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWL-ER 194 Query: 186 PPIHTMDDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALA 245 P ++ FIG +D + + ++ A R+ + A AA +G LA Sbjct: 195 PE-------SERSFIG-LDQESPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLA 246 Query: 246 ILPCFLAQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVE 298 +LP F+ + L + + +LV S+ R R+ A +L + ++ Sbjct: 247 LLPRFMVAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLIDLIQ 299 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 107 bits (267), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 80/290 (27%), Positives = 133/290 (45%), Gaps = 8/290 (2%) Query: 13 DWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTADG 72 +W+ R FL++ + L A +++G+ TV R ++ E +G +LF R+ G+ T Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 73 YRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHIT 132 L YA + + A ++ G VRL A+E VL P +A R+P + Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 133 VDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTMD 192 V+++ + +L + EADI+V + RP V +L L L+A + YL H ++D Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 193 DLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFLA 252 LA H IG+ + + + + A A R+ S +AQ A AG + I LA Sbjct: 187 ALADHTLIGFDQESAYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGICQVALA 246 Query: 253 QQSEELAPVLPQQIAITRSFWLVASSEQRHVAR--------VSALWSYLR 294 + L +LP+Q A+ W+ + R R V+ L +Y+R Sbjct: 247 ARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVTFAALVAGLGAYIR 296 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 106 bits (265), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 83/278 (29%), Positives = 127/278 (45%), Gaps = 1/278 (0%) Query: 12 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 71 +DWDN RIFL + R L AA+ L +D +TV RR+ E +G++LF R +GY T Sbjct: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 Query: 72 GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 131 G A+Q+E ++ G + +L G VRL AT+ L P + +PHI Sbjct: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 Query: 132 TVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTM 191 V + + NL+K EADI+V RP + + + L +YASR Y+ + Sbjct: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 Query: 192 DDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFL 251 L H + Y + ++ + +A A ++ + Y AG L LP + Sbjct: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 Query: 252 AQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSAL 289 ++ L V PQ+ 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 0.322 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: 968,081 Number of extensions: 37300 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 41 Length of query: 315 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 230 Effective length of database: 1,217,395 Effective search space: 280000850 Effective search space used: 280000850 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)