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= 0022.0313.p (294 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314076|ref|YP_003778168.1| LysR family transcription regul... 516 e-147 gi|300310159|ref|YP_003774251.1| LysR family transcription regul... 100 1e-22 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 98 7e-22 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 91 1e-19 gi|300312111|ref|YP_003776203.1| LysR family transcription regul... 84 1e-17 >gi|300314076|ref|YP_003778168.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 516 bits (1328), Expect = e-147, Method: Compositional matrix adjust. Identities = 252/294 (85%), Positives = 273/294 (92%) Query: 1 MDLTQLRAFIAVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGIGLFNRSASGMVLTAE 60 MDLTQLRAFI+VAHEGNLTRAA+KLHLTQPAVSLQIK LQESLG+ LFNRSA+GMVLTAE Sbjct: 1 MDLTQLRAFISVAHEGNLTRAADKLHLTQPAVSLQIKGLQESLGLQLFNRSAAGMVLTAE 60 Query: 61 GNTLLPLAERVLSDVQALRRHATDLRSSENIVSGTLAIGTILDPEFIRLGAFLKLLVERH 120 GN LLPLAERVL+DVQ LRRHA D RSS +SG+LAIGTILDPEFIRLG FLKLLVERH Sbjct: 61 GNKLLPLAERVLADVQELRRHAADFRSSTGELSGSLAIGTILDPEFIRLGGFLKLLVERH 120 Query: 121 PQLSTQLAHHMSGSVLNEVRAGHLDVGFFLGDPGKGFHAMTLTSFSYNVIAPAGWKNRVS 180 PQLSTQLAHHMSGSVLNE+RAG LDVGFFLG PG+GF +M LTSF+Y VIAPAGWKNRVS Sbjct: 121 PQLSTQLAHHMSGSVLNEIRAGKLDVGFFLGAPGQGFQSMELTSFTYKVIAPAGWKNRVS 180 Query: 181 GKGWKELARLPWIWTPPESAHHRLLSKIFAQHQIKPQTVALVDQESSMLDLVKSGVGLSL 240 GKGWKEL+RLPWIWTPPESAHHRLLS+IFAQHQ+KP TVALVDQESSMLDLVKSGVGLSL Sbjct: 181 GKGWKELSRLPWIWTPPESAHHRLLSRIFAQHQVKPHTVALVDQESSMLDLVKSGVGLSL 240 Query: 241 ARESIALNQAHAHGLVIADAVELSTELSFIALEKRQHEAAIKAVFQLLQQVWQN 294 AR SIALNQAHAHGLVIADAVELST+LSFI LEK QH+ I+AVF+LLQ++WQ+ Sbjct: 241 ARASIALNQAHAHGLVIADAVELSTQLSFICLEKWQHDPVIQAVFRLLQEIWQS 294 >gi|300310159|ref|YP_003774251.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 88/285 (30%), Positives = 137/285 (48%), Gaps = 22/285 (7%) Query: 1 MDLTQLRAFIAVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGIGLFNRSASGMVLTAE 60 M+ LR F+ V G++ AA +LH+ QPA+S QIK L+E LG LF+RS G LTA Sbjct: 1 MEFRHLRYFLGVVEHGSVAEAARRLHIAQPALSRQIKYLEEELGAALFDRSVRGATLTAA 60 Query: 61 GNTLLPLAERVLSDVQALRRHATDLRSSENIVSGTLAIGTILDPEF---IRLGAFLKLLV 117 G L+ A R+L+D+Q R+ R +E + G L +G + P F R+ L+ Sbjct: 61 GQQLVIDARRMLADLQETRQRVA--RVAEGL-EGNLRMG--ITPNFGWHPRILGSLRHFH 115 Query: 118 ERHPQLSTQLAHHMSGSVLNEVRAGHLDVGF--FLGDPGKGFHAMTLTS---FSYNVIAP 172 + PQ++ L +S L +R+G LD GF + P F A F + Sbjct: 116 QAEPQIAVSLEPGLSARQLERIRSGDLDAGFLAWRYPPNDQFLAHEFGEIQVFECRLKLA 175 Query: 173 AGWKNRVSGKGWKELARL---PWIWTPPESA--HHRLLSKIFAQHQIKPQTVALVDQESS 227 ++++ + + LA L P IW P E A + + L+ + P+ L S Sbjct: 176 LPRDSQLARQVPRHLAALHDEPAIWFPAEVAPGYDQFLNYQCQMVNLVPRKAQLASDVLS 235 Query: 228 MLDLVKSGVGLSLARESIALNQAHAHGLVIADAVELSTE--LSFI 270 +L LV +GVG ++ + A G+V+ D EL+ +SF+ Sbjct: 236 ILGLVAAGVGYAIVSDVSAYTC--PEGVVLVDHPELTLRHPVSFV 278 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 98.2 bits (243), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 82/252 (32%), Positives = 124/252 (49%), Gaps = 11/252 (4%) Query: 1 MDLTQLRAFIAVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGIGLFNRSASGMVLTAE 60 M+L LR F+AVA + + TRAAEK+ + QP +S+QIKAL+E +G LF RS+ G+ L+ Sbjct: 1 MELRHLRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEV 60 Query: 61 GNTLLPLAERVLSDVQALRRHATDLRSSENIVSGTLAIGTILDPEFIRLGAF-LKLLVER 119 G LLP A+R + + R A S E +G L +G F L + L+ ER Sbjct: 61 GRVLLPHAQRAVDQAEQALRAARQAASGE---TGLLRMGFTSSAVFHPLVSHALQQFRER 117 Query: 120 HPQLSTQLAHHMSGSVLNEVRAGHLDVGF--FLGDPGKGFHAMTLTSFSYNVIAPAGWK- 176 H +L L+ ++ +L ++ A LD F + P + L + V P Sbjct: 118 HRKLEISLSEGITEQLLADIAASQLDAAFVRIVTTPSAALGVVELPAEKLKVALPRSHPL 177 Query: 177 NRVSGKGWKELARLPWIWTPPESAHHRLLSKIFAQHQ---IKPQTVALVDQESSMLDLVK 233 R ++LA +I P L IF+ Q PQ + L Q +S ++LV Sbjct: 178 ARRKSLRLQDLASENFIMV-PRGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVA 236 Query: 234 SGVGLSLARESI 245 SG+G+S+ E+I Sbjct: 237 SGLGISIVPEAI 248 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 90.5 bits (223), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 118/249 (47%), Gaps = 13/249 (5%) Query: 1 MDLTQLRAFIAVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGIGLFNRSASGMVLTAE 60 MD+ LR F + +RAA+ LH+TQ VS ++ L+E + L R + LT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 61 GNTLLPLAERVLSDVQALRRHATDLRSSENIVSGTLAIGTILDPEFIRL--GAFLKLLVE 118 G + +++L+ +Q R HA ++R ++ + SG L IG P I + LK E Sbjct: 61 GRVVYEQGQQILAAMQ--RLHA-EVRDTKALRSGRLEIGI---PPMINILCTPVLKAFRE 114 Query: 119 RHPQLSTQLAHHMSGSVLNEVRAGHLDVGFFL--GDPGKGFHAMTLTSFSYNVIAPAG-- 174 RHP ++ L + V G L++G + DP G + + S+ +A AG Sbjct: 115 RHPDIAVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSF 174 Query: 175 WKNRVSGKGWKELARLPWIWTPPESAHHRLLSKIFAQHQIKPQTVALVDQESSMLDLVKS 234 KNR S + +L +P + E R L +F +H IKP+ VA Q ++ + + Sbjct: 175 QKNRASLRC-AQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALA 233 Query: 235 GVGLSLARE 243 G+G +L E Sbjct: 234 GMGTALLPE 242 >gi|300312111|ref|YP_003776203.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 135/277 (48%), Gaps = 30/277 (10%) Query: 1 MDLTQLRAFIAVAHEGNLTRAAEKLHLTQPAVSLQIKALQESLGIGLFNRSASGMVLTAE 60 DLT LR FI +A +LTR+AE+++L+ A S +IK L+ G L R + G+ LT Sbjct: 3 FDLTDLRLFILIAEHNSLTRSAERMNLSLGATSNRIKELETRFGTRLLYRESKGVQLTPA 62 Query: 61 GNTLLPLAERVLSDVQALRRHATDLRSSENIVSGTLAI--GTILDPEFIR--LGAFLKLL 116 G+TLL A++ + V+ L+ +D++ N + G + I T EF+ LG FL Sbjct: 63 GHTLLHHAQQFMQQVEHLK---SDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLA-- 117 Query: 117 VERHPQLSTQLAHHMSGSVLNEVRAGHLDVGFFLGDPGKGFHAMTLTSFSYNVIAPAGWK 176 RHPQ++ L ++ +L ++ G D+G G P +G + + +FS + + A Sbjct: 118 --RHPQVNVALEERLNHDILRGIQEGTADIGIVAG-PVQG-EGLQILNFSTDRLVLATAL 173 Query: 177 NRVSGKGWKELARLPWIWTPPESAH---------HRLLSKIFAQHQIKPQTVALVDQESS 227 + LP+I T E H H LSKI A++ + + V + Sbjct: 174 E----HPLADAPSLPFIQT-LEYEHIGLHEGSTLHHFLSKIVAENGQRLKLRIQVRSFEA 228 Query: 228 MLDLVKSGVGLSLARESIALNQAHAHGLVIADAVELS 264 M ++++ VG+ + S A Q H + ++ VELS Sbjct: 229 MCRMIETNVGIGILPRSAA--QRHQQTMQLS-VVELS 262 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 0.133 0.382 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: 901,537 Number of extensions: 37115 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 53 Number of HSP's gapped: 229 Number of HSP's successfully gapped: 53 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 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)