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= 0027.0016.p (300 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313602|ref|YP_003777694.1| LysR family transcription regul... 539 e-154 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 93 3e-20 gi|300311935|ref|YP_003776027.1| LysR family transcription regul... 85 6e-18 gi|300313396|ref|YP_003777488.1| LysR family transcription regul... 83 2e-17 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 82 4e-17 >gi|300313602|ref|YP_003777694.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 539 bits (1388), Expect = e-154, Method: Compositional matrix adjust. Identities = 273/299 (91%), Positives = 288/299 (96%) Query: 1 MRITLRQLQIFLAVAQSGSTTAAAGLVALSQSAASAALNELESLLGVQLFDRVGKRLVLN 60 M+ITLRQLQIFLAVAQSGSTTAAA LVALSQSAASAALNELE LLGVQLFDRVGKRLVLN Sbjct: 1 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN 60 Query: 61 DSGRQLLPQARHMLDAAQTIERQFSDPAAGSDLHLGASTTIGSYLLPAMIAAYRRSHAGA 120 DSGRQLLPQARHMLDAAQTIERQFSDP AGS+LH+GASTTIGSY+LPAMIAAYR+ HAGA Sbjct: 61 DSGRQLLPQARHMLDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHAGA 120 Query: 121 RVRALVANTADIVEAVVNFEVDAGLIEGPCHADDVQVEPWMTDELIVVAAPKHPIVRARR 180 RVRALVANTADIV+AVVNFEVDAGLIEGPCHADDV+VEPWM DELIVVAAP+HP+V++ R Sbjct: 121 RVRALVANTADIVDAVVNFEVDAGLIEGPCHADDVEVEPWMMDELIVVAAPRHPLVKSGR 180 Query: 181 KITLKMLREADWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLGISC 240 KITLK LREA+WLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLGISC Sbjct: 181 KITLKRLREAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLGISC 240 Query: 241 LSRSVVEDLIESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSLSALLSFCRDWAKRQAP 299 LSR+VVED+IESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSL ALL FCR WA+RQ P Sbjct: 241 LSRAVVEDMIESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSLGALLGFCRAWAQRQQP 299 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 92.8 bits (229), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 84/302 (27%), Positives = 146/302 (48%), Gaps = 20/302 (6%) Query: 1 MRITLRQLQIFLAVAQSGSTTAAAGLVALSQSAASAALNELESLLGVQLFDRVGKRLVLN 60 M+I + +Q F+A+A GS AAG + ++Q+A + L +LE LGV L +R + + L Sbjct: 1 MKIDILGVQAFVAIADHGSFQGAAGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSIALT 60 Query: 61 DSGRQLLPQARHMLD--AAQTIERQFSDPAAGSDLHLGASTTIGSYLLPAMIAAYRRSHA 118 + GR LPQAR +L A +E + + A D+ + T+G LP ++ AY + Sbjct: 61 EIGRDFLPQARRLLAELAGALVEIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYP 120 Query: 119 GARVRALVANTADIVEAVVNFEVDAGL-IEGPCHADDVQVEPWMTDELIVVAAPK-HPIV 176 R++ L ++ + EAV+ EV+ G+ I G H + + V +T++ V+ PK HP+ Sbjct: 121 HNRIKILDHASSAVAEAVLRREVEFGIHIAGEHHPELISVA--LTEDRYVLICPKDHPLA 178 Query: 177 RARRKITLKMLREADWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGL 236 R RR+I + L+ + S R ++ L L S +E S +TA GL Sbjct: 179 R-RRRIAWRQLQSYPLIFAGEVSSNRALLDPTLKANGFALRSFYEVQRS-----STAVGL 232 Query: 237 GISCLSR------SVVEDLIESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSLSALLSFC 290 + ++ E + +++EL P+ + R ++ + SP+ AL Sbjct: 233 VAQGVGVAVVPKLAIQEGAYPTVRVIELVDPV--VSRSLVLITRKAAHLSPAAQALYDMI 290 Query: 291 RD 292 R+ Sbjct: 291 RE 292 >gi|300311935|ref|YP_003776027.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 286 Score = 85.1 bits (209), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 123/246 (50%), Gaps = 14/246 (5%) Query: 3 ITLRQLQIFLAVAQSGSTTAAAGLVALSQSAASAALNELESLLGVQLFDRVGKRLVLNDS 62 +T QL+ FLAVA+ +AAA + +SQ + + LE V+LF R G+R+ L+++ Sbjct: 1 MTPSQLRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSET 60 Query: 63 GRQLLPQARHM----LDAAQTIERQFSDPAAGSDLHLGASTTIGSYLLPAMIAAYRRSHA 118 ++LLP A+++ LDA + S L +GA +G + + M+ AYR + Sbjct: 61 AQRLLPIAQNIAELELDALNLLVN--SGALHVGHLRIGA---VGPFHVIEMVDAYRARYP 115 Query: 119 GARVRALVANTADIVEAVVNFEVDAGLIEGPCHADDVQVE--PWMTDELIVVAAPKHPIV 176 + + N+A + + N+ D ++ DD + P+ +++ A HP Sbjct: 116 RVELSIRLGNSAQTLADLENYVTDVAVL--ASFTDDARFHALPYADHAVVLFAHRSHPFY 173 Query: 177 RARRKITLKMLREADWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGL 236 + R +TL L + L+RE GS TR A+E AL + E G+ EA++ A A GL Sbjct: 174 Q-RDSVTLAELDQQPMLMREQGSTTRLALEKALQQAGVKVQVVMEIGSREALREAVARGL 232 Query: 237 GISCLS 242 G+ +S Sbjct: 233 GLGAVS 238 >gi|300313396|ref|YP_003777488.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 83.2 bits (204), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 49/147 (33%), Positives = 82/147 (55%), Gaps = 1/147 (0%) Query: 1 MRITLRQLQIFLAVAQSGSTTAAAGLVALSQSAASAALNELESLLGVQLFDRVGKRLVLN 60 M ITLRQ++ F+A A+ G + AA + +SQS+ ++A+ ELE+LLG LF R + ++L Sbjct: 1 MAITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILT 60 Query: 61 DSGRQLLPQARHMLDAA-QTIERQFSDPAAGSDLHLGASTTIGSYLLPAMIAAYRRSHAG 119 DSGR L A +L + ++ D A L + AS T+ Y LP + +S+ G Sbjct: 61 DSGRHFLNHAYSILRSVDDAMKSPLPDNTASGSLRVAASYTVLGYFLPHHLQRLSQSYPG 120 Query: 120 ARVRALVANTADIVEAVVNFEVDAGLI 146 ++ A+I +++V E+D ++ Sbjct: 121 IKIHVHEKERAEIEQSLVEGEIDMAVV 147 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 82.4 bits (202), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 112/249 (44%), Gaps = 13/249 (5%) Query: 3 ITLRQLQIFLAVAQSGSTTAAAGLVALSQSAASAALNELESLLGVQLFDRVGKRLVLNDS 62 + L +L+IF V G T AA + QS + + +LE +GV LF R +R+VL + Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 63 GRQLLPQARHMLDAAQTIERQFSDPAAGSDLHLGASTTIGSYLLPAMIAAYRRSHAGARV 122 G LL A +LD AQ + + + L +G+ + + LP +A + + R+ Sbjct: 70 GEALLDYAERILDLAQEARQAVAPQSPRGRLRIGSMESAAASRLPGPLAEFHQRWPEVRL 129 Query: 123 RALVANTADIVEAVVNFEVDAGLIEGPCHADDVQVEPWMTDELIVVAAPKHPIVRARRKI 182 A T ++ V ++DA L+ GP P +EL++V H VRA ++ Sbjct: 130 ELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFREELLLVTPRSHRRVRAPEEV 189 Query: 183 TLKMLREADWLLREAGSGTREAVEHALIPYLHH-----LPSSFEFGNSEAIKRATAEGLG 237 L L ++ E G R HA + H LP + E + AI + G G Sbjct: 190 MLDTL-----IVFEQGCAYR---RHAEAWFAGHGAGRQLPRTLELASYHAILACVSAGAG 241 Query: 238 ISCLSRSVV 246 ++ + RSV+ Sbjct: 242 VAVVPRSVI 250 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 0.133 0.380 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: 810,838 Number of extensions: 32296 Number of successful extensions: 206 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 180 Number of HSP's successfully gapped: 44 Length of query: 300 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 215 Effective length of database: 1,217,395 Effective search space: 261739925 Effective search space used: 261739925 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)