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= 0022.0003.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... 607 e-175 gi|300311935|ref|YP_003776027.1| LysR family transcription regul... 86 3e-18 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 84 1e-17 gi|300311724|ref|YP_003775816.1| LysR family transcription regul... 83 3e-17 gi|300313396|ref|YP_003777488.1| LysR family transcription regul... 80 1e-16 >gi|300313602|ref|YP_003777694.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 607 bits (1565), Expect = e-175, Method: Compositional matrix adjust. Identities = 299/300 (99%), Positives = 299/300 (99%) Query: 1 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN 60 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN Sbjct: 1 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN 60 Query: 61 DSGRQLLPQARHMLDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHAGA 120 DSGRQLLPQARHMLDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHAGA Sbjct: 61 DSGRQLLPQARHMLDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHAGA 120 Query: 121 RVRALVANTADIVDAVVNFEVDAGLIEGPCHADDVEVEPWMMDELIVVAAPRHPLVKSGR 180 RVRALVANTADIVDAVVNFEVDAGLIEGPCHADDVEVEPWMMDELIVVAAPRHPLVKSGR Sbjct: 121 RVRALVANTADIVDAVVNFEVDAGLIEGPCHADDVEVEPWMMDELIVVAAPRHPLVKSGR 180 Query: 181 KITLKRLHEAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLGISC 240 KITLKRL EAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLGISC Sbjct: 181 KITLKRLREAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLGISC 240 Query: 241 LSRAVVEDMIESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSLGALLGFCRAWAQRQQPG 300 LSRAVVEDMIESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSLGALLGFCRAWAQRQQPG Sbjct: 241 LSRAVVEDMIESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSLGALLGFCRAWAQRQQPG 300 >gi|300311935|ref|YP_003776027.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 286 Score = 86.3 bits (212), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 120/246 (48%), Gaps = 10/246 (4%) Query: 3 ITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLNDS 62 +T QL+ FLAVA+ +AAA + +SQ + + LE V+LF R G+R+ L+++ Sbjct: 1 MTPSQLRAFLAVARHRGFSAAARALGVSQPTLTTQVQSLEREHNVELFFRRGRRVDLSET 60 Query: 63 GRQLLPQARHM----LDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHA 118 ++LLP A+++ LDA + S L IGA +G + + M+ AYR + Sbjct: 61 AQRLLPIAQNIAELELDALNLLVN--SGALHVGHLRIGA---VGPFHVIEMVDAYRARYP 115 Query: 119 GARVRALVANTADIVDAVVNFEVDAGLIEGPCHADDVEVEPWMMDELIVVAAPRHPLVKS 178 + + N+A + + N+ D ++ P+ +++ A HP + Sbjct: 116 RVELSIRLGNSAQTLADLENYVTDVAVLASFTDDARFHALPYADHAVVLFAHRSHPFYQR 175 Query: 179 GRKITLKRLHEAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLGI 238 +TL L + L+RE GS TR A+E AL + E G+ EA++ A A GLG+ Sbjct: 176 D-SVTLAELDQQPMLMREQGSTTRLALEKALQQAGVKVQVVMEIGSREALREAVARGLGL 234 Query: 239 SCLSRA 244 +S A Sbjct: 235 GAVSEA 240 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 84.0 bits (206), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 68/256 (26%), Positives = 116/256 (45%), Gaps = 13/256 (5%) Query: 1 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN 60 + + L +L+IF V G T AA+ + QS + + +LE +GV LF R +R+VL Sbjct: 8 IDMELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLT 67 Query: 61 DSGRQLLPQARHMLDAAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHAGA 120 +G LL A +LD AQ + + L IG+ + + LP +A + + Sbjct: 68 AAGEALLDYAERILDLAQEARQAVAPQSPRGRLRIGSMESAAASRLPGPLAEFHQRWPEV 127 Query: 121 RVRALVANTADIVDAVVNFEVDAGLIEGPCHADDVEVEPWMMDELIVVAAPRHPLVKSGR 180 R+ A T ++ V ++DA L+ GP + P +EL++V H V++ Sbjct: 128 RLELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFREELLLVTPRSHRRVRAPE 187 Query: 181 KITLKRLHEAEWLLREAGSGTREAVEHALIPYLHH-----LPSSFEFGNSEAIKRATAEG 235 ++ L L ++ E G R HA + H LP + E + AI + G Sbjct: 188 EVMLDTL-----IVFEQGCAYR---RHAEAWFAGHGAGRQLPRTLELASYHAILACVSAG 239 Query: 236 LGISCLSRAVVEDMIE 251 G++ + R+V+ +E Sbjct: 240 AGVAVVPRSVIAMQME 255 >gi|300311724|ref|YP_003775816.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 297 Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 79/300 (26%), Positives = 138/300 (46%), Gaps = 18/300 (6%) Query: 1 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN 60 MKI + +Q F+A+A GS AA + ++Q+A + L +LE LGV L +R + + L Sbjct: 1 MKIDILGVQAFVAIADHGSFQGAAGALHVTQTAVTLRLRKLEDFLGVTLIERTTRSIALT 60 Query: 61 DSGRQLLPQARHMLD--AAQTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHA 118 + GR LPQAR +L A +E + + ++ I T+G LP ++ AY + Sbjct: 61 EIGRDFLPQARRLLAELAGALVEIRETGIARRGDVSIACVPTVGVQYLPRILQAYSARYP 120 Query: 119 GARVRALVANTADIVDAVVNFEVDAGL-IEGPCHADDVEVEPWMMDELIVVAAPRHPLVK 177 R++ L ++ + +AV+ EV+ G+ I G H + + V D +++ HPL + Sbjct: 121 HNRIKILDHASSAVAEAVLRREVEFGIHIAGEHHPELISVA-LTEDRYVLICPKDHPLAR 179 Query: 178 SGRKITLKRLHEAEWLLREAGSGTREAVEHALIPYLHHLPSSFEFGNSEAIKRATAEGLG 237 R+I ++L + S R ++ L L S +E S +TA GL Sbjct: 180 R-RRIAWRQLQSYPLIFAGEVSSNRALLDPTLKANGFALRSFYEVQRS-----STAVGLV 233 Query: 238 ISCLSR------AVVEDMIESRKLVELDTPLPTLRRHFYMVVSRHRAPSPSLGALLGFCR 291 + A+ E + +++EL P+ + R ++ + SP+ AL R Sbjct: 234 AQGVGVAVVPKLAIQEGAYPTVRVIELVDPV--VSRSLVLITRKAAHLSPAAQALYDMIR 291 >gi|300313396|ref|YP_003777488.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 80.5 bits (197), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 48/147 (32%), Positives = 79/147 (53%), Gaps = 1/147 (0%) Query: 1 MKITLRQLQIFLAVAQSGSTTAAADLVALSQSAASAALNELEHLLGVQLFDRVGKRLVLN 60 M ITLRQ++ F+A A+ G + AA + +SQS+ ++A+ ELE LLG LF R + ++L Sbjct: 1 MAITLRQIRYFVATAEVGQISQAAIHLHISQSSVTSAIQELEALLGAPLFIRSPQGMILT 60 Query: 61 DSGRQLLPQARHMLDAA-QTIERQFSDPEAGSELHIGASTTIGSYMLPAMIAAYRKDHAG 119 DSGR L A +L + ++ D A L + AS T+ Y LP + + + G Sbjct: 61 DSGRHFLNHAYSILRSVDDAMKSPLPDNTASGSLRVAASYTVLGYFLPHHLQRLSQSYPG 120 Query: 120 ARVRALVANTADIVDAVVNFEVDAGLI 146 ++ A+I ++V E+D ++ Sbjct: 121 IKIHVHEKERAEIEQSLVEGEIDMAVV 147 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 0.385 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: 921,506 Number of extensions: 38983 Number of successful extensions: 229 Number of sequences better than 1.0e-08: 49 Number of HSP's gapped: 211 Number of HSP's successfully gapped: 49 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 (21.8 bits) S2: 130 (54.7 bits)