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= 0238.0006.p (210 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309777|ref|YP_003773869.1| transcription regulator protein... 251 3e-68 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 74 1e-14 gi|300313769|ref|YP_003777861.1| transcription regulator protein... 71 6e-14 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 65 4e-12 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 60 1e-10 >gi|300309777|ref|YP_003773869.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 291 Score = 251 bits (641), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 120/201 (59%), Positives = 151/201 (75%), Gaps = 10/201 (4%) Query: 7 FSQLALGRIAARFLASYPEVQIEAVAEDRLVNLVDEHFDVAIRINPDKDSALVGRCFAKD 66 FSQLALGR+AA F A+YP+V+++ VAEDRLV+LV EHFD+ IRINP D LVGRCFA+D Sbjct: 101 FSQLALGRLAASFHAAYPQVEVDVVAEDRLVDLVQEHFDLCIRINPSDDGNLVGRCFARD 160 Query: 67 RLVLAAAPSVQMPKGNRGKPFSVPAVVTPSYRDGDIWSVRNGQFTIEPRPVLYLSSLLMV 126 L L AAP++ MP+ GK VPAVV P++RD D+WS+R G+ I P+PVL LSSL+MV Sbjct: 161 SLALVAAPTLPMPRARAGKSHPVPAVVMPTFRDSDLWSLREGKLLIAPQPVLRLSSLMMV 220 Query: 127 RDAIVDGAGAAMLPQSIIGGLLEKGELVGGGGGGGGGGVWRRPGDEVELWVLHTSRRLQS 186 +DA+ GAGAA+LP S+ L+E G+L +W + G EVELWVLHTSRRLQS Sbjct: 221 KDAVCAGAGAALLPWSLASALVEAGQL----------KLWGKLGGEVELWVLHTSRRLQS 270 Query: 187 PKVRAFVEFICGQYPNGSFTI 207 PKVRAFV+F+C QYP+G F + Sbjct: 271 PKVRAFVDFMCRQYPDGRFVV 291 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 73.9 bits (180), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 53/189 (28%), Positives = 91/189 (48%), Gaps = 13/189 (6%) Query: 18 RFLASYPEVQIEAVAEDRLVNLVDEHFDVAIRINPDKDSALVGRCFAKDRLVLAAAPSVQ 77 +F +P + + DR ++L++E FD+AIRI+ DS +V R A R++ AAP Sbjct: 113 KFTEQHPLITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFL 172 Query: 78 MPKGNRGKPFSVP--AVVTPSYRD-GDIWSVRN---GQFTIEPRPVLYLSSLLMVRDAIV 131 G G P + ++ SYR GD WS R+ + R +Y+++ R + Sbjct: 173 ARHGTPGTPAELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAI 232 Query: 132 DGAGAAMLPQSIIGGLLEKGELVGGGGGGGGGGVWRRPGDEVELWVLHTSRRLQSPKVRA 191 G G A+ P I+ ++ G+LV G W G+++ + L+ +R PKV+ Sbjct: 233 AGQGIAIQPDFIVNAAIQAGQLVELFEG------W-STGEQLVVHTLYPTRTHLPPKVQR 285 Query: 192 FVEFICGQY 200 +F+ Q+ Sbjct: 286 MRDFLIEQF 294 >gi|300313769|ref|YP_003777861.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 71.2 bits (173), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 60/201 (29%), Positives = 97/201 (48%), Gaps = 30/201 (14%) Query: 12 LGRIAARFLASYPEVQIEAVAEDRLVNLVDEHFDVAIRINPD-KDSALVGRCFAKDRLVL 70 L + ARFL ++P+V++E +R V+++ E FDVA+R+ +DS+LV R F + VL Sbjct: 107 LAPLLARFLCAHPDVRLELELSNRRVDVIGEGFDVAMRVRSTLEDSSLVVRTFGTSQQVL 166 Query: 71 AAAP----------SVQMPKGNRGKPFSVPAVVTPSYR----DGDIWSVRNGQFTIEPRP 116 AA+P +VQ +G RG +R DG++ I+ P Sbjct: 167 AASPAYVRAHGPFDTVQSLQGQRGLGPGGLPGQAQRWRLQGPDGEVAE-------IDYAP 219 Query: 117 VLYLSSLLMVRDAIVDGAGAAMLPQSIIGGLLEKGELVGGGGGGGGGGVWRRPGDEVELW 176 + + +V + G G A+LP ++ G + +GELV + + G +L Sbjct: 220 AMVTDDMQLVMQTAIGGVGLALLPFNVAHGAIARGELV--------VVLPQYRGAPHQLH 271 Query: 177 VLHTSRRLQSPKVRAFVEFIC 197 + SRR P VRAF+EF+ Sbjct: 272 AVFPSRRGLVPAVRAFIEFLA 292 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 65.1 bits (157), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 58/204 (28%), Positives = 90/204 (44%), Gaps = 23/204 (11%) Query: 7 FSQLALGRIAARFLASYPEVQIEAVAEDRLVNLVDEHFDVAIRINPDKDSALVGRCFAKD 66 F L L + FL +PE+ ++ DR+V+++DE +D+AIRI DS LV R Sbjct: 102 FGVLHLAPLWPMFLERHPEISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTST 161 Query: 67 RLVLAAAPSVQMPKGNRGKPFSVPAVVTPSY---RDGDIWSVRNGQFTIEPRPV-LYLSS 122 L + A+P+ G P + T SY + D W QF PV + +SS Sbjct: 162 SLHVCASPAYLDAHGTPAHPHELAQHQTISYSYNQSKDEW-----QFNGPEGPVSVRVSS 216 Query: 123 LLMVRD------AIVDGAGAAMLPQSIIGGLLEKGELVGGGGGGGGGGVWRRPGDEVELW 176 L V + A + G G P +I L G+LV G G E+ ++ Sbjct: 217 RLHVNNGDSCVQAALGGIGITRQPTFMIDQYLRSGQLVSILGDYG--------APELGIY 268 Query: 177 VLHTSRRLQSPKVRAFVEFICGQY 200 ++ SR K+RA ++F+ + Sbjct: 269 AVYPSRAHLPAKMRAMLDFLTEAF 292 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 60.5 bits (145), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 51/202 (25%), Positives = 95/202 (47%), Gaps = 14/202 (6%) Query: 7 FSQLALGRIAARFLASYPEVQIEAVAEDRLVNLVDEHFDVAIRINPDK-DSALVGRCFAK 65 F Q LG + + + +YPEV ++ +R ++LV+E D+ + K D++++ R Sbjct: 102 FGQSQLGEMLSAYSQAYPEVALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGV 161 Query: 66 DRLVLAAAPSVQMPKGNRGKPFSVPAVVTPSYRDGDI---WSVRN--GQFTIEPRPVLYL 120 R++L +P+ +G +P + ++ + W V G + + Sbjct: 162 ARVILCTSPAYIARQGAPEQPEDLSRHNCLNFSHEYLRHHWHVNTNGGVLDVPIVSKVVS 221 Query: 121 SSLLMVRDAIVDGAGAAMLPQSIIGGLLEKGELVGGGGGGGGGGVWRRPGDEVELWVLHT 180 +S +++RD + G G + P +G L G LV G G +V + +++ Sbjct: 222 NSGVLLRDLALAGMGIVLRPSYSLGDDLRSGRLVQVLPGFDMG--------QVIMSMVYP 273 Query: 181 SRRLQSPKVRAFVEFICGQYPN 202 SRRL S KVR+F EFI ++P+ Sbjct: 274 SRRLLSAKVRSFAEFISARFPH 295 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 0.141 0.425 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: 619,764 Number of extensions: 24709 Number of successful extensions: 121 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 118 Number of HSP's successfully gapped: 7 Length of query: 210 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 129 Effective length of database: 1,236,335 Effective search space: 159487215 Effective search space used: 159487215 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: 128 (53.9 bits)