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= 0001.4361.p (341 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312962|ref|YP_003777054.1| AraC family transcription regul... 110 2e-25 gi|300309734|ref|YP_003773826.1| transcription regulator protein... 88 1e-18 gi|300311835|ref|YP_003775927.1| AraC family ethanolamine operon... 82 6e-17 gi|300312820|ref|YP_003776912.1| AraC family transcription regul... 66 5e-12 gi|300312312|ref|YP_003776404.1| AraC family ethanolamine operon... 60 3e-10 >gi|300312962|ref|YP_003777054.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 340 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 88/325 (27%), Positives = 152/325 (46%), Gaps = 25/325 (7%) Query: 31 LFASSDLDEVRSMVGRVMKPHRLDLTGHGERLDARMHYTALGDLSVSRLRYGSAVQIEPG 90 +F SS + + V + H DL G+ +D + A+ L + L+YG+ V + P Sbjct: 18 VFQSSRKVDCHAQVANELSEH--DLFWKGDDVDTVLFKAAIQQLQIFMLKYGAEVIVRPR 75 Query: 91 ALDSFFLVQMPLFGMASIESGAQRIDSSVELASVLSPEETTRMTWMAGTDQLMLRLSRSL 150 + F LV M L G A IES +++ ++++P+ R+ W AG++QL+L++ +L Sbjct: 76 LFNGFALVHMTLSGSAEIESDGRKVCIPQGHTALIAPKRNLRLWWQAGSEQLILKVPLAL 135 Query: 151 VERTLVGYLGHPLNEPLRFELGFRWRDCAP-WQCMLSYLLDCT--------------IQH 195 E PL P L AP W ++ LL ++H Sbjct: 136 FEELRAAGQSAPLELPSVLLLP---PQAAPYWDLLIQSLLRVLALPEQGQGQGQGEWVRH 192 Query: 196 PDLAMHKIVVSQIEQLAASILVTSHRH---NHCQDTPARRSTILPRHVRRAQDYLEAHAH 252 + + + ++SQ+ + S + C D+ + + + + Y+ + Sbjct: 193 FERSAVQFLLSQLTSTVEPVTSPSGAQRGASQCADSLVGAGKL--QRLDMLERYIRSRLC 250 Query: 253 EPVSAEQLAQAAGVSVRSLYAGFKDFLGVSPMHYLRDLRMERARAELMSGDANHVAGVAL 312 P++ LA AAGVSVR+L A GV+PM LR++R++ R L++ +V A Sbjct: 251 APLALADLAGAAGVSVRTLNALCHQQYGVAPMDLLRNIRLDAVRERLLTHPGANVTDTAF 310 Query: 313 RWGFAHMGRFSNEYKQRYGESPSKT 337 +GF H+GRFS Y++R+GE P +T Sbjct: 311 EFGFGHLGRFSAYYRERFGELPKQT 335 >gi|300309734|ref|YP_003773826.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 46/140 (32%), Positives = 78/140 (55%), Gaps = 7/140 (5%) Query: 203 IVVSQIEQLAASILVTSHRHNHCQDTPARRSTILPRHVRRAQDYLEAHAHEPVSAEQLAQ 262 + ++ + Q A+ +++ + HNH R PR ++RA +++ A P++ +A Sbjct: 199 LAMANLLQAASYLILHNLPHNHSHALTRRPPAPAPRQIKRAVEFIMARLSAPITLADIAA 258 Query: 263 AAGVSVRSLYAGFKDFLGVSPMHYLRDLRMERARAELMS----GDANHVAGVALRWGFAH 318 A +SVRSL +GF+ + ++PM +LR R+ R R +L+ D H +AL WGF H Sbjct: 259 HAAISVRSLQSGFRRYKEMTPMEFLRTQRLGRVREDLLDPAVPADIQH---IALSWGFTH 315 Query: 319 MGRFSNEYKQRYGESPSKTL 338 + F YK+++GESP TL Sbjct: 316 LYLFMRYYKKQFGESPQATL 335 >gi|300311835|ref|YP_003775927.1| AraC family ethanolamine operon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 332 Score = 82.0 bits (201), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 43/106 (40%), Positives = 61/106 (57%), Gaps = 4/106 (3%) Query: 238 RHVRRAQDYLEAHAHEPVSAEQLAQAAGVSVRSLYAGFKDFLGVSPMHYLRDLRMERARA 297 R V A+++ AH PV+ L +A VS R+L F+D LG+SPM YLR LR+ R Sbjct: 222 RIVNDAREFAMAHQDSPVTVPMLCEAVHVSRRTLQYCFEDVLGMSPMSYLRSLRLNGVRR 281 Query: 298 ELMSGDANHVAG----VALRWGFAHMGRFSNEYKQRYGESPSKTLR 339 L GD G +A WGFA+ +FS +YK+ +G++PS L+ Sbjct: 282 ALCHGDGRQAVGSIGDIAAAWGFANFSQFSCDYKKLFGQTPSAMLQ 327 >gi|300312820|ref|YP_003776912.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 331 Score = 65.9 bits (159), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 49/149 (32%), Positives = 77/149 (51%), Gaps = 15/149 (10%) Query: 199 AMHKIVVSQIEQLAASILVTSHRHNHCQDT-PARRSTILPRHVRRAQDYLEAHAHEPVSA 257 A+ V+S + A L +H N + T P+R+ R V+ A DY+ AHA E + Sbjct: 182 ALASTVISNV----ALALSLNHGSNDLESTLPSRQRR--ERIVQNAIDYMRAHAGEEIGI 235 Query: 258 EQLAQAAGVSVRSLYAGFKDFLGVSPMHYLRDLRMERARAEL---MSGDANH-----VAG 309 + +A VS R+L F++ L +SP+ YL+ LR+ A E+ D H + Sbjct: 236 LDVCRATHVSRRTLQYCFEERLDISPLQYLKALRLNAAHREIKRRTGEDRAHDRHATIGN 295 Query: 310 VALRWGFAHMGRFSNEYKQRYGESPSKTL 338 +A GF H RF++EYK+ +G PS+T+ Sbjct: 296 LAALCGFNHPSRFASEYKKMFGVLPSETV 324 >gi|300312312|ref|YP_003776404.1| AraC family ethanolamine operon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 358 Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 36/113 (31%), Positives = 58/113 (51%), Gaps = 4/113 (3%) Query: 230 ARRSTILPRHVRRAQDYLEAHAHEPVSAEQLAQAAGVSVRSLYAGFKDFLGVSPMHYLRD 289 A R T R + +A+ + A E + Q+A GVS R L F +G+ + ++R Sbjct: 226 ALRETDHKRLIDQARRLMRGDAPERATMTQVAAHLGVSRRHLQTCFNTSVGIPAIEFVRA 285 Query: 290 LRMERARAELM----SGDANHVAGVALRWGFAHMGRFSNEYKQRYGESPSKTL 338 R+ + R L+ +G + +A WGF H+ RF+ +Y+ +GE PSKTL Sbjct: 286 ERLNQVRKALVEARRAGLEVSIGDIAADWGFWHLSRFAADYRDMFGELPSKTL 338 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 0.133 0.397 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: 1,045,986 Number of extensions: 41952 Number of successful extensions: 173 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 174 Number of HSP's successfully gapped: 9 Length of query: 341 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 255 Effective length of database: 1,212,660 Effective search space: 309228300 Effective search space used: 309228300 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 (22.0 bits) S2: 131 (55.1 bits)