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= 0225.0022.p (315 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312695|ref|YP_003776787.1| AraC family transcription regul... 310 1e-85 gi|300310394|ref|YP_003774486.1| AraC family transcription regul... 282 2e-77 gi|300309661|ref|YP_003773753.1| AraC family transcription regul... 59 6e-10 >gi|300312695|ref|YP_003776787.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 310 bits (793), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 149/291 (51%), Positives = 198/291 (68%) Query: 22 PDLELVDVRRNESFTIWSHGYPYRTVRWHFHPEYEIQFITATSGKYFVGDFIGQFEPGNL 81 PDLELV R+++SF W H YP+ +WHFHPEYE+ ITA+SGK+FVGDFIG F PGNL Sbjct: 3 PDLELVHTRQDQSFRAWVHDYPHTVAKWHFHPEYEVHVITASSGKFFVGDFIGDFGPGNL 62 Query: 82 VLLGPNLPHNWVSDVAPGEQVPERGLIIQFPSEFINNGIHAFAELHELEDLLLDAQAGLV 141 VL GPNLPHNWVS++ +QVP R L++QF F + A EL L+++L A GL Sbjct: 63 VLTGPNLPHNWVSNLGAHQQVPARDLVLQFSRPFAERVVGAIPELSPLQEMLDGAARGLQ 122 Query: 142 FTAATGAAAESIMRQLLTAQGCKRIQLFLALFDLMIADAGRMPLASPGYVPDALAYMSSR 201 F A GA+ +M++L A G +R+ L +++ + + + R PLA PGY +A +MSS Sbjct: 123 FPDALGASITPLMQELAQASGARRVVLMMSVLERLASCPERKPLAGPGYDLNAQRHMSST 182 Query: 202 LNHVLRFIAENLDTDLRESVLAELAQQSTSAFSRSFRKHTGMSCIQYINQLRINGACELL 261 LN VL I +NL +LRE+ LAELA S S+F+R F++HTG + IQY N LR+N ACELL Sbjct: 183 LNQVLSCIRQNLGGNLRETDLAELAGMSVSSFTRFFKRHTGCTFIQYQNGLRLNEACELL 242 Query: 262 MQGDLGITDICFRVGFNNVSNFNRHFLIQKGVSPSAFRKYQEINMASRNLA 312 M +L +T++C+RVGFNN+SNFNR FL KG+ PS FR +N R +A Sbjct: 243 MCTELSVTEVCYRVGFNNLSNFNRQFLASKGMPPSRFRSLHRLNDDVRAVA 293 >gi|300310394|ref|YP_003774486.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 282 bits (722), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 134/279 (48%), Positives = 184/279 (65%), Gaps = 1/279 (0%) Query: 22 PDLELVDVRRNESFTIWSHGYPYRTVRWHFHPEYEIQFITATSGKYFVGDFIGQFEPGNL 81 PDLELV +R+ ESF W HGYP+RTVRWH+HPEYEI + ATSG+++VGD IG F PG L Sbjct: 3 PDLELVHIRKGESFAAWMHGYPFRTVRWHYHPEYEIHLVVATSGRFYVGDHIGDFAPGQL 62 Query: 82 VLLGPNLPHNWVSDVAPGEQVPERGLIIQFPSEFINNGIHAFAELHELEDLLLDAQAGLV 141 V+ GPNLP NW+SD+A E VP R L+IQFP + ++ + AE+ + LL + GL+ Sbjct: 63 VMTGPNLPQNWISDIAADEMVPVRSLVIQFPEQLVDQCAASIAEMEAIMPLLERSHRGLL 122 Query: 142 FTAATGAAAESIMRQLLTAQGCKRIQLFLALFDLMIADAGRMPLASPGYVPDALAYMSSR 201 F AAT +M++L+ +G KR+ LF L D++ LAS Y D SS Sbjct: 123 FDAATSETVRPLMQRLIDQRGLKRLALFWELLDVLANAPEPEVLASLSYKLDLSGVNSSG 182 Query: 202 LNHVLRFIAENLDTDLRESVLAELAQQSTSAFSRSFRKHTGMSCIQYINQLRINGAC-EL 260 LN + ++ E+L D+ E LA++ Q+ S+FSR+F++HTG + ++Y NQLR++ AC L Sbjct: 183 LNRAIAYLREHLTDDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACLAL 242 Query: 261 LMQGDLGITDICFRVGFNNVSNFNRHFLIQKGVSPSAFR 299 L + ITDIC+ GF+N+SNFNRHF KG+SPS FR Sbjct: 243 LTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFR 281 >gi|300309661|ref|YP_003773753.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 58.9 bits (141), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 64/266 (24%), Positives = 113/266 (42%), Gaps = 25/266 (9%) Query: 53 PEYEIQ-----FITATSGKYFVGDFIGQFEPGNLVLLGPNLPH-NWVSDVAPGEQVPERG 106 P++ +Q I S + FVGD I +++P + ++ +LP V +P E P G Sbjct: 77 PKHAVQKPVFAVIAQGSKRIFVGDEIYEYDPMHYLVASVDLPVVGKVMVTSPDE--PYLG 134 Query: 107 LIIQFPSEFI-----NNGIHAFAELHELEDLLLDAQAGLVFTAATGAAAESIMRQLLTAQ 161 L ++ ++ I + + A A++ E A GL ++++R L + Sbjct: 135 LRLELDTQEIGELIGDENLPAAAQVSE------GAARGLYVNRLDVDLLDAVLRLLRLQE 188 Query: 162 GCKRIQLFLALFDLMIADAGRMPLASPGYVPDALAYMSSRLNHV---LRFIAENLDTDLR 218 + + + I R+ + G + S++N V +R I E D LR Sbjct: 189 RPADVPILAPMIRREIL--YRLLMNGQGALLRQTVLQDSQMNRVAKAIRLIKEGYDQALR 246 Query: 219 ESVLAELAQQSTSAFSRSFRKHTGMSCIQYINQLRINGACELLMQGDLGITDICFRVGFN 278 +A S S+ F+ T MS +QY LR+ A +L++ D + RVG+ Sbjct: 247 IDDIARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAAHRVGYE 306 Query: 279 NVSNFNRHFLIQKGVSP-SAFRKYQE 303 + S F+R + G P R++QE Sbjct: 307 SSSQFSREYSRLFGAPPLRDKRRWQE 332 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 0.323 0.138 0.415 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: 834,754 Number of extensions: 29125 Number of successful extensions: 126 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 3 Length of query: 315 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 230 Effective length of database: 1,217,395 Effective search space: 280000850 Effective search space used: 280000850 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)