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= 0037.0048.p (261 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 219 3e-58 gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 174 5e-45 gi|300310273|ref|YP_003774365.1| AraC family transcription regul... 152 3e-38 gi|300310311|ref|YP_003774403.1| AraC family transcription regul... 142 2e-35 gi|300313797|ref|YP_003777889.1| AraC family transcription regul... 54 9e-09 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 219 bits (557), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 111/243 (45%), Positives = 151/243 (62%), Gaps = 3/243 (1%) Query: 1 VALGTTSVAKDWENARHQHRKAQLIYSVRGVLNCEVEDGVWIVPPQCAVWIPGDLPHAAR 60 AL + + E H HRK QL+ ++RG + CE G+WIVPPQ AVWIP +PH+ R Sbjct: 21 TALRVHTSQDERETPLHSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVWIPPGVPHSNR 80 Query: 61 GAGETECYCLFVEPDAAPDLPTTCCTISVSPLLRELLLKVAGFPELYPLGGREERLIATL 120 + + LF+ P AA +P CCT+++SPLL +++ +A + Y R RL A L Sbjct: 81 VTLDGQLCFLFIAPQAA-SMPEQCCTLALSPLLVQMICHLAEQRQDYAPHERTARLAAVL 139 Query: 121 LDELASAPVEDL--HLPMPRDQRLRRLADLLLADPTDKTSKAAWAHHIGMSERSMSRLLQ 178 ++EL + L HLP P+ RLR +A L P D+ + A W MSERS +R +Q Sbjct: 140 VEELEHSQRHALPLHLPAPQHSRLRAIARHLAEHPADRRTVAQWGQRHAMSERSFARFVQ 199 Query: 179 QQVGMSFGRWRRQLHVILALQRLTKGDSVQTVALELGYENASGFITMFRKAAGKSPARYL 238 + GMSFGRWRRQ+H++LALQRL G SVQ V+ +LGY++ S FITMFRK GK PARY+ Sbjct: 200 AETGMSFGRWRRQIHLMLALQRLASGSSVQRVSQDLGYDSVSAFITMFRKTLGKPPARYM 259 Query: 239 SDR 241 + R Sbjct: 260 AQR 262 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 174 bits (442), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 90/216 (41%), Positives = 123/216 (56%) Query: 17 HQHRKAQLIYSVRGVLNCEVEDGVWIVPPQCAVWIPGDLPHAARGAGETECYCLFVEPDA 76 H HR+AQL+Y + G++ DG W+VPPQ AVWIP H +R F+EP+ Sbjct: 42 HSHRRAQLLYGLSGLMQVITADGAWVVPPQHAVWIPSGREHQSRMLQAVTTCSAFIEPEH 101 Query: 77 APDLPTTCCTISVSPLLRELLLKVAGFPELYPLGGREERLIATLLDELASAPVEDLHLPM 136 AP + ++C ++V PLLRELL++ Y L REE LI LLDE+ A H+P+ Sbjct: 102 APRVASSCQVLAVRPLLRELLIEATRMDPHYVLHSREENLIRLLLDEIGRAEEIPAHVPL 161 Query: 137 PRDQRLRRLADLLLADPTDKTSKAAWAHHIGMSERSMSRLLQQQVGMSFGRWRRQLHVIL 196 P + RL L LA P+ ++ A WA + +SER+ SR Q GM F +WR + V+ Sbjct: 162 PPEPRLGELCHRFLAAPSIRSGPAQWALQLHISERTFSRRFLAQTGMGFQQWRLRACVMY 221 Query: 197 ALQRLTKGDSVQTVALELGYENASGFITMFRKAAGK 232 A+ RL G V T+A +LGYE + F TMFRK G Sbjct: 222 AISRLALGQPVTTIAYDLGYERPAAFSTMFRKMTGH 257 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 152 bits (383), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 120/228 (52%), Gaps = 3/228 (1%) Query: 17 HQHRKAQLIYSVRGVLNCEVEDGVWIVPPQCAVWIPGDLPHAARGAGETECYCLFVEPDA 76 HQH + LIY+ G+L + E G W+VPP AVW+ + H+ + Y LFV D Sbjct: 41 HQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLAMPVTLQAYGLFVRQDV 100 Query: 77 APDLPTTCCTISVSPLLRELLLKVAGFPELYPLGGREERLIATLLDELASAPVEDLHLPM 136 LP C + VSPLLREL++ +A E R L A +++E+ + P HLP Sbjct: 101 CARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALVMEEVLTQPTLPFHLPW 160 Query: 137 P---RDQRLRRLADLLLADPTDKTSKAAWAHHIGMSERSMSRLLQQQVGMSFGRWRRQLH 193 P D + RL LL DP D + A WA + M +++ R Q GM+FG+WR+QL Sbjct: 161 PMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRFLQSTGMTFGKWRQQLR 220 Query: 194 VILALQRLTKGDSVQTVALELGYENASGFITMFRKAAGKSPARYLSDR 241 ++ +L L +G + VAL GY++ S + T F K GK P+ + R Sbjct: 221 LMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAFFPAR 268 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 142 bits (359), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 89/238 (37%), Positives = 127/238 (53%), Gaps = 1/238 (0%) Query: 1 VALGTTSVAKDWENARHQHRKAQLIYSVRGVLNCEVEDGVWIVPPQCAVWIPGDLPHAAR 60 VA A+D A H HR+ QL+Y+V GV+ GVW+VPP A+W+P + H Sbjct: 25 VAFARELSARDLLTA-HSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALWVPPQVEHEIL 83 Query: 61 GAGETECYCLFVEPDAAPDLPTTCCTISVSPLLRELLLKVAGFPELYPLGGREERLIATL 120 + L++ +L C + VS LLREL+L + P Y R + + Sbjct: 84 MLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQSRAGHVAELI 143 Query: 121 LDELASAPVEDLHLPMPRDQRLRRLADLLLADPTDKTSKAAWAHHIGMSERSMSRLLQQQ 180 L ELA AP + +P P D+RL+ + + +LADP + S A WA G S R++ RL ++ Sbjct: 144 LSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSLADWAGMGGASVRTVIRLFPKE 203 Query: 181 VGMSFGRWRRQLHVILALQRLTKGDSVQTVALELGYENASGFITMFRKAAGKSPARYL 238 G+ F W +Q+H+ AL RL++GD V VA LGY + S F MFRKA +P YL Sbjct: 204 TGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKALRTTPNHYL 261 >gi|300313797|ref|YP_003777889.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 54.3 bits (129), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 33/100 (33%), Positives = 53/100 (53%), Gaps = 1/100 (1%) Query: 144 RLADLLLADPTDKTSKAAWAHHIGMSERSMSRLLQQQVGMSFGRWRRQLHVILALQRLTK 203 R+ D +L+ + S A A G+S SR +Q G+S W +Q + LA + L + Sbjct: 195 RVRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHE 254 Query: 204 -GDSVQTVALELGYENASGFITMFRKAAGKSPARYLSDRT 242 G S+ T+ALE G+ + S F +F++ G PA +L R+ Sbjct: 255 GGKSMTTIALECGFSDQSHFSRVFKQVQGMGPAAWLRRRS 294 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 0.135 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: 825,838 Number of extensions: 32752 Number of successful extensions: 132 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 5 Length of query: 261 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 178 Effective length of database: 1,226,865 Effective search space: 218381970 Effective search space used: 218381970 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: 129 (54.3 bits)