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= 0305.0019.p (276 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D6K7.1 B1D6K7_9BACL Two component transcriptional regulator, A... 166 2e-39 Q5WBZ0.1 Q5WBZ0_BACSK Two-component response regulator 155 3e-36 B1DAU1.1 B1DAU1_9BACL Two component transcriptional regulator, A... 154 9e-36 A8RM75.1 A8RM75_9CLOT Putative uncharacterized protein 152 3e-35 C0D042.1 C0D042_9CLOT Putative uncharacterized protein 151 5e-35 >B1D6K7.1 B1D6K7_9BACL Two component transcriptional regulator, AraC family Length = 245 Score = 166 bits (420), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 99/252 (39%), Positives = 153/252 (60%), Gaps = 15/252 (5%) Query: 24 VIRVMIADDEEVIRRGLEKITSRMDLEVQVIGSYGNGLEAWNHLRELSQDDIDLLITDIK 83 + ++I +D+++IRRG+ KI S+MDL + I NG EA +R+L + L+ITDI Sbjct: 1 MFSMLIIEDDDIIRRGIVKIVSKMDLPISSIEEASNGQEALEKIRQLVPE---LIITDIM 57 Query: 84 MPRMDGFKLIEEVRGHLKQLP--IAVLSGFSEFEYARRAMRHGVLDYLLKPIEKAQLYDL 141 MP +DG KL++++R +LP ++SGF EF YA+ A+ +GV YLLKP++K +LY + Sbjct: 58 MPFLDGLKLLKQIREW--ELPSRTIIISGFDEFSYAQEAIAYGVSAYLLKPVKKDKLYQV 115 Query: 142 LKSVEENKKLRPVAAE-PEEAPHQAGEGGEHYVVEQTKSILEKEYGQNFELERLAETVGM 200 L NK + + E P G H V T+ LE+ Y ++ +L + A V M Sbjct: 116 L-----NKMIHELTKENTNRKPLLDGSQYGHDVGFVTR-YLEEHYAEDIDLNKAASLVFM 169 Query: 201 NASYISRLFKYKTGQTITDYLIGIRIAKAKELLIGQPDLKNYEIAERVGYSDPVYFNKLF 260 N++Y S LFK TG + YL IR+ ++K+LL+ LK YE+AE+VG+SD YF ++F Sbjct: 170 NSTYFSSLFKKMTGVSFIHYLQKIRVEESKKLLLNH-QLKIYEVAEKVGFSDEKYFFRVF 228 Query: 261 KKMCGMTPKDYK 272 K G+TP +++ Sbjct: 229 KNTTGLTPNEFR 240 >Q5WBZ0.1 Q5WBZ0_BACSK Two-component response regulator Length = 249 Score = 155 bits (393), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 88/250 (35%), Positives = 145/250 (58%), Gaps = 16/250 (6%) Query: 26 RVMIADDEEVIRRGLEKITSRMDLEVQVIGSYGNGLEAWNHLRELSQDDIDLLITDIKMP 85 +V+IA+DE++IR+GL I ++ + VIG NG A L L+ D D+L+TDI+MP Sbjct: 14 KVVIAEDEKMIRKGLVTIVDQLVTDFTVIGEADNGERA---LELLAHDCPDVLLTDIRMP 70 Query: 86 RMDGFKLIEEVRGHLKQLPIAVLSGFSEFEYARRAMRHGVLDYLLKPIEKAQLYDLLKSV 145 + DG LI E R + + I ++SG EF YA++A++HGV YLLKPI++ ++ + Sbjct: 71 KCDGLSLIREARSYYPHVKIVIVSGHEEFAYAQQAIQHGVSRYLLKPIDRTEVVLAFDEI 130 Query: 146 EENKKLRPVAAEPEEAPHQAGEGGEHYVVEQTKSILEKEYGQNFELERLAETVGMNASYI 205 + EPE+ H E+++++Q S ++ Q+ L+ +A+ V ++ +Y Sbjct: 131 KRG------LVEPEQEDH------ENHLIQQVDSYIKTHIDQDITLQAVAKLVHLHPTYF 178 Query: 206 SRLFKYKTGQTITDYLIGIRIAKAKELLIGQPDLKNYEIAERVGYSDPVYFNKLFKKMCG 265 S+ FK +TGQ + Y+ R+ +A E L+ Q +L+ YE+A GY + +F KLFKK Sbjct: 179 SQWFKNETGQNFSTYVTQKRLERA-ETLLHQTNLRVYEVARMSGYQNEKHFMKLFKKEKR 237 Query: 266 MTPKDYKSRC 275 TP ++ R Sbjct: 238 CTPTQFRQRA 247 >B1DAU1.1 B1DAU1_9BACL Two component transcriptional regulator, AraC family Length = 248 Score = 154 bits (389), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 93/249 (37%), Positives = 140/249 (56%), Gaps = 18/249 (7%) Query: 25 IRVMIADDEEVIRRGLEKITSRMDLEVQVIGS-YGNGLEAWNHLRELSQDDIDLLITDIK 83 ++++I DDE +I +GL KI EV GS + AW L + + D+ ITDI Sbjct: 1 MKILIVDDEPLILKGLVKIVE----EVAPAGSDICSAFNAWEALETMKRFMPDVTITDIN 56 Query: 84 MPRMDGFKLIEEVRGHLKQLPIAVLSGFSEFEYARRAMRHGVLDYLLKPIEKAQLYDLLK 143 MP +GF+LI + R +L+G+ EFEY R+A+R GV+DYLLKP++K ++ LL Sbjct: 57 MPEKNGFELIHDARLEGLCDRFIILTGYDEFEYVRQALRSGVVDYLLKPLDKKEIAGLLS 116 Query: 144 SVEENKKLRPVAAEPEEAPHQAGEGGEHYVVEQTKSILEKEYGQNFELERLAETVGMNAS 203 V+E P A + E + H E+ + L+ Y + L+ LAE + ++ + Sbjct: 117 RVKEE---LPAATDSEYSRH----------AERILAYLQLNYMNDLSLDHLAEHMSLHPN 163 Query: 204 YISRLFKYKTGQTITDYLIGIRIAKAKELLIGQPDLKNYEIAERVGYSDPVYFNKLFKKM 263 YIS LFK +TG T +YL +RI +A++LL QP L I+++VG+ YF K+FKK Sbjct: 164 YISSLFKKETGDTFVNYLNSLRIREAQKLLKTQPQLTVCAISQQVGFDTKHYFAKVFKKY 223 Query: 264 CGMTPKDYK 272 G TP Y+ Sbjct: 224 AGTTPGAYR 232 >A8RM75.1 A8RM75_9CLOT Putative uncharacterized protein Length = 253 Score = 152 bits (384), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 88/256 (34%), Positives = 143/256 (55%), Gaps = 10/256 (3%) Query: 26 RVMIADDEEVIRRGLEKITSRMDLEVQVIGSYGNGLEAWNHLRELSQDDIDLLITDIKMP 85 +V++ +DE ++RRG+ L+ + G NG E LS D +++TD+KMP Sbjct: 3 KVIVVEDETMVRRGIILTIDWAALDCVIAGEAANGEEGAELAVRLSPD---IIVTDVKMP 59 Query: 86 RMDGFKLIEEVRGHLKQLPIAVLSGFSEFEYARRAMRHGVLDYLLKPIEKAQLYDLLKSV 145 RMDG ++I ++R + +L+ +S+F+YA+ A+R GV DYLLKP+ L ++ + Sbjct: 60 RMDGVEMITKLREQGCRAKFIILTAYSDFKYAQSALRLGVSDYLLKPLRDGDLEQAVRHI 119 Query: 146 EENKKLRPVAAEPEEAP-----HQAGEGGEHYVVEQTKSILEKEYGQNFELERLAETVGM 200 E + RP E +A H + YV T+ I E Y ++ + +A + + Sbjct: 120 REQMEERPAKEEETDAAPVLRFHSDKKSKNKYVEAATRYIRE-HYREDITISTVASFLEI 178 Query: 201 NASYISRLFKYKTGQTITDYLIGIRIAKAKELLIGQPDLKNYEIAERVGYSDPVYFNKLF 260 + Y+SR+FK +T T T+YL R+ A LL +K YE+A++VGYSD YF+ F Sbjct: 179 SEGYLSRVFKKETDYTFTNYLAYYRMQMAMNLL-KDCRVKVYEVADQVGYSDTAYFSAQF 237 Query: 261 KKMCGMTPKDYKSRCR 276 KK+ G++P +Y+ RCR Sbjct: 238 KKILGVSPSEYQDRCR 253 >C0D042.1 C0D042_9CLOT Putative uncharacterized protein Length = 248 Score = 151 bits (382), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 86/252 (34%), Positives = 141/252 (55%), Gaps = 5/252 (1%) Query: 24 VIRVMIADDEEVIRRGLEKITSRMDLEVQVIGSYGNGLEAWNHLRELSQDDIDLLITDIK 83 +++V++ DDE V+RRG+ + V+G NG E + + + + +L+ITDI+ Sbjct: 1 MLKVLVVDDESVVRRGIVLGVDWASMGCVVVGEATNGEEG---IAAVERYNPNLIITDIR 57 Query: 84 MPRMDGFKLIEEVRGHLKQLPIAVLSGFSEFEYARRAMRHGVLDYLLKPIEKAQLYDLLK 143 MP MDG +++ E+R + + +L+ +S+F YAR A++ G DYLLKP +L + Sbjct: 58 MPHMDGIEMMTELRRRGCRAHVILLTAYSDFSYARSALQFGAADYLLKPFRDQELVAAIG 117 Query: 144 SVEENKKLRPVAAEPEEAPHQAGEGGEHYVVEQTKSILEKEYGQNFELERLAETVGMNAS 203 V E ++++ A P++ A YV+E I E + + +A ++G++ S Sbjct: 118 RVREREQMQTSLA-PQDMLSLAKGDKSKYVLEAMNYIAEHYSDSDISITPIARSLGVSES 176 Query: 204 YISRLFKYKTGQTITDYLIGIRIAKAKELLIGQPDLKNYEIAERVGYSDPVYFNKLFKKM 263 ++S +FK +T TI +YL RI A +LL K YE+AE VGY D YF FKK+ Sbjct: 177 HLSHVFKKETSYTIVNYLTQYRIHMAMKLL-QDCRYKVYEVAEMVGYRDVAYFGSTFKKL 235 Query: 264 CGMTPKDYKSRC 275 GM+P +Y+ RC Sbjct: 236 AGMSPSEYQDRC 247 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.319 0.138 0.393 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,673,879,434 Number of extensions: 70404500 Number of successful extensions: 302026 Number of sequences better than 1.0e-05: 10729 Number of HSP's gapped: 318759 Number of HSP's successfully gapped: 11233 Length of query: 276 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 142 Effective length of database: 1,798,280,193 Effective search space: 255355787406 Effective search space used: 255355787406 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 (21.7 bits) S2: 130 (54.7 bits)