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= 0247.0017.p (238 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_resD [TK] COG0745 Response regulators consisting of a CheY-li... 337 8e-93 lin2062 [TK] COG0745 Response regulators consisting of a CheY-li... 323 1e-88 SA1323 [TK] COG0745 Response regulators consisting of a CheY-lik... 323 1e-88 STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases 204 1e-52 TM1655 [TK] COG0745 Response regulators consisting of a CheY-lik... 204 1e-52 >BS_resD [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 240 Score = 337 bits (865), Expect = 8e-93, Method: Compositional matrix adjust. Identities = 159/231 (68%), Positives = 192/231 (83%) Query: 6 NRILVVDDEERIRRLLKMYLEKEGYEIDEAEDGEIALRKATANDYGLILLDVMLPGIDGI 65 +ILVVDDE RIRRLL+MYLE+E Y IDEAE+G+ A+ K +Y LILLD+M+PG DGI Sbjct: 7 TKILVVDDEARIRRLLRMYLERENYAIDEAENGDEAIAKGLEANYDLILLDLMMPGTDGI 66 Query: 66 EVLTRLRGVKSTPVLMLTAKGEEINRVQGFEMGADDYVVKPFSPREVIYRVKAIMRRSSA 125 EV ++R K+TP++MLTAKGEE NRVQGFE G DDY+VKPFSPREV+ RVKA++RR+S Sbjct: 67 EVCRQIREKKATPIIMLTAKGEEANRVQGFEAGTDDYIVKPFSPREVVLRVKALLRRASQ 126 Query: 126 TAFLSKESNSSNNIVFPHLIIEHDAHRVTAGGQEVSLTPKEYELLHYLAISPDKVFSREE 185 T++ + + + N +VF HL I+HDAHRVTA G EVSLTPK YELL++LA +PDKV+ RE+ Sbjct: 127 TSYFNANTPTKNVLVFSHLSIDHDAHRVTADGTEVSLTPKVYELLYFLAKTPDKVYDREK 186 Query: 186 LLKDVWNYEFFGDLRTVDTHVKRLREKLNKVSPESAAMITTVWGVGYKLEV 236 LLK+VW YEFFGDLRTVDTHVKRLREKLNKVSPE+A I TVWGVGYK EV Sbjct: 187 LLKEVWQYEFFGDLRTVDTHVKRLREKLNKVSPEAAKKIVTVWGVGYKFEV 237 >lin2062 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 238 Score = 323 bits (829), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 157/238 (65%), Positives = 193/238 (81%), Gaps = 1/238 (0%) Query: 1 MAEHLNRILVVDDEERIRRLLKMYLEKEGYEIDEAEDGEIALRKATANDYGLILLDVMLP 60 M+E + R+LVVDDE+RIRRLLKMYLE+E Y I+EA DG+ AL A N+Y +ILLD+M+P Sbjct: 1 MSEQV-RVLVVDDEDRIRRLLKMYLERENYRIEEASDGDQALNMALNNNYEVILLDLMMP 59 Query: 61 GIDGIEVLTRLRGVKSTPVLMLTAKGEEINRVQGFEMGADDYVVKPFSPREVIYRVKAIM 120 G DGIEV LR KSTPV+MLTAKGEE NRVQGFE+GADDY+VKPFSPREV+ RVKA++ Sbjct: 60 GKDGIEVCRELREYKSTPVVMLTAKGEEANRVQGFEVGADDYIVKPFSPREVVLRVKAVL 119 Query: 121 RRSSATAFLSKESNSSNNIVFPHLIIEHDAHRVTAGGQEVSLTPKEYELLHYLAISPDKV 180 RR+ ++ + + I FPHL I+++AHRV G+E+ LTPKEY+LL+YLA SPDKV Sbjct: 120 RRAKQSSEEAAGGTPGDIITFPHLKIDNEAHRVIVDGKEIGLTPKEYDLLYYLAKSPDKV 179 Query: 181 FSREELLKDVWNYEFFGDLRTVDTHVKRLREKLNKVSPESAAMITTVWGVGYKLEVPK 238 F RE LLK+VW YEFFGDLRT+DTHVKRLREKL+ VS ++A MI TVWG+GYK EVP+ Sbjct: 180 FDRESLLKEVWRYEFFGDLRTIDTHVKRLREKLHDVSEDAARMIVTVWGLGYKFEVPE 237 >SA1323 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 241 Score = 323 bits (829), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 155/231 (67%), Positives = 189/231 (81%) Query: 6 NRILVVDDEERIRRLLKMYLEKEGYEIDEAEDGEIALRKATANDYGLILLDVMLPGIDGI 65 N IL+VDDE+RIRRLLKMYLE+E +EI EA +G+ A A N+Y ILLD+MLP +DGI Sbjct: 3 NEILIVDDEDRIRRLLKMYLERESFEIHEASNGQEAYELAMENNYACILLDLMLPEMDGI 62 Query: 66 EVLTRLRGVKSTPVLMLTAKGEEINRVQGFEMGADDYVVKPFSPREVIYRVKAIMRRSSA 125 +V T+LR K TP++MLTAKGEE NRV+GFE GADDY+VKPFSPREV+ RVKA++RR+ + Sbjct: 63 QVATKLREHKQTPIIMLTAKGEETNRVEGFESGADDYIVKPFSPREVVLRVKALLRRTQS 122 Query: 126 TAFLSKESNSSNNIVFPHLIIEHDAHRVTAGGQEVSLTPKEYELLHYLAISPDKVFSREE 185 T E ++ + I F HL I++DAHRV A QEV+LTPKEYELL YLA +P+KVF RE+ Sbjct: 123 TTVEQSEPHARDVIEFKHLEIDNDAHRVLADNQEVNLTPKEYELLIYLAKTPNKVFDREQ 182 Query: 186 LLKDVWNYEFFGDLRTVDTHVKRLREKLNKVSPESAAMITTVWGVGYKLEV 236 LLK+VW+YEF+GDLRTVDTHVKRLREKLN+VS E+A MI TVWGVGYK EV Sbjct: 183 LLKEVWHYEFYGDLRTVDTHVKRLREKLNRVSSEAAHMIQTVWGVGYKFEV 233 >STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 457 Score = 204 bits (519), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 12/235 (5%), Positives = 42/235 (17%), Gaps = 6/235 (2%) Query: 6 NRILVVDDEERIRRLLKMYLEKEGYEIDEAEDGEIALRKATANDYGLILLDVMLPGIDGI 65 L E + + + + A + + L + Sbjct: 12 AAQLNNLTELGYLEMTPVQAAALPVILAGNDVRVQARTGSGKTAAFGLGLLHRIDVTLFQ 71 Query: 66 EVLTRLRGV---KSTPVLMLTAKGEEINRVQGFEMGADDYVVKPFSPREVIYRVKAIMRR 122 L L + + + + + Sbjct: 72 TQALVLCPTRELADQVAGELRRLARFLPNTKILTLCGGQPFGAQRDSLQHAPHIIVATPG 131 Query: 123 SSATAFLSKESNSSNNIVFPHLIIEHDAHRVTAGGQEVSLTPKEYELLHYLAISPDKVFS 182 L KE+ S + + ++ E D + + + Sbjct: 132 RL-LDHLQKETVS-LDALHILVMDEADRMLDMGFSDAIDEVIRFAPATRQTLLFSATWPE 189 Query: 183 REELLKDVWNYEFFGDLRTVDTHVKRLREKLNKVSPESAAMITTVWGVGYKLEVP 237 + + + + ++ + + + + Sbjct: 190 AIAAISGRVQQQPIRIEIDTVDALPAIEQQFFE-TSAHEKISLLQTLLSQHQPAS 243 >TM1655 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 247 Score = 204 bits (519), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 113/235 (48%), Positives = 157/235 (66%), Gaps = 6/235 (2%) Query: 6 NRILVVDDEERIRRLLKMYLEKEGYEIDEAEDGEIALRKATANDYGLILLDVMLPGIDGI 65 +ILVVDD+ I L+ L KEGYE+ +A DGE AL+ A D + ++D+MLPGIDG Sbjct: 12 KKILVVDDDPAILELVGYNLSKEGYEVLKAYDGEEALKIANDEDVDMFIVDIMLPGIDGF 71 Query: 66 EVLTRLRGV---KSTPVLMLTAKGEEINRVQGFEMGADDYVVKPFSPREVIYRVKAIMRR 122 E++ ++R + K+TPV+ L+AKGEE ++V G E+GADDY+ KPFS RE++ RVKAI RR Sbjct: 72 ELVRKIRSMEKYKNTPVIFLSAKGEEFDKVLGLELGADDYITKPFSVRELLARVKAIFRR 131 Query: 123 SSATAFLSKESNSSNNIVFPHLIIEHDAHRVTAGGQEVSLTPKEYELLHYLAISPDKVFS 182 S TA SKE I+ L I+ + + V G++V+LTP E+ELL +LA + KVFS Sbjct: 132 LS-TATQSKEERP-KKIIAKDLEIDVEKYEVKVRGKKVNLTPLEFELLRFLAENEGKVFS 189 Query: 183 REELLKDVWNYEFFGDLRTVDTHVKRLREKLNKVSPESAAMITTVWGVGYKLEVP 237 R+ LL +W Y+++GD RTVD H++RLR K+ + P + I TV G GYK P Sbjct: 190 RDVLLDKLWGYDYYGDTRTVDVHIRRLRTKIEE-DPSNPKYIITVRGKGYKFRDP 243 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.318 0.137 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 17,746,715 Number of extensions: 739393 Number of successful extensions: 3552 Number of sequences better than 1.0e-05: 554 Number of HSP's gapped: 2952 Number of HSP's successfully gapped: 557 Length of query: 238 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 135 Effective length of database: 26,499,029 Effective search space: 3577368915 Effective search space used: 3577368915 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 114 (48.5 bits)