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= 0476.0071.p (232 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases 199 3e-51 TM1655 [TK] COG0745 Response regulators consisting of a CheY-lik... 199 3e-51 SA0017 [TK] COG0745 Response regulators consisting of a CheY-lik... 181 6e-46 Cgl0399 [TK] COG0745 Response regulators consisting of a CheY-li... 181 9e-46 BS_phoP [TK] COG0745 Response regulators consisting of a CheY-li... 180 2e-45 >STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 457 Score = 199 bits (505), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 13/236 (5%), Positives = 41/236 (17%), Gaps = 7/236 (2%) Query: 2 SKVLILEDEESIRSFIVINLKRNGFEVLEAADGNEALHKLTTVPDIDIALLDVMVPGIDG 61 + L E + + +A + L + Sbjct: 12 AAQLNNLTELGYLEMTPVQAAALPVILAGNDVRVQAR-TGSGKTAAFGLGLLHRIDVTLF 70 Query: 62 FEVCRRIR--ETNERLGIIFLTAKVQEQDKVYALSVGADDHVSKPFSPTELIARIQSLLR 119 + L + L++ + I Sbjct: 71 QTQALVLCPTRELADQVAGELRRLARFLPNTKILTLCGGQPFGAQRDSLQHAPHIIVATP 130 Query: 120 RVNV---HREQSAKVSFQSGPFTLDLISKQFKRSGEAIELTPTEFSLVQYFLEMENTPLS 176 + +E + + +AI+ + L T Sbjct: 131 GRLLDHLQKETVSL-DALHILVMDEADRMLDMGFSDAIDEVIRFAPATRQTLLFSATWPE 189 Query: 177 RDSLLDHVWGKEYMGDPKIVDVNIRRLRQKIENNPSEPEYLQTVWGHGYKWKGQGQ 232 + + ++ + + + Q+ + + Sbjct: 190 AIAAISGRVQQQPIRIEIDTVDALPAIEQQFFETSAHEKISLLQTLLSQHQPASCV 245 >TM1655 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 247 Score = 199 bits (505), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 102/236 (43%), Positives = 157/236 (66%), Gaps = 7/236 (2%) Query: 2 SKVLILEDEESIRSFIVINLKRNGFEVLEAADGNEALHKLTTVPDIDIALLDVMVPGIDG 61 K+L+++D+ +I + NL + G+EVL+A DG EAL K+ D+D+ ++D+M+PGIDG Sbjct: 12 KKILVVDDDPAILELVGYNLSKEGYEVLKAYDGEEAL-KIANDEDVDMFIVDIMLPGIDG 70 Query: 62 FEVCRRIR--ETNERLGIIFLTAKVQEQDKVYALSVGADDHVSKPFSPTELIARIQSLLR 119 FE+ R+IR E + +IFL+AK +E DKV L +GADD+++KPFS EL+AR++++ R Sbjct: 71 FELVRKIRSMEKYKNTPVIFLSAKGEEFDKVLGLELGADDYITKPFSVRELLARVKAIFR 130 Query: 120 RVNV---HREQSAKVSFQSGPFTLDLISKQFKRSGEAIELTPTEFSLVQYFLEMENTPLS 176 R++ +E+ K + +D+ + K G+ + LTP EF L+++ E E S Sbjct: 131 RLSTATQSKEERPK-KIIAKDLEIDVEKYEVKVRGKKVNLTPLEFELLRFLAENEGKVFS 189 Query: 177 RDSLLDHVWGKEYMGDPKIVDVNIRRLRQKIENNPSEPEYLQTVWGHGYKWKGQGQ 232 RD LLD +WG +Y GD + VDV+IRRLR KIE +PS P+Y+ TV G GYK++ G+ Sbjct: 190 RDVLLDKLWGYDYYGDTRTVDVHIRRLRTKIEEDPSNPKYIITVRGKGYKFRDPGK 245 >SA0017 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 235 Score = 181 bits (460), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 106/232 (45%), Positives = 144/232 (62%), Gaps = 17/232 (7%) Query: 3 KVLILEDEESIRSFIVINLKRNGFEVLEAADGNEALHKLTTVPDIDIALLDVMVPGIDGF 62 KV++++DE+ I + NLK+ G++V A DGN+A+ L + DI LLD+M+PG DG Sbjct: 6 KVVVVDDEKPIADILEFNLKKEGYDVYCAYDGNDAV-DLIYEEEPDIVLLDIMLPGRDGM 64 Query: 63 EVCRRIRETNERLGIIFLTAKVQEQDKVYALSVGADDHVSKPFSPTELIARIQSLLRRVN 122 EVCR +R+ E + II LTAK E DKV L +GADD+V+KPFS ELIAR+++ LRR Sbjct: 65 EVCREVRKKYE-MPIIMLTAKDSEIDKVLGLELGADDYVTKPFSTRELIARVKANLRR-- 121 Query: 123 VHREQSAKVSFQSGPFTLDLISK---------QFKRSGEAIELTPTEFSLVQYFLEMENT 173 H Q A+ +G T ++ K K+ GE IELT EF L Y + Sbjct: 122 -HYSQPAQ---DTGNVTNEITIKDIVIYPDAYSIKKRGEDIELTHREFELFHYLSKHMGQ 177 Query: 174 PLSRDSLLDHVWGKEYMGDPKIVDVNIRRLRQKIENNPSEPEYLQTVWGHGY 225 ++R+ LL VWG +Y GD + VDV IRRLR+KIE++PS PEY+ T G GY Sbjct: 178 VMTREHLLQTVWGYDYFGDVRTVDVTIRRLREKIEDDPSHPEYIVTRRGVGY 229 >Cgl0399 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 232 Score = 181 bits (459), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 147/233 (63%), Gaps = 7/233 (3%) Query: 1 MSKVLILEDEESIRSFIVINLKRNGFEVLEAADGNEALHKLTTVPDIDIALLDVMVPGID 60 M+++LI+EDEES+ + L++ GF+ + A DG AL + + +IDI LLD+M+PG+ Sbjct: 1 MTRILIVEDEESLADPLAFLLRKEGFDTIIAGDGPTALVEFSR-NEIDIVLLDLMLPGMS 59 Query: 61 GFEVCRRIRETNERLGIIFLTAKVQEQDKVYALSVGADDHVSKPFSPTELIARIQSLLRR 120 G +VC+ +R + + +I +TA+ E DKV L +GADD+V+KP+S ELIARI+++LRR Sbjct: 60 GTDVCKELRSVST-VPVIMVTARDSEIDKVVGLELGADDYVTKPYSSRELIARIRAVLRR 118 Query: 121 VNVHREQSAKVSF-----QSGPFTLDLISKQFKRSGEAIELTPTEFSLVQYFLEMENTPL 175 V ++ ++ + G +D+ S GE + + EF L++Y L L Sbjct: 119 RGVTETEAEELPLDDQILEGGRVRMDVDSHTVTVGGEPVSMPLKEFDLLEYLLRNAGRVL 178 Query: 176 SRDSLLDHVWGKEYMGDPKIVDVNIRRLRQKIENNPSEPEYLQTVWGHGYKWK 228 +R L+D +WG +Y+GD K +DV+++RLR KIE PS P YL TV G GYK++ Sbjct: 179 TRGQLIDRIWGADYVGDTKTLDVHVKRLRSKIEEEPSRPRYLVTVRGLGYKFE 231 >BS_phoP [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 223 Score = 180 bits (456), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 0/232 (0%), Positives = 0/232 (0%), Gaps = 11/232 (4%) Query: 3 KVLILEDEESIRSFIVINLKRNGFEVLEAADGNEALHKLTTVPDIDIALLDVMVPGIDGF 62 V+ + I + + E A + PDI I L + Sbjct: 4 LVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI-PDIAIVDLGLPDEDGLSL 62 Query: 63 EVCRRIRETNERLGIIFLTAKVQEQDKVYALSVGADDHVSKPFSPTELIARIQSLLRRVN 122 R + + + ++ Q++ +V + + Sbjct: 63 IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRNSGL 122 Query: 123 V--------HREQSAKVSFQSGPFTLDLISKQFKRSGEAIELTPTEFSLVQYFLEMENTP 174 + ++ + L + ++ + + + L ++ P Sbjct: 123 ASQVISLPPFQVDLSRRELSINDEVIKLTAFEYTIM--ETLIRNNGKVVSKDSLMLQLYP 180 Query: 175 LSRDSLLDHVWGKEYMGDPKIVDVNIRRLRQKIENNPSEPEYLQTVWGHGYK 226 Sbjct: 181 232 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 0.393 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: 17,173,797 Number of extensions: 706779 Number of successful extensions: 2708 Number of sequences better than 1.0e-05: 470 Number of HSP's gapped: 2140 Number of HSP's successfully gapped: 470 Length of query: 232 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 129 Effective length of database: 26,499,029 Effective search space: 3418374741 Effective search space used: 3418374741 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)