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= 0578.0011.p (225 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 178 7e-45 TM1655 [TK] COG0745 Response regulators consisting of a CheY-lik... 178 7e-45 BS_resD [TK] COG0745 Response regulators consisting of a CheY-li... 172 5e-43 BS_yclJ [TK] COG0745 Response regulators consisting of a CheY-li... 171 8e-43 BS_phoP [TK] COG0745 Response regulators consisting of a CheY-li... 167 1e-41 >STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 457 Score = 178 bits (451), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 11/229 (4%), Positives = 38/229 (16%), Gaps = 12/229 (5%) Query: 2 KKILVADDDVNIRTLLRHVLTREGYAVLEAADGREAMGLMKGSTVDLAVVDVMMPYIDGL 61 L ++ + + +A + + + Sbjct: 12 AAQLNNLTELGYLEMTPVQAAALPVILAGNDVRVQARTGSGKTAAFGLGLLHRIDVTLFQ 71 Query: 62 ELCQHIR--ETY-DIPVILLTARQQLSDKEQGYLRGTDDYVTKPFEPDELLFRIKALFRR 118 + D L + + + + I Sbjct: 72 TQALVLCPTRELADQVAGELRRLARFLPNTKILTLCGGQPFGAQRDSLQHAPHIIVATPG 131 Query: 119 YSVAASDK------IRLNSLVIDRKNYEIS-DGNDVLLLPVKEFELLAQLAEYPGRLFSR 171 + K ++ + + + + Q + Sbjct: 132 RLLDHLQKETVSLDALHILVMDEADRMLDMGFSDAIDEVIR-FAPATRQTLLFSATWPEA 190 Query: 172 SELIELVWGADYEGDERTVDVHIKRLRDRFSE-YKNDFTIRTVRGIGYK 219 I E + + +F E ++ + Sbjct: 191 IAAISGRVQQQPIRIEIDTVDALPAIEQQFFETSAHEKISLLQTLLSQH 239 >TM1655 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 247 Score = 178 bits (451), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 113/229 (49%), Positives = 142/229 (62%), Gaps = 12/229 (5%) Query: 2 KKILVADDDVNIRTLLRHVLTREGYAVLEAADGREAMGLMKGSTVDLAVVDVMMPYIDGL 61 KKILV DDD I L+ + L++EGY VL+A DG EA+ + VD+ +VD+M+P IDG Sbjct: 12 KKILVVDDDPAILELVGYNLSKEGYEVLKAYDGEEALKIANDEDVDMFIVDIMLPGIDGF 71 Query: 62 ELCQHIR--ETY-DIPVILLTARQQLSDKEQGYLRGTDDYVTKPFEPDELLFRIKALFRR 118 EL + IR E Y + PVI L+A+ + DK G G DDY+TKPF ELL R+KA+FRR Sbjct: 72 ELVRKIRSMEKYKNTPVIFLSAKGEEFDKVLGLELGADDYITKPFSVRELLARVKAIFRR 131 Query: 119 YSVAASDK------IRLNSLVIDRKNYEIS-DGNDVLLLPVKEFELLAQLAEYPGRLFSR 171 S A K I L ID + YE+ G V L P+ EFELL LAE G++FSR Sbjct: 132 LSTATQSKEERPKKIIAKDLEIDVEKYEVKVRGKKVNLTPL-EFELLRFLAENEGKVFSR 190 Query: 172 SELIELVWGADYEGDERTVDVHIKRLRDRFSE-YKNDFTIRTVRGIGYK 219 L++ +WG DY GD RTVDVHI+RLR + E N I TVRG GYK Sbjct: 191 DVLLDKLWGYDYYGDTRTVDVHIRRLRTKIEEDPSNPKYIITVRGKGYK 239 >BS_resD [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 240 Score = 172 bits (435), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 96/230 (41%), Positives = 143/230 (62%), Gaps = 12/230 (5%) Query: 3 KILVADDDVNIRTLLRHVLTREGYAVLEAADGREAMGLMKGSTVDLAVVDVMMPYIDGLE 62 KILV DD+ IR LLR L RE YA+ EA +G EA+ + DL ++D+MMP DG+E Sbjct: 8 KILVVDDEARIRRLLRMYLERENYAIDEAENGDEAIAKGLEANYDLILLDLMMPGTDGIE 67 Query: 63 LCQHIRETYDIPVILLTARQQLSDKEQGYLRGTDDYVTKPFEPDELLFRIKALFRRYS-- 120 +C+ IRE P+I+LTA+ + +++ QG+ GTDDY+ KPF P E++ R+KAL RR S Sbjct: 68 VCRQIREKKATPIIMLTAKGEEANRVQGFEAGTDDYIVKPFSPREVVLRVKALLRRASQT 127 Query: 121 ------VAASDKIRLNSLVIDRKNYEIS-DGNDVLLLPVKEFELLAQLAEYPGRLFSRSE 173 + + + L ID + ++ DG +V L P K +ELL LA+ P +++ R + Sbjct: 128 SYFNANTPTKNVLVFSHLSIDHDAHRVTADGTEVSLTP-KVYELLYFLAKTPDKVYDREK 186 Query: 174 LIELVWGADYEGDERTVDVHIKRLRDRFSEYKNDFT--IRTVRGIGYKVE 221 L++ VW ++ GD RTVD H+KRLR++ ++ + I TV G+GYK E Sbjct: 187 LLKEVWQYEFFGDLRTVDTHVKRLREKLNKVSPEAAKKIVTVWGVGYKFE 236 >BS_yclJ [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 227 Score = 171 bits (433), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 94/225 (41%), Positives = 135/225 (60%), Gaps = 7/225 (3%) Query: 3 KILVADDDVNIRTLLRHVLTREGYAVLEAADGREAMGLMKGSTVDLAVVDVMMPYIDGLE 62 KIL+ +D+V++ T+ +EG+ DG E DL ++D+M+P +DG+ Sbjct: 2 KILMIEDNVSVCTMTEMFFFKEGFEAEFVHDGLEGYQRFTEENWDLIILDIMLPSMDGVT 61 Query: 63 LCQHIRETYDIPVILLTARQQLSDKEQGYLRGTDDYVTKPFEPDELLFRIKALFRRY--- 119 +C+ IRET +P+I+LTA+ SD+ G+ G DDYVTKPF P L+ RIKA+ RRY Sbjct: 62 ICRKIRETSTVPIIMLTAKDTESDQVIGFEMGADDYVTKPFSPLTLVARIKAVIRRYKAT 121 Query: 120 --SVAASDKIRLNSLVIDRKNYEI-SDGNDVLLLPVKEFELLAQLAEYPGRLFSRSELIE 176 +V D I I++K E+ +G V L KEF+LL L + P ++FSR +L+E Sbjct: 122 GKAVIDEDMIETECFTINKKTREVLLNGEPVENLTPKEFDLLYYLVQNPRQVFSREQLLE 181 Query: 177 LVWGADYEGDERTVDVHIKRLRDRFSEYKNDFTIRTVRGIGYKVE 221 VWG + GDERTVDVHIKRLR + + F + TV G+GYK + Sbjct: 182 QVWGYQFYGDERTVDVHIKRLRKKLASEDKPF-LYTVWGVGYKFD 225 >BS_phoP [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 223 Score = 167 bits (423), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 0/232 (0%), Positives = 0/232 (0%), Gaps = 12/232 (5%) Query: 2 KKILVADDDVNIRTLLRHVLTREGYAVLEAADGREAMGLMKGSTVDLAVVDVMMPYIDGL 61 ++ + + ++ E A + + + + + L Sbjct: 3 VLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPDIAIVDLGLPDEDGLSL 62 Query: 62 ELCQHIRET-YDIPVILLTARQQLSDKEQGYLRGTDDYVTKPFEPDELLFRIKALFRRYS 120 + I V+ Q + E + Sbjct: 63 IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRNSGL 122 Query: 121 VAASD----------KIRLNSLVIDRKNYEISDGNDVLLLPVKEFELLAQLAEYPGRLFS 170 + + L+ K L+ + + Sbjct: 123 ASQVISLPPFQVDLSRRELSINDEVIKLTAFEYTIMETLIRNNGKVVSKDSLMLQLYPDA 182 Query: 171 RSELIELVWGADYEGDERTVDVHIKRLRDRF-SEYKNDFTIRTVRGIGYKVE 221 + ++ + + + Sbjct: 183 ELRESHTIDVLMGRLRKKIQAQYPQEVITTVR 234 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 0.321 0.140 0.398 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: 16,570,858 Number of extensions: 671946 Number of successful extensions: 2484 Number of sequences better than 1.0e-05: 502 Number of HSP's gapped: 2031 Number of HSP's successfully gapped: 502 Length of query: 225 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 122 Effective length of database: 26,499,029 Effective search space: 3232881538 Effective search space used: 3232881538 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 (21.8 bits) S2: 114 (48.5 bits)