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= 0334.0010.p (219 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC0321 [TK] COG0745 Response regulators consisting of a CheY-li... 162 3e-40 STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases 134 9e-32 TM1655 [TK] COG0745 Response regulators consisting of a CheY-lik... 134 9e-32 CAC0564 [TK] COG0745 Response regulators consisting of a CheY-li... 134 1e-31 Cgl0399 [TK] COG0745 Response regulators consisting of a CheY-li... 133 2e-31 >CAC0321 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 230 Score = 162 bits (411), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 80/184 (43%), Positives = 115/184 (62%), Gaps = 3/184 (1%) Query: 28 DLIILELSMPGADGLNLCTELRKFSDKPVLYTSHQTDDYLRIEALNRGADEFIAKPYSFE 87 +LIIL+L +P DG +C ++RK + P+L S + +D +I L GAD+++ KP+S Sbjct: 47 ELIILDLMLPEIDGFEICKQIRKIKNTPILMVSAKKEDIDKIRGLGLGADDYMTKPFSPS 106 Query: 88 VLLARIRAHLRRYKRAFPVNQRHL---ILYPGLQIDPTTHSVIAYGREVSLSSKEFRLLV 144 L+AR++AH+ RY+R + ++L I GL I+ + V G+E ++KEF LLV Sbjct: 107 ELVARVKAHISRYERLVNSSNKNLDDEIEIRGLNINKASRKVFVNGKESQFTAKEFDLLV 166 Query: 145 VLAKNPNRVFPTETLYDLIWNDMKQGDIRTVMVHIYNLRQKIEKTPSEPLYIHTVRGVGY 204 LA+NP+RVF E L+D IW G+I TV VHI +R+KIEK S P YI TV G GY Sbjct: 167 FLAQNPDRVFSKEELFDKIWGMDSFGEIATVTVHIKKIREKIEKDTSNPEYIETVWGAGY 226 Query: 205 KFNG 208 +F G Sbjct: 227 RFRG 230 >STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 457 Score = 134 bits (338), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 8/184 (4%), Positives = 30/184 (16%), Gaps = 5/184 (2%) Query: 28 DLIILELSMPGADGLNLCTELR---KFSDKPVLYTSHQTDDYLRIEALNRGADEFIAKPY 84 + L + L + +D+ + L + Sbjct: 57 FGLGLLHRIDVTLFQTQALVLCPTRELADQVAGELRRLARFLPNTKILTLCGGQPFGAQR 116 Query: 85 SFEVLLARIRAHLRRYKRAFPVNQRH--LILYPGLQIDPTTHSVIAYGREVSLSSKEFRL 142 I + L+ + + + + + + Sbjct: 117 DSLQHAPHIIVATPGRLLDHLQKETVSLDALHILVMDEADRMLDMGFSDAIDEVIRFAPA 176 Query: 143 LVVLAKNPNRVFPTETLYDLIWNDMKQGDIRTVMVHIYNLRQKIEKTPSEPLYIHTVRGV 202 + + + Q+ +T + + Sbjct: 177 TRQTLLFSATWPEAIAAISGRVQQQPIRIEIDTVDALPAIEQQFFETSAHEKISLLQTLL 236 Query: 203 GYKF 206 Sbjct: 237 SQHQ 240 >TM1655 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 247 Score = 134 bits (338), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 74/184 (40%), Positives = 109/184 (59%), Gaps = 5/184 (2%) Query: 28 DLIILELSMPGADGLNLCTELR---KFSDKPVLYTSHQTDDYLRIEALNRGADEFIAKPY 84 D+ I+++ +PG DG L ++R K+ + PV++ S + +++ ++ L GAD++I KP+ Sbjct: 57 DMFIVDIMLPGIDGFELVRKIRSMEKYKNTPVIFLSAKGEEFDKVLGLELGADDYITKPF 116 Query: 85 SFEVLLARIRAHLRRYKRAFPVNQRH--LILYPGLQIDPTTHSVIAYGREVSLSSKEFRL 142 S LLAR++A RR A + I+ L+ID + V G++V+L+ EF L Sbjct: 117 SVRELLARVKAIFRRLSTATQSKEERPKKIIAKDLEIDVEKYEVKVRGKKVNLTPLEFEL 176 Query: 143 LVVLAKNPNRVFPTETLYDLIWNDMKQGDIRTVMVHIYNLRQKIEKTPSEPLYIHTVRGV 202 L LA+N +VF + L D +W GD RTV VHI LR KIE+ PS P YI TVRG Sbjct: 177 LRFLAENEGKVFSRDVLLDKLWGYDYYGDTRTVDVHIRRLRTKIEEDPSNPKYIITVRGK 236 Query: 203 GYKF 206 GYKF Sbjct: 237 GYKF 240 >CAC0564 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 233 Score = 134 bits (336), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 69/185 (37%), Positives = 114/185 (61%), Gaps = 4/185 (2%) Query: 29 LIILELSMPGADGLNLCTELRKFSDKPVLYTSHQTDDYLRIEALNRGADEFIAKPYSFEV 88 L++L++ MP DG+ C ++R+ + P++ S + +D +I L GAD++I+KP++ Sbjct: 50 LVLLDIMMPKMDGITTCMKIREDKNTPIIMLSAKGEDMDKILGLTTGADDYISKPFNPLE 109 Query: 89 LLARIRAHLRRYKR---AFPVNQRHLILYPGLQIDPTTHSVIAYGREVSLSSKEFRLLVV 145 L+AR+++ +RRY + + N + I + I+ TH V R VSL+ +EF +LV+ Sbjct: 110 LIARVKSQIRRYTKLNSTYESNSAN-IEVGEITINTDTHEVKIGDRTVSLTKREFDILVL 168 Query: 146 LAKNPNRVFPTETLYDLIWNDMKQGDIRTVMVHIYNLRQKIEKTPSEPLYIHTVRGVGYK 205 L++N VF TE +Y+ +W++ TVMVHI +R+KIEK P +P YI TV GVGYK Sbjct: 169 LSRNKGVVFSTEKIYESVWHEEFYDCHNTVMVHIRKIREKIEKNPRKPEYIKTVWGVGYK 228 Query: 206 FNGSV 210 ++ Sbjct: 229 IEKNI 233 >Cgl0399 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 232 Score = 133 bits (335), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 75/187 (40%), Positives = 108/187 (57%), Gaps = 9/187 (4%) Query: 28 DLIILELSMPGADGLNLCTELRKFSDKPVLYTSHQTDDYLRIEALNRGADEFIAKPYSFE 87 D+++L+L +PG G ++C ELR S PV+ + + + ++ L GAD+++ KPYS Sbjct: 47 DIVLLDLMLPGMSGTDVCKELRSVSTVPVIMVTARDSEIDKVVGLELGADDYVTKPYSSR 106 Query: 88 VLLARIRAHLRRY------KRAFPVNQRHLILYPG-LQIDPTTHSVIAYGREVSLSSKEF 140 L+ARIRA LRR P++ + IL G +++D +H+V G VS+ KEF Sbjct: 107 ELIARIRAVLRRRGVTETEAEELPLDDQ--ILEGGRVRMDVDSHTVTVGGEPVSMPLKEF 164 Query: 141 RLLVVLAKNPNRVFPTETLYDLIWNDMKQGDIRTVMVHIYNLRQKIEKTPSEPLYIHTVR 200 LL L +N RV L D IW GD +T+ VH+ LR KIE+ PS P Y+ TVR Sbjct: 165 DLLEYLLRNAGRVLTRGQLIDRIWGADYVGDTKTLDVHVKRLRSKIEEEPSRPRYLVTVR 224 Query: 201 GVGYKFN 207 G+GYKF Sbjct: 225 GLGYKFE 231 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 0.323 0.139 0.407 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: 15,465,074 Number of extensions: 611468 Number of successful extensions: 1916 Number of sequences better than 1.0e-05: 248 Number of HSP's gapped: 1714 Number of HSP's successfully gapped: 248 Length of query: 219 Length of database: 38,378,431 Length adjustment: 102 Effective length of query: 117 Effective length of database: 26,614,363 Effective search space: 3113880471 Effective search space used: 3113880471 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 114 (48.5 bits)