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= 0251.0016.p (235 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC0289 [TK] COG0745 Response regulators consisting of a CheY-li... 177 2e-44 STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases 147 1e-35 TM1655 [TK] COG0745 Response regulators consisting of a CheY-lik... 147 1e-35 SP1227 [TK] COG0745 Response regulators consisting of a CheY-lik... 141 7e-34 BS_ycbL [TK] COG0745 Response regulators consisting of a CheY-li... 141 1e-33 >CAC0289 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 235 Score = 177 bits (448), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 90/233 (38%), Positives = 135/233 (57%), Gaps = 5/233 (2%) Query: 2 MKN---KKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVM 58 MKN K+++V+DE I +++ L+KEGF + + + + CR P++ ILD+M Sbjct: 1 MKNIEDSKILLVDDEESILKLLTTVLKKEGFSNVITSTNGMDGVKKCRENAPEIIILDIM 60 Query: 59 LPDGDGFSLLSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTA 118 LPD DGF + IR FS +P++FLSA YI KPF P+E+ LR+ A Sbjct: 61 LPDIDGFEVFRQIRNFSSVPIMFLSAKSEDTDKIIGLGLGADDYITKPFSPKEVALRVKA 120 Query: 119 VLKRV--YASQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRI 176 LKR+ + R + + +D E + K + L AKE +L L E++ I Sbjct: 121 HLKRIEMVKKSLTNRENIIKTEHFTIDFEKGEIIKNDKSTILRAKELLLLKYLVENKNII 180 Query: 177 VTSDAVCQAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKL 229 ++ + + AVW DD GY+NT+MVH+R++R+K+E DPS P Y+LTV+GLGYKL Sbjct: 181 LSKEKIVNAVWEDDYVGYDNTIMVHIRKLRQKLEDDPSNPKYILTVKGLGYKL 233 >STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 457 Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 15/233 (6%), Positives = 39/233 (16%), Gaps = 6/233 (2%) Query: 2 MKNKKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPD 61 + + E EM + + A L + Sbjct: 9 VLPAAQLNNLTELGYLEMTPVQAAALPV-ILAGNDVRVQARTGSGKTAAFGLGLLHRIDV 67 Query: 62 GDGFSLLSSIRT---FSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTA 118 + + +D L + + Sbjct: 68 TLFQTQALVLCPTRELADQVAGELRRLARFLPNTKILTLCGGQPFGAQRDSLQHAPHIIV 127 Query: 119 VLKRV-YASQIPERLPVFRLGEQV-VDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRI 176 E + + L V + + + + + + Sbjct: 128 ATPGRLLDHLQKETVSLDALHILVMDEADRMLDMGFSDAIDEVIRFAPATRQTLLFSATW 187 Query: 177 VTSDAVCQAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKL 229 + A E + + I ++ + L L Sbjct: 188 PEAIAAISGRVQQQPIRIEIDTVDALPAIEQQFFETSAHEKISLLQTLLSQHQ 240 >TM1655 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 247 Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 88/233 (37%), Positives = 133/233 (57%), Gaps = 6/233 (2%) Query: 2 MKNKKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPD 61 M KK+++V+D+P I E++ L KEG+ + A D AL + E D+ I+D+MLP Sbjct: 9 MAKKKILVVDDDPAILELVGYNLSKEGY-EVLKAYDGEEALKIANDEDVDMFIVDIMLPG 67 Query: 62 GDGFSLLSSIRT---FSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTA 118 DGF L+ IR+ + + PV+FLSA YI KPF REL+ R+ A Sbjct: 68 IDGFELVRKIRSMEKYKNTPVIFLSAKGEEFDKVLGLELGADDYITKPFSVRELLARVKA 127 Query: 119 VLKRV-YASQIPERLPVFRLGEQV-VDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRI 176 + +R+ A+Q E P + + + +D+E V+ G+++ LT E +L L E+ G++ Sbjct: 128 IFRRLSTATQSKEERPKKIIAKDLEIDVEKYEVKVRGKKVNLTPLEFELLRFLAENEGKV 187 Query: 177 VTSDAVCQAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKL 229 + D + +WG D YG T+ VH+RR+R KIE DPS P Y++TVRG GYK Sbjct: 188 FSRDVLLDKLWGYDYYGDTRTVDVHIRRLRTKIEEDPSNPKYIITVRGKGYKF 240 >SP1227 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 234 Score = 141 bits (356), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 128/228 (56%), Gaps = 6/228 (2%) Query: 5 KKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPDGDG 64 KK++IV+DE I ++I+ + KEG+ + A + R AL E+PD+ ILD+MLP+ DG Sbjct: 2 KKILIVDDEKPISDIIKFNMTKEGY-EVVTAFNGREALEQFEAEQPDIIILDLMLPEIDG 60 Query: 65 FSLLSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTAVLKR-- 122 + +IR S +P+L LSA Y+ KPF REL R+ A+L+R Sbjct: 61 LEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRSQ 120 Query: 123 ---VYASQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRIVTS 179 V + + ++G+ + + V +K G EL LT +E +L L G+++T Sbjct: 121 PMPVDGQEADSKPQPIQIGDLEIVPDAYVAKKYGEELDLTHREFELLYHLASHTGQVITR 180 Query: 180 DAVCQAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGY 227 + + + VWG D +G T+ V +RR+REKIE PS+P Y+LT RG+GY Sbjct: 181 EHLLETVWGYDYFGDVRTVDVTVRRLREKIEDTPSRPEYILTRRGVGY 228 >BS_ycbL [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 215 Score = 141 bits (355), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 0/224 (0%), Positives = 0/224 (0%), Gaps = 3/224 (1%) Query: 8 MIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPDGDGFSL 67 M P L R+ A A ++ D + L +M L Sbjct: 1 MNYRIIPVTAFSQNCSLIWCEQTRLAAL-VDPGGDAEKIKQEVDDSGLTLMQILLTHGHL 59 Query: 68 LSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTAVLKRV--YA 125 + + + + + + Sbjct: 60 DHVGAAAELAQHYGVPVFGPEKEDEFWLQGLPAQSRMFGLEECQPLTPDRWLNEGDTISI 119 Query: 126 SQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRIVTSDAVCQA 185 + ++ + K + K + S + Sbjct: 120 GNVTLQVLHCPGHTPGHVVFFDDRAKLLISGDVIFKGGVGRSDFPRGDHNQLISSIKDKL 179 Query: 186 VWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKL 229 Sbjct: 180 223 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 0.324 0.142 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: 15,463,905 Number of extensions: 562524 Number of successful extensions: 2376 Number of sequences better than 1.0e-05: 275 Number of HSP's gapped: 1970 Number of HSP's successfully gapped: 275 Length of query: 235 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 132 Effective length of database: 26,499,029 Effective search space: 3497871828 Effective search space used: 3497871828 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 114 (48.5 bits)