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= 0168.0017.p (387 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_yvfP_2 [TK] COG2208 Serine phosphatase RsbU, regulator of sig... 163 4e-40 AGc2387 [T] COG3706 Response regulator containing a CheY-like re... 86 7e-17 all0637_1 [T] COG0784 FOG: CheY-like receiver 86 1e-16 VC0622_2 [T] COG0784 FOG: CheY-like receiver 84 3e-16 CC0294 [TK] COG0745 Response regulators consisting of a CheY-lik... 80 5e-15 >BS_yvfP_2 [TK] COG2208 Serine phosphatase RsbU, regulator of sigma subunit Length = 346 Score = 163 bits (412), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 13/236 (5%), Positives = 45/236 (19%), Gaps = 3/236 (1%) Query: 146 ELKLAALVQNAVLSLPLKDEAFEVHAIYQPSFELAGDLYAWYPLGDGRYAVILLDMMGHG 205 + L + + + + + + + + + Sbjct: 43 GINLIDVAEMYPVPPRPETQGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPD 102 Query: 206 ISSSLFCMFLASVLKDTVTTYVQPEKVIQELNRRFNQLYIEKQLVQYYFTAIYLVIDTRL 265 + + A + +R + + ++DT Sbjct: 103 QALDRKNIREALHDSLKRLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLD 162 Query: 266 KRIDYVNAGHPPGLFFEGGAAKPVLLESNCHPVGLFDSIEIQPQTLTFEDEGHLVLYTDG 325 +Y AG + A ++ + Q + Sbjct: 163 ALAEYQRAGKIRYIGVSNETAFG-VMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAE 221 Query: 326 LLEMAEGGQEEQLEFMTSHLNGGHEWLEEPMRAAFFNEAPNQERDDDKCLVWISLK 381 + + ++L A N ++ ++ Sbjct: 222 VSQYEGVEL--LAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKAVA 275 >AGc2387 [T] COG3706 Response regulator containing a CheY-like receiver domain and a GGDEF domain Length = 218 Score = 86.3 bits (212), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 13/151 (8%), Positives = 36/151 (23%), Gaps = 23/151 (15%) Query: 1 LIVDDNPTNVIIIREILKKENYRNFITAASAKEMLKLLGIGSENEEKRSRQSDIDLILLD 60 + N + +++++++ML + + I + + Sbjct: 6 GRDNPNRIIRSRQSMKQELI----LASSSASRQMLMRNAGLTFSA--------IPADIDE 53 Query: 61 MMMPEMDGIEACRVVQQHEHLRDIPIIMVTAVGDSKKLAEALDAGAVDYVTKPINKVELM 120 + E + + L + V+A+ + A+ K Sbjct: 54 RALDEQLERDGASPEEVALELARAKALAVSALHPEALVLGCDQTMALGTRVYHKPKNMAE 113 Query: 121 ARIRLALRLKREKDWHVERDQRIQDELKLAA 151 A L ++ A Sbjct: 114 AATHLLSLSG-----------KVHRLNSAAV 133 >all0637_1 [T] COG0784 FOG: CheY-like receiver Length = 175 Score = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 49/131 (37%), Positives = 76/131 (58%), Gaps = 12/131 (9%) Query: 1 LIVDDNPTNVIIIREILKKENYRNFITAASAKEMLKLLGIGSENEEKRSRQSDIDLILLD 60 LIVDD PTN+ ++ E L + I + + + + E+R DLILLD Sbjct: 27 LIVDDTPTNLEVVSETLGDAGFDVAIATSGDRAL--------QQVERRLP----DLILLD 74 Query: 61 MMMPEMDGIEACRVVQQHEHLRDIPIIMVTAVGDSKKLAEALDAGAVDYVTKPINKVELM 120 +MMP +DG E CR ++ ++ IPII +TA+ DS+ +AL+ GAVDY+ KP + E++ Sbjct: 75 VMMPGIDGFETCRRLKANDRTCHIPIIFMTALCDSESKVKALELGAVDYIVKPFYEKEVL 134 Query: 121 ARIRLALRLKR 131 AR+ L+L + Sbjct: 135 ARVSTHLQLSQ 145 >VC0622_2 [T] COG0784 FOG: CheY-like receiver Length = 151 Score = 84.3 bits (207), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 57/158 (36%), Positives = 85/158 (53%), Gaps = 13/158 (8%) Query: 1 LIVDDNPTNVIIIREILKKENYRNFITAASAKEMLKLLGIGSENEEKRSRQSDIDLILLD 60 L+ DD P N+ ++ L+ E YR TA ++L+ I E E L+LLD Sbjct: 4 LVADDEPVNLRVLDSFLRLEGYR-VHTAQDGHQVLE--AIKREKPE---------LVLLD 51 Query: 61 MMMPEMDGIEACRVVQQHEHLRDIPIIMVTAVGDSKKLAEALDAGAVDYVTKPINKVELM 120 +MMP M G + C ++Q ++PIIM+TA+ S +AGA DY++KP NK EL Sbjct: 52 IMMPGMSGYQVCEKLRQTYDHAELPIIMLTALNQSDDRVRGFEAGANDYLSKPFNKQELA 111 Query: 121 ARIRLALRLKREKDWHVERDQRIQDELKLAALVQNAVL 158 ARI L + + +E Q +Q ELK A+V+ ++L Sbjct: 112 ARIVAHLTASKAELRRIENAQ-LQKELKHRAMVEASLL 148 >CC0294 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 230 Score = 80.5 bits (197), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 48/133 (36%), Positives = 70/133 (52%), Gaps = 16/133 (12%) Query: 1 LIVDDNPTNVIIIREILKKENYRNFITAASAKEMLKLLGIGSENEEK--RSRQSDIDLIL 58 L+V+D ++ L KE YR +G+ + EE + + DL++ Sbjct: 6 LVVEDEDALATLLHYNLDKEGYR--------------VGVAGDGEEALIMANERAPDLVI 51 Query: 59 LDMMMPEMDGIEACRVVQQHEHLRDIPIIMVTAVGDSKKLAEALDAGAVDYVTKPINKVE 118 LD M+P++ GIE CR ++ R++PIIM+TA G+ LD GA DYV KP + VE Sbjct: 52 LDWMLPKVSGIEVCRRLRGRAETRNVPIIMLTARGEETDRIRGLDTGADDYVVKPFSMVE 111 Query: 119 LMARIRLALRLKR 131 L AR+R LR R Sbjct: 112 LTARVRAVLRRIR 124 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 0.320 0.138 0.402 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: 28,659,412 Number of extensions: 1199712 Number of successful extensions: 4023 Number of sequences better than 1.0e-05: 357 Number of HSP's gapped: 3928 Number of HSP's successfully gapped: 360 Length of query: 387 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 279 Effective length of database: 25,922,359 Effective search space: 7232338161 Effective search space used: 7232338161 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: 117 (49.7 bits)