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= 0184.0007.p (251 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH3842 [T] COG4753 Response regulator containing CheY-like recei... 84 2e-16 BH3679 [T] COG4753 Response regulator containing CheY-like recei... 82 1e-15 BH1123 [T] COG4753 Response regulator containing CheY-like recei... 75 9e-14 SPy1587 [T] COG4753 Response regulator containing CheY-like rece... 70 4e-12 BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing pr... 69 5e-12 >BH3842 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 530 Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 56/215 (26%), Positives = 109/215 (50%), Gaps = 12/215 (5%) Query: 35 PLDYEQELLEAIRMGNESKALEAL-HKINTLEAATLAGYPLRSKKNSLIASCTLFTRAII 93 P++ E +L+EAI+ G+ KAL+A H + + + +PL + L + R + Sbjct: 312 PIERENKLIEAIKSGDGEKALQAFDHYVQAI--LRCSKHPLHDMRKYLQQLFIILGRLLN 369 Query: 94 RGGVNPETAFQLSDTIIRDIENTAGLEQLLLFEYEMVLQFIAIMKREKEILHYSHIVNLS 153 G++ ETA +D + + Q+ +L + ++ + S ++ L+ Sbjct: 370 EMGLHWETA--------QDFARFSTVHQVTEHGKSEILHIVRTLQEWRTTDEQS-LMLLA 420 Query: 154 IYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINRRRIEESKSILIHSN 213 Y+ +H LTL +A+H G+ P Y+S FK + +E++ + R+E +K +L + Sbjct: 421 RDYVHDHFREPLTLDDLAKHIGLSPYYVSKLFKERFDLTFSEYVTQLRVEHAKQLLSLTQ 480 Query: 214 QSISDISLMFKLCSQSYYTQLFKKYTGKTPGQYRK 248 +S+ +I+ +Y++++FKK TGK+P YRK Sbjct: 481 KSLKEITYEIGYKDPNYFSRVFKKLTGKSPSDYRK 515 >BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 257 Score = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 38/109 (34%), Positives = 71/109 (65%) Query: 140 EKEILHYSHIVNLSIYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINR 199 EKE L S ++ +++YI H+ +++ L +A+ ++PSYLS FK +T M +E++ R Sbjct: 146 EKERLSSSDSIHEALHYIDAHLDQKIGLKDVAKSVHLNPSYLSALFKEKTNMTFSEYLTR 205 Query: 200 RRIEESKSILIHSNQSISDISLMFKLCSQSYYTQLFKKYTGKTPGQYRK 248 +R++ +K +L+ +++ ISDI+ + Y+ ++FK++ G TP QYRK Sbjct: 206 KRLQHAKHLLVSTDRPISDIAEKCGYQTAKYFIKIFKEHEGMTPTQYRK 254 >BH1123 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 526 Score = 75.1 bits (183), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 51/213 (23%), Positives = 103/213 (48%), Gaps = 11/213 (5%) Query: 35 PLDYEQELLEAIRMGNESKALEALHK----INTLEAATLAGYPLRSKKNSLIASCTLFTR 90 P++ Q+L +AIR + ++A E L + + + +TL GY + I T+ T Sbjct: 314 PMESSQKLYDAIRYADATRAKEVLEEAVGVLGEVPYSTLVGYKVG------IEIWTIITY 367 Query: 91 AIIRGGVNPETAFQLSDTIIRDIENTAGLEQLLLFEYEMVLQFIAIMKREKEILHYSHIV 150 ++ G+ + F + + + ++ + F E + + I ++ E + + ++ Sbjct: 368 SLYDIGILIQEMFDEDFDLAQHLTKQGNWQEWIRFLCEQI-EHICYHQQWDENIKHKQLI 426 Query: 151 NLSIYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINRRRIEESKSILI 210 + YI +H+ +TL IA + +YL FK+ G + ++ R R+E++K ++ Sbjct: 427 EQVMIYIEKHLAENITLQDIADELYISRNYLGQIFKKVVGESFKNYVTRLRMEKAKKMIQ 486 Query: 211 HSNQSISDISLMFKLCSQSYYTQLFKKYTGKTP 243 N I ++S + +Y+T +FKKYTG TP Sbjct: 487 EGNFLIYEVSEKVGYVNPAYFTTMFKKYTGYTP 519 >SPy1587 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 494 Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 36/102 (35%), Positives = 64/102 (62%) Query: 146 YSHIVNLSIYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINRRRIEES 205 YS +V+ +I IR+ +ELTL IA V+ YL FK ET + T+++N RI+++ Sbjct: 379 YSDLVSETIDCIRKEYHQELTLKAIADRLHVNGVYLGQCFKNETERSFTQYLNHVRIQKA 438 Query: 206 KSILIHSNQSISDISLMFKLCSQSYYTQLFKKYTGKTPGQYR 247 + +L+++NQSI++I+ + Y+ ++FKK G +P ++R Sbjct: 439 QQLLLYTNQSINEIAYETGYNTNHYFIKMFKKLNGLSPKEFR 480 >BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 364 Score = 69.3 bits (168), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 2/94 (2%), Positives = 14/94 (14%) Query: 155 YYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINRRRIEESKSILIHSNQ 214 R + + L+ + Sbjct: 170 GLARHRGSAFGRTLQPQLSQASFENLLAAEMLKTDARQNLRLWVLEDESRMIGSNHLPEC 229 Query: 215 SISDISLMFKLCSQSYYTQLFKKYTGKTPGQYRK 248 ++ + + ++ + + Sbjct: 230 LRERMTQAAIAVVEDPFEIRLERLNEEYFLRMHH 263 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 0.134 0.380 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: 16,715,010 Number of extensions: 583123 Number of successful extensions: 2236 Number of sequences better than 1.0e-05: 780 Number of HSP's gapped: 2237 Number of HSP's successfully gapped: 780 Length of query: 251 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 147 Effective length of database: 26,383,695 Effective search space: 3878403165 Effective search space used: 3878403165 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)