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= 0504.0023.p (305 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH0483 [K] COG2207 AraC-type DNA-binding domain-containing proteins 63 7e-10 BH3842 [T] COG4753 Response regulator containing CheY-like recei... 63 7e-10 AGc3663 [K] COG2207 AraC-type DNA-binding domain-containing prot... 60 4e-09 AGc3663A [R] COG1064 Zn-dependent alcohol dehydrogenases 60 4e-09 PA0248 [K] COG2207 AraC-type DNA-binding domain-containing proteins 60 6e-09 >BH0483 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 769 Score = 62.8 bits (151), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 32/82 (39%), Positives = 47/82 (57%) Query: 218 IEDIAARLGYSPNHCNRAFRHIYGMSPRQYLSGLIIRHAKLMLLDNSLSVEAIAHRLGYR 277 +E IA RL Y+PN+ + FR +S +YLS + AK LL+ S+ + IA RL Y Sbjct: 684 LESIAERLHYNPNYLSSIFRKETNISFSEYLSSYRLAMAKKWLLETSMPIREIAERLCYG 743 Query: 278 DVSHFSKQFKRWTGLPPMAYRQ 299 + +F + FK+ G+ P YRQ Sbjct: 744 NSQNFIRSFKKKEGMTPGKYRQ 765 >BH3842 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 530 Score = 62.8 bits (151), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 26/82 (31%), Positives = 52/82 (63%) Query: 218 IEDIAARLGYSPNHCNRAFRHIYGMSPRQYLSGLIIRHAKLMLLDNSLSVEAIAHRLGYR 277 ++D+A +G SP + ++ F+ + ++ +Y++ L + HAK +L S++ I + +GY+ Sbjct: 434 LDDLAKHIGLSPYYVSKLFKERFDLTFSEYVTQLRVEHAKQLLSLTQKSLKEITYEIGYK 493 Query: 278 DVSHFSKQFKRWTGLPPMAYRQ 299 D ++FS+ FK+ TG P YR+ Sbjct: 494 DPNYFSRVFKKLTGKSPSDYRK 515 >AGc3663 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 289 Score = 60.5 bits (145), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 11/262 (4%), Positives = 30/262 (11%), Gaps = 46/262 (17%) Query: 52 LVLQGRQHMTVGGQAYLQECGDILFIRPGVRHASLGADAAGDMTYYCLHFDIDDLSLRRT 111 A + I R A A ++ + + Sbjct: 54 FPKFIATLKEGKPGAAVGGNATIPHKEAAYRLADHPDALAEELGAANTIWMEEGKLH--- 110 Query: 112 LLTMDAVSLSGESPVLLAIRSALDVMIRTAI--LTEAEDAQRNRLVRLNASLQLFAALSA 169 + ++ R A+ + Sbjct: 111 ----------------------ATNTDGYGFVSNLDERHPGWDKTQRAVVFGAGGASRAV 148 Query: 170 WVLSETPAATRSAQPGVTENTVALANAVEGLLQESVFTAAATGSRGGGI----------- 218 T + A Sbjct: 149 IQSLRDRDVAEIHVVNRTVER--ARELADRFGPRVFSHPQAALQEVMHGAGLFVNTTSLG 206 Query: 219 ------EDIAARLGYSPNHCNRAFRHIYGMSPRQYLSGLIIRHAKLMLLDNSLSVEAIAH 272 + + I + + + Sbjct: 207 MNGTEAPHLDFSHLAANAVVTDIVYVPLKTPILNMAQEQGIATVDGLGMLLHQAKPGFRR 266 Query: 273 RLGYRDVSHFSKQFKRWTGLPP 294 G + + + Sbjct: 267 WFGRIPEVDETLRSLIIADMEK 288 >AGc3663A [R] COG1064 Zn-dependent alcohol dehydrogenases Length = 289 Score = 60.5 bits (145), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 11/262 (4%), Positives = 30/262 (11%), Gaps = 46/262 (17%) Query: 52 LVLQGRQHMTVGGQAYLQECGDILFIRPGVRHASLGADAAGDMTYYCLHFDIDDLSLRRT 111 A + I R A A ++ + + Sbjct: 54 FPKFIATLKEGKPGAAVGGNATIPHKEAAYRLADHPDALAEELGAANTIWMEEGKLH--- 110 Query: 112 LLTMDAVSLSGESPVLLAIRSALDVMIRTAI--LTEAEDAQRNRLVRLNASLQLFAALSA 169 + ++ R A+ + Sbjct: 111 ----------------------ATNTDGYGFVSNLDERHPGWDKTQRAVVFGAGGASRAV 148 Query: 170 WVLSETPAATRSAQPGVTENTVALANAVEGLLQESVFTAAATGSRGGGI----------- 218 T + A Sbjct: 149 IQSLRDRDVAEIHVVNRTVER--ARELADRFGPRVFSHPQAALQEVMHGAGLFVNTTSLG 206 Query: 219 ------EDIAARLGYSPNHCNRAFRHIYGMSPRQYLSGLIIRHAKLMLLDNSLSVEAIAH 272 + + I + + + Sbjct: 207 MNGTEAPHLDFSHLAANAVVTDIVYVPLKTPILNMAQEQGIATVDGLGMLLHQAKPGFRR 266 Query: 273 RLGYRDVSHFSKQFKRWTGLPP 294 G + + + Sbjct: 267 WFGRIPEVDETLRSLIIADMEK 288 >PA0248 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 288 Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 72/288 (25%), Positives = 123/288 (42%), Gaps = 28/288 (9%) Query: 17 SPDLQAAFHIYAAHWRKVNAQWQYPEHTHP-MFEINLVLQGRQHMTVGGQAYLQECGDIL 75 +PDL H + R W+ H H + ++ V +G + V G+ E I Sbjct: 22 TPDL---LHCESIPARSRLHDWEIKPHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQ 78 Query: 76 FIRPGVRHASLGADAAGDMTYYCLHFDIDDLSLRRTLLTMDAVSLSGESPVLLAI---RS 132 F+ P H G + + Y L L+ R + A + E+P L + R Sbjct: 79 FVPPLCIH---GFQFSERIDGYVLTLAAPLLA--RLQAHLGAQRQALEAPGLYPVGADRR 133 Query: 133 ALDVMIRTAILTEAEDAQRNRLVRLNASLQLFAALSAWVLSETPAATRSAQPGVTENTV- 191 +D + AI E A R + L + L L+ W+ + A+PG + + Sbjct: 134 YIDTLF-DAIDGEYAGAAPARELLLQS---LIGVLAVWLGRQVMVRRAEARPGRGQEYLS 189 Query: 192 ALANAVEGLLQESVFTAAATGSRGGGIEDIAARLGYSPNHCNRAFRHIYGMSPRQYLSGL 251 A + VE +E + GI++ A RLG SP H N R + G + + Sbjct: 190 AFSQLVERHFREHL-----------GIDEYARRLGISPAHLNGVARRLSGQTALGIVHQR 238 Query: 252 IIRHAKLMLLDNSLSVEAIAHRLGYRDVSHFSKQFKRWTGLPPMAYRQ 299 ++ AK L+ +++V IA RLG+ + ++F++ FKR +G+ P +R+ Sbjct: 239 LLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRK 286 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 0.322 0.134 0.400 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: 21,443,427 Number of extensions: 819741 Number of successful extensions: 2626 Number of sequences better than 1.0e-05: 46 Number of HSP's gapped: 2628 Number of HSP's successfully gapped: 46 Length of query: 305 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 199 Effective length of database: 26,153,027 Effective search space: 5204452373 Effective search space used: 5204452373 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 (21.9 bits) S2: 115 (48.9 bits)