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= 0514.0017.p (282 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins 107 2e-23 BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing pr... 80 4e-15 SMa0319 [K] COG2207 AraC-type DNA-binding domain-containing prot... 79 1e-14 BH3842 [T] COG4753 Response regulator containing CheY-like recei... 74 2e-13 BH2728 [T] COG4753 Response regulator containing CheY-like recei... 74 3e-13 >SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 107 bits (268), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 72/263 (27%), Positives = 127/263 (48%), Gaps = 13/263 (4%) Query: 23 ITWAGHRKCGKDHVVGPRVLETYKMVFVLSGKG-YLTQGDHVNKMLKQGDIFILLPGEKH 81 +++ G+ +C ++ GP + +TY + ++ G+G + +G V+ LK+GD F+L P E Sbjct: 16 LSFYGYEECTPNYSFGPAIRDTYVLHYITKGQGKFHYKGKIVD--LKEGDFFLLKPEELT 73 Query: 82 FYYADPEDPWEIMWVSFNGQHIPYYLSLMGLDINHCCLEGIATHT-IINKMLLLIQELPE 140 FY AD ++PW W+ G P Y +L + ++ HT K++ I + Sbjct: 74 FYQADSKEPWAYYWLGITGGKAPDYFALSQISDQSYLIQSETCHTQTTAKLISDIVRFAQ 133 Query: 141 AGDGQLLCISYLLHIFHLIEQGAKHYGEAGKRTGSESVVQQAVLFIE------QNYYIHI 194 L LHI + + H G +++ L++E +Y + Sbjct: 134 ITKSSELA---QLHIMGQLHELMFHLGTIAPNQKKKNISSTHQLYLECKRLIDSHYPQSL 190 Query: 195 DVDILCKHVNYSRSYLSRYFKQITGMSIPEYISKIRIQNAKVLLQKTGLNIQEISASVGI 254 + L K ++ RSYLS FK+ +S EY+ +R+ A+ LL+ T +I+ I+ SVG Sbjct: 191 TIQDLAKELSVHRSYLSSVFKEFNTLSPKEYLLYVRMHRARQLLENTQESIKVIAYSVGF 250 Query: 255 TDSLYFSKLFKNVTGTSPMSYKK 277 +D L+FSK +K +P +K Sbjct: 251 SDPLHFSKAYKQYFNQTPSHTRK 273 >BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 364 Score = 80.1 bits (196), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 8/252 (3%), Positives = 33/252 (13%), Gaps = 28/252 (11%) Query: 40 RVLETYKMVFVLSGKGYLTQGDHVNKMLKQGDIFILLPGEKHFYYADPE---DPWEIMWV 96 + + + + + + W Sbjct: 26 PIEFEHGAMPAAINLPLMNNDERAAVGTCYK-QQGSDAALALGHKLVAGEIRQQRMDAWR 84 Query: 97 SFNGQHIPYYLSLMGLDINHCCLEG-IATHTIIN-----KMLLLIQELPEAGD-----GQ 145 + I C G + L++ +A Sbjct: 85 A--------ACLQNPQGILCCARGGQRSHIVQSWLHAAGIDYPLVEGGYKALRQTAIQAT 136 Query: 146 LLCISYLLHIFHLIEQGAKHYGEAGKRTGSESVVQQAVLFIEQNYYIHIDVDILCKHVNY 205 + + + + Sbjct: 137 IELAQKPIVLIGGC-----TGSGKTLLVQQQPNGVDLEGLARHRGSAFGRTLQPQLSQAS 191 Query: 206 SRSYLSRYFKQITGMSIPEYISKIRIQNAKVLLQKTGLNIQEISASVGITDSLYFSKLFK 265 + L+ + + ++ + F + Sbjct: 192 FENLLAAEMLKTDARQNLRLWVLEDESRMIGSNHLPECLRERMTQAAIAVVEDPFEIRLE 251 Query: 266 NVTGTSPMSYKK 277 + + Sbjct: 252 RLNEEYFLRMHH 263 >SMa0319 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 333 Score = 78.6 bits (192), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/260 (27%), Positives = 122/260 (46%), Gaps = 32/260 (12%) Query: 39 PRVLETYKMVFVLSGKGYLTQ----GDHVNKMLKQGDIFILLPGEKHFYYADPEDPWEIM 94 P V E +V+V+SG+ + + GD V + GD F+ P+E+ Sbjct: 84 PAVAEPL-IVWVMSGEAVVEERDLDGDWVANTVTVGD----------FFLTRSPTPYEMR 132 Query: 95 WVSFNG---QHIPYYLSL-----MGLDINHCC----LEGIA--THTIINKMLLLI-QELP 139 W S + Q + YLS+ + D+ C L I+ T ++ +L L+ QEL Sbjct: 133 WRSVDAAPFQVMHLYLSVPLFERVAYDVLGCAAPPALRDISGGRDTQLSHLLALVHQELT 192 Query: 140 EAGDGQLLCISYLLH--IFHLIEQGAKHYGEAGKRTGSESVVQQAVLFIEQNYYIHIDVD 197 G G L I L HLI A + + + + +++AV +E++ ++ Sbjct: 193 AEGKGSQLFIQGLAQSLAVHLIRNYAANEADDRQNALTGFKLRRAVAHLEEHLAEPFNLA 252 Query: 198 ILCKHVNYSRSYLSRYFKQITGMSIPEYISKIRIQNAKVLLQKTGLNIQEISASVGITDS 257 L + V S + SR FK+ TG+S Y + R+ A++LLQ+T +I EI SVG + Sbjct: 253 QLAETVGMSEFHFSRLFKKATGLSPSRYFIRQRVARAQLLLQETDTSIIEIGMSVGYSSP 312 Query: 258 LYFSKLFKNVTGTSPMSYKK 277 +F+++F+ TG P Y++ Sbjct: 313 SHFAQVFRRETGLPPSHYRR 332 >BH3842 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 530 Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 39/128 (30%), Positives = 75/128 (58%), Gaps = 8/128 (6%) Query: 150 SYLLHIFHLIEQGAKHYGEAGKRTGSESVVQQAVLFIEQNYYIHIDVDILCKHVNYSRSY 209 S +LHI +++ + T +S++ A ++ ++ + +D L KH+ S Y Sbjct: 396 SEILHIVRTLQEW--------RTTDEQSLMLLARDYVHDHFREPLTLDDLAKHIGLSPYY 447 Query: 210 LSRYFKQITGMSIPEYISKIRIQNAKVLLQKTGLNIQEISASVGITDSLYFSKLFKNVTG 269 +S+ FK+ ++ EY++++R+++AK LL T +++EI+ +G D YFS++FK +TG Sbjct: 448 VSKLFKERFDLTFSEYVTQLRVEHAKQLLSLTQKSLKEITYEIGYKDPNYFSRVFKKLTG 507 Query: 270 TSPMSYKK 277 SP Y+K Sbjct: 508 KSPSDYRK 515 >BH2728 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 510 Score = 73.9 bits (180), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 38/105 (36%), Positives = 63/105 (60%) Query: 177 SVVQQAVLFIEQNYYIHIDVDILCKHVNYSRSYLSRYFKQITGMSIPEYISKIRIQNAKV 236 S +Q+ + +IE+++ + + L + +++ SYLS YF+Q EY++K+RI+ AK Sbjct: 400 SSIQKMLAYIEEHHSEPLSLSQLANYFHFNPSYLSAYFRQHHDEGFSEYLNKVRIRKAKE 459 Query: 237 LLQKTGLNIQEISASVGITDSLYFSKLFKNVTGTSPMSYKKHNQE 281 L+ + + I EI A VG +D YF K+FK TG P Y++ N E Sbjct: 460 WLKSSTIPISEIYALVGYSDHSYFCKVFKKRTGMPPSRYRRENAE 504 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 0.138 0.421 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: 21,373,133 Number of extensions: 857544 Number of successful extensions: 2174 Number of sequences better than 1.0e-05: 74 Number of HSP's gapped: 2164 Number of HSP's successfully gapped: 74 Length of query: 282 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 177 Effective length of database: 26,268,361 Effective search space: 4649499897 Effective search space used: 4649499897 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)