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= 0449.0008.p (524 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH0989 [K] COG2207 AraC-type DNA-binding domain-containing proteins 92 1e-18 BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing pr... 87 9e-17 BH3842 [T] COG4753 Response regulator containing CheY-like recei... 77 9e-14 AGc1998 [K] COG2207 AraC-type DNA-binding domain-containing prot... 71 4e-12 slr1491 [P] COG0614 ABC-type Fe3+-hydroxamate transport system, ... 71 4e-12 >BH0989 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 278 Score = 92.4 bits (228), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 52/154 (33%), Positives = 84/154 (54%), Gaps = 10/154 (6%) Query: 111 GMEISEKLD---------GDAPQRMRANILFQELLLALFEGSSGPNESAQERAIAQTVEY 161 + I+EKLD G+ P+ ++A LF + + + + I Q VEY Sbjct: 118 NLAITEKLDLLHRIKSTPGNFPE-IQAKALFYTIFHDMLICARNRLNRESQLVIEQVVEY 176 Query: 162 MHRNYHRSVSREQLAEVAGMSADYYSRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKESF 221 +H +Y ++ ++LA+++GM +S LFKK +G P++YL RLK AK L+S+ S Sbjct: 177 IHHHYMEPMTVKKLADMSGMGVKPFSYLFKKYIGMFPIDYLIQYRLKRAKNLLVSSNSSI 236 Query: 222 RAIAQSVGFADEFYFSRKFRTATGVSPSHYVRQV 255 IA+S+G+ D YFSR F+ G SP+ + Q+ Sbjct: 237 ADIAESIGYLDALYFSRLFKKHIGCSPTAFRAQM 270 >BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 364 Score = 86.7 bits (213), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 7/129 (5%), Positives = 19/129 (14%), Gaps = 1/129 (0%) Query: 125 RMRANILFQELLLALFEGSSGPNESAQERAIAQTVEYMHRNYHRSVSREQLAEVAGMSAD 184 + L+ Q+ Q + Sbjct: 136 TIELAQKPIVLIGGCTGSGKT-LLVQQQPNGVDLEGLARHRGSAFGRTLQPQLSQASFEN 194 Query: 185 YYSRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKESFRAIAQSVGFADEFYFSRKFRTAT 244 + K + + + + + Q+ E F + Sbjct: 195 LLAAEMLKTDARQNLRLWVLEDESRMIGSNHLPECLRERMTQAAIAVVEDPFEIRLERLN 254 Query: 245 GVSPSHYVR 253 Sbjct: 255 EEYFLRMHH 263 >BH3842 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 530 Score = 76.6 bits (187), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 37/98 (37%), Positives = 61/98 (62%) Query: 160 EYMHRNYHRSVSREQLAEVAGMSADYYSRLFKKKLGQTPVEYLTGIRLKHAKQALLSTKE 219 +Y+H ++ ++ + LA+ G+S Y S+LFK++ T EY+T +R++HAKQ L T++ Sbjct: 422 DYVHDHFREPLTLDDLAKHIGLSPYYVSKLFKERFDLTFSEYVTQLRVEHAKQLLSLTQK 481 Query: 220 SFRAIAQSVGFADEFYFSRKFRTATGVSPSHYVRQVKA 257 S + I +G+ D YFSR F+ TG SPS Y + + Sbjct: 482 SLKEITYEIGYKDPNYFSRVFKKLTGKSPSDYRKSING 519 >AGc1998 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 816 Score = 71.2 bits (173), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 8/104 (7%), Positives = 22/104 (21%), Gaps = 1/104 (0%) Query: 148 ESAQERAIAQTVEYMHRNYHRSVSREQLAEVAGMSADYYSRLFKKKLGQTPVEYLTGIRL 207 + + M + ++ S K+ E L L Sbjct: 180 GTEVTFLASPQTFTMTDYDYGTLEHRLRELAFLNSGVRILLTDKRHSDVKQQELLYDGGL 239 Query: 208 KHAKQALLSTKESFRAIAQSVGFADEFYFSRKFRTATGVSPSHY 251 + + L + +++ + + S Sbjct: 240 EAFVR-YLDRAKKPLVDKPIAIHSEKDGITVEVALWWNDSYHEN 282 >slr1491 [P] COG0614 ABC-type Fe3+-hydroxamate transport system, periplasmic component Length = 330 Score = 70.9 bits (172), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 63/248 (25%), Positives = 119/248 (47%), Gaps = 23/248 (9%) Query: 259 QRIVSLQHHLTGHLLALGIEPYAALVNSYYPLRLKEVRDIGHF----RPDLDKLAAVGPD 314 +R+V+L G+LLALG+ P A + ++ P + + ++ + +L+ LA + PD Sbjct: 60 RRVVALDGATVGNLLALGMMP-AGVASNLLPEITRLIPNVPRLGQSSQINLETLAVLQPD 118 Query: 315 VIFTCEVYDEETQQKARMFEHIAQTVTIPFFE-----DWRTQLRKVAVATGREDEAEDWL 369 +I V+ E + IA TV FE DW+ R G E +AE L Sbjct: 119 LIIGA-VW--EMKGIYNKLSAIAPTVA---FEMQTPADWQRPFRFDGQVLGLETQAEKVL 172 Query: 370 QHYELKAQQTRAALSPFTEGKSVLIVGVGNGRICLFGHRNVGAVLYGDLGLQAP----DG 425 + Y+++ + RA +S S++ + +G++ L+ G + DLG P G Sbjct: 173 EQYQMRVNKLRAQVSDSPLQISLVRIRAESGQMSLYLKNCFGGAILADLGFARPPSQDQG 232 Query: 426 LGDIRLY-REIDYSEIYSYDPDLLLLTSFRNDGSPLTKLAIREKIRQIESDPRWKAMKAV 484 D + + I + D D++ L +F + +P A ++ ++++DP W+++ AV Sbjct: 233 TPDQPPFAKSISRESMTEADGDVIFLFTFGH--TPQIAAAAEAQLERLDTDPLWQSLGAV 290 Query: 485 RSSKVYSL 492 + ++VYS+ Sbjct: 291 QKNRVYSV 298 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 0.136 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: 38,694,068 Number of extensions: 1566312 Number of successful extensions: 4854 Number of sequences better than 1.0e-05: 136 Number of HSP's gapped: 4833 Number of HSP's successfully gapped: 136 Length of query: 524 Length of database: 38,378,431 Length adjustment: 111 Effective length of query: 413 Effective length of database: 25,576,357 Effective search space: 10563035441 Effective search space used: 10563035441 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: 118 (50.1 bits)