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= 0171.0005.p (285 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 104 2e-22 lin0157 [K] COG2207 AraC-type DNA-binding domain-containing prot... 76 7e-14 BH0989 [K] COG2207 AraC-type DNA-binding domain-containing proteins 71 2e-12 BH1910 [T] COG4753 Response regulator containing CheY-like recei... 64 3e-10 PA0416 [K] COG2207 AraC-type DNA-binding domain-containing proteins 63 5e-10 >SP1899 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 70/258 (27%), Positives = 123/258 (47%), Gaps = 7/258 (2%) Query: 23 FAGESQTLPLHQAGPKIYDYYLMHFIESGFGTFRTEERKYELGPGDCFLIHPGQLVSYVS 82 F G + P + GP I D Y++H+I G G F + + +L GD FL+ P +L Y + Sbjct: 18 FYGYEECTPNYSFGPAIRDTYVLHYITKGQGKFHYKGKIVDLKEGDFFLLKPEELTFYQA 77 Query: 83 DEDQPWRYRWAAFTGTDADALVLQTGFTPQKPVL--STAEGSVFPGALAGMMRAFYTGKE 140 D +PW Y W TG A + + Q ++ T ++ ++R K Sbjct: 78 DSKEPWAYYWLGITGGKAPDYFALSQISDQSYLIQSETCHTQTTAKLISDIVRFAQITKS 137 Query: 141 S--AHLTSLGYLYLLVGEAADLLLASSRLPGAESQVKRTVKQMIHYMAAQYAHPVSIEQM 198 S A L +G L+ L+ +A ++ S + + + + Y ++I+ + Sbjct: 138 SELAQLHIMGQLHELMFHLGT--IAPNQKKKNISSTHQLYLECKRLIDSHYPQSLTIQDL 195 Query: 199 CASLGYNRAYLSRIFKQETGLSPVTYLLKLRIEKSXXXXXXXXXXSVEQVAASVGLTDAL 258 L +R+YLS +FK+ LSP YLL +R+ ++ S++ +A SVG +D L Sbjct: 196 AKELSVHRSYLSSVFKEFNTLSPKEYLLYVRMHRA-RQLLENTQESIKVIAYSVGFSDPL 254 Query: 259 YFSRQFKRFCAQSPTAYR 276 +FS+ +K++ Q+P+ R Sbjct: 255 HFSKAYKQYFNQTPSHTR 272 >lin0157 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 277 Score = 75.9 bits (185), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 37/108 (34%), Positives = 63/108 (58%), Gaps = 1/108 (0%) Query: 166 RLPGAESQVKRTVKQMIHYMAAQYAHPVSIEQMCASLGYNRAYLSRIFKQETGLSPVTYL 225 +L E Q + V ++IHYM + VS+ + ++ + AY+S++FK+ETG SP+ YL Sbjct: 164 KLSTDEQQKQMLVNEIIHYMEKHHTEDVSLSTLSQTMYISPAYISKVFKEETGESPINYL 223 Query: 226 LKLRIEKSXXXXXXXXXXSVEQVAASVGLTDALYFSRQFKRFCAQSPT 273 +K+R+ ++ +V+Q A VG DA YFS+ FK++ P+ Sbjct: 224 IKIRLTRA-EELLKNKDVTVKQAANMVGYNDAYYFSKLFKKYYGFPPS 270 >BH0989 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 278 Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 36/118 (30%), Positives = 66/118 (55%), Gaps = 3/118 (2%) Query: 159 DLLLASSRLPGAESQVKRTVKQMIHYMAAQYAHPVSIEQMCASLGYNRAYLSRIFKQETG 218 D+L+ + ESQ+ ++Q++ Y+ Y P++++++ G S +FK+ G Sbjct: 153 DMLICARNRLNRESQL--VIEQVVEYIHHHYMEPMTVKKLADMSGMGVKPFSYLFKKYIG 210 Query: 219 LSPVTYLLKLRIEKSXXXXXXXXXXSVEQVAASVGLTDALYFSRQFKRFCAQSPTAYR 276 + P+ YL++ R++++ S+ +A S+G DALYFSR FK+ SPTA+R Sbjct: 211 MFPIDYLIQYRLKRAKNLLVSSNS-SIADIAESIGYLDALYFSRLFKKHIGCSPTAFR 267 >BH1910 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 506 Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 34/99 (34%), Positives = 53/99 (53%), Gaps = 2/99 (2%) Query: 178 VKQMIHYMAAQYAHPVSIEQMCASLGYNRAYLSRIFKQETGLSPVTYLLKLRIEKSXXXX 237 +++MI + YA + +E + + YNRAYL ++FK TG TYL K+RIE Sbjct: 399 LRKMIALIHKDYAKNLRLETLASVFNYNRAYLGKLFKNYTGEYFNTYLDKVRIENG--KR 456 Query: 238 XXXXXXSVEQVAASVGLTDALYFSRQFKRFCAQSPTAYR 276 V +VA +G + YF R+FK++ SP+ +R Sbjct: 457 LLQKGYKVYEVAEKIGYANVDYFHRKFKKYVGVSPSTFR 495 >PA0416 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 264 Score = 63.2 bits (152), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 57/254 (22%), Positives = 109/254 (42%), Gaps = 9/254 (3%) Query: 27 SQTLPLHQAGPKIYDYYLMHFIESGFGTFRTEERKYELGPGDCFLIHPGQLVSYVSDEDQ 86 S +L H+ +D +++ G + R ++ GD L +PGQ+ + Q Sbjct: 17 SASLAGHRFEKHSHDEFVISANLCGLEDVWLDGRTFQADSGDLTLYNPGQIQGGGVRDGQ 76 Query: 87 PWRYRWAAFTGTDADALVLQTGFTPQKPVL-STAEGSVFPGALAGMMRAFYTGKESAHLT 145 PWR+ + + + + +P+L S A G ++ ++ + +E Sbjct: 77 PWRFASLYLPAAELASSLDLSSVEFDRPLLRSPALGRELAASIEALLASDRFARERGEER 136 Query: 146 SLGYLYLLVGEAADLLLASSRLPGAESQVKRTVKQMIHYMAAQYAHPVSIEQMCASLGYN 205 L +L L L + +RLP + V ++ +A + A P ++ M +G + Sbjct: 137 LLEFLGRL------LAASGTRLPQRADPGRPAVARLQALLAERLAEPPDLDGMAEQVGLS 190 Query: 206 RAYLSRIFKQETGLSPVTYLLKLRIEKSXXXXXXXXXXSVEQVAASVGLTDALYFSRQFK 265 + +L R FK+ TGLSP + ++LR ++ +V +VA ++G D + +R F Sbjct: 191 KYHLLRAFKKATGLSPRQWSMQLRTRRA--LGLLRRGLAVGEVAHALGFADQSHLTRYFT 248 Query: 266 RFCAQSPTAYRIAT 279 SP Y+ A Sbjct: 249 SAYGISPGRYQRAV 262 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 0.400 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: 20,647,076 Number of extensions: 839289 Number of successful extensions: 3330 Number of sequences better than 1.0e-05: 33 Number of HSP's gapped: 3360 Number of HSP's successfully gapped: 33 Length of query: 285 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 180 Effective length of database: 26,268,361 Effective search space: 4728304980 Effective search space used: 4728304980 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: 115 (48.9 bits)