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= 0417.0016.p (204 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC2608 [K] COG2207 AraC-type DNA-binding domain-containing prot... 110 1e-24 CAC2818 [K] COG2207 AraC-type DNA-binding domain-containing prot... 103 2e-22 CAC1333 [K] COG2207 AraC-type DNA-binding domain-containing prot... 85 1e-16 slr1213_2 [K] COG2207 AraC-type DNA-binding domain-containing pr... 69 6e-12 BS_ybfI [K] COG2207 AraC-type DNA-binding domain-containing prot... 67 2e-11 >CAC2608 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 284 Score = 110 bits (276), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 64/202 (31%), Positives = 110/202 (54%), Gaps = 5/202 (2%) Query: 1 MNPSMSGLLLTSRNPICTASLXXXXTQLSGCFDYRPKGKGNIVHLEESQLQQFLRLTGTL 60 +N S ++ S +P SL T L+ CF +R + V L + Q +F+ + Sbjct: 80 VNNSTHERIVISIHPDFLKSLCTSKTNLTYCFKHRGSNFCHKVSLNKEQQSRFMYF---I 136 Query: 61 EEALSSDAYGSDIIANSAIAQLLVLTNTIFHN--ASFIPADIMPELVRKTMDYIEAHLGQ 118 + + S +G+D+I ++ +L++ ++F N S P + + + YI ++ Sbjct: 137 NKIIGSHGFGADMIEYASFIELMIFLTSLFINNGESLTPIYKYSNQIEEIIRYINDNVTN 196 Query: 119 NITLEQLAGIFHLNSTYISRQFKKHTGLTLRSYILDRRVSLAKSYLSEGLSITEACYQSG 178 +IT++ LA F L+ +YI R FK TG T+ YI RR+S+AK+ LS G SI + + G Sbjct: 197 DITVKHLAEHFFLSESYICRIFKLSTGTTINKYITARRISMAKALLSNGSSINDVYVKCG 256 Query: 179 FSDYANFIRSFTRIAGISPGRF 200 F+DY+NF++SF + GISP ++ Sbjct: 257 FNDYSNFLKSFKKAVGISPKKY 278 >CAC2818 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 279 Score = 103 bits (257), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 59/177 (33%), Positives = 103/177 (58%), Gaps = 5/177 (2%) Query: 28 LSGCFDYRPKGKGNIVHLEESQLQQFLR-LTGTLEEALSSDAYGSDIIANSAIAQLLVLT 86 LS CF + N+V L+ ++LQ ++ + +LE++L S +GS + +NS QL++ Sbjct: 100 LSNCFKLARERSFNLVRLK-TELQDNMKFIINSLEQSLKSKEFGSKLFSNSLFIQLIIYL 158 Query: 87 NTI-FHNASFIPADIM--PELVRKTMDYIEAHLGQNITLEQLAGIFHLNSTYISRQFKKH 143 N + N + + + + K + YI A+L ++ E LA F+++ Y+ +FKK Sbjct: 159 NRVHLENMYLTGKETLRYDKQIEKILKYINANLKGELSTEALAREFYMSKYYLMHKFKKE 218 Query: 144 TGLTLRSYILDRRVSLAKSYLSEGLSITEACYQSGFSDYANFIRSFTRIAGISPGRF 200 TG TL +Y+L +R+ L+K + +G +IT+A Q GF DY++F R+F ++ G SP F Sbjct: 219 TGYTLHNYVLQKRLLLSKDMIKKGDAITKAYMQCGFKDYSSFFRAFKKMFGRSPREF 275 >CAC1333 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 57/200 (28%), Positives = 107/200 (53%), Gaps = 8/200 (4%) Query: 8 LLLTSRNPICTASLXXXXTQLSGCFDYRPKGKGNIVHLE-ESQLQQFLRLTGTLEEALSS 66 +L SR + L LS CF+ K I E E ++ L +LE + Sbjct: 90 VLWISR--VFLQKLSSNEIDLSLCFESNKKKNVLIADFEQEKNIRAILNKIISLE---NY 144 Query: 67 DAYGSDIIANSAIAQLLV-LTNTIFHNASFIPADIMP-ELVRKTMDYIEAHLGQNITLEQ 124 A G +++ + I +L+V + N F + + D L+ + ++YI ++ ++IT+++ Sbjct: 145 KAMGYELLYKAYITELMVNIYNLEFSGDTQLSVDTKKSNLIDEIIEYITFNIEEDITIDK 204 Query: 125 LAGIFHLNSTYISRQFKKHTGLTLRSYILDRRVSLAKSYLSEGLSITEACYQSGFSDYAN 184 +A F+L+ ++SR+FKK+TG T+ YI+ +++ AK + + +SIT+ + GF DY+N Sbjct: 205 IAEQFYLSKFHLSREFKKYTGTTIHRYIIQKKLIQAKELILKDISITDVYKKCGFGDYSN 264 Query: 185 FIRSFTRIAGISPGRFVKKL 204 F R+F I+P +F + + Sbjct: 265 FFRAFKNEYKITPKQFYEAM 284 >slr1213_2 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 116 Score = 68.6 bits (166), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 37/97 (38%), Positives = 57/97 (58%), Gaps = 1/97 (1%) Query: 105 VRKTMDYIEAHLGQNITLEQLAGIFHLNSTYISRQFKKHTGLTLRSYILDRRVSLAKSYL 164 ++ T+DYIE HL Q IT+E LAG +++ Y R F+K G + +I+ +RV AK+ L Sbjct: 17 LQPTLDYIEEHLDQGITVEFLAGAIGMSTAYFCRFFQKEMGCSPYQFIIQQRVERAKAIL 76 Query: 165 SE-GLSITEACYQSGFSDYANFIRSFTRIAGISPGRF 200 E LSI+E + GFS ++ F + GI+P + Sbjct: 77 LERELSISEVALRCGFSSHSQLNHHFRNLLGITPKEY 113 >BS_ybfI [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 65 Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 0/98 (0%), Positives = 0/98 (0%) Query: 105 VRKTMDYIEAHLGQNITLEQLAGIFHLNSTYISRQFKKHTGLTLRSYILDRRVSLAKSYL 164 Sbjct: 170 229 Query: 165 SEGLSITEACYQSGFSDYANFIRSFTRIAGISPGRFVK 202 Sbjct: 230 267 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 0.321 0.135 0.381 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: 13,237,049 Number of extensions: 525067 Number of successful extensions: 1891 Number of sequences better than 1.0e-05: 56 Number of HSP's gapped: 1942 Number of HSP's successfully gapped: 56 Length of query: 204 Length of database: 38,378,431 Length adjustment: 101 Effective length of query: 103 Effective length of database: 26,729,697 Effective search space: 2753158791 Effective search space used: 2753158791 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: 113 (48.1 bits)