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= 0417.0014.p (285 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... 129 5e-30 CAC1333 [K] COG2207 AraC-type DNA-binding domain-containing prot... 126 4e-29 CAC2818 [K] COG2207 AraC-type DNA-binding domain-containing prot... 119 4e-27 lin0157 [K] COG2207 AraC-type DNA-binding domain-containing prot... 80 3e-15 BS_ybfI [K] COG2207 AraC-type DNA-binding domain-containing prot... 69 9e-12 >CAC2608 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 284 Score = 129 bits (324), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 134/255 (52%), Gaps = 13/255 (5%) Query: 32 ALPYHRHDAYEIYLFLRGNAYMYLEQSCYRLAPGDLIIISPSEMHRCICIDNQMYERIGL 91 + H HD YEIY + G ++ Y + PG+L ++ E H ++N +ERI + Sbjct: 31 TMSIHIHDCYEIYYSISGENQFLIDNKLYYINPGNLFAVNEFESHYVSQVNNSTHERIVI 90 Query: 92 NIKKSALQRLSSHRSNLLSCFESHPFGQNNLTRLSPDQIALYCGLADKLISCLHSEAYGQ 151 +I L+ L + ++NL CF+ + L+ +Q + + +K+I S +G Sbjct: 91 SIHPDFLKSLCTSKTNLTYCFKHRGSNFCHKVSLNKEQQSRFMYFINKIIG---SHGFGA 147 Query: 152 DLLAESYVTQLLVFINSLYQSS------TYKSNNLMPELVSNTMTYIKEHLVESISSEQL 205 D++ + +L++F+ SL+ ++ YK +N + E++ YI +++ I+ + L Sbjct: 148 DMIEYASFIELMIFLTSLFINNGESLTPIYKYSNQIEEIIR----YINDNVTNDITVKHL 203 Query: 206 EQEFHYSGKYISQQFREHTGLTIRSYIVDKRISLAMNHLSAGKTVAEACELSGFSDYANF 265 + F S YI + F+ TG TI YI +RIS+A LS G ++ + GF+DY+NF Sbjct: 204 AEHFFLSESYICRIFKLSTGTTINKYITARRISMAKALLSNGSSINDVYVKCGFNDYSNF 263 Query: 266 IRSFKKIAGMPPGKY 280 ++SFKK G+ P KY Sbjct: 264 LKSFKKAVGISPKKY 278 >CAC1333 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 126 bits (317), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 84/262 (32%), Positives = 151/262 (57%), Gaps = 16/262 (6%) Query: 32 ALPYHRHDAYEIYLFLRGNAYMYLEQSCYRLAPGDLIIISPSEMHRCICIDNQM--YERI 89 ++ H HD YE Y F+ G+ +E Y L G++I+I+ E+H+ I I++Q YERI Sbjct: 31 SVSIHHHDFYEFYFFISGDVTYLIEGKSYCLNSGNIILINSRELHQAI-INSQRENYERI 89 Query: 90 GLNIKKSALQRLSSHRSNLLSCFESHPFGQNNLTRLSPDQIALYCGLADKLISCLHSEAY 149 L I + LQ+LSS+ +L CFES+ + N+ +Q + +K+IS + +A Sbjct: 90 VLWISRVFLQKLSSNEIDLSLCFESNK--KKNVLIADFEQEKNIRAILNKIISLENYKAM 147 Query: 150 GQDLLAESYVTQLLVFINSL------YQSSTYKSNNLMPELVSNTMTYIKEHLVESISSE 203 G +LL ++Y+T+L+V I +L S K +NL+ E++ YI ++ E I+ + Sbjct: 148 GYELLYKAYITELMVNIYNLEFSGDTQLSVDTKKSNLIDEIIE----YITFNIEEDITID 203 Query: 204 QLEQEFHYSGKYISQQFREHTGLTIRSYIVDKRISLAMNHLSAGKTVAEACELSGFSDYA 263 ++ ++F+ S ++S++F+++TG TI YI+ K++ A + ++ + + GF DY+ Sbjct: 204 KIAEQFYLSKFHLSREFKKYTGTTIHRYIIQKKLIQAKELILKDISITDVYKKCGFGDYS 263 Query: 264 NFIRSFKKIAGMPPGK-YKAIK 284 NF R+FK + P + Y+A+K Sbjct: 264 NFFRAFKNEYKITPKQFYEAMK 285 >CAC2818 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 279 Score = 119 bits (299), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 66/252 (26%), Positives = 132/252 (52%), Gaps = 3/252 (1%) Query: 32 ALPYHRHDAYEIYLFLRGNAYMYLEQSCYRLAPGDLIIISPSEMHRCICIDNQMYERIGL 91 + +H HD +I +F+ G +E Y L P D+++++ ++H+ I +++YERI + Sbjct: 24 SFEFHYHDFNKIIIFISGKVTYLIEGKAYELKPWDILLVNNHDVHKPIIDSSKVYERIII 83 Query: 92 NIKKSALQRLSSHRSNLLSCFESHPFGQNNLTRLSPDQIALYCGLADKLISCLHSEAYGQ 151 +++ + +L +CF+ NL RL + + + L L S+ +G Sbjct: 84 WANSDFIKKHNYEDCDLSNCFKLARERSFNLVRLKTELQDNMKFIINSLEQSLKSKEFGS 143 Query: 152 DLLAESYVTQLLVFINSLYQSSTY---KSNNLMPELVSNTMTYIKEHLVESISSEQLEQE 208 L + S QL++++N ++ + Y K + + + YI +L +S+E L +E Sbjct: 144 KLFSNSLFIQLIIYLNRVHLENMYLTGKETLRYDKQIEKILKYINANLKGELSTEALARE 203 Query: 209 FHYSGKYISQQFREHTGLTIRSYIVDKRISLAMNHLSAGKTVAEACELSGFSDYANFIRS 268 F+ S Y+ +F++ TG T+ +Y++ KR+ L+ + + G + +A GF DY++F R+ Sbjct: 204 FYMSKYYLMHKFKKETGYTLHNYVLQKRLLLSKDMIKKGDAITKAYMQCGFKDYSSFFRA 263 Query: 269 FKKIAGMPPGKY 280 FKK+ G P ++ Sbjct: 264 FKKMFGRSPREF 275 >lin0157 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 277 Score = 80.5 bits (197), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 68/255 (26%), Positives = 120/255 (47%), Gaps = 24/255 (9%) Query: 36 HRHDAYEIYLFLRGNAYMYLEQSCYRLAPGDLIIISPSEMHRCICIDNQMYERIGLNIKK 95 H HD EI + GN +E L GD++I +P H I ++ + + Sbjct: 30 HHHDFLEISIICEGNVIYDIEGERVALEKGDMLIFNPGVNHYDITEPGMTNAQLHIGFRN 89 Query: 96 SALQRLSSHRSNLLSCFESHPFGQNNLTRLSPDQIALYCGLADKLISCLHSEAYGQDLLA 155 AL+ S + + PF + L R D+ A+ ++ ++I +E G DL+ Sbjct: 90 FALEGYSRN---------TFPFKKAFL-RKKEDESAI-LSISKQIIEEKDAEKPGYDLIL 138 Query: 156 ESYVTQLLVFI----------NSLYQSSTYKSNNLMPELVSNTMTYIKEHLVESISSEQL 205 +++V QL++ + N+ + ST + M LV+ + Y+++H E +S L Sbjct: 139 KAFVMQLIIHVLREATPEQLENNGVKLSTDEQQKQM--LVNEIIHYMEKHHTEDVSLSTL 196 Query: 206 EQEFHYSGKYISQQFREHTGLTIRSYIVDKRISLAMNHL-SAGKTVAEACELSGFSDYAN 264 Q + S YIS+ F+E TG + +Y++ R++ A L + TV +A + G++D Sbjct: 197 SQTMYISPAYISKVFKEETGESPINYLIKIRLTRAEELLKNKDVTVKQAANMVGYNDAYY 256 Query: 265 FIRSFKKIAGMPPGK 279 F + FKK G PP + Sbjct: 257 FSKLFKKYYGFPPSE 271 >BS_ybfI [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 65 Score = 68.9 bits (167), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 0/257 (0%), Positives = 0/257 (0%), Gaps = 14/257 (5%) Query: 29 INPALPYHRHDAYEIYLFLRGNAYMYLEQSCYRLAPGDLIIISPSEMHRCICIDNQMYER 88 Sbjct: 24 83 Query: 89 IGLNIKKSALQRLSSH--RSNLLSCFESHPFGQNNLTRLSPDQIALYCGLADKLISCLHS 146 Sbjct: 84 - 142 Query: 147 EAYGQDLLAESYVTQLLVFINSLYQSSTYKSNNLMPELVSNTMTYIKEHLVESISSEQLE 206 Sbjct: 143 ----------- 191 Query: 207 QEFHYSGKYISQQFREHTGLTIRSYIVDKRISLAMNHLSAGKTVAEACELSGFSDYANFI 266 Sbjct: 192 251 Query: 267 RSFKKIAGMPPGKYKAI 283 Sbjct: 252 268 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 0.398 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: 19,932,969 Number of extensions: 717751 Number of successful extensions: 2401 Number of sequences better than 1.0e-05: 32 Number of HSP's gapped: 3155 Number of HSP's successfully gapped: 32 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 (21.9 bits) S2: 115 (48.9 bits)