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= 0188.0087.p (255 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH0113 [J] COG0566 rRNA methylases 266 2e-71 BS_yacO [J] COG0566 rRNA methylases 266 3e-71 CAC3154 [J] COG0566 rRNA methylases 246 3e-65 lin0273 [J] COG0566 rRNA methylases 229 4e-60 SA0490 [J] COG0566 rRNA methylases 221 9e-58 >BH0113 [J] COG0566 rRNA methylases Length = 249 Score = 266 bits (680), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 126/247 (51%), Positives = 172/247 (69%), Gaps = 1/247 (0%) Query: 9 EEEVLAGKHSVLEALRAGRTLNKIWIAETAQKHLTAPIIAEARKAGIVIQHVDKRKLDQL 68 + E + GK+ ++EALR+GR +NKIWI E +QK ++ A++ G+++QHV KRKLDQL Sbjct: 2 DREFITGKNPIIEALRSGRPMNKIWIGEGSQKGQMQKVLELAKEQGVLVQHVPKRKLDQL 61 Query: 69 APGVQHQGVVAQAAPFAYTEVADILAAAEAKGEPPFLLLLDEIEDPHNLGSILRTADCTG 128 HQGVVA A + Y E+ D+ A KGE PF ++LDE+EDPHNLGSILRTAD G Sbjct: 62 IGHENHQGVVASVAAYEYAEMDDLFQRAAEKGEEPFFIVLDEVEDPHNLGSILRTADAAG 121 Query: 129 VHGVIVPKRRSAQITATVSKTSAGAVEYVPVARVTNLGQTIDRLKELXXXXXXXXXXXXQ 188 VHGVI+PKRR+ +T TV+K S GA+EYVPV RVTNL +T++ LK+ + Sbjct: 122 VHGVIIPKRRAVGLTQTVAKASTGAIEYVPVVRVTNLARTMEDLKKRGLWFIGTDAKGSE 181 Query: 189 NLYASDIFTGPVAVVIGNENKGMGRLIREKCDVLLKLPMAGKINSLNASVAAGVIMYEVL 248 + Y + P+A+VIG+E KG+ RL+REKCD L+++PM G++ SLNASVA ++MYE Sbjct: 182 D-YRGAAYDMPIALVIGSEGKGLSRLVREKCDFLVRIPMVGQVTSLNASVATSLLMYEAY 240 Query: 249 RRRHQQG 255 R+RH G Sbjct: 241 RKRHPLG 247 >BS_yacO [J] COG0566 rRNA methylases Length = 249 Score = 266 bits (679), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 128/250 (51%), Positives = 177/250 (70%), Gaps = 2/250 (0%) Query: 6 LKTEEEVLAGKHSVLEALRAGRTLNKIWIAETAQKHLTAPIIAEARKAGIVIQHVDKRKL 65 + + + + GK++V+E L++ R L K+W+AE K +I A+K GI IQ+V ++KL Sbjct: 1 MSQQHDYVIGKNAVIETLKSDRKLYKLWMAENTVKGQAQQVIELAKKQGITIQYVPRKKL 60 Query: 66 DQLAPGVQHQGVVAQAAPFAYTEVADILAAAEAKGEPPFLLLLDEIEDPHNLGSILRTAD 125 DQ+ G QHQGVVAQ A + Y E+ D+ AAE K E PF L+LDE+EDPHNLGSI+RTAD Sbjct: 61 DQMVTG-QHQGVVAQVAAYEYAELDDLYKAAEEKNEQPFFLILDELEDPHNLGSIMRTAD 119 Query: 126 CTGVHGVIVPKRRSAQITATVSKTSAGAVEYVPVARVTNLGQTIDRLKELXXXXXXXXXX 185 G HG+++PKRR+ +T TV+K S GA+E++PVARVTNL +T++ +KE Sbjct: 120 AVGAHGIVIPKRRAVGLTTTVAKASTGAIEHIPVARVTNLARTLEEMKERGIWVVGTDAS 179 Query: 186 XXQNLYASDIFTGPVAVVIGNENKGMGRLIREKCDVLLKLPMAGKINSLNASVAAGVIMY 245 ++ D P+A+VIG+E KGMGRL++EKCD L+KLPMAGK+ SLNASVAAG++MY Sbjct: 180 AREDFRNMD-GNMPLALVIGSEGKGMGRLVKEKCDFLIKLPMAGKVTSLNASVAAGLLMY 238 Query: 246 EVLRRRHQQG 255 EV R+R+ G Sbjct: 239 EVYRKRNPVG 248 >CAC3154 [J] COG0566 rRNA methylases Length = 252 Score = 246 bits (627), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 114/245 (46%), Positives = 179/245 (73%), Gaps = 1/245 (0%) Query: 7 KTEEEVLAGKHSVLEALRAGRTLNKIWIAETAQKHLTAPIIAEARKAGIVIQHVDKRKLD 66 K E+++ G+++V+EAL++ T+ ++ ++ + I+A+A++ GI +++VD++KLD Sbjct: 4 KEREDLIEGRNAVIEALKSDSTIEQVLVSSGKSEGSINVILAKAKEKGIPVKYVDRKKLD 63 Query: 67 QLAPGVQHQGVVAQAAPFAYTEVADILAAAEAKGEPPFLLLLDEIEDPHNLGSILRTADC 126 +++ G HQGV+A + P+ Y +V DI+ A+ K E PF+L+LDEIEDPHNLGSI+RTA+ Sbjct: 64 KISNGGVHQGVIAISTPYNYCDVDDIILNAKEKNEDPFILVLDEIEDPHNLGSIIRTAEL 123 Query: 127 TGVHGVIVPKRRSAQITATVSKTSAGAVEYVPVARVTNLGQTIDRLKELXXXXXXXXXXX 186 GVHG+I+PKRR+ +T TV KTSAGAV+YV +A+V+N+ ID+LK+ Sbjct: 124 CGVHGIIIPKRRNVGVTPTVYKTSAGAVKYVKIAKVSNINLAIDKLKKEGIWVYGAEIDG 183 Query: 187 XQNLYASDIFTGPVAVVIGNENKGMGRLIREKCDVLLKLPMAGKINSLNASVAAGVIMYE 246 Y + TG +A+VIG+E +G+ +L ++KCDVL+K+PM GK+NSLNASVAAG++MYE Sbjct: 184 ENYCYNQN-MTGALALVIGSEGRGISKLTKQKCDVLVKIPMVGKVNSLNASVAAGIVMYE 242 Query: 247 VLRRR 251 +L++R Sbjct: 243 ILKQR 247 >lin0273 [J] COG0566 rRNA methylases Length = 251 Score = 229 bits (583), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 119/247 (48%), Positives = 171/247 (69%), Gaps = 2/247 (0%) Query: 5 ELKTEEEVLAGKHSVLEALRAGRTLNKIWIAETAQKHLTAPIIAEARKAGIVIQHVDKRK 64 E + E+E + G++ VLE LR+ R ++KI++ E +QK + ++ A++ I +Q V K+K Sbjct: 2 EQENEQEWIGGRNPVLEVLRSDRDIHKIYVQEGSQKGVLKQVLTLAKERKIQVQFVPKQK 61 Query: 65 LDQLAPGVQHQGVVAQAAPFAYTEVADILAAAEAKGEPPFLLLLDEIEDPHNLGSILRTA 124 ++++ G HQGV AQ A + Y E+ D+ AAAEAK E PF ++LDE+EDPHNLGSI+RTA Sbjct: 62 IEKVVSGA-HQGVAAQVAAYQYAELDDLFAAAEAKDEMPFFIILDELEDPHNLGSIMRTA 120 Query: 125 DCTGVHGVIVPKRRSAQITATVSKTSAGAVEYVPVARVTNLGQTIDRLKELXXXXXXXXX 184 D G HG+I+PKRRS +T TV+K S GA+EYVPV RVTN+ +T++ L++ Sbjct: 121 DSVGAHGIIIPKRRSVGLTQTVAKASTGAMEYVPVVRVTNMVRTMEELQKRGLWIFGTDA 180 Query: 185 XXXQNLYASDIFTGPVAVVIGNENKGMGRLIREKCDVLLKLPMAGKINSLNASVAAGVIM 244 + D+ P+A+VIG+E GM RL+REKCD L+ LPM GK+ SLNASVAA +++ Sbjct: 181 KGSSDYRTMDV-DMPLAIVIGSEGFGMSRLVREKCDFLVHLPMRGKVTSLNASVAASLLL 239 Query: 245 YEVLRRR 251 YEV R+R Sbjct: 240 YEVYRKR 246 >SA0490 [J] COG0566 rRNA methylases Length = 248 Score = 221 bits (563), Expect = 9e-58, Method: Compositional matrix adjust. Identities = 120/250 (48%), Positives = 157/250 (62%), Gaps = 8/250 (3%) Query: 9 EEEVLAGKHSVLEALRAGRTLNKIWIAETAQKHLTAPIIAEARKAGIVIQHVDKRKLDQL 68 E+ V+ G+H+V EA+ G +NKI I E +K I+ A+ I++Q V K KLD L Sbjct: 2 EDTVIVGRHAVREAIITGHPINKILIQEGIKKQQINEILKNAKDQKIIVQTVPKSKLDFL 61 Query: 69 APGVQHQGVVAQAAPFAYTEVADILAAAEAKGEPPFLLLLDEIEDPHNLGSILRTADCTG 128 A HQGV A AP+ Y + L + K +L+LD +EDPHNLGSILRTAD TG Sbjct: 62 A-NAPHQGVAALIAPYEYADFDQFLKQQKEKEGLSTVLILDGLEDPHNLGSILRTADATG 120 Query: 129 VHGVIVPKRRSAQITATVSKTSAGAVEYVPVARVTNLGQTIDRLKE---LXXXXXXXXXX 185 V GVI+PKRRS +T TV+K S GA+E+VPV RVTNL +TID LK+ Sbjct: 121 VDGVIIPKRRSVTLTQTVAKASTGAIEHVPVIRVTNLAKTIDELKDNGFWVAGTEANNAT 180 Query: 186 XXQNLYASDIFTGPVAVVIGNENKGMGRLIREKCDVLLKLPMAGKINSLNASVAAGVIMY 245 +NL A +A+VIG+E +GM RL+ +KCD +K+PM G +NSLNASVAA ++MY Sbjct: 181 DYRNLEAD----MSLAIVIGSEGQGMSRLVSDKCDFYIKIPMVGHVNSLNASVAASLMMY 236 Query: 246 EVLRRRHQQG 255 EV R+RH G Sbjct: 237 EVFRKRHDVG 246 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 0.317 0.133 0.371 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: 16,713,420 Number of extensions: 615816 Number of successful extensions: 1440 Number of sequences better than 1.0e-05: 88 Number of HSP's gapped: 1324 Number of HSP's successfully gapped: 88 Length of query: 255 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 151 Effective length of database: 26,383,695 Effective search space: 3983937945 Effective search space used: 3983937945 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 114 (48.5 bits)