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= 0392.0004.p (265 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKS0.1 B3KKS0_9BACI tRNA/rRNA methyltransferase (SpoU) 363 1e-98 B1DF62.1 B1DF62_9BACL tRNA/rRNA methyltransferase (SpoU) 294 5e-78 C3IXV3.1 C3IXV3_9BACI tRNA/rRNA methyltransferase (SpoU) 203 1e-50 Q5KWE2.1 Q5KWE2_GEOKA rRNA methylase EC=2.1.1.- 203 1e-50 B1HWA3.1 B1HWA3_LYSSC Hypothetical tRNA/rRNA methyltransferase E... 194 6e-48 >B3KKS0.1 B3KKS0_9BACI tRNA/rRNA methyltransferase (SpoU) Length = 266 Score = 363 bits (931), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 170/260 (65%), Positives = 215/260 (82%) Query: 1 MEIMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPA 60 MEI+SPQN RVK WA LQEKKHRDK KY++EGIHLVQEAL + AD+EC+AYD+DKG+P Sbjct: 1 MEILSPQNARVKGWAQLQEKKHRDKQNKYVVEGIHLVQEALSSGADIECVAYDVDKGIPQ 60 Query: 61 ELKPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLD 120 EL+ + + QG E IGVS AVI+K S T +PQ VFA++RK + + ++ + + V+VLD Sbjct: 61 ELRHITDTGQGAEWIGVSHAVISKVSDTPSPQQVFAVIRKEARQWQDLILRENGMVVVLD 120 Query: 121 GVQDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILP 180 G+QDPGNVGTIIRSADA GA GV+LG+GCADLYNPKTLRSTMGS+FHLPV+EG+L ILP Sbjct: 121 GLQDPGNVGTIIRSADAVGAAGVVLGRGCADLYNPKTLRSTMGSLFHLPVLEGDLLSILP 180 Query: 181 QARERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGRA 240 +ARERGA +V+T L G SC+ +DF G+ W++IGSEG+G+SP+ AALVD +I IPM GRA Sbjct: 181 EARERGARLVTTMLEGQRSCFEYDFKGTSWIVIGSEGRGVSPEVAALVDDAIRIPMPGRA 240 Query: 241 ESLNAAMAATILLFEGMRQR 260 ESLNAAMAA++L++E +RQR Sbjct: 241 ESLNAAMAASVLMYEALRQR 260 >B1DF62.1 B1DF62_9BACL tRNA/rRNA methyltransferase (SpoU) Length = 264 Score = 294 bits (753), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 139/258 (53%), Positives = 192/258 (74%), Gaps = 2/258 (0%) Query: 3 IMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAEL 62 + S QN RVK+WA L +KK+RD+ G +IIEG+HLVQEA + A V+C+ Y+ ++G+P EL Sbjct: 6 LTSIQNERVKQWASLLDKKYRDRTGLFIIEGVHLVQEAFKSSAAVQCVVYNSERGIPHEL 65 Query: 63 KPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLDGV 122 + L + G E + + V+AKC+ T TP PVFA++ K ++ + L + +S V+VLDGV Sbjct: 66 EQLARE-GGAEWVQATTQVMAKCTGTDTPPPVFAVLEKLKRD-DTALFRNNSLVVVLDGV 123 Query: 123 QDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILPQA 182 +DPGNVGTIIRSADA GAD V+LGKG DLYNPKT+RSTMGS+FHLP++E +L+ +LP+A Sbjct: 124 RDPGNVGTIIRSADAVGADAVVLGKGSVDLYNPKTVRSTMGSLFHLPIIEADLAELLPEA 183 Query: 183 RERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGRAES 242 + +G +V TSL +CYT+D+ WLL+G+E +G+S VD+S+IIPM G AES Sbjct: 184 QSKGIKLVGTSLQATHTCYTYDWTAGTWLLMGNESEGLSDAVRLAVDESVIIPMQGEAES 243 Query: 243 LNAAMAATILLFEGMRQR 260 LN AMAAT+LL+E +RQR Sbjct: 244 LNVAMAATVLLYEAVRQR 261 >C3IXV3.1 C3IXV3_9BACI tRNA/rRNA methyltransferase (SpoU) Length = 251 Score = 203 bits (517), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 113/252 (44%), Positives = 158/252 (62%), Gaps = 10/252 (3%) Query: 3 IMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAEL 62 I SP+N RVK+W L KK RD+ G +++EG HLV+EA+ + A + L D +P Sbjct: 4 IESPKNARVKQWKKLLTKKGRDETGLFLLEGFHLVEEAIKSNAPLVELIVDERTAVPPGW 63 Query: 63 KPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLDGV 122 +V G+ V V+ AV+ SST TPQ + A+ R+ LE + +++D V Sbjct: 64 -----NVTGVPVTIVTEAVMKAISSTETPQGIAAVCRQLSTELEGV-----KTALLIDAV 113 Query: 123 QDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILPQA 182 QDPGN+GT+IR+ADAAG D VILG+GCADLYNPK +R+T GS+FHLPVV+G+L+ + + Sbjct: 114 QDPGNLGTMIRTADAAGIDAVILGEGCADLYNPKVVRATQGSLFHLPVVKGDLAQWIARF 173 Query: 183 RERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGRAES 242 +E+G V T+L T S LL G+EG G+ P L +++ IP+ GRAES Sbjct: 174 KEQGIPVYGTALENAVDYRTVPQSPSFALLFGNEGSGVRPDLLRLTTENVYIPIYGRAES 233 Query: 243 LNAAMAATILLF 254 LN A+AA ILL+ Sbjct: 234 LNVAVAAGILLY 245 >Q5KWE2.1 Q5KWE2_GEOKA rRNA methylase EC=2.1.1.- Length = 251 Score = 203 bits (517), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 112/252 (44%), Positives = 159/252 (63%), Gaps = 10/252 (3%) Query: 3 IMSPQNTRVKEWAGLQEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAEL 62 I SP+N RVK+W L KK RD+ G +++EG HLV+EA+ + A + L D +P Sbjct: 4 IESPKNARVKQWKKLLTKKGRDETGLFLLEGFHLVEEAIKSNAPLVELIVDERTAVPPGW 63 Query: 63 KPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSWVMVLDGV 122 +V G+ V V+ AV+ SST TPQ + A+ R+ LE + +++D V Sbjct: 64 -----NVTGVPVTIVTEAVMRAISSTETPQGIAAVCRQLSTELEGV-----KTALLIDAV 113 Query: 123 QDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGILPQA 182 QDPGN+GT+IR+AD+AG D VILG+GCADLYNPK +R+T GS+FHLPVV+G+L+ + + Sbjct: 114 QDPGNLGTMIRTADSAGIDAVILGEGCADLYNPKVVRATQGSLFHLPVVKGDLAQWIARF 173 Query: 183 RERGALVVSTSLTGVESCYTHDFHGSQWLLIGSEGQGISPQAAALVDKSIIIPMAGRAES 242 +E+G V T+L T S LL+G+EG G+ P L +++ IP+ GRAES Sbjct: 174 KEQGIPVYGTALENAVDYRTVPQSSSFALLVGNEGSGVRPDLLRLTTENVYIPIYGRAES 233 Query: 243 LNAAMAATILLF 254 LN A+AA ILL+ Sbjct: 234 LNVAVAAGILLY 245 >B1HWA3.1 B1HWA3_LYSSC Hypothetical tRNA/rRNA methyltransferase EC=2.1.1.- Length = 254 Score = 194 bits (494), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 112/260 (43%), Positives = 167/260 (64%), Gaps = 13/260 (5%) Query: 3 IMSPQNTRVKEWAGL-QEKKHRDKAGKYIIEGIHLVQEALLAEADVECLAYDLDKGMPAE 61 I S QN VK W L +K R+++G++I+EG HL++EAL + V L + +G+ Sbjct: 4 IESTQNALVKYWKKLATTRKERERSGEFIVEGFHLIEEALKHKEQV--LQIIVREGVDL- 60 Query: 62 LKPLLQSVQGMEVIGVSAAVIAKCSSTGTPQPVFAIVRKGQQGLEAILAKRDSW--VMVL 119 P+L + G+ ++ V++ V + + T T Q VFAI ++ EA + SW V+++ Sbjct: 61 --PMLWPIDGIAIVEVTSVVAKEFAETETSQGVFAICKQPVLEEEA----KTSWRKVLLI 114 Query: 120 DGVQDPGNVGTIIRSADAAGADGVILGKGCADLYNPKTLRSTMGSMFHLPVVEGELSGIL 179 D VQDPGN+GT+IR+ADAAG D VILGKGCAD+YNPKTLR+ GS FH+PVV EL+ + Sbjct: 115 DAVQDPGNIGTMIRTADAAGLDAVILGKGCADIYNPKTLRAAQGSHFHIPVVREELTECV 174 Query: 180 PQARERGALVVSTSLTGVESCYTHDFH-GSQWLLIGSEGQGISPQAAALVDKSIIIPMAG 238 +++G V T+L Y+ H G+ +++G+EG GI PQ A+ D++IIIP+ G Sbjct: 175 DFLQDQGVPVFGTALDEDAVPYSDIHHTGAFAIIMGNEGSGIQPQLLAMTDQNIIIPILG 234 Query: 239 RAESLNAAMAATILLFEGMR 258 +AESLN A+A I+L+ +R Sbjct: 235 QAESLNVAVATGIVLYGFVR 254 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.317 0.134 0.385 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,535,029,282 Number of extensions: 63131004 Number of successful extensions: 169855 Number of sequences better than 1.0e-05: 2964 Number of HSP's gapped: 166395 Number of HSP's successfully gapped: 2965 Length of query: 265 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 132 Effective length of database: 1,807,701,208 Effective search space: 238616559456 Effective search space used: 238616559456 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: 130 (54.7 bits)