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= 0534.0006.p (364 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value A1BCJ8.1 A1BCJ8_CHLPD Radical SAM domain protein 121 1e-25 B1V6N4.1 B1V6N4_CLOPE Putative radical SAM domain protein 118 8e-25 B1R958.1 B1R958_CLOPE Putative radical SAM domain protein 118 8e-25 A8AA60.1 A8AA60_IGNH4 Radical SAM domain protein 114 2e-23 B1MGG4.1 B1MGG4_MYCA9 Probable coenzyme PQQ synthesis protein E ... 112 8e-23 >A1BCJ8.1 A1BCJ8_CHLPD Radical SAM domain protein Length = 429 Score = 121 bits (303), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 99/346 (28%), Positives = 159/346 (45%), Gaps = 29/346 (8%) Query: 16 YLEITSNCNLRCLHCYNESG-VLQSQIDKPTFMNIINALPDNPDTSITISGGEPTTHPEF 74 + EITS CNL+CLHC +G + + +++ IT SGGEP +F Sbjct: 100 FWEITSQCNLQCLHCVVSAGQSTEPDLSTARCFELLDEWAALGVEEITFSGGEPLLREDF 159 Query: 75 WYFMDELQKKHFGMVLVITNGTYITKEVAEKFASYKVAIQLSLNGSRAEIHDQLCGRG-S 133 + K + + L TNGT +T+EVA+K + V +Q+SL+GS AEI+ ++ GR + Sbjct: 160 FDLAAAAAKNNLSISLA-TNGTLVTREVAKKLKALNVDVQISLDGSTAEIYGRVRGRKEA 218 Query: 134 FNKTMQGLDHLIEAGMSERILIRSVLTSFNKDDIVNLLNMVADKKIPQAEIAGLSSLGRS 193 FN +QG+ + + AG++ + I +V+T N DDI +L +P + GR Sbjct: 219 FNDVVQGIRNTLAAGVN--LTIGTVVTKNNIDDIPEILKFTERSGVPYFRLIPFVPSGRG 276 Query: 194 ENNKNDLYLDILEKSALVQSLEKNAEIVNLIDSGVKITLPDDF-------TGACPLLSGV 246 ++N+ DL LD L+ +Q++ + E+V D LP +F +G LS Sbjct: 277 KHNR-DLELDPLQ----IQTVSR--ELVEQRDRWSFTILPLEFELTFSPPSGEQADLSRP 329 Query: 247 TE---EDDKIPLTPRIDSSGNVFLCQLFTDVQYAIGNVNQASLPSMLQSPEMINLIRFFQ 303 +E + +TP SG V C F V ++ S + ++ +N R + Sbjct: 330 SECGGATNYCTVTP----SGEVLPCHYFEGV--VADSLRNRSFRDIWRNSRFLNYFRSIE 383 Query: 304 VGQTYMNKCQSCIWNHNCGKGCVAIAVANGGSIQDTDGCCKVRTKY 349 +G C C W C GC A + G Q C V+ + Sbjct: 384 IGDI-QGYCHGCDWLSECRGGCKAANFSRGDLFQSNCHCWVVKENH 428 >B1V6N4.1 B1V6N4_CLOPE Putative radical SAM domain protein Length = 436 Score = 118 bits (296), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 98/349 (28%), Positives = 159/349 (45%), Gaps = 23/349 (6%) Query: 11 KLGGCYLEITSNCNLRCLHCYNESGVLQSQI-DKPTFMNIINALPDNPDTSITISGGEPT 69 K+ YLEI S CN +CL+CYN+ + + +I D II I +SGGEP Sbjct: 102 KVRNLYLEIISLCNKQCLYCYNKENISKYEIIDVKNIEEIIKQCDPKILEGIILSGGEPF 161 Query: 70 THPEFWYFMDELQKKHFGMVLVITNGTYITKEVAEKFASYKVAIQLSLNGSRAEIHDQLC 129 + L KK+ V +++NG+ I + A+ + Y + IQ +++G AEI++ Sbjct: 162 LYENIEEIFI-LCKKYNLKVAMVSNGSLIDNKKAKMLSKYNINIQFTIDGYNAEINNLTR 220 Query: 130 GRGSFNKTMQGLDHLIEAGMSERILIRSVLTSFNKDDIVNLLNMVADKKIPQ-AEIAGLS 188 G+ SF + L+ L + + IR+ L S N L+ K I + E + Sbjct: 221 GKNSFESQINALELLRKNNFKGFLNIRTNLWSKN-------LSYKNIKGIVEICEKFEVL 273 Query: 189 SLGRSENNKNDLYLDILEKSALVQSLEKNAEIVNLIDSGVKITLPDDFTG-ACPLLSGVT 247 L E KN + +IL L +K I++ +++ V I D C L + Sbjct: 274 RLDLVEAKKNGSFNEIL----LESDYKKVKSIIDKLNTKVNIVYERDIEEFKCELDKDLM 329 Query: 248 EEDDKIPLTPRIDSSGNVFLCQLFTDVQYAIGNVNQASLPSMLQSPEMINLIRFFQVGQT 307 I RI ++G+VF CQ F D Q++IGN+ +L ++ + +I + ++ Sbjct: 330 N----IEFGLRISANGDVFPCQYFLDKQFSIGNIYHNTLEDIIYGDKNKKIIDLISLRKS 385 Query: 308 YMNKCQSCIWNHNCGKGCVAIAVANGGSIQDTDGCCKVR----TKYYVS 352 ++ KC C++ C GC A A N +I DG C R YY+ Sbjct: 386 FIKKCTDCVYGDKCNAGCPAKAYLNNNNIFTIDGSCYKRKLDFANYYIK 434 >B1R958.1 B1R958_CLOPE Putative radical SAM domain protein Length = 436 Score = 118 bits (296), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 98/349 (28%), Positives = 159/349 (45%), Gaps = 23/349 (6%) Query: 11 KLGGCYLEITSNCNLRCLHCYNESGVLQSQI-DKPTFMNIINALPDNPDTSITISGGEPT 69 K+ YLEI S CN +CL+CYN+ + + +I D II I +SGGEP Sbjct: 102 KVRNLYLEIISLCNKQCLYCYNKENISKYEIIDVKNIEEIIKQCDPKILEGIILSGGEPF 161 Query: 70 THPEFWYFMDELQKKHFGMVLVITNGTYITKEVAEKFASYKVAIQLSLNGSRAEIHDQLC 129 + L KK+ V +++NG+ I + A+ + Y + IQ +++G AEI++ Sbjct: 162 LYENIEEIFI-LCKKYNLKVAMVSNGSLIDNKKAKMLSKYNINIQFTIDGYNAEINNLTR 220 Query: 130 GRGSFNKTMQGLDHLIEAGMSERILIRSVLTSFNKDDIVNLLNMVADKKIPQ-AEIAGLS 188 G+ SF + L+ L + + IR+ L S N L+ K I + E + Sbjct: 221 GKNSFESQINALELLRKNNFKGFLNIRTNLWSKN-------LSYKNIKGIVEICEKFEVL 273 Query: 189 SLGRSENNKNDLYLDILEKSALVQSLEKNAEIVNLIDSGVKITLPDDFTG-ACPLLSGVT 247 L E KN + +IL L +K I++ +++ V I D C L + Sbjct: 274 RLDLVEAKKNGSFNEIL----LESDYKKVKSIIDKLNTKVNIVYERDIEEFKCELDKDLM 329 Query: 248 EEDDKIPLTPRIDSSGNVFLCQLFTDVQYAIGNVNQASLPSMLQSPEMINLIRFFQVGQT 307 I RI ++G+VF CQ F D Q++IGN+ +L ++ + +I + ++ Sbjct: 330 N----IEFGLRISANGDVFPCQYFLDKQFSIGNIYHNTLEDIIYGDKNKKIIDLISLRKS 385 Query: 308 YMNKCQSCIWNHNCGKGCVAIAVANGGSIQDTDGCCKVR----TKYYVS 352 ++ KC C++ C GC A A N +I DG C R YY+ Sbjct: 386 FIKKCTDCVYGDKCNAGCPAKAYLNNNNIFTIDGSCYKRKLDFANYYIK 434 >A8AA60.1 A8AA60_IGNH4 Radical SAM domain protein Length = 389 Score = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 93/355 (26%), Positives = 156/355 (43%), Gaps = 23/355 (6%) Query: 16 YLEITSNCNLRCLHCYNESGVLQ--SQIDKPTFMNIINALPDNPDTSITISGGEPTTHPE 73 + IT CNLRCLHCY + Q S++ + + + + +SGGEP + Sbjct: 39 FWNITYQCNLRCLHCYIRAKAQQDPSELTTEEAKRLSEEMVEMRIPLVILSGGEPLVRKD 98 Query: 74 FWYFMDELQKKHFGMVLVITNGTYITKEVAEKFASYKVA-IQLSLNGSRAEIHDQLCG-R 131 FW ++ + K F + + TNGT ITK+VA + Y + + +S++ HD+ G Sbjct: 99 FWEIIEPMAKAQFPKLSLSTNGTLITKDVARRLKDYGFSYVGISIDSIVPAYHDKFRGVP 158 Query: 132 GSFNKTMQGLDHLIEAGMSERILIRSVLTSFNKDDIVNLLNMVADKKIPQAEIAGLSSLG 191 G+F T++G+ + +EAG+ + IR+ +T +N ++ +++ A+ I + L ++G Sbjct: 159 GAFKATLEGIKNSVEAGLD--VGIRTTITRYNVKEVPDIVKWSAENGIKRVSFYLLDTIG 216 Query: 192 RSENNKN------------DLYLDILEKSALVQSLEKNAEIVNLIDSGVKITLPDDFTGA 239 R E K+ D+ +D+ + A LE N + + L D Sbjct: 217 RGEEIKDWLPTKEQLKWMADVVIDLAREYA--DQLEILIVRGNFMGIYIARKLAKDEEEF 274 Query: 240 CPLLSGVTEEDDKIPLTPRIDSSGNVFLCQLFTDVQYAIGNVNQASLPSMLQSPEMINLI 299 L + + D + I +G+V CQ V +GNV + SL +L+ + L Sbjct: 275 KEYLKMLQAQGDCGRKSVSIYPNGDVKPCQFIDWV--TLGNVREKSLKEILKR-DNPQLE 331 Query: 300 RFFQVGQTYMNKCQSCIWNHNCGKGCVAIAVANGGSIQDTDGCCKVRTKYYVSEL 354 F VGQ KC C + CG G A A G D C + + E Sbjct: 332 PFLNVGQYLKGKCGRCPYKDICGGGSRGRAYAIFGDPWAEDPLCFIEPEALAKEF 386 >B1MGG4.1 B1MGG4_MYCA9 Probable coenzyme PQQ synthesis protein E PqqE Length = 414 Score = 112 bits (279), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 94/331 (28%), Positives = 151/331 (45%), Gaps = 18/331 (5%) Query: 18 EITSNCNLRCLHCYNESGVLQ-SQIDKPTFMNIINALPDNPDTSITISGGEPTTHPEFWY 76 E+T CNL C+HC + SG ++ +II+ L + I GGEPT +FW Sbjct: 36 ELTYACNLSCVHCLSSSGKRDPRELSTQQCKDIIDELERMQVFYVNIGGGEPTVRSDFWE 95 Query: 77 FMDELQKKHFGMVLVITNGTYITKEVAEKF-ASYKVAIQLSLNGSRAEIHDQLCGRGSFN 135 +D + H G V TNG IT+EVA + AS V +Q+SL+G+ AE++D + G GSF+ Sbjct: 96 LVDYATEHHVG-VKFSTNGVRITEEVAARLAASDYVDVQISLDGATAEVNDAVRGAGSFD 154 Query: 136 KTMQGLDHLIEAGMSERILIRSVLTSFNKDDIVNLLNMVADKKIPQAEIAGLSSLGRSEN 195 ++ L++L AG + I V+T N D + ++ A + I L GR + Sbjct: 155 MAVRALENLAAAGFKD-AKISVVVTRHNVDQLDEFASLAA-RYGATLRITRLRPSGRGAD 212 Query: 196 NKNDLYLDILEKSALVQSLEKNAEIVNLIDSGVKITLPDDFTGACPLLS--GVTEEDDKI 253 ++L+ ++ L L +N E V DS ++ D +G P L+ G Sbjct: 213 VWDELHPTAAQQRQLYDWLVRNGERVLTGDSFFHLSAYGDGSGGLPGLNMCGAGR----- 267 Query: 254 PLTPRIDSSGNVFLCQLFTDVQYAIGNV-NQASLPSMLQSPEMINLIRFFQVGQTYMNKC 312 + ID G+V+ C ++ GNV + + + ++ + +R Q C Sbjct: 268 -VVCLIDPVGDVYACPFAIHDRFLAGNVLSDNGFDQVWKHSQLFSELREPQSA----GAC 322 Query: 313 QSCIWNHNCGKGCVAIAVANGGSIQDTDGCC 343 SC +C GC+A G + D C Sbjct: 323 GSCGHYDSCRGGCMAAKFFTGLPMDGPDPEC 353 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 0.318 0.135 0.399 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: 2,171,992,673 Number of extensions: 90847336 Number of successful extensions: 222645 Number of sequences better than 1.0e-05: 759 Number of HSP's gapped: 223188 Number of HSP's successfully gapped: 759 Length of query: 364 Length of database: 3,060,696,203 Length adjustment: 137 Effective length of query: 227 Effective length of database: 1,770,017,148 Effective search space: 401793892596 Effective search space used: 401793892596 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: 132 (55.5 bits)