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= 0345.0004.p (464 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SP1402_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 221 2e-57 SPy1246_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 209 1e-53 VC1502_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 190 5e-48 ECs2545_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 186 5e-47 ZyebU_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 186 5e-47 >SP1402_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 280 Score = 221 bits (563), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 127/296 (42%), Positives = 167/296 (56%), Gaps = 33/296 (11%) Query: 5 RLPAAYTAAIREMLGQEADAFLESYTARRTQGLRFNTLKSNSLSGRAAAEHTAVRFDLTP 64 + P + +E+LG EA FL S+ R N LK LS A +T Sbjct: 2 QFPEGFVEKYKEILGDEARDFLASFEEEAVSAFRVNPLKEEQLSFSDA---------ITQ 52 Query: 65 VPWCPSGYYYEEPVRPGRHAYHTAGLYYIQEPSAMSAAELLAPRPGETVLDLAAAPGGKT 124 PW G+Y + G+ H GL Y QEP+A A++ P PG VLDLAAAPGGK+ Sbjct: 53 TPW---GHYGK---VSGKSPEHATGLVYSQEPAAQMVAQVAQPSPGMKVLDLAAAPGGKS 106 Query: 125 SHIAALMQGQGLLVSNEIHPERAKILAENVERLGISHAVVTSAAPGELSRRFPEVFDRIM 184 + +AA + G+GLLVSNEI +RAKIL EN+ER G ++ VVT+ + L + F FD I+ Sbjct: 107 TQLAAYLAGEGLLVSNEISSKRAKILVENMERFGATNVVVTNESADRLVKVFKGYFDLIV 166 Query: 185 LDAPCSGEGMFRKDPAAIGEWSPEHVEMCAARQWDILQDAYIMLKPGGSLAYSTCTFNRK 244 LDAPCSGEGMFRK P A+ WS ++ CA+ Q +IL+DA ML GG L YSTCT+ + Sbjct: 167 LDAPCSGEGMFRKQPDAMDYWSLDYPSQCASLQREILEDAVTMLAEGGHLVYSTCTWAPE 226 Query: 245 ENEETISRFLDHYP----------------DMERIAEKRLWPHLEKGEGHFVALLR 284 ENEE ++ L+ Y D+ A R++PH KGEG FVA L+ Sbjct: 227 ENEEIVNWLLEEYDFDLLPVEHINGMVAGIDLPETA--RMYPHQFKGEGQFVAHLQ 280 >SPy1246_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 297 Score = 209 bits (531), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 123/302 (40%), Positives = 166/302 (54%), Gaps = 30/302 (9%) Query: 6 LPAAYTAAIREMLGQEADAFLESYTARRTQGLRFNTLKSNSLSGRAAAEHTAVRFDLTPV 65 LP + + +LG+E + FL S+ R N LK N L EH P+ Sbjct: 4 LPKEFINTYQAILGKELEDFLASFNQEPVNAFRINPLK-NQLK---TFEH--------PI 51 Query: 66 PWCPSGYYYEEPVRPGRHAYHTAGLYYIQEPSAMSAAELLAPRPGETVLDLAAAPGGKTS 125 P GYY + G+ H +GL Y QEP+A A++ AP+ G VLDLAAAPGGK++ Sbjct: 52 PNTLWGYYGK---LSGKSPEHVSGLVYSQEPAAQMVAQVAAPQKGSRVLDLAAAPGGKST 108 Query: 126 HIAALMQGQGLLVSNEIHPERAKILAENVERLGISHAVVTSAAPGELSRRFPEVFDRIML 185 H+ A + GLLVSNEI +R+K+L EN+ER G + VVT+ + L++ F FD I+ Sbjct: 109 HLLAYLDNTGLLVSNEISKKRSKVLVENIERFGARNVVVTNESADRLAKVFSHYFDTIVF 168 Query: 186 DAPCSGEGMFRKDPAAIGEWSPEHVEMCAARQWDILQDAYIMLKPGGSLAYSTCTFNRKE 245 D PCSGEGMFRKDP AI W + CA Q IL+DA MLKPGG L YSTCT+ +E Sbjct: 169 DGPCSGEGMFRKDPDAIQYWHHGYPAECAKLQKSILEDALAMLKPGGELIYSTCTWAPEE 228 Query: 246 NEETISRFLDHYPDMERI---------------AEKRLWPHLEKGEGHFVALLRKAASEE 290 NE+ + L+ Y +E + R++PH +GEG FVA L+ E Sbjct: 229 NEDVVQWLLETYTFLELVDVPKLNGMVSGIGLPETARMYPHRYQGEGQFVAKLKDKRQEG 288 Query: 291 EA 292 ++ Sbjct: 289 QS 290 >VC1502_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 411 Score = 190 bits (482), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 136/375 (36%), Positives = 193/375 (51%), Gaps = 41/375 (10%) Query: 6 LPAAYTAAIREML---GQEADAFLESYTARRTQGLRFNTLKSN--SLSGRAAAEHTAVRF 60 LP + A++ ++L Q AD F+ + + +R NTLK + RAA + + Sbjct: 37 LPEPFIASMAKILPDPTQLAD-FIAACQRPLRKSIRVNTLKISVAEFCQRAAEKE----W 91 Query: 61 DLTPVPWCPSGYYYE--EPVRP-GRHAYHTAGLYYIQEPSAM--SAAELLAPRPGETVLD 115 LTPVPWC +G++ + E + P G A H AGL+YIQE S+M +A + ++VLD Sbjct: 92 QLTPVPWCENGFWIDADESLVPLGNTAEHMAGLFYIQEASSMMPVSALFMGNAHYDSVLD 151 Query: 116 LAAAPGGKTSHIAALMQGQGLLVSNEIHPERAKILAENVERLGISHAVVTSAAPGELSRR 175 +AAAPG KT+ +AALM QG+LV+NE R K+L N+ER GI + +++ Sbjct: 152 MAAAPGSKTTQMAALMDNQGVLVANEFSASRVKVLHANIERCGIRNTALSNFDGCVFGGW 211 Query: 176 FPEVFDRIMLDAPCSGEGMFRKDPAAIGEWSPEHVEMCAARQWDILQDAYIMLKPGGSLA 235 PE FD +++DAPCSGEG RKDP A+ WS E ++ A Q +++ A+ LK GG+L Sbjct: 212 LPERFDAVLIDAPCSGEGTIRKDPDAMKNWSLESIQSIANTQKALIESAFQALKVGGTLV 271 Query: 236 YSTCTFNRKENEETISRFLDHYPD---MERIAE--------------KRLWPHLEKGEGH 278 YSTCT +R+EN++ Y D E + ++P + EG Sbjct: 272 YSTCTLSREENQQVCWHLKQTYGDAVSFESLGNLFEHASLALTEEGFLHIFPQMYDCEGF 331 Query: 279 FVALLRKAASEEEAPGRNKRGSG--RGKTSHKLPANASDAYQQFMSWAADELPGFAGQGV 336 FVA +RK AS P NKR K SHK A + QQ ELP A Sbjct: 332 FVAKIRKLAS-VPTPEVNKRLGKFPFNKASHKQQAEIA---QQLHKSLGIELPSDAQV-- 385 Query: 337 PLLFGEALYLLPEAF 351 L ++L PEA Sbjct: 386 -WLRDNDVWLFPEAL 399 >ECs2545_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 385 Score = 186 bits (473), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 118/306 (38%), Positives = 161/306 (52%), Gaps = 29/306 (9%) Query: 6 LPAAYTAAIREMLGQ--EADAFLESYTARRTQGLRFNTLKSNSLSG-RAAAEHTAVRFDL 62 P A+ +RE + D FL + + +R NTLK++ R A + + L Sbjct: 10 FPDAFLTQMREAMPSTLSFDDFLAACQRPLRRSIRVNTLKTSVADFLRLTAPYG---WTL 66 Query: 63 TPVPWCPSGYYYE---EPVRP-GRHAYHTAGLYYIQEPSAM--SAAELLAPRPGETVLDL 116 TP+PWC G++ E E P G A H +GL+YIQE S+M AA + V+D+ Sbjct: 67 TPIPWCEEGFWIERDDEDALPLGSTAEHLSGLFYIQEASSMLPVAALFADGNAPQRVMDV 126 Query: 117 AAAPGGKTSHIAALMQGQGLLVSNEIHPERAKILAENVERLGISHAVVTSAAPGELSRRF 176 AAAPG KT+ IAA M +G +++NE R K+L N+ R GIS+ +T Sbjct: 127 AAAPGSKTTQIAARMNNEGAILANEFSASRVKVLHANISRCGISNVALTHFDGRVFGAAL 186 Query: 177 PEVFDRIMLDAPCSGEGMFRKDPAAIGEWSPEHVEMCAARQWDILQDAYIMLKPGGSLAY 236 PE+FD I+LDAPCSGEG+ RKDP A+ WSPE + AA Q +++ A+ L+ GG+L Y Sbjct: 187 PEMFDAILLDAPCSGEGVVRKDPDALKNWSPESNQEIAATQRELIDSAFHALRSGGTLVY 246 Query: 237 STCTFNRKENEETISRFLDHYPDMERI---------AEKRL--------WPHLEKGEGHF 279 STCT NR+ENE + YPD A K L +P + EG F Sbjct: 247 STCTLNREENESVCLWLKETYPDAVEFLPLGDLFPGANKALTEEGFLHVFPQIYDCEGFF 306 Query: 280 VALLRK 285 VA LRK Sbjct: 307 VARLRK 312 >ZyebU_1 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 385 Score = 186 bits (473), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 116/306 (37%), Positives = 161/306 (52%), Gaps = 29/306 (9%) Query: 6 LPAAYTAAIREMLGQ--EADAFLESYTARRTQGLRFNTLKSNSLSG-RAAAEHTAVRFDL 62 P A+ +RE + D FL + + +R NTLK + + A + + L Sbjct: 10 FPDAFLTQMREAMPSTLSFDDFLAACQRPLRRSIRVNTLKISVADFLQLTAPYG---WTL 66 Query: 63 TPVPWCPSGYYYE---EPVRP-GRHAYHTAGLYYIQEPSAM--SAAELLAPRPGETVLDL 116 TP+PWC G++ E E P G A H +GL+YIQE S+M AA + V+D+ Sbjct: 67 TPIPWCEEGFWIERDNEDALPLGSTAEHLSGLFYIQEASSMLPVAALFADGNAPQRVMDV 126 Query: 117 AAAPGGKTSHIAALMQGQGLLVSNEIHPERAKILAENVERLGISHAVVTSAAPGELSRRF 176 AAAPG KT+ I+A M +G +++NE R K+L N+ R GIS+ +T Sbjct: 127 AAAPGSKTTQISARMNNEGAILANEFSASRVKVLHANISRCGISNVALTHFDGRVFGAAV 186 Query: 177 PEVFDRIMLDAPCSGEGMFRKDPAAIGEWSPEHVEMCAARQWDILQDAYIMLKPGGSLAY 236 PE+FD I+LDAPCSGEG+ RKDP A+ WSPE + AA Q +++ A+ L+PGG+L Y Sbjct: 187 PEMFDAILLDAPCSGEGVVRKDPDALKNWSPESNQEIAATQRELIDSAFHALRPGGTLVY 246 Query: 237 STCTFNRKENEETISRFLDHYPDMERI---------AEKRL--------WPHLEKGEGHF 279 STCT N++ENE + YPD A K L +P + EG F Sbjct: 247 STCTLNQEENEAVCLWLKETYPDAVEFLPLGDLFPGANKALTEEGFLHVFPQIYDCEGFF 306 Query: 280 VALLRK 285 VA LRK Sbjct: 307 VARLRK 312 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 0.399 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: 36,983,652 Number of extensions: 1677721 Number of successful extensions: 3790 Number of sequences better than 1.0e-05: 76 Number of HSP's gapped: 3658 Number of HSP's successfully gapped: 76 Length of query: 464 Length of database: 38,378,431 Length adjustment: 110 Effective length of query: 354 Effective length of database: 25,691,691 Effective search space: 9094858614 Effective search space used: 9094858614 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 (21.6 bits) S2: 118 (50.1 bits)