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= 0490.0041.p (489 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SP1734 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 312 6e-85 alr0820 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 310 5e-84 SPy1627 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 304 3e-82 STM1512 [E] COG0339 Zn-dependent oligopeptidases 229 9e-60 STM3408 [J] COG0144 tRNA and rRNA cytosine-C5-methylases 213 4e-55 >SP1734 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 437 Score = 312 bits (800), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 184/448 (41%), Positives = 271/448 (60%), Gaps = 18/448 (4%) Query: 42 ESAREAALDILVRVEQQGAYSNLLLNSSLQKTALSREDAGLATELVYGSISRLLTLDYVL 101 E+AR AL +L V AYSN+ LN L+ + L D GL TELVYG+++R LTL++ L Sbjct: 5 ETARSLALAVLEDVFVNQAYSNIALNKHLKGSQLLAADKGLVTELVYGTVARKLTLEWYL 64 Query: 102 DGFVSKGIAKLQPWVRNLLRLSLYQIMYLDRIPSHAAVNEAVNIAKKRGHQGISGMVNGV 161 F+ +L W+ LL +S YQ+ YLD+IP HA VNEAV +AK R +G +VN V Sbjct: 65 SHFIEDR-DQLDSWLYVLLLMSAYQLRYLDKIPDHAVVNEAVELAKLR-KKGSEKLVNAV 122 Query: 162 LRSVLRAGELPVLPENLSPEQRISILHSHPLWMVKQWAAEYGLDAAEAMCAANNEPPAAS 221 LR +LR G P + +R SI +S P+W+V + EYG + A+A+ + AS Sbjct: 123 LRRILREG-WPDIASIKRKNKRDSIAYSLPVWLVAKLKEEYGEERAKAIFESLLVRNKAS 181 Query: 222 VRVNLTMISREALLEQMLEAGLAASPSLVSPYGIVVKGGGNLALTSWYRDGYLSVQDESS 281 +RV T +SR+ ++ +LEA + SL++ G+V K G+ A + + DG +++QDESS Sbjct: 182 IRV--TDLSRKEEIQALLEA----NNSLLATTGLV-KEQGHFAGHNLFADGAITIQDESS 234 Query: 282 MLVAEAVAPEPGMRVLDCCAAPGGKSAHMGELMKDEGYIYANDLHPHKARLIADQAQRLG 341 LVA + + RVLD CAAPGGK+AH+ + G + A DL+ HK LI + AQRLG Sbjct: 235 QLVAPTLDLQGDERVLDACAAPGGKTAHIASYLT-TGQVTALDLYDHKLDLIQENAQRLG 293 Query: 342 LEC-IAIGSTDALRLAQTFEPESFDRILLDAPCSGLGVIRRKPDLKWRKQPEDVASVAAL 400 +E + DA ++ + F+ +SFD+IL+DAPCSG+G++RRKPD+K+ K+ D AS+ + Sbjct: 294 VEDRVQTQKLDARKVHEFFDQDSFDKILVDAPCSGIGLLRRKPDIKYNKETADFASLQEI 353 Query: 401 QAELLQSVSRLLKPGGILVYSTCTTEQAENSSVIAEFLGNNPGFTSATFTSPVWQRVEGT 460 Q E+L SV ++L GGI+ YSTCT EN V+ FL ++P F E Sbjct: 354 QLEILGSVCQILGKGGIITYSTCTIVSEENFQVVKAFLESHPEFEQVKLEH------ECK 407 Query: 461 ALAAGEGLQLLPQHYGSDGFYISRLQRL 488 + + + P+ YGSDGF+IS+ +++ Sbjct: 408 DIMKDGCILITPELYGSDGFFISQFRKI 435 >alr0820 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 359 Score = 310 bits (793), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 0/451 (0%), Positives = 0/451 (0%), Gaps = 15/451 (3%) Query: 43 SAREAALDILVRVEQQGAYSNLLLNSSLQKTALSREDAGLATELVYGSISRLLTLDYVLD 102 +A L S + + E L+ Sbjct: 3 AATVVIN-RRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPDADAFGVARLE 61 Query: 103 GFVSKGIAKLQPWVRNLLRLSLYQIMYLDRIPSHAAVNEAVNIAKKRGHQGISGMVNGVL 162 + + V L + + + V + Sbjct: 62 EALRLRAGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEEASLDEPVTVWM 121 Query: 163 RSVLRAGE----LPVLPENLSPEQRISILHSHPLWMVKQWAAEYGLDAAEAMCAANNEPP 218 + + + + A A Sbjct: 122 KLDTGMHRLGVRPEQAEAF--YHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLAIFN 179 Query: 219 AASVRVNLTMISREALLEQMLEAGLAASPSLVSPYGI-VVKGGGNLALTSWYRDGYLSVQ 277 + + + + Sbjct: 180 TFCEGKPGQRSIAASGGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTS 239 Query: 278 DESSMLVAEAVAPEPGMRVLDCCAAPGGKSAHMGELMKDEGYIYANDLHPHKARLIADQA 337 ++ +A P MG + R + Sbjct: 240 SLIAVREHKAGEPVGYGGTWVSERDTRLGVVAMGYGDGYPRAAPSGTPVLVNGREVPIVG 299 Query: 338 QRLGLECIAIGSTDALRLAQTFEPESFDRILLDAPCSGLGVIRRKPDLKWRKQPEDVASV 397 + A A L +L R Sbjct: 300 RVAMDMICVDLGPQAQDKAGDP--VILWGEGLPVERIAEMTKVSAYELITRLTSRVAMKY 357 Query: 398 AALQAELLQSVSRLLKPGGILVYSTCTTEQAENSSVIAEFLGNNPGFTSATFTSPVWQRV 457 Sbjct: 358 ---- 413 Query: 458 EGTALAAGEG-LQLLPQHYGSDGFYISRLQR 487 Sbjct: 414 444 >SPy1627 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 440 Score = 304 bits (778), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 175/450 (38%), Positives = 268/450 (59%), Gaps = 18/450 (4%) Query: 42 ESAREAALDILVRVEQQGAYSNLLLNSSLQKTALSREDAGLATELVYGSISRLLTLDYVL 101 +S R AL ++ + QGAY+N+ LN L ALS +D L TE+VYG++SR ++L++ L Sbjct: 7 KSTRGKALLVIEAIFDQGAYTNIALNQQLSNKALSAKDRALLTEIVYGTVSRKISLEWYL 66 Query: 102 DGFVSKGIAKLQPWVRNLLRLSLYQIMYLDRIPSHAAVNEAVNIAKKRGHQ-GISGMVNG 160 +V K KL WV LL LSLYQ+ YLD++P+HA VN+AV IAK RG++ G VN Sbjct: 67 AHYV-KDRDKLDKWVYYLLMLSLYQLTYLDKLPAHAIVNDAVGIAKNRGNKKGAEKFVNA 125 Query: 161 VLRSVLRAGELPVLPENLSPEQRISILHSHPLWMVKQWAAEYGLDAAEAMCAANNEPPAA 220 +LR + LP + + S+ +S P+W+VK+ ++G D + A+ + A Sbjct: 126 ILRQ-FTSHPLPDMETIKRRNKYYSVKYSLPVWLVKKLEDQFGSDRSVAIMESLFVRSKA 184 Query: 221 SVRVNLTMISREALLEQMLEAGLAASPSLVSPYGIVVKGGGNLALTSWYRDGYLSVQDES 280 S+RV + LE++ EA L A SL+S G+ K G+ A + ++ +G +++QDES Sbjct: 185 SIRVTDPL-----KLEEVAEA-LDAERSLLSATGLT-KASGHFAASDYFTNGDITIQDES 237 Query: 281 SMLVAEAVAPEPGMRVLDCCAAPGGKSAHMGELMKDEGYIYANDLHPHKARLIADQAQRL 340 S LVA + + +LD C+APGGK++H+ +K G + A DL+ HK L+ + A RL Sbjct: 238 SQLVAPTLNIDGDDIILDACSAPGGKTSHIASYLK-TGKVIALDLYDHKLELVKENANRL 296 Query: 341 GL-ECIAIGSTDALRLAQTFEPESFDRILLDAPCSGLGVIRRKPDLKWRKQPEDVASVAA 399 G+ + I DA + + FE +SFD+IL+DAPCSG+G+IRRKPD+K+ K+ + ++ A Sbjct: 297 GVADNIETRKLDAREVHRHFEKDSFDKILVDAPCSGIGLIRRKPDIKYNKESQGFNALQA 356 Query: 400 LQAELLQSVSRLLKPGGILVYSTCTTEQAENSSVIAEFLGNNPGFTSATFTSPVWQRVEG 459 +Q E+L SV + L+ GGI+ YSTCT EN VI FL ++P F V+ Sbjct: 357 IQLEILSSVCQTLRKGGIITYSTCTIFDEENRQVIEAFLQSHPNFEQVKLNHTQADIVKD 416 Query: 460 TALAAGEGLQLLPQHYGSDGFYISRLQRLL 489 L + P+ Y +DGF+I +++R+L Sbjct: 417 GYLI------ITPEQYQTDGFFIGQVRRVL 440 >STM1512 [E] COG0339 Zn-dependent oligopeptidases Length = 680 Score = 229 bits (584), Expect = 9e-60, Method: Compositional matrix adjust. Identities = 22/447 (4%), Positives = 75/447 (16%), Gaps = 21/447 (4%) Query: 43 SAREAALDILVRVEQQGAYSNLLLNSSLQKTALSREDAGLATELVYGSISRLLTLDYVLD 102 + + + + + + R+ +V + T + Sbjct: 4 NPLLDQSMLPYQAPRFDRIKDCHYRPAF--DEGVRQKRVEIEAIVNHPAAPDFTNTLLAL 61 Query: 103 GFVSKGIAKLQPWVRNLLRLSLYQIMYLDRIPSHAAVNEAVNIAKKRGHQGISGMVNGVL 162 + + + L R+ + A S + V Sbjct: 62 EQSGA--LLSRVTSVFFAMTAAHTNDELQRLDEAFSAELAALSND---IYLNSALFARVD 116 Query: 163 RSVLRAGELPVLPENLSPEQRISILHSHPLWMVKQWAAEYGLDAAEAMCAANNEPPAASV 222 + +++ A E ++ Sbjct: 117 AV------WQQRHS---LGL-DDESLRLVDVIHQRFVLAGAQLAEEDKARLKVLNTESAT 166 Query: 223 RVNLTMISREALLEQMLEAGLAASPSLVSPYGIVV-KGGGNLALTSWYRDGYLSVQDESS 281 ++ A + A A + R + Sbjct: 167 LMSQFNQRLLAASKAGGLAVDDAHCLAGLSPEEMTVAAEAAREKGLEERWFIPLLNTTQQ 226 Query: 282 MLVAEAVAPEPGMRVLDCCAAPGGKSAHMGELMKDEGYIYANDLHPHKARLIADQAQRLG 341 +A + + K + + A ++ Sbjct: 227 PALATLRDRQTRENLFAASWTRAEKGDAHDTRAIVQRLVEIRRCQAKLLGFPNYAAWKMA 286 Query: 342 LECIAIGSTDALRLAQTFEPESFDRILLDAPCSGLGVIRRKPDLKWRKQPEDVASVAALQ 401 + + + R+L + + + + + + Sbjct: 287 DQMAKTPQAALSFMRGIVP-PARQRVLNEQAEIQNVIDGEQGGYTVQAWDWMFYAEQVRR 345 Query: 402 AELLQSVSRLLKPGGILVYSTCTTEQAENSSVIAEFLGNNPGFTSATFTSPVWQRVEGTA 461 + ++L + N F+ + + Sbjct: 346 EKYALDEAQLKPYFALNTVLQEGVFWTANQLFGITFVERFDIPVYHPDVRVW-EIFDSDG 404 Query: 462 LAAGEGLQLLPQHYGSDGFYISRLQRL 488 + + Sbjct: 405 VGMALFYGDFFARDSK-SGGAWMGNFV 430 >STM3408 [J] COG0144 tRNA and rRNA cytosine-C5-methylases Length = 429 Score = 213 bits (543), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 144/431 (33%), Positives = 223/431 (51%), Gaps = 23/431 (5%) Query: 55 VEQQGAYSNLLLNSSLQKTALSREDAGLATELVYGSISRLLTLDYVLDGFVSKGIAKLQP 114 VEQ + SN+L LQ+ ++ +D L EL +G + L L+++++ +S+ + Q Sbjct: 19 VEQGQSLSNVL--PPLQQK-VADKDKALLQELCFGVLRTLSQLEWLINKLMSRPMTGKQR 75 Query: 115 WVRNLLRLSLYQIMYLDRIPSHAAVNEAVNIAKKRGHQGISGMVNGVLRSVLRAGELPVL 174 V L+ + YQ++Y R+P HAA+ E V A + G++NGVLR R E +L Sbjct: 76 TVHYLIMVGFYQLLYT-RVPPHAALAETVEGAVSIKRPQLKGLINGVLRQFQRQQET-LL 133 Query: 175 PENLSPEQRISILHSHPLWMVKQWAAEYGLDAAEAMCAANNEPPAASVRVNLTMISREAL 234 E + + R HP W+VK+ Y + + ANN+ P +RVN T +R+ Sbjct: 134 NEFATSDARFL----HPGWLVKRLQNAYPTQW-QHIIEANNQRPPMWLRVNRTHHTRDGW 188 Query: 235 LEQMLEAGLAASPSLVSPYGIVVKGGGNLALTSWYRDGYLSVQDESSMLVAEAVAPEPGM 294 L + +AG+ P P + ++ + + +G+++VQD S+ A +AP+ G Sbjct: 189 LGLLEDAGMKGYPHPDYPDAVRLETPAPVHALPGFAEGWVTVQDASAQGCAVFLAPQNGE 248 Query: 295 RVLDCCAAPGGKSAHMGELMKDEGYIYANDLHPHKARLIADQAQRLGLECIAIGSTDALR 354 +LD CAAPGGK+ H+ E+ E + A D+ + + D +RLG++ + D Sbjct: 249 HILDLCAAPGGKTTHILEVAP-EADVLAVDIDEQRLSRVYDNLKRLGMKA-TVKQGDGRY 306 Query: 355 LAQTFEPESFDRILLDAPCSGLGVIRRKPDLKWRKQPEDVASVAALQAELLQSVSRLLKP 414 +Q + FDRILLDAPCS GVIRR PD+KW ++ D+A +A LQAE+L +V LKP Sbjct: 307 PSQWCGEQQFDRILLDAPCSATGVIRRHPDIKWLRRDRDIAELAQLQAEILDAVWPRLKP 366 Query: 415 GGILVYSTCTTEQAENSSVIAEFLGNNPGFTSATFTSPVWQRVEGTALAAGEGLQLLPQH 474 GG LVY+TC+ EN I FL P + +P G Q LP Sbjct: 367 GGTLVYATCSVLPEENRDQIKTFLQRTPDAALSETGTP-----------DQPGQQNLPGG 415 Query: 475 YGSDGFYISRL 485 DGF+ ++L Sbjct: 416 EEGDGFFYAKL 426 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 0.132 0.382 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: 32,684,087 Number of extensions: 1335489 Number of successful extensions: 3778 Number of sequences better than 1.0e-05: 76 Number of HSP's gapped: 3611 Number of HSP's successfully gapped: 76 Length of query: 489 Length of database: 38,378,431 Length adjustment: 110 Effective length of query: 379 Effective length of database: 25,691,691 Effective search space: 9737150889 Effective search space used: 9737150889 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: 118 (50.1 bits)