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= 0345.0007.p (520 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00059686.1| COG0144: tRNA and rRNA cytosine-C5-methylases... 327 4e-88 ref|NP_623708.1| tRNA and rRNA cytosine-C5-methylases [Thermoana... 295 2e-78 ref|NP_785300.1| rRNA methylase (putative) [Lactobacillus planta... 234 3e-60 ref|ZP_00037859.1| COG0144: tRNA and rRNA cytosine-C5-methylases... 222 2e-56 ref|NP_345860.1| NOL1/NOP2/sun family protein [Streptococcus pne... 214 4e-54 >ref|ZP_00059686.1| COG0144: tRNA and rRNA cytosine-C5-methylases [Clostridium thermocellum ATCC 27405] Length = 470 Score = 327 bits (838), Expect = 4e-88, Method: Compositional matrix adjust. Identities = 162/303 (53%), Positives = 201/303 (66%), Gaps = 8/303 (2%) Query: 8 VELPGTFMQRMEDMLGS-DYEQFAESYQETPYGGIRANTLKIPVEELLALSPFTLAPIPW 66 ++LP F+++ME + + ++E+F +SY + G+R NTLKI VEE LSPF L PIPW Sbjct: 15 MKLPEEFLRKMEGLFDAGEFEEFLKSYDMPRFYGLRVNTLKIGVEEFKKLSPFELEPIPW 74 Query: 67 CPSGFYTEAGARPGKHPYYHAGLYYIQEPSAMAPVELLGVRPGDRVLDLCAAPGGKSTQI 126 GFY G PGKHPYYHAGLYYIQEPSAM P ++ GD VLDLCAAPGGK+ Q+ Sbjct: 75 TKDGFYYNEGENPGKHPYYHAGLYYIQEPSAMLPGAVINAEEGDYVLDLCAAPGGKTVQM 134 Query: 127 AAKLQGEGLLVSNDLHPDRTKALAKNLELYGVRNGIVLNESPGRIAAAFPGFFDRILIDA 186 AA ++G+GLL++ND+ DR KAL KN+EL G+ N IV NESP R+A FFDRIL+DA Sbjct: 135 AAGMKGKGLLIANDISSDRVKALVKNIELCGITNAIVTNESPDRLAKKLCAFFDRILVDA 194 Query: 187 PCSGEGMFRKDEDMVKQWEPETPLKYAAMQREILASAAAALKPGGTLVYSTCTFAIEENE 246 PCSGEGMFRKDED K W K AMQREIL SA LKPGG LVYSTCTF+ EENE Sbjct: 195 PCSGEGMFRKDEDAAKSWGKFKCDKCCAMQREILESADVMLKPGGYLVYSTCTFSPEENE 254 Query: 247 GIIGEFLASHPEFSLIPV-------GGTGSFXXXXXXXXXXXXXXXHKVKGEGHFMAVLR 299 G+I EFL+ H + ++ + G + HKV+GEGHF+A+L+ Sbjct: 255 GMISEFLSRHKNYDILEIPKAYGIDNGRPEWWDNNKELLKTARIWPHKVRGEGHFVALLK 314 Query: 300 HDG 302 G Sbjct: 315 KKG 317 Score = 97.1 bits (240), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 52/135 (38%), Positives = 69/135 (51%), Gaps = 10/135 (7%) Query: 384 FAEEQLGWQPAGYPVLFGDHLYLSPLPKAALDGLKTIRPGWYAGHVRSGRFIPGHPLATA 443 FA E L G+ + G++LY P L G+K + GWY G + GRF P H A + Sbjct: 343 FAGENLNINIDGFFTVKGNNLYCLPEEPPDLSGIKVAKFGWYLGEIAKGRFEPSHSFALS 402 Query: 444 LHPAESIRSLSLPGNSGEAVSYLKGETLSIPAERLSVRSGSSPKGYVLVCIDGYSAGWGK 503 L + ++L+ +S E + YLKGETL I E GY + +DGY+ GW K Sbjct: 403 LKKEDIRKTLNFSADSVEVLKYLKGETLMIEGE----------PGYTGILVDGYTLGWAK 452 Query: 504 WQDGMLKNEYPAGWR 518 MLKN YP GWR Sbjct: 453 QTGDMLKNLYPKGWR 467 >ref|NP_623708.1| tRNA and rRNA cytosine-C5-methylases [Thermoanaerobacter tengcongensis] gb|AAM25312.1| tRNA and rRNA cytosine-C5-methylases [Thermoanaerobacter tengcongensis] Length = 460 Score = 295 bits (754), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 142/304 (46%), Positives = 197/304 (64%), Gaps = 7/304 (2%) Query: 6 MAVELPGTFMQRMEDMLGSDYEQFAESYQETPYGGIRANTLKIPVEELLALSPFTLAPIP 65 M V + F++RM+++L +YE F + Y++ P G+R NTLKI VE ++PF + PIP Sbjct: 1 MKVPVKEEFLKRMKELLKEEYEAFLKEYEKKPQKGLRVNTLKIDVENFKKIAPFEIEPIP 60 Query: 66 WCPSGFYTEAGARPGKHPYYHAGLYYIQEPSAMAPVELLGVRPGDRVLDLCAAPGGKSTQ 125 WCP+GFY E + G H Y+ GLYYIQEP+AMA VE+L +PG+++LD+ AAPGGK+T Sbjct: 61 WCPTGFYYEKEEKAGNHLYHVLGLYYIQEPTAMAVVEVLDPKPGEKILDVSAAPGGKTTH 120 Query: 126 IAAKLQGEGLLVSNDLHPDRTKALAKNLELYGVRNGIVLNESPGRIAAAFPGFFDRILID 185 IA+K+ EGL+V+N++ R +AL +N+ G+RN ++LNE P R+ AF G+FD+I++D Sbjct: 121 IASKIGDEGLIVANEIDRKRIRALEENVARMGIRNIVLLNERPERLIQAFEGYFDKIVVD 180 Query: 186 APCSGEGMFRKDEDMVKQWEPETPLKYAAMQREILASAAAALKPGGTLVYSTCTFAIEEN 245 APCSGEGMFRKD + W L + QR IL S A LK GG LVYSTCTF+ EEN Sbjct: 181 APCSGEGMFRKDPAARRIWSLNNVLSCSITQRNILRSVAPLLKRGGVLVYSTCTFSPEEN 240 Query: 246 EGIIGEFLASHPEFSLIPVGGTGSFXXXX-------XXXXXXXXXXXHKVKGEGHFMAVL 298 EG+I +FL +PEF ++ + F HKV+GEGHF+A L Sbjct: 241 EGVIKKFLEENPEFEVVESELSHFFDKGHPEWVDGPKELEKCMRLWPHKVRGEGHFIAKL 300 Query: 299 RHDG 302 + +G Sbjct: 301 KKNG 304 Score = 67.0 bits (162), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 38/118 (32%), Positives = 55/118 (46%), Gaps = 12/118 (10%) Query: 401 GDHLYLSPLPKAALDGLKTIRPGWYAGHVRSGRFIPGHPLATALHPAESIRSLSLPGNSG 460 + +Y PL L G++ R GW G ++ RF P H LA L P++ R L L Sbjct: 348 NNFVYHVPLDLPELKGIRIYRHGWLMGELKKNRFEPSHWLAMGLKPSQIKRVLELDKFQR 407 Query: 461 EAVSYLKGETLSIPAERLSVRSGSSPKGYVLVCIDGYSAGWGKWQDGMLKNEYPAGWR 518 E YL GET + E G++L + + AGWG+ G++KN +P R Sbjct: 408 E--KYLNGETFELDEE----------DGWILFTAENFPAGWGRVAKGVVKNYFPKWLR 453 >ref|NP_785300.1| rRNA methylase (putative) [Lactobacillus plantarum WCFS1] emb|CAD64148.1| rRNA methylase (putative) [Lactobacillus plantarum WCFS1] Length = 455 Score = 234 bits (598), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 126/302 (41%), Positives = 169/302 (55%), Gaps = 13/302 (4%) Query: 8 VELPGTFMQRMEDMLGSDYEQFAESYQETPYGGIRANTLKIPVEELLALSPFTLAPIPWC 67 ++LP F+Q+ + +LG F ++ G R N K + A AP+P+ Sbjct: 1 MQLPAEFIQKYQRLLGDQAPAFLAAFDGPVEKGFRINPNKTVTATMRAK---MTAPVPYS 57 Query: 68 PSGFYTEAGARPGKHPYYHAGLYYIQEPSAMAPVELLGVRPGDRVLDLCAAPGGKSTQIA 127 P G+Y + +H AG Y QEPSAM E PG+RVLDLCAAPGGK+T + Sbjct: 58 PIGYYGKVNGNALEH---LAGAVYSQEPSAMTVGEFAKPEPGERVLDLCAAPGGKTTHLL 114 Query: 128 AKLQGEGLLVSNDLHPDRTKALAKNLELYGVRNGIVLNESPGRIAAAFPGFFDRILIDAP 187 + L GLLV+N+++ R AL N+E YG RN ++ N++P +A PGFFDRIL+DAP Sbjct: 115 SYLHQTGLLVTNEINRQRVTALGDNVERYGARNTVITNDTPAALAKELPGFFDRILVDAP 174 Query: 188 CSGEGMFRKDEDMVKQWEPETPLKYAAMQREILASAAAALKPGGTLVYSTCTFAIEENEG 247 CSGEGMFRKD D V+ W P+ P A QREIL A L+PGG L+YSTCTFA EE+E Sbjct: 175 CSGEGMFRKDHDAVQYWTPDYPAACAERQREILTEAVKMLRPGGHLIYSTCTFAPEEDEQ 234 Query: 248 IIGEFLASHPEFSLIPVGGTGSFXXXX-------XXXXXXXXXXXHKVKGEGHFMAVLRH 300 ++ L ++PEF L P+ T H ++GEGHF+A L + Sbjct: 235 MMAWLLKTYPEFELEPLAKTAGMVDAKPEWADGNPELAKAARLFPHLMRGEGHFIAKLVY 294 Query: 301 DG 302 G Sbjct: 295 HG 296 >ref|ZP_00037859.1| COG0144: tRNA and rRNA cytosine-C5-methylases [Enterococcus faecium] Length = 456 Score = 222 bits (566), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 129/303 (42%), Positives = 175/303 (57%), Gaps = 10/303 (3%) Query: 7 AVELPGTFMQRMEDMLGSDYEQFAESYQE-TPYGGIRANTLK-IPVEELLALSPFTLAPI 64 A LP F+++ +LG + F + ++ + G R N LK ++ + L P Sbjct: 5 ATTLPQQFIKKYRLLLGEEASDFFSALEQGSVKKGFRWNPLKPAGLDMVQTYHSEELQPA 64 Query: 65 PWCPSGFYTEAGARPGKHPYYHAGLYYIQEPSAMAPVELLGVRPGDRVLDLCAAPGGKST 124 P+ GF G GK + AG Y QEPSAM +PG++VLDLCAAPGGKST Sbjct: 65 PYSNEGFL---GTVNGKSFLHQAGYEYSQEPSAMIVGTAAAAKPGEKVLDLCAAPGGKST 121 Query: 125 QIAAKLQGEGLLVSNDLHPDRTKALAKNLELYGVRNGIVLNESPGRIAAAFPGFFDRILI 184 Q+AA+++G+GLLV+N++ P R K L++N+E +GV N IV N +P + F GFFDRI++ Sbjct: 122 QLAAQMKGKGLLVTNEIFPKRAKILSENIERWGVSNAIVTNHAPAELVPHFSGFFDRIVV 181 Query: 185 DAPCSGEGMFRKDEDMVKQWEPETPLKYAAMQREILASAAAALKPGGTLVYSTCTFAIEE 244 DAPCSGEGMFRKD + +K+W E+PL Q+EIL+SA LK G L+YSTCTFA EE Sbjct: 182 DAPCSGEGMFRKDPNAIKEWTEESPLYCQKRQQEILSSAIKMLKNKGQLIYSTCTFAPEE 241 Query: 245 NEGIIGEFLASHP----EFSLIPVGGTG-SFXXXXXXXXXXXXXXXHKVKGEGHFMAVLR 299 NE II + ++P E L +G S HK +GEGHF+A L Sbjct: 242 NEEIISWLVENYPVTIEEIPLTQSVSSGRSEWGSVAGLEKTIRIWPHKDQGEGHFVAKLT 301 Query: 300 HDG 302 G Sbjct: 302 FHG 304 Score = 70.5 bits (171), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 45/129 (34%), Positives = 65/129 (50%), Gaps = 12/129 (9%) Query: 391 WQPAGYPVLFGDHLYLSPLPKAALDGLKTIRPGWYAGHVRSGRFIPGHPLATALHPAESI 450 ++ G ++F DHL+ P +LDGLK +R G + G + RF P + LA A E+I Sbjct: 339 YEATGRLLVFNDHLWEVPELAPSLDGLKVVRTGLHLGDFKKNRFEPSYALALATKKIENI 398 Query: 451 RSLSLPGNSGEAVSYLKGETLSIPAERLSVRSGSSPKGYVLVCIDGYSAGWGKWQDGMLK 510 LP E SY GET R G+ +G+VL+ +D G+GK G +K Sbjct: 399 P--CLPITQKEWQSYTAGETFQ--------RDGN--QGWVLLVLDKIPVGFGKQVKGTVK 446 Query: 511 NEYPAGWRW 519 N +P G R+ Sbjct: 447 NFFPKGLRF 455 >ref|NP_345860.1| NOL1/NOP2/sun family protein [Streptococcus pneumoniae TIGR4] pir||C95163 NOL1/NOP2/sun family protein [imported] - Streptococcus pneumoniae (strain TIGR4) gb|AAK75500.1| NOL1/NOP2/sun family protein [Streptococcus pneumoniae TIGR4] Length = 434 Score = 214 bits (545), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 125/295 (42%), Positives = 167/295 (56%), Gaps = 12/295 (4%) Query: 8 VELPGTFMQRMEDMLGSDYEQFAESYQETPYGGIRANTLKIPVEELLALSPFTLAPIPWC 67 ++ P F+++ +++LG + F S++E R N LK EE L+ S + PW Sbjct: 1 MQFPEGFVEKYKEILGDEARDFLASFEEEAVSAFRVNPLK---EEQLSFSD-AITQTPW- 55 Query: 68 PSGFYTEAGARPGKHPYYHAGLYYIQEPSAMAPVELLGVRPGDRVLDLCAAPGGKSTQIA 127 G Y G GK P + GL Y QEP+A ++ PG +VLDL AAPGGKSTQ+A Sbjct: 56 --GHY---GKVSGKSPEHATGLVYSQEPAAQMVAQVAQPSPGMKVLDLAAAPGGKSTQLA 110 Query: 128 AKLQGEGLLVSNDLHPDRTKALAKNLELYGVRNGIVLNESPGRIAAAFPGFFDRILIDAP 187 A L GEGLLVSN++ R K L +N+E +G N +V NES R+ F G+FD I++DAP Sbjct: 111 AYLAGEGLLVSNEISSKRAKILVENMERFGATNVVVTNESADRLVKVFKGYFDLIVLDAP 170 Query: 188 CSGEGMFRKDEDMVKQWEPETPLKYAAMQREILASAAAALKPGGTLVYSTCTFAIEENEG 247 CSGEGMFRK D + W + P + A++QREIL A L GG LVYSTCT+A EENE Sbjct: 171 CSGEGMFRKQPDAMDYWSLDYPSQCASLQREILEDAVTMLAEGGHLVYSTCTWAPEENEE 230 Query: 248 IIGEFLASHPEFSLIPVGGTGSFXXXXXXXXXXXXXXXHKVKGEGHFMAVLRHDG 302 I+ L + +F L+PV H+ KGEG F+A L+ G Sbjct: 231 IVNWLLEEY-DFDLLPVEHINGM-VAGIDLPETARMYPHQFKGEGQFVAHLQFKG 283 Score = 60.8 bits (146), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 46/142 (32%), Positives = 66/142 (46%), Gaps = 10/142 (7%) Query: 378 LAAYSVFAEEQLGWQPAGYPVLFGDHLYLSPLPKAALDGLKTIRPGWYAGHVRSGRFIPG 437 +A + FA+ L G +FGD LYL P L LK R G + G + RF P Sbjct: 302 VALWQEFAQNHLKVNLPGILQIFGDQLYLLPELLPDLWKLKIARNGLHLGTFKKKRFEPS 361 Query: 438 HPLATALHPAESIRSLSLPGNSGEAVSYLKGETLSIPAERLSVRSGSSPKGYVLVCIDGY 497 L AL P++ +S+ + + V Y GET+ + AE L P G+ V + G Sbjct: 362 FALGLALKPSQVEQSVEIGQEA--FVKYAAGETVQL-AESL-------PNGWYQVLVKGN 411 Query: 498 SAGWGKWQDGMLKNEYPAGWRW 519 G+ K +LKN +P G R+ Sbjct: 412 GLGFAKVTGNVLKNYFPKGLRF 433 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.317 0.137 0.421 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 746,703,684 Number of extensions: 31314635 Number of successful extensions: 68609 Number of sequences better than 1.0e-05: 502 Number of HSP's gapped: 67889 Number of HSP's successfully gapped: 512 Length of query: 520 Length of database: 757,237,578 Length adjustment: 130 Effective length of query: 390 Effective length of database: 404,274,708 Effective search space: 157667136120 Effective search space used: 157667136120 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: 128 (53.9 bits)