RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780313|ref|YP_003064726.1| ribosomal RNA methyltransferase RrmJ/FtsJ [Candidatus Liberibacter asiaticus str. psy62] (227 letters) >gnl|CDD|161879 TIGR00438, rrmJ, cell division protein FtsJ. Length = 188 Score = 175 bits (445), Expect = 9e-45 Identities = 79/191 (41%), Positives = 121/191 (63%), Gaps = 4/191 (2%) Query: 36 DPYVQRAQLEGWRARSAYKLLQINEKHQILQSNRRIVDLGSSPGSWSQVAARITGSNANN 95 D Y Q+A+ E +R+R+++KLLQ+N+K ++++ ++DLG++PG WSQVA G Sbjct: 1 DFYYQKAKKEKYRSRASFKLLQLNQKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKG-- 58 Query: 96 TRVVAIDILDMEPILGVKFFKFDFLDLDSWEFIRQAIGGNP-DLVLSDMAYPTIGHRKID 154 RV+A+D+ M+PI V F + DF D + IR+ +G + D+V+SD A G+ ID Sbjct: 59 -RVIAVDLQPMKPIENVDFIRGDFTDEEVLNKIRERVGDDKVDVVMSDAAPNISGYWDID 117 Query: 155 HLRTMSLCEAATFFALEMLNIGGDFLVKTFQGGTTNDILCLLKKHFQKVIHVKPVASRAE 214 HLR++ L E A A E+L G+F+VK FQG ++ L L+K F+KV KP ASR Sbjct: 118 HLRSIDLVELALDIAKEVLKPKGNFVVKVFQGEEIDEYLNELRKLFEKVKVTKPQASRKR 177 Query: 215 SVEMFLLAKGF 225 S E++++AK F Sbjct: 178 SAEVYIVAKRF 188 >gnl|CDD|183025 PRK11188, rrmJ, 23S rRNA methyltransferase J; Provisional. Length = 209 Score = 162 bits (413), Expect = 5e-41 Identities = 81/210 (38%), Positives = 120/210 (57%), Gaps = 6/210 (2%) Query: 18 KNRSCQGSSRDWLNRHINDPYVQRAQLEGWRARSAYKLLQINEKHQILQSNRRIVDLGSS 77 K RS SS WL H +D YVQ+AQ +G R+R+ +KL +I + ++ + +VDLG++ Sbjct: 4 KKRS--ASSSRWLQEHFSDKYVQQAQKKGLRSRAWFKLDEIQQSDKLFKPGMTVVDLGAA 61 Query: 78 PGSWSQVAARITGSNANNTRVVAIDILDMEPILGVKFFKFDFLDLDSWEFIRQAIGGNP- 136 PG WSQ A G RV+A DIL M+PI+GV F + DF D + + + +G + Sbjct: 62 PGGWSQYAVTQIGDKG---RVIACDILPMDPIVGVDFLQGDFRDELVLKALLERVGDSKV 118 Query: 137 DLVLSDMAYPTIGHRKIDHLRTMSLCEAATFFALEMLNIGGDFLVKTFQGGTTNDILCLL 196 +V+SDMA G +D R M L E A ++L GG F+VK FQG ++ L + Sbjct: 119 QVVMSDMAPNMSGTPAVDIPRAMYLVELALDMCRDVLAPGGSFVVKVFQGEGFDEYLREI 178 Query: 197 KKHFQKVIHVKPVASRAESVEMFLLAKGFR 226 + F KV KP +SRA S E++++A G + Sbjct: 179 RSLFTKVKVRKPDSSRARSREVYIVATGRK 208 >gnl|CDD|129570 TIGR00478, tly, hemolysin TlyA family protein. Hemolysins are exotoxins that attack blood cell membranes and cause cell rupture, often by forming a pore in the membrane. At least two members of this protein family have been characterized indirectly as pore-forming hemolysins, one from the spirochete Serpula (Treponema) hyodysenteriae and one from Mycobacterium tuberculosis. However, homology domains in this protein suggest methyltransferase activity (pfam01728) and RNA-binding activity (pfam01479). Length = 228 Score = 34.0 bits (78), Expect = 0.034 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 5/54 (9%) Query: 50 RSAYKLLQINEKHQILQSNRRIVDLGSSPGSWSQVAARITGSNANNTRVVAIDI 103 R KL + E+ I N+ ++D+GSS G ++ A V +D+ Sbjct: 58 RGGEKLKEALEEFNIDVKNKIVLDVGSSTGGFTDCA-----LQKGAKEVYGVDV 106 >gnl|CDD|183301 PRK11760, PRK11760, putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional. Length = 357 Score = 32.1 bits (74), Expect = 0.11 Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 15/61 (24%) Query: 50 RSAYKL-------LQINEKHQILQSNRRIVDLGSSPGSWS-QVAARITGSNANNTRVVAI 101 RS KL + +E + L R VDLG++PG W+ Q+ R V A+ Sbjct: 187 RSTLKLEEAFHVFIPRDEWDERLAPGMRAVDLGAAPGGWTYQLVRR-------GMFVTAV 239 Query: 102 D 102 D Sbjct: 240 D 240 >gnl|CDD|164958 PHA02563, PHA02563, DNA polymerase; Provisional. Length = 630 Score = 28.6 bits (64), Expect = 1.3 Identities = 10/41 (24%), Positives = 14/41 (34%) Query: 113 KFFKFDFLDLDSWEFIRQAIGGNPDLVLSDMAYPTIGHRKI 153 K+ F LDL +FIR+ G I + Sbjct: 219 KYTHFPILDLGFDDFIRKFYRGGRTWYNPKYIGKLIEEGYV 259 >gnl|CDD|179319 PRK01683, PRK01683, trans-aconitate 2-methyltransferase; Provisional. Length = 258 Score = 28.4 bits (64), Expect = 1.4 Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 12/58 (20%) Query: 40 QRAQLEGWRARSAYKLLQINEKHQI-LQSNRRIVDLGSSPGSWSQV------AARITG 90 + E R R A LL ++ L++ R +VDLG PG+ +++ AARITG Sbjct: 8 LYLKFEDERTRPARDLLA-----RVPLENPRYVVDLGCGPGNSTELLVERWPAARITG 60 >gnl|CDD|184509 PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional. Length = 255 Score = 28.1 bits (63), Expect = 1.9 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 4/40 (10%) Query: 48 RARSAYKLLQINEKHQILQSNRRIVDLGSSPGSWSQVAAR 87 R R Y LL + RR+VDLG PG+ ++ AR Sbjct: 14 RGRPFYDLL----ARVGAERARRVVDLGCGPGNLTRYLAR 49 >gnl|CDD|183162 PRK11493, sseA, 3-mercaptopyruvate sulfurtransferase; Provisional. Length = 281 Score = 27.7 bits (62), Expect = 2.3 Identities = 8/15 (53%), Positives = 11/15 (73%) Query: 26 SRDWLNRHINDPYVQ 40 + DWL HI+DP +Q Sbjct: 8 AADWLAEHIDDPEIQ 22 >gnl|CDD|119086 pfam10566, Glyco_hydro_97, Glycoside hydrolase 97. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands. Length = 643 Score = 27.9 bits (62), Expect = 2.3 Identities = 11/19 (57%), Positives = 12/19 (63%) Query: 111 GVKFFKFDFLDLDSWEFIR 129 GV FK DFLD D E +R Sbjct: 391 GVVGFKVDFLDRDDQEMVR 409 >gnl|CDD|115136 pfam06460, NSP13, Coronavirus NSP13. This family covers the NSP13 region of the coronavirus polyprotein. This protein has the predicted function of an mRNA cap-1 methyltransferase function. Length = 300 Score = 27.5 bits (61), Expect = 2.6 Identities = 11/48 (22%), Positives = 17/48 (35%) Query: 136 PDLVLSDMAYPTIGHRKIDHLRTMSLCEAATFFALEMLNIGGDFLVKT 183 DL++SDM ++ F E L +GG +K Sbjct: 123 FDLIISDMYDGRTKSIDGENNSKEGFFTYICGFIREKLALGGSIAIKI 170 >gnl|CDD|165411 PHA03139, PHA03139, helicase-primase primase subunit; Provisional. Length = 860 Score = 26.9 bits (59), Expect = 4.6 Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 9/68 (13%) Query: 137 DLVLS---DMAYPTIGHRKIDHL--RTMSLCEAATFFALEMLNIGGDFLVKTFQGGTTND 191 D +LS + +P I + I H R TF ++ N+ +K Q G +D Sbjct: 746 DSLLSFIRLIGWPIIKTQLITHYETRIAQQFSQVTFLKIDSKNLQ----IKKTQFGRVSD 801 Query: 192 ILCLLKKH 199 CL ++H Sbjct: 802 FSCLNRQH 809 >gnl|CDD|182921 PRK11039, PRK11039, putative dehydrogenase; Provisional. Length = 140 Score = 26.2 bits (58), Expect = 7.8 Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 3/27 (11%) Query: 43 QLEGWRARSAY---KLLQINEKHQILQ 66 Q+ ++AR Y KL Q +EKHQI Q Sbjct: 94 QIFRFKARYDYPNKKLHQRDEKHQINQ 120 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.322 0.137 0.410 Gapped Lambda K H 0.267 0.0690 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 3,731,252 Number of extensions: 231142 Number of successful extensions: 416 Number of sequences better than 10.0: 1 Number of HSP's gapped: 412 Number of HSP's successfully gapped: 19 Length of query: 227 Length of database: 5,994,473 Length adjustment: 90 Effective length of query: 137 Effective length of database: 4,049,753 Effective search space: 554816161 Effective search space used: 554816161 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 55 (25.0 bits)