Protein Info for MPMX20_03654 in Enterobacter sp. TBS_079

Annotation: 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 400 432 PF01938: TRAM" amino acids 11 to 66 (56 residues), 40.6 bits, see alignment 9.1e-14 TIGR00479: 23S rRNA (uracil-5-)-methyltransferase RumA" amino acids 24 to 424 (401 residues), 509.6 bits, see alignment E=3.4e-157 PF05958: tRNA_U5-meth_tr" amino acids 258 to 430 (173 residues), 92.9 bits, see alignment E=1.1e-29 PF00398: RrnaAD" amino acids 270 to 342 (73 residues), 26.3 bits, see alignment E=1.9e-09 PF01135: PCMT" amino acids 273 to 340 (68 residues), 25.6 bits, see alignment E=4.9e-09 PF02475: Met_10" amino acids 275 to 337 (63 residues), 21.3 bits, see alignment E=1e-07 PF05175: MTS" amino acids 282 to 364 (83 residues), 26.4 bits, see alignment E=2.5e-09 PF03602: Cons_hypoth95" amino acids 285 to 364 (80 residues), 28 bits, see alignment E=8.2e-10 PF13847: Methyltransf_31" amino acids 286 to 392 (107 residues), 55.8 bits, see alignment E=2.4e-18 PF13649: Methyltransf_25" amino acids 290 to 361 (72 residues), 37.1 bits, see alignment E=2.2e-12 PF08241: Methyltransf_11" amino acids 291 to 361 (71 residues), 22.9 bits, see alignment E=5.4e-08

Best Hits

Swiss-Prot: 82% identical to RLMD_ENT38: 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD (rlmD) from Enterobacter sp. (strain 638)

KEGG orthology group: K03215, RNA methyltransferase, TrmA family [EC: 2.1.1.-] (inferred from 91% identity to enc:ECL_04117)

MetaCyc: 78% identical to 23S rRNA m5U1939 methyltransferase (Escherichia coli K-12 substr. MG1655)
RXN-11601 [EC: 2.1.1.190]

Predicted SEED Role

"23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-)" (EC 2.1.1.-)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.1.1.-

Use Curated BLAST to search for 2.1.1.- or 2.1.1.190

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (432 amino acids)

>MPMX20_03654 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD (Enterobacter sp. TBS_079)
MAQFYSAKRRVTTRQIITVEATDLDPFGQGVARHNGKTLFITGLLPTERAEITLTEDKRQ
FARGQVKQRHNDSPDRVKPRCPHFGVCGGCQQQHVSTELQQKSKSSALARLLKHDVNEII
ADQPWGYRRRARLSLNYQPKTERLEMGFRKASSSDIVDIRQCPILVPRLEALLPDVHACL
CGLDGVRHLGHVELVMANNGPLMVLRHTAPLSTKDREKLERFSHSHELALFLAPQSEILE
QLTGEAPWYASNGLRLTFSPRDFIQVNDGVNQQMIEKALMWLDVQKSDRVLDLFCGMGNF
TLPLARQAASVVGVEGVEALVAKGQENARQNGLQNVTFFHQNLEEDVTQQPWATQGFDKI
LLDPARSGAPGVMQHIIKLAPRRVVYVSCNPATLARDSEALIRAGYQIQRLAMLDMFPHT
GHLESMVLFEHI