Protein Info for GFF3883 in Hydrogenophaga sp. GW460-11-11-14-LB1
Annotation: 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-)
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
Best Hits
Swiss-Prot: 78% identical to RLMD_ACIAC: 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD (rlmD) from Acidovorax citrulli (strain AAC00-1)
KEGG orthology group: K03215, RNA methyltransferase, TrmA family [EC: 2.1.1.-] (inferred from 78% identity to aav:Aave_3318)Predicted SEED Role
"23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-)" (EC 2.1.1.-)
KEGG Metabolic Maps
- Alkaloid biosynthesis I
- Anthocyanin biosynthesis
- Benzoxazinone biosynthesis
- Biosynthesis of alkaloids derived from shikimate pathway
- Carotenoid biosynthesis - General
- Flavonoid biosynthesis
- Histidine metabolism
- Insect hormone biosynthesis
- Naphthalene and anthracene degradation
- Phenylpropanoid biosynthesis
- Porphyrin and chlorophyll metabolism
- Tryptophan metabolism
- Tyrosine metabolism
- Ubiquinone and menaquinone biosynthesis
Isozymes
Compare fitness of predicted isozymes for: 2.1.1.-
Use Curated BLAST to search for 2.1.1.-
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Compare to protein 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 (498 amino acids)
>GFF3883 23S rRNA (Uracil-5-) -methyltransferase RumA (EC 2.1.1.-) (Hydrogenophaga sp. GW460-11-11-14-LB1) MTASSPHENSLLTTARDEAAPESPDRVLPEGWLAVESLDIDAQGIARRPDGKVVFIEGAL PFEQVSVNVHRKKNNWEAGTVTAIHRESSQRVRPGCPHFGLHAGACGGCKMQHLHEAAQV AVKQRVLEDNLWHLGKVRAETLMRPIEGPAWGYRHRARLSVRHVHKKGEVLIGFHERKSR YVADMQVCPVLPPHVSAMLMPLRELIFGMDARETCPQIELASGDDVTALVLRHLEPLSED DLARLRAFGARHGVQWWLQAKGPDTVKLLDEGGEVLSYALPEFGITMPFKPTDFTQVNPF INRVLVVRALRLLDARADERVIDWFCGLGNFTLPIATTAGEVLGIEGSEALVARSRENLA GNQAGRDRPLAPTTFAARNLFEMTPELLVADGVAQKWLVDPPREGAFALAKAIADLHQNP ALRGGWTPPQRIVYVSCNPATLARDAGLLVHQAGYRCVTAGVVNMFAHTAHVESMAVFEL EPSKVPGADAAPAAADEV