Protein Info for Psest_0021 in Pseudomonas stutzeri RCH2
Annotation: ribosomal RNA small subunit methyltransferase RsmB
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: 81% identical to RSMB_PSESM: Ribosomal RNA small subunit methyltransferase B (rsmB) from Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)
KEGG orthology group: K03500, ribosomal RNA small subunit methyltransferase B [EC: 2.1.1.-] (inferred from 93% identity to psa:PST_0019)MetaCyc: 49% identical to 16S rRNA m5C967 methyltransferase (Escherichia coli K-12 substr. MG1655)
RXN-11591 [EC: 2.1.1.176]
Predicted SEED Role
"Ribosomal RNA small subunit methyltransferase B (EC 2.1.1.-)" in subsystem Conserved gene cluster associated with Met-tRNA formyltransferase (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.- or 2.1.1.176
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
See L0GH38 at UniProt or InterPro
Protein Sequence (440 amino acids)
>Psest_0021 ribosomal RNA small subunit methyltransferase RsmB (Pseudomonas stutzeri RCH2) MNPRLAAARALSVVLSGKASLGSSLPEVLGKVDARDRGLTQDLAFGTARWQPRLAGLADK LLQKPFKAADRDVEALLLVGLYQLFYSRIPAHAAIGETVGCVDKLKKPWAKGLLNAVLRR AQREGEALLAELEHDPVIRVAHPRWLQKALKAHWPEHWEAICAANNAHPPMMLRVNRRQV SRDGYLAELQGAGIEAHPCEFSEDGIRLAAPCDVHQLPGFAEGRVSVQDEAAQLAASLLD LAPGQRVLDACCAPGGKTCHLLEREPQLAGLVALDLEPKRLLRVRENLERLHLQAELVAD DARATERWWDGKPFQRILLDAPCSATGVIRRHPDIKLTRQADDIAPLAALQGEMLDALWP TLEVGGVLLYATCSVLPTENREVIAAFLERTPGARELDLAGGFGLPQMHGRQLLPQESGH DGFYYAKLIKIAAQPRGRDA