Protein Info for PS417_22915 in Pseudomonas simiae WCS417

Annotation: 16S rRNA processing protein RimM

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 50 100 150 178 TIGR02273: 16S rRNA processing protein RimM" amino acids 11 to 177 (167 residues), 174.9 bits, see alignment E=4.5e-56 PF01782: RimM" amino acids 13 to 94 (82 residues), 89.9 bits, see alignment E=1.5e-29 PF05239: PRC" amino acids 102 to 173 (72 residues), 28.8 bits, see alignment E=1.5e-10 PF24986: PRC_RimM" amino acids 106 to 175 (70 residues), 35.4 bits, see alignment E=9.9e-13

Best Hits

Swiss-Prot: 99% identical to RIMM_PSEFS: Ribosome maturation factor RimM (rimM) from Pseudomonas fluorescens (strain SBW25)

KEGG orthology group: K02860, 16S rRNA processing protein RimM (inferred from 99% identity to pfs:PFLU5011)

Predicted SEED Role

"16S rRNA processing protein RimM" in subsystem Ribosome biogenesis bacterial

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 A0A1N7UMW8 at UniProt or InterPro

Protein Sequence (178 amino acids)

>PS417_22915 16S rRNA processing protein RimM (Pseudomonas simiae WCS417)
MNATPAVADDLIVIGKIYSVHGVRGEVKVYSFTDPTENLLQYKTWTLKREGSVKQVELVS
GRGSDKFLVAKLKGLDDREEARLLAGYEICVPRNLFPELTDGEYYWYQLEGLKVIDQLGQ
LFGKIDHLLETGANDVMVVKPCAGSLDDRERLLPYTAQCVLAVDLAAGEMKVEWDADF