Protein Info for LRK55_RS00830 in Rhodanobacter denitrificans MT42

Annotation: ribosome maturation factor RimP

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 50 100 150 177 PF02576: RimP_N" amino acids 12 to 90 (79 residues), 76.2 bits, see alignment E=2.2e-25 PF17384: DUF150_C" amino acids 93 to 158 (66 residues), 58.8 bits, see alignment E=5e-20

Best Hits

Swiss-Prot: 48% identical to RIMP_XANAC: Ribosome maturation factor RimP (rimP) from Xanthomonas axonopodis pv. citri (strain 306)

KEGG orthology group: K09748, ribosome maturation factor RimP (inferred from 48% identity to xac:XAC2689)

Predicted SEED Role

"FIG000325: clustered with transcription termination protein NusA"

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 (177 amino acids)

>LRK55_RS00830 ribosome maturation factor RimP (Rhodanobacter denitrificans MT42)
MDTQALAQRFSEVLVDLGLECLGVEFTPSHGQSTLRVYLDLLDRETGDGERREVGIEDCE
TASRELSALLDVEDPIPGHYVLEVSSPGLDRPLFNAAQFARAGGQEVKVLLKAPLEGRRR
LRGKLVSAEGGRVVLEAEGKTFEFEHALVESARVVPDWVALGYAPQPKRGGKAPGKK