Protein Info for GFF2298 in Xanthobacter sp. DMC5

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 50 100 150 200 250 287 transmembrane" amino acids 22 to 41 (20 residues), see Phobius details PF02576: RimP_N" amino acids 31 to 101 (71 residues), 79.8 bits, see alignment E=1.7e-26 PF17384: DUF150_C" amino acids 104 to 174 (71 residues), 50.9 bits, see alignment E=1.5e-17

Best Hits

Swiss-Prot: 76% identical to RIMP_XANP2: Ribosome maturation factor RimP (rimP) from Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2)

KEGG orthology group: K09748, ribosome maturation factor RimP (inferred from 76% identity to xau:Xaut_0296)

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)

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 (287 amino acids)

>GFF2298 Ribosome maturation factor RimP (Xanthobacter sp. DMC5)
MTEINAVLDDPNEPRLITETGVAARVAAIASGVLGGLGYRLVRVKVTNRDGGTVQIMAER
PDGTMSIDDCEAASRALSPVLDVEDPIASAYRLEMSSPGIDRPLVRLSDFVRWAGHEVKV
EMSVPVDSRKRFRGILTGAEDGDALVRRTDARADEEPTVRLPLRDIHDARLVLTDALIRE
ALRAAKAAGQELDEDAEDFLDSEVDPLEADDTFEPGDLDGEPAEQPAKSARGPVANKGAT
GKVAGKKAKKSKVAGKKPDGKKSNAKKKAGLETSASSANASSVKEKH