Protein Info for Rru_A2006 in Rhodospirillum rubrum S1H

Annotation: L-carnitine dehydratase/bile acid-inducible protein F (NCBI)

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

KEGG orthology group: K07749, formyl-CoA transferase [EC: 2.8.3.16] (inferred from 100% identity to rru:Rru_A2006)

MetaCyc: 60% identical to succinyl-CoA-glutarate CoA-transferase (Pseudomonas putida)
Succinate--hydroxymethylglutarate CoA-transferase. [EC: 2.8.3.13]

Predicted SEED Role

"CAIB/BAIF family protein"

MetaCyc Pathways

L-lysine degradation X (4/6 steps found)
oxalate degradation II (1/3 steps found)
L-lysine degradation IV (2/5 steps found)
superpathway of L-lysine degradation (12/43 steps found)

Isozymes

Compare fitness of predicted isozymes for: 2.8.3.16

Use Curated BLAST to search for 2.8.3.13 or 2.8.3.16

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

See Q2RST9 at UniProt or InterPro

Protein Sequence (407 amino acids)

>Rru_A2006 L-carnitine dehydratase/bile acid-inducible protein F (NCBI) (Rhodospirillum rubrum S1H)
MAAALDGIRVLDLSRVLAGPWASQALADLGAEVIKIERPGAGDDTRSWGPPFLKDEDGRE
TTDAAYFLAANRGKKSLTVDITKAEGQDLVRALAARSHVVIENFKLGGLAKYGLDWPSLR
AVNPALVYCSITGFGQTGPYAPRAGYDAMIQAMSGLMSVTGEPDGVAGGGPMKVGVAVTD
ILTGLYAAFGILAALRHAEATGEGQHIDLALMDTAVACMANQAANALVGERVPGRLGTAH
PNIVPYQAFATQDGHLMLAVGNDGQFARLCAIGQRPDLPLDPRFARNRDRVAHRAALLAE
IIPMMASRSTDAWIAALESAGVPCGPINTLDRVFADPQVIARGLRVDGTHAEAGTVPMVR
NPLLLSATPPTHTAGPPTLGQHTDGVLSDVLGLTAEDITTLRQKAIV