Protein Info for GFF29 in Variovorax sp. SCN45

Annotation: tRNA-modifying protein YgfZ

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 50 100 150 200 250 311 PF01571: GCV_T" amino acids 16 to 116 (101 residues), 33.6 bits, see alignment E=1.3e-12 TIGR03317: folate-binding protein YgfZ" amino acids 173 to 237 (65 residues), 77.8 bits, see alignment E=2.3e-26

Best Hits

KEGG orthology group: K06980, (no description) (inferred from 85% identity to vap:Vapar_2860)

Predicted SEED Role

"Folate-dependent protein for Fe/S cluster synthesis/repair in oxidative stress"

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 (311 amino acids)

>GFF29 tRNA-modifying protein YgfZ (Variovorax sp. SCN45)
MTTVVLNGVTALSPAGHLGVIRAEGPDAASFLHGQLTQDFSLLGAADARLAALCTAKGRV
IASFIGIKPQAELILLVCSRDILAATLKRLSMFVLRAKVKLTDATDRFALYGLAGTALTG
NGLDASLPPGKRISVGDDVSVVSLYPADGVPRALWIAPAGQPAPVGPALDDSLWQWSEVR
SGIVTLTTPVIDAFVPQMINYESVGGVNFKKGCYPGQEVVARSQFRGTLKRRAYLVQADA
PVSAGQEVFAANDAEQPVGTVAQAAPAPGGGWAALVSMQIAALEAGDLRAGTADGPALAV
EPLPYPLLEDI