Protein Info for CSW01_12510 in Vibrio cholerae E7946 ATCC 55056

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 50 100 150 200 250 323 TIGR03317: folate-binding protein YgfZ" amino acids 181 to 245 (65 residues), 83.6 bits, see alignment E=3.5e-28 PF21130: YgfZ_barrel" amino acids 237 to 304 (68 residues), 52.3 bits, see alignment E=2.4e-18

Best Hits

Swiss-Prot: 100% identical to YGFZ_VIBCM: tRNA-modifying protein YgfZ (VCM66_2395) from Vibrio cholerae serotype O1 (strain M66-2)

KEGG orthology group: K06980, (no description) (inferred from 100% identity to vcj:VCD_001883)

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)

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 (323 amino acids)

>CSW01_12510 tRNA-modifying protein YgfZ (Vibrio cholerae E7946 ATCC 55056)
MDWQNRFSVLNLSSHDPLPELMLTHLTGWGAITLVGADKKAYLQGQVTCNVVSLQEQQVT
FGAHCDAKGKVWSVFRLFHHHDGYAMFQPQSAMEVELRELKKYAIFSKVTIAESSDIALG
VMGSQADAWIDTVSETTGDVRRIAGGTAVRMSPQRWLLLVNAEQAEQYVNAWQGLHVEQS
LWTRMDIEEAVPVVTQTAQNEHIPQALNVQAVDGISFTKGCYTGQETVARAKYRGINKRA
MYIVKGNLSAPLSQDEPVVLERAVGENWRSAGALLTHYRFTDSIAIGLIVLPNDLEHDVK
LRLAAQPDTRWHIQPLPYSLSDE