Protein Info for GFF5178 in Variovorax sp. SCN45

Annotation: Transcriptional regulator, Xre-family with cupin domain

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 50 100 150 198 PF13560: HTH_31" amino acids 13 to 66 (54 residues), 48.4 bits, see alignment E=2e-16 PF13443: HTH_26" amino acids 17 to 72 (56 residues), 22.2 bits, see alignment E=2.7e-08 PF01381: HTH_3" amino acids 17 to 66 (50 residues), 48.7 bits, see alignment E=1.2e-16 PF07883: Cupin_2" amino acids 138 to 187 (50 residues), 30.1 bits, see alignment E=6.5e-11

Best Hits

KEGG orthology group: None (inferred from 80% identity to vap:Vapar_1033)

Predicted SEED Role

"Transcriptional regulator"

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 (198 amino acids)

>GFF5178 Transcriptional regulator, Xre-family with cupin domain (Variovorax sp. SCN45)
MTEDTPPSLNDRIARRVRELRAARGMSLDALAAHCGVSRSMISLIERGESSPTAVLLEKL
ATGLGVVLASLFDAPEPAPSPVSRLADQVQWRDPHSGYMRRNVSPGGGVSPIQIVEVEFP
PQARVAYESGAREPLVHQQVWVLDGTIEVTVGDKAHRLSTGDCLAHPLDRPVSYHNPSRK
TARYAVVIASQPAAWRPA