Protein Info for GFF4989 in Variovorax sp. SCN45

Annotation: Transcriptional regulator, LysR family

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 50 100 150 200 250 298 PF00126: HTH_1" amino acids 6 to 65 (60 residues), 67.1 bits, see alignment E=1.1e-22 PF03466: LysR_substrate" amino acids 92 to 294 (203 residues), 85.4 bits, see alignment E=3.7e-28

Best Hits

Swiss-Prot: 42% identical to NAHR_PSEPU: HTH-type transcriptional activator NahR (nahR) from Pseudomonas putida

KEGG orthology group: None (inferred from 96% identity to vpe:Varpa_0367)

Predicted SEED Role

"LysR-family 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)

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 (298 amino acids)

>GFF4989 Transcriptional regulator, LysR family (Variovorax sp. SCN45)
MSKLDLEWLAVFDEVYKTGNVSKAAERLGMAQAAASTALNKLRAHFDDRLFTRTAQGMQP
TPHAERIYPNLREALAQLAQAQGNRSSFDPAQAQRRFRICMTDISEVVLLPGLLDHLRHA
APGVHIETEIISTLSGRRLQDGEVDLAVGFMPQLDAGFYQQTLFMQNFVCLAAQNHPRIG
ARLTRKRFEAEAHAVVSTSGTGHAIVDTTLARLGLKRNVVVRLSSFLSVARIVAHTELLV
VVPRILGRVLATQEPVKLLEPPFALPDYAVKQHWHERFHADPGNAWLRRTLAQLFSGA