Protein Info for GFF3799 in Variovorax sp. SCN45

Annotation: Putative PROLIN-rich signal peptide protein

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 50 100 150 200 250 300 350 410 transmembrane" amino acids 34 to 56 (23 residues), see Phobius details PF11306: DUF3108" amino acids 240 to 396 (157 residues), 49.4 bits, see alignment E=2.7e-17

Best Hits

KEGG orthology group: None (inferred from 71% identity to vpe:Varpa_5443)

Predicted SEED Role

"Putative PROLIN-rich signal peptide protein"

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 (410 amino acids)

>GFF3799 Putative PROLIN-rich signal peptide protein (Variovorax sp. SCN45)
VNLRAGAPLHTLMPTLVAPPPLSAGMPGRPSWRVLAALTLLVAVIHLLVLGLAPTAIGPE
PSPLANKFITRTIVIAPPASEKPAAPAAAAPPEARPPAPVKPRRPRAPSVPKPRPAPAPE
PQIDNATPKEPEAPDLTVQPATDSGAMPADTPANAAGSDAGSGTAVAGTGDGTAGASAGA
SNPTSGNIVGTQSLRIPGSVTLDFAATGQDGSSPMQGVFGELTWLQDGSRYDARLTLKVL
FSTIRSQHSTGRIGPSGIEPDRYSESRKSEVASHFVRDQGQVVFSNNAPPVPLLAGAQDR
LSIMMQLGGLLAGDPGRYPAGSQISVQTVGPRDAGVWVFVVGDEEQLSLPAGEYRARKLT
RSPRQQFDSKLELWLAPDYGYLPVRIKQTEPNGNFADAQLRKSLPTTPSN