Protein Info for GFF4178 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: Conjugative transfer protein TrbD

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 25 50 75 90 transmembrane" amino acids 40 to 66 (27 residues), see Phobius details PF05101: VirB3" amino acids 12 to 83 (72 residues), 40.8 bits, see alignment E=1.1e-14

Best Hits

KEGG orthology group: K03198, type IV secretion system protein VirB3 (inferred from 90% identity to bgd:bgla_1g24970)

Predicted SEED Role

"Conjugative transfer protein TrbD" in subsystem Type 4 secretion and conjugative transfer

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 (90 amino acids)

>GFF4178 Conjugative transfer protein TrbD (Hydrogenophaga sp. GW460-11-11-14-LB1)
MSAPDTFADGFEVPLHRSLTEPILLGGAPRTVAIANGTLAAAVGLGLQLWIPGVVLWIVG
HSLAVWGARVDPQFMQVFARHIKHRSLLDV