Protein Info for GFF194 in Sphingobium sp. HT1-2

Annotation: Conjugative transfer protein TrbF

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 50 100 150 200 269 transmembrane" amino acids 43 to 61 (19 residues), see Phobius details PF04335: VirB8" amino acids 22 to 225 (204 residues), 205.9 bits, see alignment E=3.5e-65

Best Hits

KEGG orthology group: K03200, type IV secretion system protein VirB5 (inferred from 69% identity to sjp:SJA_C1-29640)

Predicted SEED Role

"Conjugative transfer protein TrbF" 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)

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 (269 amino acids)

>GFF194 Conjugative transfer protein TrbF (Sphingobium sp. HT1-2)
MFFKRSVQRYGRTPQPETPFQRAGQLWDERIGSARVQARNWRLMAFGSLALTAGTSAALA
WQSVQSRVIPYVVEVDRLGEARNVQPAEIAYRPTDPQVAWHLARFVRSVRSVSLDPVLMR
RDWLEAYDFTTKRGAQFLGEYARGAAPFANAGERTVSVQVTSVVRASDTSFQVKWTETAY
ERGSQAGITRWTAILTVATRHPASADILRRNPLGIYVDAIDWSRELDAPTSQSPAAAPQP
PPTKASLPIGSPLEPTRGGQTSNTQEIEE