Protein Info for GFF5717 in Variovorax sp. SCN45

Annotation: Flagellar basal-body rod modification protein FlgD

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 50 100 150 200 226 PF03963: FlgD" amino acids 5 to 74 (70 residues), 84.5 bits, see alignment E=6.8e-28 PF13861: FLgD_tudor" amino acids 83 to 223 (141 residues), 48.3 bits, see alignment E=1.4e-16 PF13860: FlgD_ig" amino acids 116 to 183 (68 residues), 74.9 bits, see alignment E=6e-25

Best Hits

Swiss-Prot: 46% identical to FLGD_SALTY: Basal-body rod modification protein FlgD (flgD) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K02389, flagellar basal-body rod modification protein FlgD (inferred from 68% identity to vap:Vapar_4197)

Predicted SEED Role

"Flagellar basal-body rod modification protein FlgD" in subsystem Flagellar motility or Flagellum

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 (226 amino acids)

>GFF5717 Flagellar basal-body rod modification protein FlgD (Variovorax sp. SCN45)
MAISDTSSISGQNASSATGNTVSSQDNEQRFLKLLVTQLNNQDPLNPMQNAELTSQLAQM
STVTGIEKLNTTLSGLVNQTGANQLLQATSLIGYNVLSPGDILTTKKPDEGKDPATQAFG
VELPGTAADVTIKIVDDKGNVVRTIDAGPMKEGVNAVTWDGKDEAGNAVAAGAYRFTVDA
KNGSAAVTSTALTFSQVAAVKQGAGGVTLELGSGNNISLSDVRLFL