Protein Info for GFF6059 in Variovorax sp. SCN45

Annotation: ABC transporter, permease protein 2 (cluster 1, maltose/g3p/polyamine/iron)

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 50 100 150 200 267 transmembrane" amino acids 12 to 36 (25 residues), see Phobius details amino acids 65 to 90 (26 residues), see Phobius details amino acids 102 to 123 (22 residues), see Phobius details amino acids 130 to 149 (20 residues), see Phobius details amino acids 179 to 203 (25 residues), see Phobius details amino acids 237 to 258 (22 residues), see Phobius details PF00528: BPD_transp_1" amino acids 82 to 260 (179 residues), 46.4 bits, see alignment E=2e-16

Best Hits

KEGG orthology group: K02053, putative spermidine/putrescine transport system permease protein (inferred from 94% identity to vap:Vapar_1263)

Predicted SEED Role

"ABC transporter permease 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 (267 amino acids)

>GFF6059 ABC transporter, permease protein 2 (cluster 1, maltose/g3p/polyamine/iron) (Variovorax sp. SCN45)
MQRKNTQAKAPFLLAVTLIVSLFMIAPMLLSVMAGLVNNYSVGLKSGFTLRWLGEVWENY
GGTVGWSLALAVACVIGTVLIGVPCAYALARSRSRAARIFEELLTLPVAVPGLATALALI
LAYGQLTAFRQSFAFILVGHIVFTLPFMVRTVSSAFERDDLLALEEAARSLGANFRQRFM
GILVPAVFPAIVAGSLMVFTLSVGEFNLTWMLHTPLTRTLPVGLADSYASMRIEIGSAYT
LVFFAVILPVLWALQYLANLMQKRHGT