Protein Info for GFF1509 in Variovorax sp. SCN45

Annotation: ABC transporter, permease protein 1 (cluster 5, nickel/peptides/opines)

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 50 100 150 200 250 324 transmembrane" amino acids 12 to 31 (20 residues), see Phobius details amino acids 100 to 119 (20 residues), see Phobius details amino acids 131 to 156 (26 residues), see Phobius details amino acids 185 to 205 (21 residues), see Phobius details amino acids 244 to 269 (26 residues), see Phobius details amino acids 289 to 311 (23 residues), see Phobius details PF19300: BPD_transp_1_N" amino acids 4 to 101 (98 residues), 33.7 bits, see alignment E=3.6e-12 PF00528: BPD_transp_1" amino acids 112 to 319 (208 residues), 137.9 bits, see alignment E=3.4e-44

Best Hits

KEGG orthology group: K02033, peptide/nickel transport system permease protein (inferred from 80% identity to psp:PSPPH_2695)

Predicted SEED Role

"Dipeptide transport system permease protein DppB (TC 3.A.1.5.2)" in subsystem ABC transporter dipeptide (TC 3.A.1.5.2) (TC 3.A.1.5.2)

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 (324 amino acids)

>GFF1509 ABC transporter, permease protein 1 (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
VTGWLLRRVLQALGVVVVMTVIVFIGLHAIGNPIDILIGEDMNQQERLAAIARLGLDQPL
WRQYLAFVDGALHGSLGRSFVYQEDAVRLILQRLPATMELAFAALLMAIVVGVPLGLFAG
MKPEHPVSRTLMATSIVGFSLPAFWVALMLIMVFSVQLGWLPASGRGATRELFGVQWSWL
TLDGWQHLLLPAFNLALFKISLVLRLTRAGVREVLPQDYVKFARAKGLTPTRVVLMHVMR
NTMIPLVTVLGLELGATIAYAVVTESIFAWPGAGKLILDSINSLDRPVVVAYLMVVVVIF
VTLNLIVDLLYKLLDPRVRLEGAK