Protein Info for GFF7017 in Variovorax sp. SCN45

Annotation: ABC transporter, substrate-binding protein (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 50 100 150 200 250 300 350 400 450 500 537 signal peptide" amino acids 1 to 36 (36 residues), see Phobius details PF00496: SBP_bac_5" amino acids 86 to 449 (364 residues), 271.7 bits, see alignment E=5.4e-85

Best Hits

KEGG orthology group: K02035, peptide/nickel transport system substrate-binding protein (inferred from 91% identity to vpe:Varpa_4437)

Predicted SEED Role

"Oligopeptide ABC transporter, periplasmic oligopeptide-binding protein OppA (TC 3.A.1.5.1)" in subsystem ABC transporter oligopeptide (TC 3.A.1.5.1) or Sex pheromones in Enterococcus faecalis and other Firmicutes (TC 3.A.1.5.1)

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 (537 amino acids)

>GFF7017 ABC transporter, substrate-binding protein (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
MPIRVPELPVFSRRATLLSASFAAAGTLLPLSVFAAAEPKRGGTLVIGSTQTPRHLNGAV
QSGIATAMPSTQIFASPLRFDDKWNPQPYLAESWKLADDGKSLTLKLRKDALFHDGKPVT
SADVAFSILAIKANHPFTTMMGPVEKVDTPDAYTAVVRMSVPHPAIVLAMSPALCPILPK
HIYGDGQDLKNHPRNTTDVIGSGPYRVTDFKPAQRVVLERFDKFFIPGRPYLDKIIINIT
PDSASLMLGLERGDIQMVPFATLPTDLKRLANDPKMSLTPKGYDGIGALNWLAFNTAKKP
LSDVQVRKAIATAIDKNFITKALMGGFATVSDGPLVASSPFAVPDLVRYPLDLKKAGEML
DAAGYKAGAGGERFKLTIDYLPGVDDQQKNVAEYIRGQLKKVGITVEVRASADFPAWAKR
LASHDFDMSMDTVFNWGDPIIGVHRTYLSTNIKPIVWTNTQSYANPKVDELLNTAGGLID
ATQRKAYYATFQKIVTDELPIEFINQVPYHTVSSKKVANVPTTIWGPLSPLDEVYFK