Protein Info for GFF4129 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 50 100 150 200 250 300 350 400 450 500 549 signal peptide" amino acids 1 to 39 (39 residues), see Phobius details PF00496: SBP_bac_5" amino acids 95 to 455 (361 residues), 305 bits, see alignment E=3.9e-95

Best Hits

KEGG orthology group: K02035, peptide/nickel transport system substrate-binding protein (inferred from 58% identity to bbt:BBta_2585)

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 (549 amino acids)

>GFF4129 ABC transporter, substrate-binding protein (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
MRPTPPISRRRFHRRLLGGLGLPLAAPSLASAASAAAAAAAPADAPRYTPDSVVTLLTAL
EPPTLVGLVNSAAGTFLVSPKTVEGLLSYDFDLRPRPQLAVAWEVQPDGLQYTFRLRRGV
KWHDGRDFSSADVAFSILALKASHPRGRATFASVSEVRTPDAHTAVLVLSKPAPFLLTAL
AAAESPIVPRHVYEGKDLASHPANQAPIGTGPFVFKEWVRGSHVIYERNPNYWDPGKPYI
DRLVVRFIPDQAAAAAALESGTVDLAGATPVPIPDLDRLKDVPHLSLDTRGNEYFNNSTT
RIEFNLDNRYFRHAKVRQAVAHAIDRDVILKTVWYGYGTAAPGPISPVLKAFHDPKVAVP
RFDRKRAEALLDEAGFPRGADGVRFRVSHDVFDGGGNRVGQYIRQALARVGIDVTVRTQE
FGAYIKRVYTDRDFDFNNQGMSQMFDPTVGIQRFYWSKNFRPGVPFSNGAHYDNPEVDRL
LEAAAVENDAAKRRALFGEFQRVIATDLPTIGLVAVAQVTVANRRIGGHTVGAEGLSGNF
ADIHIKARA