Protein Info for GFF4742 in Variovorax sp. SCN45

Annotation: ABC transporter, substrate-binding protein RSc1750

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 50 100 150 200 250 300 350 400 426 signal peptide" amino acids 1 to 29 (29 residues), see Phobius details PF13458: Peripla_BP_6" amino acids 34 to 389 (356 residues), 238.6 bits, see alignment E=1.6e-74 PF13433: Peripla_BP_5" amino acids 177 to 390 (214 residues), 41.1 bits, see alignment E=1.3e-14

Best Hits

KEGG orthology group: K01999, branched-chain amino acid transport system substrate-binding protein (inferred from 92% identity to vpe:Varpa_4033)

Predicted SEED Role

"Leucine-, isoleucine-, valine-, threonine-, and alanine-binding 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 (426 amino acids)

>GFF4742 ABC transporter, substrate-binding protein RSc1750 (Variovorax sp. SCN45)
MNPPFNLRRETLKFAALALCARPFAALAQTSSAPIRLALIESMSGPFANTGEAVFRNLLW
AVERVNARGGVKLPGGARMLQLDRYDSKGQNEEALSALRAAMDDGARIVLQGNSSATAAA
LVDAIEKNNERDVSRRVVFLNYAAVDPVLTNERCSFWHFRFDAHADMRMAALMDVVKDDA
ALKRVYLIGQDYSFGQSVLREARRQLGAQRPDVEIVGDELHPMGKVKDFAPYATKIIASG
AQAVVTGNWGNDLTLLVKAAREAGFNGTFYTFYGNALGAPAAIGDAGIGRVVAVADWLPN
VQTAQSEAFYRAFRTRFPKPAEDYVHMRLALMIEALVQAVERAGNLDTVQVARALEQADV
SLYGQRGRMRAADHQFQQQLVVGVMDRKGKPGVQFDVEGSGYGFRVVKTIAPERAELPTS
CKMKRP