Protein Info for GFF5194 in Variovorax sp. SCN45

Annotation: L-arabinose ABC transporter, substrate-binding protein AraF

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 50 100 150 200 250 300 356 signal peptide" amino acids 1 to 27 (27 residues), see Phobius details PF13407: Peripla_BP_4" amino acids 32 to 309 (278 residues), 198 bits, see alignment E=2.1e-62

Best Hits

Swiss-Prot: 76% identical to CHVE_AGRFC: Multiple sugar-binding periplasmic receptor ChvE (chvE) from Agrobacterium fabrum (strain C58 / ATCC 33970)

KEGG orthology group: K10546, putative multiple sugar transport system substrate-binding protein (inferred from 95% identity to vpe:Varpa_1114)

Predicted SEED Role

"L-arabinose-binding periplasmic protein precursor AraF (TC 3.A.1.2.2)" in subsystem L-Arabinose utilization (TC 3.A.1.2.2)

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 (356 amino acids)

>GFF5194 L-arabinose ABC transporter, substrate-binding protein AraF (Variovorax sp. SCN45)
MKRNFLKATLAGVALAVVGFTPLVHAQDKGLIAISMPTKSSARWIADGANMQKYFKDKGY
KTDLQYADDDIPNQLAQIENMVTKGSKVLVIAAIDGTTLSDVLQKAADKGVKVIAYDRLI
KGSKNVDYYATFDNFQVGVLQAQSIEAALGLKSGKGPFNIELFGGSPDDNNAFFFYNGAM
SVLDPYIKSGKLVVRSKQMGMDKVGTLRWDGAVAQARMDNLLSAYYTKDRVDAVLSPYDG
LSIGILSSLKGVGYGSGSQPMPVVSGQDAEVPSIKSILRKEQTSTVFKDTRELAKVTVSM
VDAMLSGKQPEVNDTKTYNNGIKVVPSYLLKPVSVDASNWKVVLIDSGYYKESQIK