Protein Info for Atu3456 in Agrobacterium fabrum C58

Annotation: ABC transporter permease

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 50 100 150 200 252 PF00005: ABC_tran" amino acids 26 to 170 (145 residues), 109.4 bits, see alignment E=2.3e-35 PF13304: AAA_21" amino acids 98 to 206 (109 residues), 33.2 bits, see alignment E=6e-12

Best Hits

Swiss-Prot: 44% identical to AMIF_STRPN: Oligopeptide transport ATP-binding protein AmiF (amiF) from Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

KEGG orthology group: K02032, peptide/nickel transport system ATP-binding protein (inferred from 100% identity to atu:Atu3456)

Predicted SEED Role

"Dipeptide transport ATP-binding protein DppF (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

See A9CF89 at UniProt or InterPro

Protein Sequence (252 amino acids)

>Atu3456 ABC transporter permease (Agrobacterium fabrum C58)
MAVSVETRDLSITFGSGHTALKVLPSVSFRVEPGECFGLVGESGSGKSTVLRCVSMLNDF
WTGDILIDGRSVRDIPLIERCRMLQMVFQDPYGSLHPRQSVRTVLSESLAIHKLGDREER
MRKVITDVGLPVSFLDRFPHQLSGGQRQRVAIARALILEPSLLLLDEPTSALDVSVQAEI
LNLLQRLREERGFTYIMVTHDLAVVDHMCDRFAVMLRGEITEILPREAIAGNGATHPYAR
ELIGASLEYEGA