Protein Info for GFF1280 in Xanthobacter sp. DMC5

Annotation: putative D,D-dipeptide-binding periplasmic protein DdpA

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 50 100 150 200 250 300 350 400 450 500 540 signal peptide" amino acids 1 to 35 (35 residues), see Phobius details PF00496: SBP_bac_5" amino acids 91 to 457 (367 residues), 270.3 bits, see alignment E=1.4e-84

Best Hits

KEGG orthology group: K02035, peptide/nickel transport system substrate-binding protein (inferred from 93% identity to xau:Xaut_4660)

Predicted SEED Role

"Dipeptide-binding ABC transporter, periplasmic substrate-binding component (TC 3.A.1.5.2)" in subsystem ABC transporter dipeptide (TC 3.A.1.5.2) or Bacterial Chemotaxis (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

Find the best match in UniProt

Protein Sequence (540 amino acids)

>GFF1280 putative D,D-dipeptide-binding periplasmic protein DdpA (Xanthobacter sp. DMC5)
MNRREFMKSASATAVASGAGVAAPAVFSPAKAQARNETLLIVSESGPNNLDIHGVGTNVP
GYEASWNTYDRLITHEMTEKEGVRYYDRDKLKGELAEDMNIGDMSVTFKLKKNATFQDGT
PVTAKDVKWSLDRAVSVGGFPTFQMKAGSLEKPEQFVVVDDHTVRVDFLRKDRLTIPDLA
VIVPCVINSELVKKNATEKDPWGLEYTKQNTAGSGAYRVTKWTPGTEVIFERFDDWKGGP
LPKIKRVIWRMVPSAGNRRALLERGDADISYDLPNKDFVELKQAGKLNITSVPYSNGVQY
IGMNVKNPPFDNPKVREAVAYAIPYEKIMEAVLYGLGRPMFGAPADAATKVAWPQPTKFK
TDLAKAKQLMAEAGYAGGIDTTLSFDLGFAGVNEPICVLLQENLAQIGIKTTINKIPGAN
WRTELNKKVLPLYTNVFSGWLDYPEYFFFWCYHGSNSVFNTMSYQSAAMDTFIDGARAAA
ASGDKAAYDTDVKGMVDLAFADVPRIPLYQPFVNVAMQKNITGYEYWFHRRLDYRAFQKG