Protein Info for GFF7194 in Variovorax sp. SCN45

Annotation: ABC transporter, permease protein 2 (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 50 100 150 200 250 280 signal peptide" amino acids 1 to 36 (36 residues), see Phobius details transmembrane" amino acids 77 to 99 (23 residues), see Phobius details amino acids 111 to 131 (21 residues), see Phobius details amino acids 137 to 154 (18 residues), see Phobius details amino acids 167 to 190 (24 residues), see Phobius details amino acids 199 to 218 (20 residues), see Phobius details amino acids 240 to 262 (23 residues), see Phobius details PF12911: OppC_N" amino acids 12 to 49 (38 residues), 26.1 bits, see alignment 6.6e-10 PF00528: BPD_transp_1" amino acids 90 to 272 (183 residues), 99.6 bits, see alignment E=1.8e-32

Best Hits

Swiss-Prot: 43% identical to DDPC_ECOLI: Probable D,D-dipeptide transport system permease protein DdpC (ddpC) from Escherichia coli (strain K12)

KEGG orthology group: K02034, peptide/nickel transport system permease protein (inferred from 63% identity to bra:BRADO1799)

MetaCyc: 43% identical to nickel ABC transporter membrane subunit NikC (Escherichia coli K-12 substr. MG1655)
7.2.2.i [EC: 7.2.2.i]; 7.2.2.- [EC: 7.2.2.i]

Predicted SEED Role

"Dipeptide transport system permease protein DppC (TC 3.A.1.5.2)" in subsystem ABC transporter dipeptide (TC 3.A.1.5.2) (TC 3.A.1.5.2)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.2.2.i

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 (280 amino acids)

>GFF7194 ABC transporter, permease protein 2 (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
MTARRPRIGAGAATGLLLLALFLAAALLGPALAPFDPLATDVLNRLQPPGAAHWFGTDAL
GRDLLSRVLVATRLDLGMAAGAVVLSLLLGSALGAWCGFVGGRIDRWIGRLVDVLMAFPL
FVVAMALVAAWGNSVANIVYATALINLPFYIRLARSEVGVRRNAGYVLAARLGGATAPRL
LFGVLLPHVLPMLAVQGSINLGWALLNGAGLSFIGLGVRPPTAEWGVLVSEGAPYIITGQ
WWLAFFPGLALFAAVGCFTLLGDALRDLLDPRGAAEAAQA