Protein Info for GFF1508 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 50 100 150 200 250 299 transmembrane" amino acids 21 to 46 (26 residues), see Phobius details amino acids 98 to 124 (27 residues), see Phobius details amino acids 135 to 155 (21 residues), see Phobius details amino acids 161 to 175 (15 residues), see Phobius details amino acids 213 to 230 (18 residues), see Phobius details amino acids 233 to 253 (21 residues), see Phobius details amino acids 265 to 286 (22 residues), see Phobius details PF12911: OppC_N" amino acids 11 to 66 (56 residues), 39.7 bits, see alignment E=3.6e-14 PF00528: BPD_transp_1" amino acids 114 to 298 (185 residues), 117.1 bits, see alignment E=7.9e-38

Best Hits

Swiss-Prot: 39% identical to DPPC_ECOLI: Dipeptide transport system permease protein DppC (dppC) from Escherichia coli (strain K12)

KEGG orthology group: K02034, peptide/nickel transport system permease protein (inferred from 79% identity to pst:PSPTO_2811)

MetaCyc: 39% identical to dipeptide ABC transporter membrane subunit DppC (Escherichia coli K-12 substr. MG1655)
ABC-8-RXN [EC: 7.4.2.9]

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 7.4.2.9

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 (299 amino acids)

>GFF1508 ABC transporter, permease protein 2 (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
MSAAKSYDERSIWWRVAADFLHSRIAIGGLVVLGIVVLAALLAPWITPQNPYDLLQLDVL
DARLPPGSHSSEGGYTYWLGTDGQGRDLYSAIVYGLRISLTVGVGSALIAAVVGTLVGLI
AAYAGGKVDALLMRLVDLLLSFPTILMALMILAYVGKGVGNVMLTLVLLEWAYYARTARG
QALVEARREYVDAAQGQGIPRWRIVTGHILPNCLPPLLVIGALQIARAITLEATLSFLGL
GVPITEPSLGLLISNGYQYLLSNEYWISFFPGVALLAAIVAINLVGDQLRDVLNPRLQK