Protein Info for GFF6114 in Variovorax sp. SCN45

Annotation: ABC transporter, permease protein 1 (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 50 100 150 200 250 311 transmembrane" amino acids 9 to 28 (20 residues), see Phobius details amino acids 99 to 121 (23 residues), see Phobius details amino acids 131 to 156 (26 residues), see Phobius details amino acids 176 to 195 (20 residues), see Phobius details amino acids 235 to 261 (27 residues), see Phobius details amino acids 279 to 300 (22 residues), see Phobius details PF19300: BPD_transp_1_N" amino acids 3 to 75 (73 residues), 50 bits, see alignment E=3.2e-17 PF00528: BPD_transp_1" amino acids 113 to 310 (198 residues), 127.4 bits, see alignment E=5.7e-41

Best Hits

Swiss-Prot: 54% identical to Y4TP_SINFN: Probable peptide ABC transporter permease protein y4tP (NGR_a01430) from Sinorhizobium fredii (strain NBRC 101917 / NGR234)

KEGG orthology group: K02033, peptide/nickel transport system permease protein (inferred from 95% identity to vpe:Varpa_1702)

MetaCyc: 34% identical to murein tripeptide ABC transporter / oligopeptide ABC transporter inner membrane subunit OppB (Escherichia coli K-12 substr. MG1655)
3.6.3.23-RXN [EC: 7.4.2.6]; 7.4.2.6 [EC: 7.4.2.6]

Predicted SEED Role

"ABC transporter permease protein"

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.4.2.6

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 (311 amino acids)

>GFF6114 ABC transporter, permease protein 1 (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
MGYIVRRFLSTLPVMAVVAVVVFLLIHLSPGDPAALIAGDLATTEDIEKLRATLGLNLPL
WQQFTLWLGKLFTGDLGTSIFTQVPVAQLLGQRLEPTVSIAALTMLITLVVSVPLGTLAA
YRAGSWIDRLVMLFAVLAFSVPVFLVGYLLVYSFAIQLPWFPVQGYVRLADGAGEWLRSL
VLPCVNLALVYIALVTRMTRATVLEVLHEDYIRTARAKGLGVLPVLGHALRNAAIPIATT
IGAGIALLIGGVVVTETVFAIPGVGRLVIDSVQRHDYPVIQSVLLLSAGVYVLINLLIDL
SYRLFDPRIQY