Protein Info for GFF6197 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 50 100 150 200 250 316 transmembrane" amino acids 12 to 31 (20 residues), see Phobius details amino acids 97 to 121 (25 residues), see Phobius details amino acids 134 to 161 (28 residues), see Phobius details amino acids 181 to 200 (20 residues), see Phobius details amino acids 225 to 245 (21 residues), see Phobius details amino acids 250 to 271 (22 residues), see Phobius details amino acids 283 to 307 (25 residues), see Phobius details PF19300: BPD_transp_1_N" amino acids 3 to 102 (100 residues), 47 bits, see alignment E=2.7e-16 PF00528: BPD_transp_1" amino acids 114 to 312 (199 residues), 141.1 bits, see alignment E=3.4e-45

Best Hits

Swiss-Prot: 43% identical to Y1050_BRUA2: Putative peptide transport system permease protein BAB2_1050 (BAB2_1050) from Brucella abortus (strain 2308)

KEGG orthology group: K02033, peptide/nickel transport system permease protein (inferred from 94% identity to vpe:Varpa_5003)

MetaCyc: 36% 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

"Dipeptide transport system permease protein DppB (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 7.4.2.6

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 (316 amino acids)

>GFF6197 ABC transporter, permease protein 1 (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
MGLFLLKRTLTLIGTLVGASIIVFLVLEILPGNAAQMLMGPDASPEAVAALATKLGLDLP
AWTRYWHWIGGLLTGNLGDSYAYSSPVLDLILERLALTMPLALLAMFFTTVIALLVGVTA
AARHNKLGDVGLMGMAQVGIAIPNFWFAILLILVFSVKLQWFSAGGFEGWGDGFFSGVKS
LLLPALSLAVVQAAILARITRSAVLEVMREDFVRTARAKGVSQRMVLWTHVLRNAMIPVI
TVMGMQFSELLAGTIVVENVFYLPGLGRLIFQAISNRDLIVVRNCVMLLAAMVVIVNFVV
DVLYAVIDPRIKASDI