Protein Info for GFF175 in Variovorax sp. SCN45

Annotation: ABC transporter, permease protein (cluster 3, basic aa/glutamine/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 50 100 150 221 transmembrane" amino acids 14 to 43 (30 residues), see Phobius details amino acids 64 to 83 (20 residues), see Phobius details amino acids 89 to 110 (22 residues), see Phobius details amino acids 145 to 169 (25 residues), see Phobius details amino acids 189 to 209 (21 residues), see Phobius details TIGR01726: amino ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family" amino acids 12 to 110 (99 residues), 82.7 bits, see alignment E=1.1e-27 PF00528: BPD_transp_1" amino acids 34 to 215 (182 residues), 78.5 bits, see alignment E=2.9e-26

Best Hits

Swiss-Prot: 35% identical to GLNP_SHIFL: Glutamine transport system permease protein GlnP (glnP) from Shigella flexneri

KEGG orthology group: None (inferred from 71% identity to vap:Vapar_2880)

MetaCyc: 35% identical to L-glutamine ABC transporter membrane subunit (Escherichia coli K-12 substr. MG1655)
ABC-12-RXN [EC: 7.4.2.1]

Predicted SEED Role

"ABC transporter permease protein"

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.4.2.1

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 (221 amino acids)

>GFF175 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) (Variovorax sp. SCN45)
MDLDFSPLLDSWQYLLGGLGVTLLLSVLTAIGALVLGTALGLGRVYGAAWLRIPIVFYID
TQRAIPVLVILVWFYFAVPILTGISFHPFWAALMALTLHIAAYVAEIVRAGIESIRPGQI
RAALALGMSRAQIVRKVVLPQALVRMLPAFGSVLSITIKDTAIATVIAVPELMKRAETIA
GQSYRPIEVFTVVMVIYFIILFPGTRLIDALYKRVAHLGRS