Protein Info for GFF2720 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 50 100 150 217 transmembrane" amino acids 20 to 40 (21 residues), see Phobius details amino acids 54 to 78 (25 residues), see Phobius details amino acids 85 to 104 (20 residues), see Phobius details amino acids 139 to 164 (26 residues), see Phobius details amino acids 183 to 205 (23 residues), see Phobius details TIGR01726: amino ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family" amino acids 10 to 106 (97 residues), 100.6 bits, see alignment E=2.9e-33 PF00528: BPD_transp_1" amino acids 30 to 211 (182 residues), 64 bits, see alignment E=7.7e-22

Best Hits

Swiss-Prot: 34% identical to YCKA_BACSU: Probable amino-acid ABC transporter permease protein YckA (yckA) from Bacillus subtilis (strain 168)

KEGG orthology group: K02029, polar amino acid transport system permease protein (inferred from 94% identity to vap:Vapar_3418)

MetaCyc: 36% identical to cystine ABC transporter membrane subunit (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-290 [EC: 7.4.2.12]; 7.4.2.12 [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]

Predicted SEED Role

"polar amino acid ABC transporter, inner membrane subunit"

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.4.2.12

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 (217 amino acids)

>GFF2720 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) (Variovorax sp. SCN45)
MRTFGFPEFLFILEAAKWTLALSAIAFVGGAILGLAIALMRTSESTWARGISTTFIQIFQ
GTPLLLQLFLVFFGAPVLGLDINPWVAAGVALILNSAAFLGEIWRGCIEAIPRGQWEAAE
ALSLKYTSRMRDVVLPQAFKIALAPTVGYVVQIIKGTSLAAIIGFVEVTRAGQIVNNATF
QPLIVFSVVAAIYFVICWPLSLLAARMERKRARALAR