Protein Info for GFF1060 in Variovorax sp. SCN45

Annotation: Hydroxymethylpyrimidine ABC transporter, transmembrane component

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 50 100 150 200 252 transmembrane" amino acids 12 to 31 (20 residues), see Phobius details amino acids 65 to 85 (21 residues), see Phobius details amino acids 93 to 116 (24 residues), see Phobius details amino acids 122 to 141 (20 residues), see Phobius details amino acids 163 to 195 (33 residues), see Phobius details amino acids 218 to 241 (24 residues), see Phobius details PF00528: BPD_transp_1" amino acids 72 to 244 (173 residues), 90 bits, see alignment E=8e-30

Best Hits

KEGG orthology group: K02050, sulfonate/nitrate/taurine transport system permease protein (inferred from 55% identity to pao:Pat9b_1817)

Predicted SEED Role

"Hydroxymethylpyrimidine ABC transporter, transmembrane component" in subsystem Thiamin biosynthesis

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 (252 amino acids)

>GFF1060 Hydroxymethylpyrimidine ABC transporter, transmembrane component (Variovorax sp. SCN45)
VNTFLQRAVRSPALAFIGLALVWELYVHAFAPSPRYLPALSAIAQDAWSVWPQLVRGFGR
TLLETVLGFALGAVFGCFCGTVFTYSRWMERSVFPLFVVSQTVPVVAFGALIVIWFGNSL
LAKVMTAFFLTFFPVTVNTLRGLKSCDPQRIALMKSFGANRLVMFFKLAVPSALPQIMVG
LRVAIGLSLIGSVVGEWFGETVGLGVMLMEAMNADLVVRLWVVMFACGLMGALLYGLLTF
VERRLVWWRSES