Protein Info for GFF7210 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 50 100 150 200 264 transmembrane" amino acids 13 to 33 (21 residues), see Phobius details amino acids 44 to 62 (19 residues), see Phobius details amino acids 77 to 97 (21 residues), see Phobius details amino acids 108 to 130 (23 residues), see Phobius details amino acids 136 to 155 (20 residues), see Phobius details amino acids 176 to 206 (31 residues), see Phobius details amino acids 233 to 253 (21 residues), see Phobius details PF00528: BPD_transp_1" amino acids 85 to 261 (177 residues), 89.5 bits, see alignment E=1.1e-29

Best Hits

KEGG orthology group: K02050, sulfonate/nitrate/taurine transport system permease protein (inferred from 55% identity to gym:GYMC10_5034)

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 (264 amino acids)

>GFF7210 Hydroxymethylpyrimidine ABC transporter, transmembrane component (Variovorax sp. SCN45)
VSFERGPRPGRVARGWGVVAAQVAAALALLAAWEGAVRAGAVSALYLPAPSAIFESFVPM
LMRGQLLHHTGVTLAEFAVGYAAAVVAGIGFGVLLVLTPAAERFAQPFVAALMSVPKVAI
VPLLALWLGIGFSHKVAIVFLFSVFQILYSTIAGIKQTRREHLKVARAFRASTLQTVWKV
ILPSAVPTIFAALRVSASVGLVGALFAEMLSSKEGLGNLITRSTASLDTAETFALIVLVT
VLAVAMIAALDLLERLLFLRWRPA