Protein Info for GFF6165 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 50 100 150 200 250 288 transmembrane" amino acids 44 to 67 (24 residues), see Phobius details amino acids 98 to 119 (22 residues), see Phobius details amino acids 126 to 153 (28 residues), see Phobius details amino acids 158 to 176 (19 residues), see Phobius details amino acids 210 to 234 (25 residues), see Phobius details amino acids 254 to 276 (23 residues), see Phobius details PF00528: BPD_transp_1" amino acids 107 to 278 (172 residues), 94.1 bits, see alignment E=4.4e-31

Best Hits

KEGG orthology group: K02050, sulfonate/nitrate/taurine transport system permease protein (inferred from 65% identity to bja:bll4208)

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)

Search 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 (288 amino acids)

>GFF6165 Hydroxymethylpyrimidine ABC transporter, transmembrane component (Variovorax sp. SCN45)
MIRRIASYDPGIEMTAPEGALAPPAIATPGKTTASGERPEWHRWAIVVAVHIAGIALWEL
VVRVFAIQPFILPAPSKVLATLFNPNYSWLKNTGVTAVEVFGGYALGLVLGILCALLFIT
SRRLMLLAFPLLVTLNMIPKVAMGPLVIVWFSYGIGPNILITFSLCFFPILLTTIRGLNE
TEPELLDLVRALKGSRWQLFRYIQLPGSLPYVFSGMKVATILAVAGAVVGEFIASERGLG
YLMIQVQASLDTPAVFMAVLLITGLGVLLYLLVLLLERLFITQDARIQ