Protein Info for GFF3304 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: Hydroxymethylpyrimidine ABC transporter, substrate-binding 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 50 100 150 200 250 300 344 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF10518: TAT_signal" amino acids 1 to 20 (20 residues), 23.1 bits, see alignment (E = 5.1e-09) PF09084: NMT1" amino acids 48 to 255 (208 residues), 131.2 bits, see alignment E=5.5e-42

Best Hits

KEGG orthology group: K02051, sulfonate/nitrate/taurine transport system substrate-binding protein (inferred from 77% identity to vpe:Varpa_4583)

Predicted SEED Role

"Hydroxymethylpyrimidine ABC transporter, substrate-binding 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 (344 amino acids)

>GFF3304 Hydroxymethylpyrimidine ABC transporter, substrate-binding component (Hydrogenophaga sp. GW460-11-11-14-LB1)
MNKRHFIKTTAALAAAAAFGSSAHAQTPVKFQLDWRFEGPAALFLQPAAKGYFKAAGLDV
TIDAGNGSGGTVTRVASGTYDMGFADMAALMEFHANNPDAPNKPVAVMMVYNNTPAAVLA
LKKANITKPADLNGKKLGAPVFDAGRKAFPIFQKANNVSNVAWTSMDPPLRETMLVRGDI
DAITGFSFTSLLNLEARGVKTEDVVIMPYADYGVKLYGNVIIATPKMIKENPAAVKAFLT
AFAKGAKEVMANPAASIETVKARDGIINVPLETRRLVLAIDSVVASPDARKEGFGQINPG
RMSLMASQVSDAYGTKTRIDPSTVWNGSMLPTAAELNVLPPAKK