Protein Info for GFF3923 in Sphingobium sp. HT1-2

Annotation: RND efflux system, membrane fusion protein

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 50 100 150 200 250 300 356 transmembrane" amino acids 22 to 45 (24 residues), see Phobius details PF16576: HlyD_D23" amino acids 61 to 255 (195 residues), 33.1 bits, see alignment E=7e-12 PF13533: Biotin_lipoyl_2" amino acids 67 to 117 (51 residues), 27.3 bits, see alignment 4.7e-10 PF13437: HlyD_3" amino acids 184 to 251 (68 residues), 36.8 bits, see alignment E=1.2e-12

Best Hits

KEGG orthology group: None (inferred from 74% identity to npp:PP1Y_Mpl11069)

Predicted SEED Role

"RND efflux membrane fusion protein"

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 (356 amino acids)

>GFF3923 RND efflux system, membrane fusion protein (Sphingobium sp. HT1-2)
MTLDRAQAEHFPSLAQLRPPRLVTTVAWLILLGVLLVLAILFVPWQQTAQGGGQVTTLSA
QDRARDVSSLVSGRVAEFYVRDGDHVRAGDPIVRVVDVDPDFLARLAGEKAQVEAQIAAV
QQARATAMIDVNRTSQLYAEGLAARRDYEQTQIKVADVDAKLAEARAKLKQIEIKLAQSS
AQIVSAPREGRVQDLNAAAGGALISSGTVLATIAPENITRAVELYVDGRDVPLVEPGRSV
RLEFEGFPAFQFSGWPAFAVGIYDGQVRSVDPTPRTDGLFRILVEQAPGKTAWPERRFVR
QGSKVLGWVQGDTVPVWYELWRQLNDFPLNFGQDQVAGKGEAKAPKDDKSSIEKKK