Protein Info for GFF3024 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 50 100 150 200 250 300 350 401 transmembrane" amino acids 23 to 41 (19 residues), see Phobius details TIGR01730: efflux transporter, RND family, MFP subunit" amino acids 72 to 387 (316 residues), 214.9 bits, see alignment E=7.2e-68 PF16576: HlyD_D23" amino acids 78 to 304 (227 residues), 98.7 bits, see alignment E=4.7e-32 PF13533: Biotin_lipoyl_2" amino acids 87 to 131 (45 residues), 27.7 bits, see alignment 2.8e-10 PF13437: HlyD_3" amino acids 197 to 301 (105 residues), 55.9 bits, see alignment E=9.9e-19

Best Hits

KEGG orthology group: None (inferred from 80% identity to swi:Swit_4651)

Predicted SEED Role

"Probable Co/Zn/Cd efflux system membrane fusion protein" in subsystem Cobalt-zinc-cadmium resistance

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 (401 amino acids)

>GFF3024 RND efflux system, membrane fusion protein (Sphingobium sp. HT1-2)
MSDHNSIENPEQAGPDSGTLKKIGIGAAVVALAVVGVGVASRISATNELRETAADASVPT
VAVVKPTMNGEGNDLVLPGNVQAYNSAAIYARTNGYVRRWLADIGDRVRAGQPLAVLDAP
DLDQQVAAAQADYQTALANQRLAETTSKRWSAMLAQDAVSRQEADEKAGDLAARTAVSNA
ALANVKRLKAQQGFTRLAAPFDGVVTSRSAQIGALVVSGNAAAQPLFTVSDIHRMRIYVR
VPQGYSASVRPGMGATLTLPEYPGRSFNATLTSSSGAVDAQSGAVLVQLQAENPDGALKP
GAFAQVSFKVGAGQGNGMTLPGSAILYSNNGPSVAVVGADNRITMKPVAIARDEGATVQI
ASGLSPNDRIVDTPPDAIRTGDTVKVQASAPAGGKGATHAR