Protein Info for GFF4025 in Xanthobacter sp. DMC5
Annotation: Lipopolysaccharide export system ATP-binding protein LptB
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
Best Hits
Swiss-Prot: 36% identical to PHNC_NOCFA: Phosphonates import ATP-binding protein PhnC (phnC) from Nocardia farcinica (strain IFM 10152)
KEGG orthology group: K01995, branched-chain amino acid transport system ATP-binding protein (inferred from 59% identity to reu:Reut_C6214)Predicted SEED Role
"Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1)" in subsystem ABC transporter branched-chain amino acid (TC 3.A.1.4.1) (TC 3.A.1.4.1)
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 (249 amino acids)
>GFF4025 Lipopolysaccharide export system ATP-binding protein LptB (Xanthobacter sp. DMC5) MTSPNAALQIDDLHKSFGGLHVIQGVNFTVAPGERRLLLGPNGAGKTTLFNLIAGDLKPT AGQIRLADEDVSDLPTFRRAARGIGRTFQILTLFSRESVIGNVIMALLGGRPQRWKPYGA VAKDPALRREALDVLARVRLDTLADRPVAETSYGEKRRLEIAMALAQAPRILLLDEPLAG LSKEERGTVSALLAELPRDLTILMIEHDMDVALAFAEKIALLHYGRLIVDGTREEVIADP RTREAYLAQ