Protein Info for GFF6291 in Variovorax sp. SCN45

Annotation: Lipopolysaccharide ABC transporter, 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

1 50 100 150 200 264 TIGR04406: LPS export ABC transporter ATP-binding protein" amino acids 18 to 264 (247 residues), 386.1 bits, see alignment E=2.5e-120 PF00005: ABC_tran" amino acids 33 to 189 (157 residues), 128.9 bits, see alignment E=3.1e-41 PF12399: BCA_ABC_TP_C" amino acids 238 to 262 (25 residues), 35.1 bits, see alignment (E = 1.2e-12)

Best Hits

KEGG orthology group: K06861, lipopolysaccharide export system ATP-binding protein [EC: 3.6.3.-] (inferred from 94% identity to vpe:Varpa_0483)

Predicted SEED Role

"Lipopolysaccharide ABC transporter, ATP-binding protein LptB" in subsystem KDO2-Lipid A biosynthesis

Isozymes

Compare fitness of predicted isozymes for: 3.6.3.-

Use Curated BLAST to search for 3.6.3.-

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 (264 amino acids)

>GFF6291 Lipopolysaccharide ABC transporter, ATP-binding protein LptB (Variovorax sp. SCN45)
VIETAGTQEANGAPGSRLVARGLKKSYGSRTVVKDVSLDVQKGEVVGLLGPNGAGKTTSF
YMIVGLVRADAGDITIDGEPIAHMPIHRRARMGLSYLPQEASIFRKLTVEENVRAVLELQ
QEPDASGKLMPLSKQHMEERLSELLADLRVDHLRDSPALALSGGERRRVEIARALATQPR
FILLDEPFAGIDPIAVIEIQRIISFLKERGIGVLITDHNVRETLGICDHAFIISDGHVLA
QGTPSEIVDNAEVRRVYLGEHFRM