Protein Info for LRK54_RS12880 in Rhodanobacter denitrificans FW104-10B01

Annotation: LPS export ABC transporter ATP-binding 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 50 100 150 200 239 TIGR04406: LPS export ABC transporter ATP-binding protein" amino acids 2 to 239 (238 residues), 386.6 bits, see alignment E=1.9e-120 PF00005: ABC_tran" amino acids 17 to 164 (148 residues), 115.6 bits, see alignment E=2.7e-37 PF12399: BCA_ABC_TP_C" amino acids 212 to 237 (26 residues), 33 bits, see alignment (E = 3.7e-12)

Best Hits

Swiss-Prot: 62% identical to LPTB_SHIFL: Lipopolysaccharide export system ATP-binding protein LptB (lptB) from Shigella flexneri

KEGG orthology group: K06861, lipopolysaccharide export system ATP-binding protein [EC: 3.6.3.-] (inferred from 74% identity to xal:XALc_2139)

MetaCyc: 62% identical to LPS export ABC transporter ATP-binding protein (Salmonella enterica enterica serovar Typhimurium str. LT2)
RXN1R65-51 [EC: 7.5.2.5]

Predicted SEED Role

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

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 3.6.3.-

Use Curated BLAST to search for 3.6.3.- or 7.5.2.5

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 (239 amino acids)

>LRK54_RS12880 LPS export ABC transporter ATP-binding protein (Rhodanobacter denitrificans FW104-10B01)
MLSAEGLQKSFKSRQVVKDFGFSIREGEVVGLLGPNGAGKTTCFYMVVGLIEADGGTIKL
DKLDITGAPMHARAKLGIGYLPQEASVFRRLSVADNIMAVLELRDGLTASQRDAELENLL
DELKIAHIAGQKGISLSGGERRRVEIARALAANPRYMLLDEPFAGVDPISVGEIQRIVRH
LKERGIGVLITDHNVRETLGICDRAYILNEGEVLSRGTPAHILADEKVREVYLGREFRL