Protein Info for LRK53_RS16420 in Rhodanobacter sp000427505 FW510-R12
Annotation: hydroxymethylglutaryl-CoA lyase
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: 44% identical to HMGCL_BACSU: Hydroxymethylglutaryl-CoA lyase YngG (yngG) from Bacillus subtilis (strain 168)
KEGG orthology group: K01640, hydroxymethylglutaryl-CoA lyase [EC: 4.1.3.4] (inferred from 48% identity to abo:ABO_2665)MetaCyc: 45% identical to hydroxymethylglutaryl-CoA lyase monomer (Pseudomonas sp. mevalonii)
Hydroxymethylglutaryl-CoA lyase. [EC: 4.1.3.4]
Predicted SEED Role
"Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4)" in subsystem HMG CoA Synthesis or Leucine Degradation and HMG-CoA Metabolism (EC 4.1.3.4)
MetaCyc Pathways
- L-leucine degradation I (5/6 steps found)
- mevalonate degradation (2/2 steps found)
- ketogenesis (3/5 steps found)
KEGG Metabolic Maps
- Butanoate metabolism
- Synthesis and degradation of ketone bodies
- Valine, leucine and isoleucine degradation
Isozymes
Compare fitness of predicted isozymes for: 4.1.3.4
Use Curated BLAST to search for 4.1.3.4
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 (307 amino acids)
>LRK53_RS16420 hydroxymethylglutaryl-CoA lyase (Rhodanobacter sp000427505 FW510-R12) MSTVDVVINEVGPRDGLQNQARVLDVAERITMIQALVDAGLRSVEAGSFVSPKAVPQMAN TVAVFAQLPRPDLVRYSALIPNARGYELASVAGARTLSVVLSATETMNRRNINLSLEQTT VICAELMRRAREDDIQGWAYLAVAYECPFEGETPVARVERLAAKMIEAGADKLIVADTIG AANPAQVHLLISRLVASYGAERIACHFHDTRGMALANVLAALDEGIRAFDSSIGGLGGCP FSPGASGNVATEDVVLMIESMGLRTGIDPLALVAVVDHCSELLGSPLGGHAYNWLKRQAT QKAGRLA