6EF6

Structure of the microcompartment-associated aminopropanol kinase

Summary for 6EF6

• Entry DOI: 10.2210/pdb6ef6/pdb
• Descriptor: Aminoglycoside phosphotransferase, BENZOIC ACID, (2R)-1-methoxypropan-2-amine, ... (6 entities in total)
• Functional Keywords: aminopropanol kinase, transferase
• Biological source: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
• Total number of polymer chains: 1
• Total formula weight: 40167.31

Authors

Mallette, E.,Kimber, M.S. (deposition date: 2018-08-16, release date: 2018-10-17, Last modification date: 2024-03-13)

Primary citation

Mallette, E.,Kimber, M.S.
Structural and kinetic characterization of (S)-1-amino-2-propanol kinase from the aminoacetone utilization microcompartment ofMycobacterium smegmatis.
J.Biol.Chem., 293:19909-19918, 2018

PubMed Abstract: Bacterial microcompartments encapsulate enzymatic pathways that generate small, volatile, aldehyde intermediates. The and microcompartment (RMM) operon from encodes four enzymes, including ()-1-amino-2-propanol dehydrogenase and a likely propionaldehyde dehydrogenase. We show here that a third enzyme (and its nonmicrocompartment-associated paralog) is a moderately specific ()-1-amino-2-propanol kinase. We determined the structure of apo-aminopropanol kinase at 1.35 Å, revealing that it has structural similarity to hexosamine kinases, choline kinases, and aminoglycoside phosphotransferases. We modeled substrate binding, and tested our model by characterizing key enzyme variants. Bioinformatics analysis established that this enzyme is widespread in Actinobacteria, Proteobacteria, and Firmicutes, and is very commonly associated with a candidate phospholyase. In Rhizobia, aminopropanol kinase is generally associated with aromatic degradation pathways. In the RMM (and the parallel pathway that includes the second paralog), aminopropanol kinase likely degrades aminoacetone through a propanolamine-phosphate phospho-lyase-dependent pathway. These enzymatic activities were originally described in , but the proteins responsible have not been previously identified. Bacterial microcompartments typically co-encapsulate enzymes which can regenerate required co-factors, but the RMM enzymes require four biochemically distinct co-factors with no overlap. This suggests that either the RMM shell can uniquely transport multiple co-factors in stoichiometric quantities, or that all enzymes except the phospho-lyase reside outside of the shell. In summary, aminopropanol kinase is a novel enzyme found in diverse bacteria and multiple metabolic pathways; its presence in the RMM implies that this microcompartment degrades aminoacetone, using a pathway that appears to violate some established precepts as to how microcompartments function.

PubMed: 30361441
DOI: 10.1074/jbc.RA118.005485

Experimental method

X-RAY DIFFRACTION (1.35 Å)