The enzymes carbamoyl phosphate synthetase (CPS)
and carbamate kinase (CK) make carbamoyl phosphate in the
same way: by ATP-phosphorylation of carbamate. The carbamate
used by CK is made chemically, whereas CPS itself synthesizes
its own carbamate in a process involving the phosphorylation
of bicarbonate. Bicarbonate and carbamate are analogs and
the phosphorylations are carried out by homologous 40 kDa
regions of the 120 kDa CPS polypeptide. CK can also phosphorylate
bicarbonate and is a homodimer of a 33 kDa subunit that
was believed to resemble the 40 kDa regions of CPS. Such
belief is disproven now by the CK structure reported here.
The structure does not conform to the biotin carboxylase
fold found in the 40 kDa regions of CPS, and presents a
new type of fold possibly shared by homologous acylphosphate-making
enzymes. A molecular 16-stranded open β-sheet surrounded
by α-helices is the hallmark of the CK dimer. Each
subunit also contains two smaller sheets and a large crevice
found at the location expected for the active center. Intersubunit
interactions are very large and involve a central hydrophobic
patch and more hydrophilic peripheral contacts. The crevice
holds a sulfate that may occupy the site of an ATP phosphate,
and is lined by conserved residues. Site-directed mutations
tested at two of these residues inactivate the enzyme.
These findings support active site location in the crevice.
The orientation of the crevices in the dimer precludes
their physical cooperation in the catalytic process. Such
cooperation is not needed in the CK reaction but is a requirement
of the mechanism of CPSs.