Phosphorylated sphingolipids ceramide-<em>1</em>-<em>phosphate</em> (C<em>1</em>P) and <em>sphingosine</em>-<em>1</em>-<em>phosphate</em> (S<em>1</em>P) have emerged as key regulators of cell growth, survival, migration and inflammation. C<em>1</em>P produced by ceramide kinase is an activator of group IVA cytosolic phospholipase A2α (cPLA2α), the rate-limiting releaser of arachidonic acid used for pro-inflammatory eicosanoid production, which contributes to disease pathogenesis in asthma or airway hyper-responsiveness, cancer, atherosclerosis and thrombosis. To modulate eicosanoid action and avoid the damaging effects of chronic inflammation, cells require efficient targeting, trafficking and presentation of C<em>1</em>P to specific cellular sites. Vesicular trafficking is likely but non-vesicular mechanisms for C<em>1</em>P sensing, transfer and presentation remain unexplored. Moreover, the molecular basis for selective recognition and binding among signalling lipids with <em>phosphate</em> headgroups, namely C<em>1</em>P, phosphatidic acid or their lyso-derivatives, remains unclear. Here, a ubiquitously expressed lipid transfer protein, human GLTPD<em>1</em>, named here CPTP, is shown to specifically transfer C<em>1</em>P between membranes. Crystal structures establish C<em>1</em>P binding through a novel surface-localized, <em>phosphate</em> headgroup recognition centre connected to an interior hydrophobic pocket that adaptively expands to ensheath differing-length lipid chains using a cleft-like gating mechanism. The two-layer, α-helically-dominated 'sandwich' topology identifies CPTP as the prototype for a new glycolipid transfer protein fold subfamily. CPTP resides in the cell cytosol but associates with the trans-Golgi network, nucleus and plasma membrane. RNA interference-induced CPTP depletion elevates C<em>1</em>P steady-state levels and alters Golgi cisternae stack morphology. The resulting C<em>1</em>P decrease in plasma membranes and increase in the Golgi complex stimulates cPLA2α release of arachidonic acid, triggering pro-inflammatory eicosanoid generation.