Pollination drop (PD) is a characteristic feature of major wind-pollinated gymnosperms and plays a vital role during the course of pollination, however, the composition and proteomic profile of PDs in Ginkgo biloba remain unclear. Through inductively coupled plasma mass spectrometry, we detected mineral elements in PDs, including calcium (Ca), sulfur (S), magnesium, boron, and potassium (K), among which S, Ca, and K were found at high levels. The total sugar concentration was approximately 5.908 mg/mL, which accounted for approximately 5.9% (mass ratio) of the PD. The sugars primarily consisted of fructose, glucose, and sucrose, of which the glucose level was highest, accounting for 57.6%, followed by fructose (37.1%) and sucrose (5.3%). We also used FTIR to validate the presence of sugars and proteins in PDs. Further proteomic analysis revealed that the PD contained calmodulin, α-L-arabinofuranosidase, β-D-xylosidase, superoxide dismutase, α-L-arabinosidase, glutathione S-transferase, histones, glycine-rich family protein, methionine synthase, and arabinogalactan, suggesting that proteins present in PDs of G. biloba play a critical role in the defense against external bacteria and facilitate germination and growth of the pollen tube. Our results suggest that PDs are not merely a medium to receive and transport pollen but may also play a more complex biological role in pollination and fertilization.