Material Event Form 8 K

Underwriting Agreement

On September 4, 2024, Vaxcyte, Inc. ("Vaxcyte") entered into an underwriting agreement (the "Underwriting Agreement") with BofA Securities, Inc., Jefferies LLC, Leerink Partners LLC, Goldman Sachs & Co. LLC and Evercore Group L.L.C. as representatives of the several underwriters named therein (collectively, the "Underwriters"), relating to the issuance and sale (the "Offering") of 10,194,175 shares of its common stock, par value $0.001 per share, at a price to the public of $103.00 per share, and pre-fundedwarrants to purchase 2,427,184 shares of its common stock at a price to the public of $102.999 per pre-fundedwarrant, which is the price per share at which shares of common stock are being sold to the public in the Offering, minus $0.001. The exercise price of each pre-fundedwarrant will equal $0.001 per share and each pre-fundedwarrant will be exercisable from the date of issuance until fully exercised, subject to an ownership limitation. Pursuant to the Underwriting Agreement, the Underwriters have agreed to purchase the shares of common stock from Vaxcyte at a price of $98.1075 per share and the pre-fundedwarrants at a price of $98.1065 per pre-fundedwarrant. Vaxcyte also granted the Underwriters a 30-dayoption to purchase up to an additional 1,893,203 shares of common stock from Vaxcyte. All of the shares and pre-fundedwarrants in the Offering are being sold by Vaxcyte.

On September 5, 2024, the Underwriters notified Vaxcyte of their intent to exercise their option to purchase the additional shares in full. The net proceeds to Vaxcyte from the Offering, including the exercise by the Underwriters of their 30-dayoption to purchase additional shares, is expected to be $1.42 billion, after deducting underwriting discounts and commissions and other estimated offering expenses payable by Vaxcyte. The closing of the Offering is expected to occur on or about September 6, 2024, subject to satisfaction of customary closing conditions.

The Offering is being made pursuant to Vaxcyte's effective registration statement on Form S-3(Registration Statement No. 333-279735),as previously filed with the Securities and Exchange Commission and a related prospectus and prospectus supplement.

The Underwriting Agreement contains customary representations, warranties and covenants by Vaxcyte, customary conditions to closing, indemnification obligations of Vaxcyte and the Underwriters, including for liabilities under the Securities Act of 1933, as amended, other obligations of the parties and termination provisions. The representations, warranties and covenants contained in the Underwriting Agreement were made only for purposes of such agreement and as of specific dates, and were solely for the benefit of the parties to such agreement.

The Underwriting Agreement is filed as Exhibit 1.1 hereto and the form of pre-fundedwarrant is filed as Exhibit 4.1 hereto. The foregoing descriptions of the terms of the Underwriting Agreement and the pre-fundedwarrants are qualified in their entirety by reference to such exhibits hereto. A copy of the opinion of Skadden, Arps, Slate, Meagher & Flom LLP relating to the legality of the issuance and sale of the securities in the Offering is attached as Exhibit 5.1 hereto.