Macmillan, the last of the major publishers still fighting the U.S. Justice Department over antitrust charges, says it has renegotiated its e-book deals with retailers to allow some discounting.

In an open letter posted on his book-publishing company's website Wednesday afternoon, Macmillan Chief Executive John Sargent said the firm is still committed to fighting the antitrust case brought by the Justice Department involving allegations that Macmillan and four other publishers plus Apple Inc. (AAPL) conspired to raise e-book prices.

Macmillan is a unit of Germany's Verlagsgruppe Georg von Holtzbrinck GmbH.

On Tuesday, Pearson PLC's (PSO, PSON.LN) Penguin Group (USA) settled its e-book antitrust suit with the Justice Department, leaving only Macmillan and Apple as defendants in a suit brought earlier this year. Penguin's decision reflected its need to resolve the issue prior to its proposed combination with Bertelsmann SE & Co.'s Random House publishing unit, a move that will require regulatory approval.

Three other publishers--CBS Corp.'s (CBS, CBSA) Simon & Schuster, News Corp.'s (NWS, NWSA) HarperCollins Publishers and Lagardere SCA's (MMB.FR) Hachette Book Group, earlier settled allegations that they had conspired to raise e-book prices in a bid to end the practice of selling the book industry's top new titles for only $9.99 in digital form. News Corp. also owns The Wall Street Journal and the publisher of Dow Jones Newswires.

Prices on e-books published by the three firms already have begun to come down.

Mr. Sargent disclosed Wednesday that shortly after the antitrust suit was filed in April, Macmillan canceled its retailer e-book contracts and negotiated new ones with the exception of one contract whose terms hadn't yet expired. The new contracts allow retailers to discount certain titles priced at $13.99 and above by 10%. By contrast, publishers that settled have agreed to allow discounting on all their titles.

In his letter to authors, illustrators and agents, Mr. Sargent repeated past statements that he has decided against settling because Macmillan didn't conspire to set higher e-book prices and because he is concerned that rampant discounting championed by Amazon.com Inc. (AMZN) would seriously damage rival retailers who would have to follow suit in order to remain competitive.

Write to Jeffrey A. Trachtenberg at jeffrey.trachtenberg@wsj.com

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