SAN FRANCISCO — With help from Keker & Van Nest, Emeryville-based Amyris Inc. has shaken off a securities suit alleging executives misled the market about the company’s success developing a plant-based fuel alternative.

Plaintiffs lawyers at Milberg declined to amend their complaint after a federal judge dismissed the shareholder suit in March. U.S. District Judge William Orrick III of the Northern District of California closed the case last week.