As a result, it will no longer feature in the app's Discover section. The firm said it would "not amplify voices who incite racial violence and injustice".
The decision follows Mr Trump saying that "vicious dogs" and "ominous weapons" would have been used on protesters if they had breached the White House fence.
It follows Twitter's decision to hide some of the president's posts.
Snapchat's parent company Snap said: "Racial violence and injustice have no place in our society and we stand together with all who seek peace, love, equality, and justice in America."
The move is likely to feed into tensions between the White House and social media, which escalated when Twitter added fact-checking tags to some of the President's tweets last week.
The president subsequently signed an executive order seeking to curb legal protections offered to the industry.
Twitter later hid one of the president's tweets for breaking its rules on "glorifying violence".
Snapchat's action will also put further pressure on Facebook.
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