diff --git a/pkgs/top-level/aliases.nix b/pkgs/top-level/aliases.nix
index 54241af965dd..fdd72fd52012 100644
--- a/pkgs/top-level/aliases.nix
+++ b/pkgs/top-level/aliases.nix
@@ -1113,6 +1113,7 @@ mapAliases {
   pyo3-pack = maturin;
   pypi2nix = throw "pypi2nix has been removed due to being unmaintained";
   pypolicyd-spf = spf-engine; # Added 2022-10-09
+  pypy39Packages = throw "pypy 3.9 has been removed, use pypy 3.10 instead"; # Added 2025-01-07
   python = python2; # Added 2022-01-11
   python-swiftclient = throw "'python-swiftclient' has been renamed to/replaced by 'swiftclient'"; # Converted to throw 2024-10-17
   pythonFull = python2Full; # Added 2022-01-11
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index e9c20f5904ff..2c96a9e69602 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -7384,7 +7384,6 @@ with pkgs;
   pypy2Packages = pypy2.pkgs;
   pypy27Packages = pypy27.pkgs;
   pypy3Packages = pypy3.pkgs;
-  pypy39Packages = pypy39.pkgs;
   pypy310Packages = pypy310.pkgs;
 
   pythonManylinuxPackages = callPackage ./../development/interpreters/python/manylinux { };