diff --git a/Makefile b/Makefile
index 075014aa..f56fb566 100644
--- a/Makefile
+++ b/Makefile
@@ -62,8 +62,8 @@ endif
 
 tree-sitter.pc: lib/tree-sitter.pc.in
 	sed -e 's|@PROJECT_VERSION@|$(VERSION)|' \
-		-e 's|@CMAKE_INSTALL_LIBDIR@|$(LIBDIR)|' \
-		-e 's|@CMAKE_INSTALL_INCLUDEDIR@|$(INCLUDEDIR)|' \
+		-e 's|@CMAKE_INSTALL_LIBDIR@|$(LIBDIR:$(PREFIX)/%=%)|' \
+		-e 's|@CMAKE_INSTALL_INCLUDEDIR@|$(INCLUDEDIR:$(PREFIX)/%=%)|' \
 		-e 's|@PROJECT_DESCRIPTION@|$(DESCRIPTION)|' \
 		-e 's|@PROJECT_HOMEPAGE_URL@|$(HOMEPAGE_URL)|' \
 		-e 's|@CMAKE_INSTALL_PREFIX@|$(PREFIX)|' $< > $@
diff --git a/cli/src/templates/makefile b/cli/src/templates/makefile
index c9bb86bc..8691b286 100644
--- a/cli/src/templates/makefile
+++ b/cli/src/templates/makefile
@@ -59,8 +59,8 @@ endif
 
 $(LANGUAGE_NAME).pc: bindings/c/$(LANGUAGE_NAME).pc.in
 	sed -e 's|@PROJECT_VERSION@|$(VERSION)|' \
-		-e 's|@CMAKE_INSTALL_LIBDIR@|$(LIBDIR)|' \
-		-e 's|@CMAKE_INSTALL_INCLUDEDIR@|$(INCLUDEDIR)|' \
+		-e 's|@CMAKE_INSTALL_LIBDIR@|$(LIBDIR:$(PREFIX)/%=%)|' \
+		-e 's|@CMAKE_INSTALL_INCLUDEDIR@|$(INCLUDEDIR:$(PREFIX)/%=%)|' \
 		-e 's|@PROJECT_DESCRIPTION@|$(DESCRIPTION)|' \
 		-e 's|@PROJECT_HOMEPAGE_URL@|$(HOMEPAGE_URL)|' \
 		-e 's|@CMAKE_INSTALL_PREFIX@|$(PREFIX)|' $< > $@