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fix: replace use of github.com/golang/protobuf/proto where possible (… #5393

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Run time

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Job	Run time
bazel_build_protos	18s
protobufjs-load-test	17s
regenerate	3m 9s
tests	1m 29s
probes	17s
lint	1m 5s
push-generated-sources	33s
	7m 8s