[{"array1":[{"array2":[{"array3":[1,2]},{"array3":[2,3]},{"array3":[3,4]},{"array3":[4,5]}]}]}]

db.collection.aggregate([{"$project":{"array1.array2":{$filter:{"input":"$array1.array2","cond":{"$in":["$$this.array3",[1,5]]}}}}}])