Structural alterations of a building or structure, or the use of a parcel, lot or tract of land which does not conform to the provisions of this chapter shall be allowed only if the building or structure to be altered or the parcel, lot or tract of land to be used shall be made to conform with the requirements of the zoning district in which it is located; however, upon application, the Board may approve the structural alteration of a building or structure, or the use of a parcel, lot or tract of land which is not in conformance with the provisions of this chapter, subject to the provisions of Article XVII, § 180-109; provided however, that where the structural alteration or addition itself and the use therein conforms to the provisions of this chapter, the Zoning Administrator may authorize the necessary zoning certificate therefor, and same shall not require Board approval.