In the old testament, the ark of the covenant was where the presence of God resided. On top of the ark was the mercy seat. The mercy seat represents God's throne that he sits upon in Heaven. When you say, "Jesus sits upon the throne of my heart," you are saying that his presence is in your heart.
Don't you realize that your body is the temple of the Holy Spirit, who lives in you and was given to you by God? You do not belong to yourself, 1Cor. 6:19
God has made a better way through Jesus Christ, each of us are the temple of God, in which his presence resides as long as the blood of Christ has been applied to our lives. Where is the mercy seat and the ark now? These things reside in your heart, and God sits upon His throne in your heart. Where are your treasures? What is your heart fixed on today?
Wherever your treasure is, there the desires of your heart will also be. Luke 12:34
When your heart is set on external things like love of another person, love of money, or love of pleasure, or strong drink your heart feels empty, because the presence of God only fills your temple when your heart is fixed on Jesus. When your heart is set on worry for another, you are trading the peace of God for your own efforts. We can't take care of ourselves without God moving on us, so how can we take care of another? Let God handle that, only He can do it. When Jesus is the pure desire of your heart, than the presence of God will fill your heart. Even if you have already made Christ your Savior you will miss the joy and peace of your salvation if Jesus is not the center of your attention, seated on the throne of your heart.
Jesus said to the church of Ephesis in the book of Revelation, 'yet I hold this against you, that you have lost your first love.' If you feel the emptiness of missing the presence of God in your life, let go of the things that you are holding to you right now, and make Jesus the center of your attention again. In repentance and rest you will find the peace and joy of Christ enveloping you once again.