No. The commission is calculated on the item price. The delivery the buyer paid is excluded from the figure the fee is worked out on.
Sellers budget on this, so it is worth being precise: what the fee applies to is the item total, which is the order total minus the shipping. Not the order total.
Why the distinction matters
Take a ₹500 item with ₹150 delivery. The buyer pays ₹650.
The commission is worked out on the ₹500, not the ₹650. So charging realistically for delivery does not increase what you pay in fees.
That is the right incentive: a seller should not be penalised for honestly passing on a courier's price.
What happens to the delivery money
Depends on who booked the courier.
If Metzee booked it, the delivery the buyer paid passes through to cover it. It arrives in your total and then leaves, which is why it shows on your statement as a deduction — Delivery the buyer paid, back to Metzee. That is not a charge on you; it is money that was never yours.
If you delivered it yourself, you keep what the buyer paid for delivery, and it is yours to set against your own costs.
Where the courier can still cost you
A weight correction. If a parcel weighed more than you declared, the courier charges the difference afterwards and it lands on your balance as Charged by the courier afterwards. That is the courier's charge, not a Metzee fee.
It is avoidable: weigh the packed parcel on a scale, photograph it, and enter the real figure. A big light box is the usual culprit, because a courier bills the greater of weight and volume. Why is a light thing costing so much to post?
What this means for how you price
Since delivery is fee-free and the item is not, do not bury delivery costs in the item price to make a listing look like it has free shipping. You would be paying commission on the shipping you hid.
Charging the item at its price and the delivery at its cost is both more honest to the buyer and cheaper for you.
For pickup
No delivery charge at all, usually, so there is nothing for the question to apply to — and no courier risk either. How to offer pickup
More: when is the commission taken, what comes out of a sale, how to set delivery prices.