The short answer is contracts are accounts. Just like your normal ethereum accounts. When you invoke a method marked as payment, you are essentially transferring some ether from your account to the contract. If someone wrote contract from which you can't withdraw and you send ether to it, thats stupidity - even fiat can be destroyed by stupidity.
I believe there are times when it is favorable to "burn" ether or another cryptocurrency, i.e. lock up the money in an unowned account. For example, the decentralized market place OpenBazaar discusses proof-of-burn to establish a user's reputation (https://blog.openbazaar.org/proof-of-burn-and-reputation-ple...). Burning coins allows a user to show they are invested in their reputation on the platform, without being forced to pay money to a central party.
The short answer is contracts are accounts. Just like your normal ethereum accounts. When you invoke a method marked as payment, you are essentially transferring some ether from your account to the contract. If someone wrote contract from which you can't withdraw and you send ether to it, thats stupidity - even fiat can be destroyed by stupidity.