Whoever received the 1099-S needs to report the sale of the home. If it was the LLC, and it is a multi-member LLC (you and your brother), then you need to file a Form 1065 partnership return. If it is a single member LLC, then that single member needs to report it on their personal tax return. If you have an estate tax ID and the estate received the Form 1099-S, then you need to file a Form 1041 Estate Tax Return.
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