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The CLIP protein stands for class II-associated invarient chain peptide and it plays a crucial role in the assembly of MHC class II molecules. The CLIP protein is a part of the invarient chain and it stops the MHC complex binding with self-peptides in the endosome called the MHC II compartment. Therefore, it allows foreign peptides to bind to the complex and these antigens can then be presented by this antigen presenting cell once the endosome has been transported to the membrane of the cell creating a chain of events happening in the immune system.

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