Primary structure of murine major histocompatibility complex alloantigens: isolation, biochemical characterization, and preliminary alignment of CNBr fragments from the H-2Ib glycoprotein.

Radiochemical methodology has been applied in studies directed toward the determination of the amino acid sequence of the murine H-2Kb gene product. Five major CNBr fragments, which comprise the NH2-terminal 80% of the intact glycoprotein and include the H-2Kb fragment isolated by papain cleavage, were isolated and characterized. By means of amino-terminal sequence analysis, homology to other products of the major histocompatibility complex, identification of partial CNBr cleavage products, and localization of the site of papain cleavage, it was possible to align the fragments obtained from the molecule in the following order: the NH2-terminal fragment, designated IIIn, contains 23 residues and is followed by fragment IIIa, which contains 29 residues. Two peptides Ib (Mr 11,500) and Ia (Mr 12,000), each of which contains a carbohydrate moiety, are followed by fragment Ic (Mr 5800), which includes the site of papain cleavage. The data indicate the presence of disulfide bonds between fragments Ib and Ia and between Ia and Ic.