In this work we study the quantisation of the Seiberg-Witten curve for the E-string theory compactified on a two-torus. We find that the resulting operator expression belongs to the class of elliptic quantum curves. It can be rephrased as an eigenvalue equation with eigenvectors corresponding to co-dimension 2 defect operators and eigenvalues to co-dimension 4 Wilson surfaces wrapping the elliptic curve, respectively. Moreover, the operator we find is a generalised version of the van Diejen operator arising in the study of elliptic integrable systems. Although the microscopic representation of the co-dimension 4 defect only furnishes an $mathrm{SO}(16)$ flavour symmetry in the UV, we find an enhancement in the IR to representations in terms of affine $E_8$ characters. Finally, using the Nekrasov-Shatashvili limit of the E-string BPS partition function, we give a path integral derivation of the quantum curve.
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