The original paper describing SEED is the following:

The accurate energy continuum electrostatic model implemented in SEED was introduced in:

  • M. Scarsi, J. Apostolakis, and A. Caflisch.
    Continuum Electrostatic Energies of Macromolecules in Aqueous Solutions.
    J. Phys. Chem. A, 101 (43): 8098–8106, 1997.

The fast energy model is described in the second SEED paper:

Review of the applications of SEED in the period 1999-2018, including a discussion on its strenghts and weaknesses in light of our experience:

  • J.-R. Marchand, and A. Caflisch.
    In silico fragment-based drug design with SEED.
    European Journal of Medicinal Chemistry, 156:907-917, 2018.

Recent assessment of SEED on 15 different protein targets, with a focus on its scoring power. Advantages, limitations and practical tips for usage are discussed:

  • K. Goossens, B. Wroblowski, C. Langini, H. van Vlijmen, A. Caflisch, and H. De Winter.
    Assessment of the Fragment Docking Program SEED.
    J. Chem. Inf. Model., 60(10):4881–4893, 2020.