Processing single chain vs multichain models

[rediaz111]

Is there documentation on how multichain models affect pKa calculations? I obtained different pKa values for residues in Chain A when I submitted a single chain model vs when using a multichain model.

[sobolevnrm]

Any structure with multiple chains should behave differently than a single chain in isolation since multiple chains can change the solvent accessibility and charge environment of a titratable site.