Hi,
Typically, the solvent accessibility of water-soluble protein is computed by using a water molecule with a size of 1.4 Å). For my research work, I need to compute the relative lipid (-CH2 as a probe molecule) accessibility for membrane protein structures through NACCESS program. In this regard, I don't know how to change the solvent parameters in NACCESS.
Is there anyone who can help me with this calculation?
Thank you in advance.
Martin Klvana I tried. but It's about probe size. For my work, i want to calculate lipid surface area by using CH2 as a probe molecule.
Kulandaisamy A , the probe must be spherical: represent the CH2 group by a sphere.
Martin Klvana I don't know how to change the parameters for CH2 molecule in naccess "standard.data" file. Have you done this before with naccess? could you please share the code?
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