Introduction
Solvent accessibility has been extensively used to characterize and predict the chemical properties of the surface residues of soluble proteins. However, there is not yet a widely accepted quantity of the same dimension for the study of lipid-accessible residues of membrane proteins. We propose that lipid accessibility, defined in a similar way to solvent accessibility, can be used to characterize the lipid accessible residues of membrane proteins.
We developed the protein relative accessibility predictor (ProtRAP), to predict the relative lipid accessibility and relative solvent accessibility of residues from a given protein sequence, which can infer which residues are likely accessible to lipids, accessible to solvent, or buried in the protein interior in one run.
Here is a server of ProtRAP, please feel free to use it.
Submit
Query protein sequence, one for a time (no more than 5000 residues).
Result
The figure of ProtRAP prediction results (png and svg)
The detailed ProtRAP prediction results (csv)
Code and Weight
https://github.com/ComputBiophys/ProtRAP
Contact
Feel free to contact us if you have any question. Thank you for using ProtRAP.
Email: kang_kai_18@icloud.com
Reference
Kang, K.#; Wang, L.#; Song, C.* ProtRAP: Predicting Lipid Accessibility Together with Solvent Accessibility of Proteins in One Run. J. Chem. Inf. Model. 2023, 63, 1058-1065. Link