SARS_CoV_2 {ClusTorus}R Documentation

6VXX: Structure of the SARS-CoV-2 spike glycoprotein(closed state)

Description

The torsion angle dataset of the SARS-CoV-2 spike glycopreotein.

Usage

SARS_CoV_2

Format

This list contains the following components:

psi

protein backbone chain angle for atoms C, N, C_alpha and C, in arc-degree.

phi

protein backbone chain angle for atoms N, C_alpha, C and N, in arc-degree.

omega

protein backbone chain angle for atoms C_alpha, C, N and C-alpha, in arc-degree.

chi1

side chain torsion angle for atoms N, C_alpha, C_beta and *G, in arc-degree.

chi2

side chain torsion angle for atoms C_alpha, C_beta, *G and *D, in arc-degree.

chi3

side chain torsion angle for atomsC_beta, *G, *D and *E, in arc-degree.

chi4

side chain torsion angle for atoms *G, *D, *E and *Z, in arc-degree.

chi5

side chain torsion angle for atoms *D, *E, *Z and NH1, in arc-degree.

alpha

virtual torsion angle between consecutive C_alpha atoms.

coords

numeric matrix of 'justified' coordinates.

tbl

a numeric matrix of psi, phi, and chi torsion angles.

Source

This data can be downloaded in https://www.rcsb.org/structure/6VXX, or with using R package bio3d.

References

Walls, A.C., et al. (2020), "Structure of the SARS-CoV-2 spike glycoprotein (closed state)" Cell 181: 281, DOI:10.2210/pdb6vxx/pdb. Retrived from https://www.wwpdb.org/pdb?id=pdb_00006vxx

See Also

Description of the angluar information is from the 'value' part of torsion.pdb in the package bio3d.


[Package ClusTorus version 0.1.3 Index]