WebJul 1, 2024 · Dynamic cross correlation analysis shows energy dispersion effects upon heating. Results Keywords Thermus thermophilus Alkaline phosphatase Crystal structure Molecular dynamics Principal component analysis Residue interaction network Rotamer analysis Dynamic cross correlation Abbreviations AP alkaline phosphatase PCA … WebTypical characteristics of DCCMs include a line of strong cross-correlation along the diagonal, cross-correlations emanating from the diagonal, and off-diagonal cross-correlations. The high diagonal values occur where i = j, where Cij is always equal to 1.00.
dccm: DCCM: Dynamical Cross-Correlation Matrix in bio3d: …
WebA novel application of the dynamical cross-correlation matrix (DCCM) analysis tool was used to help identify putative protein domains. In implementing this new approach, several DCCM maps were calculated, each using a different coordinate reference frame from which protein domain boundaries and protein domain residue constituents could be ... Webdynamic correlation A cross-correlation process which involves traces of different offsets, and the adding together of the cross-correlations for similar pairs of traces over a … regulated investment advice
DCCM: Dynamical Cross-Correlation Matrix - Computational Biophysics …
WebThis function returns a matrix of all atom-wise cross-correlations whose elements, Cij, may be displayed in a graphical representation frequently termed a dynamical cross-correlation map, or DCCM. If Cij = 1 the … Webdccm is a generic function calling the corresponding function determined by the class of the input argument x. Use methods ("dccm") to get all the methods for dccm generic: dccm.xyz will be used when x is a numeric matrix containing Cartesian coordinates (e.g. trajectory data). dccm.pca will calculate the cross-correlations based on an pca object. WebDec 12, 2002 · The angle brackets denote an ensemble average. The elements C(i, j) can be collected in matrix form and displayed as a three-dimensional dynamical cross-correlation map (DCCM) . There is a time scale implicit in the C(i, j). The cross correlation was calculated as block average over time from 500 ps to 10 ns from the MD trajectory. processing and quantity of processing