Dynamic cross correlation map
WebJan 28, 2016 · Dynamic cross-correlation map (DCCM). (A) DCCM map for the Oct4/Sox2 0bp complex showing positive and negative correlative motions between the Oct4 and … http://thegrantlab.org/bio3d/reference/plot.dccm.html
Dynamic cross correlation map
Did you know?
WebThis function calculates the cross-correlation matrix from Normal Modes Analysis (NMA) obtained from nma of a protein structure. It returns a matrix of residue-wise cross … WebNov 7, 2014 · The dynamic cross correlation (DCC) analysis is a popular method for analyzing the trajectories of molecular dynamics (MD) simulations. However, it is difficult …
http://thegrantlab.org/bio3d/reference/dccm.xyz.html WebMar 24, 2024 · Using five equilibrium AA-MD trajectories in the NPT ensemble, a dynamic cross-correlation coefficient map (DCCM), representing the correlation of fluctuation between all residue pairs, was calculated. The dynamic cross-correlation coefficient for the residue pair between i and j is defined by the following equation (1)
WebTypical characteristics of DCCMs include a line of strong cross-correlation along the diagonal, cross-correlations emanating from the diagonal, and off-diagonal cross … WebApr 10, 2024 · In this work, we applied measures of dynamic variance, like the Gini coefficients, Kullback–Leibler (KL) divergence and dynamic cross correlation (DCC) coefficients to compare the behavior of 3 pairs of homologous proteins from the thermophilic bacterium Thermus thermophilus and mesophilic Escherichia coli. Molecular dynamic …
WebNov 30, 2024 · Dynamic cross-correlation map. Movement cross-correlation coefficient C ij between two atoms i and j during the simulation is defined as follows: (1) C ij = Δ r i · Δ r j Δ r i · Δ r i Δ r j · Δ r j where Δr i and Δr j are the instantaneous displacements of the ith and jth atoms from their mean positions respectively, and ...
WebDynamic cross-correlation map (DCCM) of the Cα atoms around their mean positions computed through the DynaMut web server during the simulation. a NSP6. b NSP6-haloperidol. c NSP6-dextromethorphan. biscotti and coffee gift ideashttp://www.thegrantlab.org/bio3d/reference/dccm.html biscotti and teaWebJan 6, 2024 · The dynamic cross-correlation maps for all residues in the ENM apo (ligand-free), holo1 (only one active site at chain A occupied) and holo2 (both active sites occupied) structures are shown in figure 3. We discuss the dynamic features of each structure in the following. Figure 3. The cross correlation of the motion of 6lu7 ENM. biscotti at the peppermillWebThe dynamic cross-correlation Map(DCCM) technique has been used extensively to study protein dynamics. In this work, we introduce the use of the method of correlation of probability of recurrence (CPR) as a complementary method to detect correlations between protein residue atoms. Time series of the distances of the Cα atoms of the β ... dark brown stone textureWeb我们已与文献出版商建立了直接购买合作。 你可以通过身份认证进行实名认证，认证成功后本次下载的费用将由您所在的图书 ... dark brown stone in jewelryWebJun 13, 2024 · The dynamic cross-correlation shows that phosphorylation enhances the correlated motions between the different domains. Centrality network analysis reveals that the S44 phosphorylation causes structural rearrangements and modulates the information pathway between the Lyase domain and base pair binding domain. dark brown stain colorWebOne of the main advantages of correlation network analysis is that it often facilitates the interpretation of correlated motions that can be challenging to rationalize from the output of a dynamic correlation map alone (e.g. the output of the dccm () function). dark brown stone name