610 research outputs found
UNIQUNESS OF THE ALGEBRE OF POLYNOMIAL FUNCTIONS ON A FINITE GROUP
Article信州大学教養部紀要. 第二部, 自然科学 9: 7-10(1975)departmental bulletin pape
A Note on the Dimension Subgroups
Article信州大学教養部紀要. 第二部, 自然科学 8: 1-4(1974)departmental bulletin pape
COCLEFT MODULE COALGEBRAS FOR A BIALGEBRA
Article信州大学教養部紀要. 第一部, 人文科学. 第二部, 自然科学 21: 143-150(1987)departmental bulletin pape
ON THE CORRESPONDENCE OF GROUP EXTENSIONS WITH THE SECOND COHOMOLOGY CLASSES
Article信州大学教養部紀要. 第二部, 自然科学 11: 73-76(1977)departmental bulletin pape
ON THE GROUP ISOMORPHISM OF E(C,A) WITH H¹(G,HOM_K(C,A))
Article信州大学教養部紀要. 第二部, 自然科学 9: 1-5(1975)departmental bulletin pape
Further examples of cocleft module coalgebras
Article信州大学教養部紀要. 第一部, 人文科学. 第二部, 自然科学 22: 203-206(1988)departmental bulletin pape
Properties of contact matrices induced by pairwise interactions in proteins
The total conformational energy is assumed to consist of pairwise interaction
energies between atoms or residues, each of which is expressed as a product of
a conformation-dependent function (an element of a contact matrix, C-matrix)
and a sequence-dependent energy parameter (an element of a contact energy
matrix, E-matrix). Such pairwise interactions in proteins force native
C-matrices to be in a relationship as if the interactions are a Go-like
potential [N. Go, Annu. Rev. Biophys. Bioeng. 12. 183 (1983)] for the native
C-matrix, because the lowest bound of the total energy function is equal to the
total energy of the native conformation interacting in a Go-like pairwise
potential. This relationship between C- and E-matrices corresponds to (a) a
parallel relationship between the eigenvectors of the C- and E-matrices and a
linear relationship between their eigenvalues, and (b) a parallel relationship
between a contact number vector and the principal eigenvectors of the C- and
E-matrices; the E-matrix is expanded in a series of eigenspaces with an
additional constant term, which corresponds to a threshold of contact energy
that approximately separates native contacts from non-native ones. These
relationships are confirmed in 182 representatives from each family of the SCOP
database by examining inner products between the principal eigenvector of the
C-matrix, that of the E-matrix evaluated with a statistical contact potential,
and a contact number vector. In addition, the spectral representation of C- and
E-matrices reveals that pairwise residue-residue interactions, which depends
only on the types of interacting amino acids but not on other residues in a
protein, are insufficient and other interactions including residue
connectivities and steric hindrance are needed to make native structures the
unique lowest energy conformations.Comment: Errata in DOI:10.1103/PhysRevE.77.051910 has been corrected in the
present versio
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