Protein linear indices of the ‘macromolecular pseudograph α-carbon atom adjacency matrix’ in bioinformatics. Part 1: Prediction of protein stability effects of a complete set of alanine substitutions in Arc repressor

2005 ◽  
Vol 13 (8) ◽  
pp. 3003-3015 ◽  
Author(s):  
Yovani Marrero-Ponce ◽  
Ricardo Medina-Marrero ◽  
Juan A. Castillo-Garit ◽  
Vicente Romero-Zaldivar ◽  
Francisco Torrens ◽  
...  
Keyword(s):  
Carbon Atom ◽  
Protein Stability ◽  
Adjacency Matrix ◽  
Complete Set ◽  
Arc Repressor

scholarly journals Protein Quadratic Indices of the “Macromolecular Pseudograph’s α-Carbon Atom Adjacency Matrix”. 1. Prediction of Arc Repressor Alanine-mutant’s Stability

Molecules ◽  
2004 ◽  
Vol 9 (12) ◽  
pp. 1124-1147 ◽  
Author(s):  
Yovani Ponce ◽  
Ricardo Marrero ◽  
Eduardo Castro ◽  
Ronal Ramos de Armas ◽  
Humberto González Díaz ◽  
...  
Keyword(s):  
Carbon Atom ◽  
Adjacency Matrix ◽  
Arc Repressor

Protein Linear Indices in Bioinformatics Studies: 1. Prediction of Protein Stability Effects of a Complete Set of Alanine Substitutions in Arc Repressor

2006 ◽  
Author(s):  
Juan Castillo-Garit ◽  
Yovani Marrero-Ponce ◽  
Ricardo Medina-Marrero ◽  
Vicente Romero-Zaldivar ◽  
Francisco Torrens ◽  
...  
Keyword(s):  
Protein Stability ◽  
Complete Set ◽  
Arc Repressor

scholarly journals tomocomd-camps and protein bilinear indices - novel bio-macromolecular descriptors for protein research: I. Predicting protein stability effects of a complete set of alanine substitutions in the Arc repressor

FEBS Journal ◽  
2010 ◽  
Vol 277 (15) ◽  
pp. 3118-3146 ◽  
Author(s):  
Sadiel E. Ortega-Broche ◽  
Yovani Marrero-Ponce ◽  
Yunaimy E. Díaz ◽  
Francisco Torrens ◽  
Facundo Pérez-Giménez
Keyword(s):  
Protein Stability ◽  
Protein Research ◽  
Complete Set ◽  
Arc Repressor

Protein stability effects of a complete set of alanine substitutions in Arc repressor

1994 ◽  
Vol 1 (8) ◽  
pp. 518-523 ◽  
Author(s):  
Marcos E. Milla ◽  
Bronwen M. Brown ◽  
Robert T. Sauer
Keyword(s):  
Protein Stability ◽  
Complete Set ◽  
Arc Repressor

Markovian Backbone Negentropies: Molecular descriptors for protein research. I. Predicting protein stability in Arc repressor mutants

2004 ◽  
Vol 56 (4) ◽  
pp. 715-723 ◽  
Author(s):  
Ronal Ramos de Armas ◽  
Humberto González Díaz ◽  
Reinaldo Molina ◽  
Eugenio Uriarte
Keyword(s):  
Protein Stability ◽  
Molecular Descriptors ◽  
Protein Research ◽  
Arc Repressor

scholarly journals Cyclic Decomposition of $k$-Permutations and Eigenvalues of the Arrangement Graphs

10.37236/3711 ◽  
2013 ◽  
Vol 20 (4) ◽  
Author(s):  
Bai Fan Chen ◽  
Ebrahim Ghorbani ◽  
Kok Bin Wong
Keyword(s):  
Adjacency Matrix ◽  
Johnson Graph ◽  
Equitable Partition ◽  
Smallest Eigenvalue ◽  
Arrangement Graph ◽  
Complete Set ◽  
Element Set

The $(n,k)$-arrangement graph $A(n,k)$ is a graph with all the $k$-permutations of an $n$-element set as vertices where two $k$-permutations are adjacent if they agree in exactly $k-1$ positions. We introduce a cyclic decomposition for $k$-permutations and show that this gives rise to a very fine equitable partition of $A(n,k)$. This equitable partition can be employed to compute the complete set of eigenvalues (of the adjacency matrix) of $A(n,k)$. Consequently, we determine the eigenvalues of $A(n,k)$ for small values of $k$. Finally, we show that any eigenvalue of the Johnson graph $J(n,k)$ is an eigenvalue of $A(n,k)$ and that $-k$ is the smallest eigenvalue of $A(n,k)$ with multiplicity ${\cal O}(n^k)$ for fixed $k$.

An atomic resolution study of a carbide phase in platinum

1992 ◽  
Vol 50 (1) ◽  
pp. 20-21
Author(s):  
M.J. Witcomb ◽  
M.A. O'Keefe ◽  
CJ. Echer ◽  
C. Nelson ◽  
J.H. Turner ◽  
...  
Keyword(s):  
Solid Solution ◽  
Carbon Atom ◽  
Carbide Phase ◽  
Structural Changes ◽  
Critical Role ◽  
Alloy System ◽  
Atomic Resolution ◽  
Excess Carbon ◽  
Interstitial Carbon ◽  
Resolution Study

Under normal circumstances, Pt dissolves only a very small amount of interstitial carbon in solid solution. Even so, an appropriate quench/age treatment leads to the formation of stable Pt2C {100} plate precipitates. Excess (quenched-in) vacancies play a critical role in the process by accommodating the volume and structural changes that accompany the transformation. This alloy system exhibits other interesting properties. Due to a large vacancy/carbon atom binding energy, Pt can absorb excess carbon at high temperatures in a carburizing atmosphere. In regions rich in carbon and vacancies, another carbide phase, Pt7C which undergoes an order-disorder reaction was formed. The present study of Pt carburized at 1160°C and aged at 515°C shows that other carbides in the PtxC series can be produced.

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