ترغب بنشر مسار تعليمي؟ اضغط هنا

A modular Fibonacci sequence in proteins

66   0   0.0 ( 0 )
 نشر من قبل Margaret Dominy
 تاريخ النشر 2004
  مجال البحث علم الأحياء
والبحث باللغة English




اسأل ChatGPT حول البحث

Protein-fragment seqlets typically feature about 10 amino acid residue positions that are fixed to within conservative substitutions but usually separated by a number of prescribed gaps with arbitrary residue content. By quantifying a general amino acid residue sequence in terms of the associated codon number sequence, we have found a precise modular Fibonacci sequence in a continuous gap-free 10-residue seqlet with either 3 or 4 conservative amino acid substitutions. This modular Fibonacci sequence is genuinely biophysical, for it occurs nine times in the SWISS-Prot/TrEMBL database of natural proteins.



قيم البحث

اقرأ أيضاً

As the infection of 2019-nCoV coronavirus is quickly developing into a global pneumonia epidemic, careful analysis of its transmission and cellular mechanisms is sorely needed. In this report, we re-analyzed the computational approaches and findings presented in two recent manuscripts by Ji et al. (https://doi.org/10.1002/jmv.25682) and by Pradhan et al. (https://doi.org/10.1101/2020.01.30.927871), which concluded that snakes are the intermediate hosts of 2019-nCoV and that the 2019-nCoV spike protein insertions shared a unique similarity to HIV-1. Results from our re-implementation of the analyses, built on larger-scale datasets using state-of-the-art bioinformatics methods and databases, do not support the conclusions proposed by these manuscripts. Based on our analyses and existing data of coronaviruses, we concluded that the intermediate hosts of 2019-nCoV are more likely to be mammals and birds than snakes, and that the novel insertions observed in the spike protein are naturally evolved from bat coronaviruses.
144 - Miloje M. Rakocevic 2007
In this paper it is shown that within a Combined Genetic Code Table, realized through a combination of Watson-Crick Table and Codon Path Cube it exists, without an exception, a strict distinction between two classes of enzymes aminoacyl-tRNA syntheta ses, corresponding two classes of amino acids and belonging codons. By this, the distinction itself is followed by a strict balance of atom number within two subclasses of class I as well as two subclasses of class II of amino acids.
The three dimensional structure of DNA in the nucleus (chromatin) plays an important role in many cellular processes. Recent experimental advances have led to high-throughput methods of capturing information about chromatin conformation on genome-wid e scales. New models are needed to quantitatively interpret this data at a global scale. Here we introduce the use of tools from topological data analysis to study chromatin conformation. We use persistent homology to identify and characterize conserved loops and voids in contact map data and identify scales of interaction. We demonstrate the utility of the approach on simulated data and then look data from both a bacterial genome and a human cell line. We identify substantial multiscale topology in these datasets.
In protein-protein interaction networks certain topological properties appear to be recurrent: networks maps are considered scale-free. It is possible that this topology is reflected in the protein structure. In this paper we investigate the role of protein disorder in the network topology. We find that the disorder of a protein (or of its neighbors) is independent of its number of protein-protein interactions. This result suggests that protein disorder does not play a role in the scale-free architecture of protein networks.
97 - V.V. Nesterenko , A. Feoli , 2003
The free energy of globular protein chain is considered to be a functional defined on smooth curves in three dimensional Euclidean space. From the requirement of geometrical invariance, together with basic facts on conformation of helical proteins an d dynamical characteristics of the protein chains, we are able to determine, in a unique way, the exact form of the free energy functional. Namely, the free energy density should be a linear function of the curvature of curves on which the free energy functional is defined. This model can be used, for example, in Monte Carlo simulations of exhaustive searching the native stable state of the protein chain.
التعليقات
جاري جلب التعليقات جاري جلب التعليقات
سجل دخول لتتمكن من متابعة معايير البحث التي قمت باختيارها
mircosoft-partner

هل ترغب بارسال اشعارات عن اخر التحديثات في شمرا-اكاديميا