Protein 3D structure computed from evolutionary sequence variation
The evolutionary trajectory of a protein through sequence space is constrained by its
function. Collections of sequence homologs record the outcomes of millions of evolutionary …
function. Collections of sequence homologs record the outcomes of millions of evolutionary …
CONFOLD: Residue‐residue contact‐guided ab initio protein folding
Predicted protein residue–residue contacts can be used to build three‐dimensional models
and consequently to predict protein folds from scratch. A considerable amount of effort is …
and consequently to predict protein folds from scratch. A considerable amount of effort is …
Artificial intelligence for template-free protein structure prediction: a comprehensive review
Protein structure prediction (PSP) is a grand challenge in bioinformatics, drug discovery, and
related fields. PSP is computationally challenging because of an astronomically large …
related fields. PSP is computationally challenging because of an astronomically large …
Archaea: the first domain of diversified life
The study of the origin of diversified life has been plagued by technical and conceptual
difficulties, controversy, and apriorism. It is now popularly accepted that the universal tree of …
difficulties, controversy, and apriorism. It is now popularly accepted that the universal tree of …
CMView: interactive contact map visualization and analysis
Contact maps are a valuable visualization tool in structural biology. They are a convenient
way to display proteins in two dimensions and to quickly identify structural features such as …
way to display proteins in two dimensions and to quickly identify structural features such as …
Secondary structure and contact guided differential evolution for protein structure prediction
GJ Zhang, LF Ma, XQ Wang… - IEEE/ACM transactions on …, 2018 - ieeexplore.ieee.org
Ab initio protein tertiary structure prediction is one of the long-standing problems in structural
bioinformatics. With the help of residue-residue contact and secondary structure prediction …
bioinformatics. With the help of residue-residue contact and secondary structure prediction …
Assessment of protein assembly prediction in CASP13
We present the assembly category assessment in the 13th edition of the CASP community‐
wide experiment. For the second time, protein assemblies constitute an independent …
wide experiment. For the second time, protein assemblies constitute an independent …
Optimal contact definition for reconstruction of contact maps
Background Contact maps have been extensively used as a simplified representation of
protein structures. They capture most important features of a protein's fold, being preferred …
protein structures. They capture most important features of a protein's fold, being preferred …
Deep spatio-temporal architectures and learning for protein structure prediction
Residue-residue contact prediction is a fundamental problem in protein structure prediction.
Hower, despite considerable research efforts, contact prediction methods are still largely …
Hower, despite considerable research efforts, contact prediction methods are still largely …
Protein residue contacts and prediction methods
B Adhikari, J Cheng - Data Mining Techniques for the Life Sciences, 2016 - Springer
In the field of computational structural proteomics, contact predictions have shown new
prospects of solving the longstanding problem of ab initio protein structure prediction. In the …
prospects of solving the longstanding problem of ab initio protein structure prediction. In the …