Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review
P Csermely, T Korcsmáros, HJM Kiss, G London… - Pharmacology & …, 2013 - Elsevier
Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …
methods and in rational drug design, the increase in approved drugs in the past decade did …
Protein contacts, inter-residue interactions and side-chain modelling
Three-dimensional structures of proteins are the support of their biological functions. Their
folds are stabilized by contacts between residues. Inner protein contacts are generally …
folds are stabilized by contacts between residues. Inner protein contacts are generally …
A unified approach to protein domain parsing with inter-residue distance matrix
Motivation It is fundamental to cut multi-domain proteins into individual domains, for precise
domain-based structural and functional studies. In the past, sequence-based and structure …
domain-based structural and functional studies. In the past, sequence-based and structure …
Chainsaw: protein domain segmentation with fully convolutional neural networks
Motivation Protein domains are fundamental units of protein structure and play a pivotal role
in understanding folding, function, evolution, and design. The advent of accurate structure …
in understanding folding, function, evolution, and design. The advent of accurate structure …
[HTML][HTML] Inference of protein function from protein structure
D Pal, D Eisenberg - Structure, 2005 - cell.com
Structural genomics has brought us three-dimensional structures of proteins with unknown
functions. To shed light on such structures, we have developed ProKnow (http://www. doe …
functions. To shed light on such structures, we have developed ProKnow (http://www. doe …
Target classification in the 14th round of the critical assessment of protein structure prediction (CASP14)
LN Kinch, RD Schaeffer… - Proteins: Structure …, 2021 - Wiley Online Library
An evolutionary‐based definition and classification of target evaluation units (EUs) is
presented for the 14th round of the critical assessment of structure prediction (CASP14) …
presented for the 14th round of the critical assessment of structure prediction (CASP14) …
FUpred: detecting protein domains through deep-learning-based contact map prediction
Motivation Protein domains are subunits that can fold and function independently. Correct
domain boundary assignment is thus a critical step toward accurate protein structure and …
domain boundary assignment is thus a critical step toward accurate protein structure and …
Comparative proteomics reveals a significant bias toward alternative protein isoforms with conserved structure and function
Advances in high-throughput mass spectrometry are making proteomics an increasingly
important tool in genome annotation projects. Peptides detected in mass spectrometry …
important tool in genome annotation projects. Peptides detected in mass spectrometry …
Protein structure networks
LH Greene - Briefings in functional genomics, 2012 - academic.oup.com
The application of the field of network science to the scientific disciplines of structural biology
and biochemistry, have yielded important new insights into the nature and determinants of …
and biochemistry, have yielded important new insights into the nature and determinants of …
Partitioning protein structures into domains: why is it so difficult?
TA Holland, S Veretnik, IN Shindyalov… - Journal of molecular …, 2006 - Elsevier
This analysis takes an in-depth look into the difficulties encountered by automatic methods
for domain decomposition from three-dimensional structure. The analysis involves a multi …
for domain decomposition from three-dimensional structure. The analysis involves a multi …