DeepDist: real-value inter-residue distance prediction with deep residual convolutional network
BMC Bioinformatics, 2021 Background Driven by deep learning, inter-residue contact/distance prediction has been significantly improved and substantially enhanced ab initio protein structure prediction.
Tianqi Wu +3 more
doaj +1 more source
Integrated structure-based protein interface prediction
BMC Bioinformatics, 2022 Background Identifying protein interfaces can inform how proteins interact with their binding partners, uncover the regulatory mechanisms that control biological functions and guide the development of novel therapeutic agents.
M. Walder +6 more
doaj +1 more source
Non-H3 CDR template selection in antibody modeling through machine learning [PDF]
PeerJ, 2019 Antibodies are proteins generated by the adaptive immune system to recognize and counteract a plethora of pathogens through specific binding. This adaptive binding is mediated by structural diversity in the six complementary determining region (CDR ...
Xiyao Long +2 more
doaj +2 more sources
FALCON2: a web server for high-quality prediction of protein tertiary structures
BMC Bioinformatics, 2021 Background Accurate prediction of protein tertiary structures is highly desired as the knowledge of protein structures provides invaluable insights into protein functions.
Lupeng Kong +4 more
doaj +1 more source
Predicting protein structure classes from function predictions [PDF]
Bioinformatics, 2004 Abstract Motivation: We introduce a new approach to using the information contained in sequence-to-function prediction data in order to recognize protein template classes, a critical step in predicting protein structure. The data on which our method is based comprise probabilities of functional categories; for given query sequences these
Sommer, I. +4 more
openaire +3 more sources
Single-sequence protein structure prediction using a language model and deep learning. [PDF]
Nat Biotechnol, 2022 Chowdhury R +11 more
europepmc +2 more sources
CirPred, the first structure modeling and linker design system for circularly permuted proteins
BMC Bioinformatics, 2021 Background This work aims to help develop new protein engineering techniques based on a structural rearrangement phenomenon called circular permutation (CP), equivalent to connecting the native termini of a protein followed by creating new termini at ...
Teng-Ruei Chen +4 more
doaj +1 more source
CASP11--An Evaluation of a Modular BCL::Fold-Based Protein Structure Prediction Pipeline. [PDF]
PLoS ONE, 2016 In silico prediction of a protein's tertiary structure remains an unsolved problem. The community-wide Critical Assessment of Protein Structure Prediction (CASP) experiment provides a double-blind study to evaluate improvements in protein structure ...
Axel W Fischer +7 more
doaj +1 more source
Jeeva: Enterprise Grid-enabled Web Portal for Protein Secondary Structure Prediction [PDF]
, 2008 This paper presents a Grid portal for protein secondary structure prediction developed by using services of Aneka, a .NET-based enterprise Grid technology.
Buyya, Rajkumar +3 more
core +3 more sources
Protein secondary structure: Entropy, correlations and prediction [PDF]
, 2003 Is protein secondary structure primarily determined by local interactions between residues closely spaced along the amino acid backbone, or by non-local tertiary interactions?
Brenner, Steven E., Crooks, Gavin E.
core +6 more sources