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Generative Adversarial Learning of Protein Tertiary Structures [PDF]

Molecules, 2021
Protein molecules are inherently dynamic and modulate their interactions with different molecular partners by accessing different tertiary structures under physiological conditions. Elucidating such structures remains challenging.
Taseef Rahman, Yuanqi Du, Liang Zhao, Amarda Shehu   +3 more
doaj   +3 more sources

Advances in protein tertiary structure prediction

Biomedical and Biotechnology Research Journal, 2018
Proteins are composed of linear chains of amino acids that form a unique three-dimensional structure in their native environment. Such native structure favors the proteins to perform their biochemical activity.
Tayebeh Farhadi
doaj   +2 more sources

Recent Progress of Protein Tertiary Structure Prediction

Molecules
The prediction of three-dimensional (3D) protein structure from amino acid sequences has stood as a significant challenge in computational and structural bioinformatics for decades.
Qiqige Wuyun, Yihan Chen, Yifeng Shen, Yang Cao, Gang Hu, Wei Cui, Jianzhao Gao, Wei Zheng   +7 more
doaj   +3 more sources

Molecular and in silico analysis of the coat protein of hibiscus chlorotic ringspot virus isolates [PDF]

Journal of Crop Protection, 2023
Hibiscus chlorotic ringspot virus (HCRSV), genus Betacarmovirus, family Tombusviridae, is a common pathogen of hibiscus plants in tropical and subtropical regions. During 2020-2021, leaf samples of Chinese hibiscus Hibiscus rosa-sinensis L. with mottling
Nadia Mosharaf, Saeid Tabein, Mehdi Mehrabi-Koushki, Seyed Ali Hemmati, Abozar Ghorbani   +4 more
doaj   +1 more source

Protein Macrocyclization for Tertiary Structure Stabilization [PDF]

ChemBioChem, 2021
AbstractProteins possess unique molecular recognition capabilities and enzymatic activities, features that are usually tied to a particular tertiary structure. To make use of proteins for biotechnological and biomedical purposes, it is often required to enforce their tertiary structure in order to ensure sufficient stability under the conditions ...
Anissa Haim, Saskia Neubacher, Tom N. Grossmann   +2 more
openaire   +3 more sources

Data Size and Quality Matter: Generating Physically-Realistic Distance Maps of Protein Tertiary Structures

Biomolecules, 2022
With the debut of AlphaFold2, we now can get a highly-accurate view of a reasonable equilibrium tertiary structure of a protein molecule. Yet, a single-structure view is insufficient and does not account for the high structural plasticity of protein ...
Fardina Fathmiul Alam, Amarda Shehu
doaj   +1 more source

Image-based effective feature generation for protein structural class and ligand binding prediction [PDF]

PeerJ Computer Science, 2020
Proteins are the building blocks of all cells in both human and all living creatures of the world. Most of the work in the living organism is performed by proteins.
Nafees Sadique, Al Amin Neaz Ahmed, Md Tajul Islam, Md. Nawshad Pervage, Swakkhar Shatabda   +4 more
doaj   +2 more sources

Improving AlphaFold2-based protein tertiary structure prediction with MULTICOM in CASP15

Communications Chemistry, 2023
Since the 14th Critical Assessment of Techniques for Protein Structure Prediction (CASP14), AlphaFold2 has become the standard method for protein tertiary structure prediction. One remaining challenge is to further improve its prediction.
Jian Liu, Zhiye Guo, Tianqi Wu, Raj S. Roy, Chen Chen, Jianlin Cheng   +5 more
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Reducing Ensembles of Protein Tertiary Structures Generated De Novo via Clustering

Molecules, 2020
Controlling the quality of tertiary structures computed for a protein molecule remains a central challenge in de-novo protein structure prediction. The rule of thumb is to generate as many structures as can be afforded, effectively acknowledging that ...
Ahmed Bin Zaman, Parastoo Kamranfar, Carlotta Domeniconi, Amarda Shehu   +3 more
doaj   +1 more source

I 3D3P: an Intelligent 3D Protein Prediction Platform

Proceedings of the International Conference on Applied Innovations in IT, 2022
Proteins are macromolecules consisting of a chain of smaller molecules (i.e. amino acids) known as monomers. Three levels of protein structure are distinguished: primary, secondary and tertiary.
Mohamed Hachem Kermani, Zizette Boufaida
doaj   +1 more source