I-TASSER-MTD: a deep-learning-based platform for multi-domain protein structure and function prediction
Most proteins in cells are composed of multiple folding units (or domains) to perform
complex functions in a cooperative manner. Relative to the rapid progress in single-domain …
complex functions in a cooperative manner. Relative to the rapid progress in single-domain …
Toward the solution of the protein structure prediction problem
Since Anfinsen demonstrated that the information encoded in a protein's amino acid
sequence determines its structure in 1973, solving the protein structure prediction problem …
sequence determines its structure in 1973, solving the protein structure prediction problem …
Folding non-homologous proteins by coupling deep-learning contact maps with I-TASSER assembly simulations
Structure prediction for proteins lacking homologous templates in the Protein Data Bank
(PDB) remains a significant unsolved problem. We developed a protocol, CI-TASSER, to …
(PDB) remains a significant unsolved problem. We developed a protocol, CI-TASSER, to …
Deep learning techniques have significantly impacted protein structure prediction and protein design
HighlightsThe recent use of deep learning has dramatically improved the accuracy of non-
homologous protein structure modeling.Protein structure prediction problem was largely …
homologous protein structure modeling.Protein structure prediction problem was largely …
Six reference-quality genomes reveal evolution of bat adaptations
Bats possess extraordinary adaptations, including flight, echolocation, extreme longevity
and unique immunity. High-quality genomes are crucial for understanding the molecular …
and unique immunity. High-quality genomes are crucial for understanding the molecular …
DeepMSA: constructing deep multiple sequence alignment to improve contact prediction and fold-recognition for distant-homology proteins
Motivation The success of genome sequencing techniques has resulted in rapid explosion
of protein sequences. Collections of multiple homologous sequences can provide critical …
of protein sequences. Collections of multiple homologous sequences can provide critical …
Integrating deep learning, threading alignments, and a multi‐MSA strategy for high‐quality protein monomer and complex structure prediction in CASP15
W Zheng, Q Wuyun, PL Freddolino… - … Structure, Function, and …, 2023 - Wiley Online Library
We report the results of the “UM‐TBM” and “Zheng” groups in CASP15 for protein monomer
and complex structure prediction. These prediction sets were obtained using the D‐I …
and complex structure prediction. These prediction sets were obtained using the D‐I …
Generation of a live attenuated influenza A vaccine by proteolysis targeting
The usefulness of live attenuated virus vaccines has been limited by suboptimal
immunogenicity, safety concerns or cumbersome manufacturing processes and techniques …
immunogenicity, safety concerns or cumbersome manufacturing processes and techniques …
Computational methods and tools in antimicrobial peptide research
PGA Aronica, LM Reid, N Desai, J Li… - Journal of Chemical …, 2021 - ACS Publications
The evolution of antibiotic-resistant bacteria is an ongoing and troubling development that
has increased the number of diseases and infections that risk going untreated. There is an …
has increased the number of diseases and infections that risk going untreated. There is an …
CR-I-TASSER: assemble protein structures from cryo-EM density maps using deep convolutional neural networks
X Zhang, B Zhang, PL Freddolino, Y Zhang - Nature methods, 2022 - nature.com
Cryo-electron microscopy (cryo-EM) has become a leading approach for protein structure
determination, but it remains challenging to accurately model atomic structures with cryo-EM …
determination, but it remains challenging to accurately model atomic structures with cryo-EM …