AI Article Synopsis
- Artificial intelligence has greatly advanced protein structure prediction, notably through DeepMind's AlphaFold2, which can accurately predict 3D structures of proteins comparable to experimental methods.
- This progress allows for a deeper understanding of proteins, enhancing drug discovery and various biological applications.
- However, challenges remain in areas like predicting complex protein structures and their folding pathways, highlighting the need for continued improvements in the field.
Article Abstract
Artificial intelligence has made significant advances in the field of protein structure prediction in recent years. In particular, DeepMind's end-to-end model, AlphaFold2, has demonstrated the capability to predict three-dimensional structures of numerous unknown proteins with accuracy levels comparable to those of experimental methods. This breakthrough has opened up new possibilities for understanding protein structure and function as well as accelerating drug discovery and other applications in the field of biology and medicine. Despite the remarkable achievements of artificial intelligence in the field, there are still some challenges and limitations. In this Review, we discuss the recent progress and some of the challenges in protein structure prediction. These challenges include predicting multidomain protein structures, protein complex structures, multiple conformational states of proteins, and protein folding pathways. Furthermore, we highlight directions in which further improvements can be conducted.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.1021/acs.jcim.3c01324 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Dichotomitin promotes osteoblast differentiation and improves osteoporosis by inhibiting oxidative stress.
J Orthop Surg Res
January 2025
Research Institute of Orthopedics, The Affiliated Jiangnan Hospital of Zhejiang Chinese Medical University, Hangzhou, China.
Objective: Osteoporosis is a systemic disease with high morbidity and significant adverse effects. Increasing evidence supports the close relationship between oxidative stress and osteoporosis, suggesting that treatment with antioxidants may be a viable approach. This study evaluated the antioxidant properties of dichotomitin (DH) and its potential protective effects against osteoporosis.
View Article and Find Full Text PDFA bipartite bacterial virulence factor targets the complement system and neutrophil activation.
EMBO J
January 2025
Philips Institute for Oral Health Research, School of Dentistry, Virginia Commonwealth University, Richmond, VA, USA.
The complement system and neutrophils constitute the two main pillars of the host innate immune defense against infection by bacterial pathogens. Here, we identify T-Mac, a novel virulence factor of the periodontal pathogen Treponema denticola that allows bacteria to evade both defense systems. We show that T-Mac is expressed as a pre-protein that is cleaved into two functional units.
View Article and Find Full Text PDFLactiplantibacillus plantarum P101 Alleviates Liver Toxicity of Combined Microplastics and Di-(2-Ethylhexyl) Phthalate via Regulating Gut Microbiota.
Probiotics Antimicrob Proteins
January 2025
State Key Laboratory of Food Science and Resources, Nanchang University, 235 Nanjing East Road, Nanchang, 330047, China.
Microplastics (MPs) and Di-(2-ethylhexyl) phthalate (DEHP) as emerging contaminants, have caused increasing concern due to their co-exposure risks and toxicities to humans. Lactic acid bacteria have been demonstrated to play a significant role in the mitigation of organismal damage. Probiotic intervention is widely recognized as a safe and healthy therapeutic strategy for targeting the mitigation of organic damage.
View Article and Find Full Text PDFInterfacial water confers transcription factors with dinucleotide specificity.
Nat Struct Mol Biol
January 2025
Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.
Transcription factors (TFs) recognize specific bases within their DNA-binding motifs, with each base contributing nearly independently to total binding energy. However, the energetic contributions of particular dinucleotides can deviate strongly from the additive approximation, indicating that some TFs can specifically recognize DNA dinucleotides. Here we solved high-resolution (<1 Å) structures of MYF5 and BARHL2 bound to DNAs containing sets of dinucleotides that have different affinities to the proteins.
View Article and Find Full Text PDFCanagliflozin alleviates acetaminophen-induced renal and hepatic injury in mice by modulating the p-GSK3β/Fyn-kinase/Nrf-2 and p-AMPK-α/STAT-3/SOCS-3 pathways.
Sci Rep
January 2025
Department of Pharmacology and Toxicology, Faculty of Pharmacy, Ahram Canadian University, Giza, Egypt.
Unlabelled: Despite the fact that canagliflozin (Cana), a sodium-glucose cotransporter 2 inhibitor, is an anti-diabetic medication with additional effects on the kidney, there is limited experimental data to deliberate its hepato-reno-protective potentiality. Acetaminophen (APAP) overdose remains one of the prominent contributors to hepato-renal damage.
Aim: Our study assessed the novel effect of Cana against APAP-induced toxicities.
Want AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!