4.7 Article

Analysis of Structural Changes in the Protein near the Phosphorylation Site

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Review Multidisciplinary Sciences

Control of protein stability by post-translational modifications

Ji Min Lee et al.

Summary: Post-translational modifications (PTMs) on specific amino acids control the stability of target proteins. These PTM-regulated degrons act as signals for protein degradation or stabilization. This review summarizes the current knowledge of PTM-mediated protein stability regulation to enhance the identification of novel drug targets.

NATURE COMMUNICATIONS (2023)

Review Oncology

Post-Translational Modifications in Tumor-Associated Antigens as a Platform for Novel Immuno-Oncology Therapies

Anurag Kumar Srivastava et al.

Summary: Tumor-associated antigens (TAAs) are antigens present in tumor cells, but are also expressed in normal cells. This article provides an overview of how post-translational modifications in TAAs play a role in eliciting a specific immune response, making them targets for immuno-oncology therapy. Both preclinical and clinical studies will be discussed.

CANCERS (2023)

Review Medicine, Research & Experimental

Protein posttranslational modifications in health and diseases: Functions, regulatory mechanisms, and therapeutic implications

Qian Zhong et al.

Summary: Protein posttranslational modifications (PTMs) refer to the breaking or generation of covalent bonds on proteins, which expands protein diversity and contributes to organismal complexity. There are over 650 types of PTMs described to date, including phosphorylation, ubiquitination, glycosylation, methylation, SUMOylation, and various acylation modifications. PTMs can alter protein structure, localization, activity, stability, and interactions, ultimately impacting cell phenotypes and biological processes. Abnormal PTMs are closely related to various diseases. This review introduces the characteristics, regulatory mechanisms, and functions of PTMs in health and diseases, as well as the therapeutic potential in targeting PTMs and associated enzymes for disease treatment.

MEDCOMM (2023)

Article Biochemical Research Methods

MS-Based Proteomics of Body Fluids: The End of the Beginning

Jakob M. Bader et al.

MOLECULAR & CELLULAR PROTEOMICS (2023)

Article Biochemistry & Molecular Biology

dbPTM in 2022: an updated database for exploring regulatory networks and functional associations of protein post-translational modifications

Zhongyan Li et al.

Summary: This paper presents an update of dbPTM with over 2,777,000 PTM substrate sites, of which more than 2,235,000 entries are experimentally verified. The update includes 42 new modification types and collates regulatory information from databases into a protein-protein interaction network, shedding light on the association between PTMs and molecular functions.

NUCLEIC ACIDS RESEARCH (2022)

Review Biochemistry & Molecular Biology

Unconventional protein post-translational modifications: the helmsmen in breast cancer

Jiena Liu et al.

Summary: Breast cancer is the most common malignant tumor in women worldwide, and post-translational modifications (PTMs) of proteins play important roles in tumorigenesis and progression. However, the study of non-histone modifications, particularly those other than phosphorylation, has been relatively limited. This review aims to explore the functions and impact of these PTMs in breast cancer, and emphasizes the importance of developing novel therapeutic drugs targeting PTMs and biological markers for breast cancer detection.

CELL AND BIOSCIENCE (2022)

Editorial Material Immunology

Editorial: Post-translational modifications of proteins in cancer immunity and immunotherapy

Xiangpeng Dai et al.

FRONTIERS IN IMMUNOLOGY (2022)

Article Biochemistry & Molecular Biology

3β-Corner Stability by Comparative Molecular Dynamics Simulations

Vladimir R. Rudnev et al.

Summary: This study investigates the stability of 3 beta-corner super-secondary structures in an aqueous environment. The results show that these structures are stable and can act as the core or building block in protein folding.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2022)

Article Multidisciplinary Sciences

Loss of stability and unfolding cooperativity in hPGK1 upon gradual structural perturbation of its N-terminal domain hydrophobic core

Juan Luis Pacheco-Garcia et al.

Summary: This study investigates the effects of mutations on the folding landscape and interaction networks of phosphoglycerate kinase, a two-domain protein. The results show that these mutations lead to changes in the stability, folding cooperativity, and catalytic properties of the protein. The structural perturbation and destabilization of the interdomain interface caused by the mutations are closely correlated with these effects.

SCIENTIFIC REPORTS (2022)

Review Neurosciences

Deciphering the Role of Aberrant Protein Post-Translational Modification in the Pathology of Neurodegeneration

Sadat Shafi et al.

Summary: Neurodegenerative diseases are characterized by detrimental modifications in brain proteins, leading to aggregation, misfolding, and deposition. Post-Translational Modifications (PTM) play crucial roles in regulating protein characteristics, but the underlying mechanisms causing abnormal PTM remain poorly understood. Studying specific disease-associated protein PTM is crucial for evaluating protein functional alterations and their association with neurodegeneration.

CNS & NEUROLOGICAL DISORDERS-DRUG TARGETS (2021)

Review Cell Biology

Post-translational modifications: Regulators of neurodegenerative proteinopathies

Rohan Gupta et al.

Summary: Post-translational modifications play a crucial role in the pathogenesis of neurodegenerative diseases by regulating protein homeostasis and signaling cascades, leading to enhanced neuroprotection and potentially reversing misfolded protein accumulation.

AGEING RESEARCH REVIEWS (2021)

Review Neurosciences

Investigating Post-translational Modifications in Neuropsychiatric Disease: The Next Frontier in Human Post-mortem Brain Research

Melanie J. Grubisha et al.

Summary: Although gene expression and translation have been extensively studied in psychiatric disease, post-translational modifications (PTMs), as well as the use of mass spectrometry methods, have received less attention despite their importance in regulating neuronal and circuit function. Researchers should focus more on studying PTMs and their potential implications in neurological disorders.

FRONTIERS IN MOLECULAR NEUROSCIENCE (2021)

Review Mathematical & Computational Biology

Post-translational modifications in proteins: resources, tools and prediction methods

Shahin Ramazi et al.

Summary: Posttranslational modifications (PTMs) involve modifications to amino acid side chains in proteins after biosynthesis, affecting various aspects of protein functions. Disruptions in PTMs can lead to diseases, emphasizing the need for computational methods to predict PTMs. High-throughput experimental methods for PTM discovery are laborious, prompting the exploration of computational tools and databases to advance research in this area.

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2021)

Article Chemistry, Medicinal

Kinase Activation by Small Conformational Changes

Elias D. Lopez et al.

JOURNAL OF CHEMICAL INFORMATION AND MODELING (2020)

Article Biochemistry & Molecular Biology

Investigation of the impact of PTMs on the protein backbone conformation

Pierrick Craveur et al.

AMINO ACIDS (2019)

Article Biochemistry & Molecular Biology

15 years of PhosphoSitePlus®: integrating post-translationally modified sites, disease variants and isoforms

Peter V. Hornbeck et al.

NUCLEIC ACIDS RESEARCH (2019)

Review Biochemistry & Molecular Biology

Chemical biology approaches for studying posttranslational modifications

Aerin Yang et al.

RNA BIOLOGY (2018)

Editorial Material Biochemistry & Molecular Biology

The ABCs of PTMs

Karl W. Barber et al.

NATURE CHEMICAL BIOLOGY (2018)

Article Genetics & Heredity

PTMD: A Database of Human Disease-associated Post-translational Modifications

Haodong Xu et al.

GENOMICS PROTEOMICS & BIOINFORMATICS (2018)

Article Biochemistry & Molecular Biology

Post-Translational Modifications of Protein Backbones: Unique Functions, Mechanisms, and Challenges

Manuel M. Mueller

BIOCHEMISTRY (2018)

Article Biochemistry & Molecular Biology

Protein post-translational modifications: &ITIn silico&IT prediction tools and molecular modeling

Martina Audagnotto et al.

COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL (2017)

Article Multidisciplinary Sciences

In vivo regulation of glycogen synthase kinase 3β activity in neurons and brains

Ambika Krishnankutty et al.

SCIENTIFIC REPORTS (2017)

Review Pediatrics

Omics-based biomarkers: current status and potential use in the clinic

Hector Quezada et al.

BOLETIN MEDICO DEL HOSPITAL INFANTIL DE MEXICO (2017)

Article Biochemistry & Molecular Biology

Towards the computational design of protein post-translational regulation

Marta Strumillo et al.

BIOORGANIC & MEDICINAL CHEMISTRY (2015)

Article Biochemical Research Methods

Secondary structure assignment for conformationally irregular peptides: Comparison between DSSP, STRIDE and KAKSI

Yuan Zhang et al.

JOURNAL OF MOLECULAR GRAPHICS & MODELLING (2015)

Article Biochemical Research Methods

Post-translational modifications induce significant yet not extreme changes to protein structure

Fuxiao Xin et al.

BIOINFORMATICS (2012)

Review Immunology

Autoantigenesis: the evolution of protein modifications in autoimmune disease

Hester A. Doyle et al.

CURRENT OPINION IN IMMUNOLOGY (2012)

Article Biochemistry & Molecular Biology

Activation of Aurora-A Kinase by Protein Partner Binding and Phosphorylation Are Independent and Synergistic

Charlotte A. Dodson et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2012)

Review Cell Biology

Structural dynamics of muscle protein phosphorylation

Brett A. Colson et al.

JOURNAL OF MUSCLE RESEARCH AND CELL MOTILITY (2012)

Editorial Material Biochemistry & Molecular Biology

A New Twist on Clock Protein Phosphorylation: A Conformational Change Leads to Protein Degradation

Jerome S. Menet et al.

MOLECULAR CELL (2011)

Article Biochemical Research Methods

On the relationship between sequence and structure similarities in proteomics

Evgeny Krissinel

BIOINFORMATICS (2007)

Article Biochemical Research Methods

Conformational changes in protein loops and helices induced by post-translational phosphorylation

Eli S. Groban et al.

PLOS COMPUTATIONAL BIOLOGY (2006)

Article Biochemistry & Molecular Biology

X-ray structure of a domain-swapped dimer of Ser46-phosphorylated Crh from Bacillus subtilis

V Chaptal et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2006)

Article Biochemistry & Molecular Biology

Signal transduction: Response regulators on and off

J Stock et al.

CURRENT BIOLOGY (2000)