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Structure of proteins: Evolution with unsolved mysteries
Publication date: Available online 20 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Arun UpadhyayAbstractEvolution of macromolecules could be considered as a milestone in the history of life. Nucleic acids are the long stretches of nucleotides that contain all the possible codes and information of life. On the other hand, proteins are their actual translated outcomes, or reflections of modifications in their structure that have occurred at a slow, but steady rate over the years. Over the years of research, biophysicists, biochemists, molecular and structural biologists have unfurled several layer...
Source: Progress in Biophysics and Molecular Biology - April 22, 2019 Category: Molecular Biology Source Type: research

Understanding the structure and role of DNA-PK in NHEJ: How X-ray diffraction and cryo-EM contribute in complementary ways
Publication date: Available online 20 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Qian Wu, Shikang Liang, Takashi Ochi, Dimitri Y. Chirgadze, Juha T. Huiskonen, Tom L. BlundellAbstractDNA double-strand breaks (DSBs), generated by ionizing radiation, reactive oxygen species and DNA replication across nicks, are the most severe DNA damage in eukaryotic cells. Non-Homologous End Joining repairs DNA double-strand breaks directly without a template and so can take place at any point in the cell cycle. Ku70/80 heterodimers rapidly assemble around broken DNA ends, allowing DNA-PKcs, the catalytic subu...
Source: Progress in Biophysics and Molecular Biology - April 22, 2019 Category: Molecular Biology Source Type: research

Molecular impacts of photobiomodulation on bone regeneration: A systematic review
Publication date: Available online 17 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Sepanta Hosseinpour, Reza Fekrazad, Praveen R. Arany, Qingsong YeAbstractPhotobiomodulation (PBM) encompasses a light application aimed to increase healing process, tissue regeneration, and reducing inflammation and pain. PBM is specifically aimed to modify the expression of cellular molecules; however, PBM impacts on cellular and molecular pathways especially in bone regenerative medicine have been investigated in scattered different studies. The purpose of the current study is to systematically review evidence o...
Source: Progress in Biophysics and Molecular Biology - April 17, 2019 Category: Molecular Biology Source Type: research

They are not alone - Cell System and Bone Disease
Publication date: Available online 13 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Bin Tang (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - April 15, 2019 Category: Molecular Biology Source Type: research

The mTOR pathway: Implications for DNA replication
Publication date: Available online 13 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Noa Lamm, Samuel Rogers, Anthony J. CesareAbstractDNA replication plays a central role in genome health. Deleterious alteration of replication dynamics, or “replication stress”, is a key driver of genome instability and oncogenesis. The replication stress response is regulated by the ATR kinase, which functions to mitigate replication abnormalities through coordinated efforts that arrest the cell cycle and repair damaged replication forks. mTOR kinase regulates signaling networks that control cell growth and m...
Source: Progress in Biophysics and Molecular Biology - April 13, 2019 Category: Molecular Biology Source Type: research

The theory of interceptor-protector action of DNA binding drugs
Publication date: Available online 13 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Maxim P. Evstigneev, Anatoly S. Buchelnikov, Vladislav P. EvstigneevAbstractThe review discusses the theory of interceptor-protector action (the IPA theory) as the new self-consistent biophysical theory establishing a quantitative interrelation between parameters measured in independent physico-chemical experiment and in vitro biological experiment for the class of DNA binding drugs. The elements of the theory provide complete algorithm of analysis, which may potentially be applied to any system of DNA targeting a...
Source: Progress in Biophysics and Molecular Biology - April 13, 2019 Category: Molecular Biology Source Type: research

Physics meets medicine - at the heart of active matter -
Publication date: Available online 10 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Marco Tarantola, Tim Meyer, Christoph F. Schmidt, Wolfram Hubertus Zimmermann (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - April 11, 2019 Category: Molecular Biology Source Type: research

Cell theory, intrinsically disordered proteins, and the physics of the origin of life
Publication date: Available online 6 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): V.V. MatveevAbstractCell theory, as formulated by Theodor Schwann in 1839, introduced the idea that the cell is the main structural unit of living nature. Later, in solving the problem of cell multiplication, Rudolf Virchow expanded the cell theory with a postulate: all cells only arise from pre-existing cells. But what did the very first cell arise from? This paper proposes extending the Virchow’s law by the assumption that between the nonliving protocell and the first living cell the continuity of fundamental p...
Source: Progress in Biophysics and Molecular Biology - April 6, 2019 Category: Molecular Biology Source Type: research

Editorial
Publication date: Available online 3 April 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Paul T. Matsudaira, Chandra S. Verma (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - April 3, 2019 Category: Molecular Biology Source Type: research

Structure and mechanism of the Red recombination system of bacteriophage λ
Publication date: Available online 21 March 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Brian J. Caldwell, Charles E. BellAbstractWhile much of this volume focuses on mammalian DNA repair systems that are directly involved in genome stability and cancer, it is important to still be mindful of model systems from prokaryotes. Herein we review the Red recombination system of bacteriophage λ, which consists of an exonuclease for resecting dsDNA ends, and a single-strand annealing protein (SSAP) for binding the resulting 3′-overhang and annealing it to a complementary strand. The genetics and biochemis...
Source: Progress in Biophysics and Molecular Biology - March 28, 2019 Category: Molecular Biology Source Type: research

Genome-wide identification and expression analysis of dormancy-associated gene 1/auxin repressed protein (DRM1/ARP) gene family in Glycine max
Publication date: Available online 23 March 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Gilza Barcelos de Souza, Tiago Antônio de Oliveira Mendes, Patrícia Pereira Fontes, Vanessa de Almeida Barros, Amanda Bonoto Gonçalves, Thiago de Freitas Ferreira, Maximiller Dal-Bianco Lamas Costa, Murilo Siqueira Alves, Luciano Gomes FiettoAbstractDormancy-Associated gene 1/Auxin Repressed protein (DRM1/ARP) genes are responsive to hormones involved in defense response to biotic stress, such as salicylic acid (SA) and methyl jasmonate (MeJA), as well as to hormones that regulate plant growth and development, ...
Source: Progress in Biophysics and Molecular Biology - March 24, 2019 Category: Molecular Biology Source Type: research

Editorial Board
Publication date: March 2019Source: Progress in Biophysics and Molecular Biology, Volume 142Author(s): (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - March 21, 2019 Category: Molecular Biology Source Type: research

Structure and mechanism of the red recombination system of bacteriophage lambda
Publication date: Available online 21 March 2019Source: Progress in Biophysics and Molecular BiologyAuthor(s): Brian J. Caldwell, Charles E. BellAbstractWhile much of this volume focuses on mammalian DNA repair systems that are directly involved in genome instability and cancer, it is important to still be mindful of model systems from prokaryotes. Herein we review the Red recombination system of bacteriophage λ, which consists of an exonuclease for resecting dsDNA ends, and a single-strand annealing protein (SSAP) for binding the resulting 3′-overhang and annealing it to a complementary strand. The genetics and biochem...
Source: Progress in Biophysics and Molecular Biology - March 21, 2019 Category: Molecular Biology Source Type: research

Reply to commentary by R Duggleby (2019)
Publication date: January 2019Source: Progress in Biophysics and Molecular Biology, Volume 141Author(s): Edward J. Steele, Shirwan Al-Mufti, Kenneth A. Augustyn, Rohana Chandrajith, John P. Coghlan, S.G. Coulson, Sudipto Ghosh, Mark Gillman, Reginald M. Gorczynski, Brig Klyce, Godfrey Louis, Kithsiri Mahanama, Keith R. Oliver, Julio Padron, Jiangwen Qu, John A. Schuster, W.E. Smith, Duane P. Snyder, Julian A. Steele, Brent J. Stewart (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - March 21, 2019 Category: Molecular Biology Source Type: research

Commentary: Numerical analysis of Steele et al.: Cause of cambrian explosion - terrestrial or cosmic?
Publication date: January 2019Source: Progress in Biophysics and Molecular Biology, Volume 141Author(s): Ronald G. Duggleby (Source: Progress in Biophysics and Molecular Biology)
Source: Progress in Biophysics and Molecular Biology - March 21, 2019 Category: Molecular Biology Source Type: research