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Biomolecules, Volume 13, Issue 7

July 2023 - 144 articles

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Cover Story: In this article, we provide a comprehensive analysis of heme-binding motifs (HBMs) in mammalian proteins, which can help in deciphering the recognition mechanisms for the initial association of heme to target proteins and the constitution of the resulting complexes. The pivotal role of Cys-Pro dipeptide motifs is highlighted together with a comparative insight into the sequences and structural anomalies observed in all types of HBMs. A general consensus sequence depending on the coordination site Cys, His, or Tyr, which can be used to predict HBMs more accurately using machine learning algorithms, can be established. To further fortify the studies involving structural pattern recognition, the availability and quality of protein 3D structures is paramount, despite the usefulness of AlphaFold. View this paper

Articles (144)

  • Article
  • Open Access
4,049 Views
23 Pages
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Glaucoma-Associated CDR1 Peptide Promotes RGC Survival in Retinal Explants through Molecular Interaction with Acidic Leucine Rich Nuclear Phosphoprotein 32A (ANP32A)

  • Carsten Schmelter,
  • Kristian Nzogang Fomo,
  • Alina Brueck,
  • Natarajan Perumal,
  • Sascha D. Markowitsch,
  • Gokul Govind,
  • Thomas Speck,
  • Norbert Pfeiffer and
  • Franz H. Grus
Biomolecules2023, 13(7), 1161;https://doi.org/10.3390/biom13071161

22 July 2023

Glaucoma is a complex, multifactorial optic neuropathy mainly characterized by the progressive loss of retinal ganglion cells (RGCs) and their axons, resulting in a decline of visual function. The pathogenic molecular mechanism of glaucoma is still n...

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  • Article
  • Open Access
21 Citations
3,653 Views
17 Pages
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Differential Participation of Plant Ribosomal Proteins from the Small Ribosomal Subunit in Protein Translation under Stress

  • Zainab Fakih,
  • Mélodie B. Plourde and
  • Hugo Germain
Biomolecules2023, 13(7), 1160;https://doi.org/10.3390/biom13071160

21 July 2023

Upon exposure to biotic and abiotic stress, plants have developed strategies to adapt to the challenges imposed by these unfavorable conditions. The energetically demanding translation process is one of the main elements regulated to reduce energy co...

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  • Review
  • Open Access
10 Citations
4,253 Views
19 Pages
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Recognition of Arboviruses by the Mosquito Immune System

  • Brian C. Prince,
  • Elizabeth Walsh,
  • Tran Zen B. Torres and
  • Claudia Rückert
Biomolecules2023, 13(7), 1159;https://doi.org/10.3390/biom13071159

21 July 2023

Arthropod-borne viruses (arboviruses) pose a significant threat to both human and animal health worldwide. These viruses are transmitted through the bites of mosquitoes, ticks, sandflies, or biting midges to humans or animals. In humans, arbovirus in...

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  • Review
  • Open Access
22 Citations
3,045 Views
21 Pages
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Nanoparticle-Mediated Delivery of Flavonoids: Impact on Proinflammatory Cytokine Production: A Systematic Review

  • Jazmín Cristina Stevens Barrón,
  • Christian Chapa González,
  • Emilio Álvarez Parrilla and
  • Laura Alejandra De la Rosa
Biomolecules2023, 13(7), 1158;https://doi.org/10.3390/biom13071158

21 July 2023

Flavonoids are a diverse group of plant-derived compounds that have been shown to have various health benefits, including anti-inflammatory effects. However, their use in the treatment of inflammatory diseases has been limited due to their low bioava...

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  • Open Access
8 Citations
3,289 Views
15 Pages
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Chemical Composition of the Essential Oils of Three Popular Sideritis Species Cultivated in Greece Using GC-MS Analysis

  • Eleftheria H. Kaparakou,
  • Dimitra Daferera,
  • Charalabos D. Kanakis,
  • Efstathia Skotti,
  • Maroula G. Kokotou and
  • Petros A. Tarantilis
Biomolecules2023, 13(7), 1157;https://doi.org/10.3390/biom13071157

20 July 2023

(1) Background: The essential oils (EOs) of Sideritis L. have attracted great interest due to their pharmacological activities and potential applications in the cosmetic and perfume industries. The aim of this work was to study the EO chemical compos...

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  • Open Access
17 Citations
3,655 Views
14 Pages
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Purification and Immobilization of Superoxide Dismutase Obtained from Saccharomyces cerevisiae TBRC657 on Bacterial Cellulose and Its Protective Effect against Oxidative Damage in Fibroblasts

  • Phitsanu Pinmanee,
  • Kamonwan Sompinit,
  • Angkana Jantimaporn,
  • Mattaka Khongkow,
  • Dietmar Haltrich,
  • Thidarat Nimchua and
  • Prakit Sukyai
Biomolecules2023, 13(7), 1156;https://doi.org/10.3390/biom13071156

20 July 2023

Superoxide dismutase (SOD) is an essential enzyme that eliminates harmful reactive oxygen species (ROS) generating inside living cells. Due to its efficacities, SOD is widely applied in many applications. In this study, the purification of SOD produc...

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  • Open Access
19 Citations
3,547 Views
19 Pages
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Adenosine/β-Cyclodextrin-Based Metal–Organic Frameworks as a Potential Material for Cancer Therapy

  • Rajaram Rajamohan,
  • Sekar Ashokkumar,
  • Mani Murali Krishnan,
  • Kuppusamy Murugavel,
  • Moorthiraman Murugan and
  • Yong Rok Lee
Biomolecules2023, 13(7), 1154;https://doi.org/10.3390/biom13071154

20 July 2023

Recently, researchers have employed metal–organic frameworks (MOFs) for loading pharmaceutically important substances. MOFs are a novel class of porous class of materials formed by the self-assembly of organic ligands and metal ions, creating a...

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  • Open Access
9 Citations
3,037 Views
17 Pages
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Goldilocks Dilemma: LPS Works Both as the Initial Target and a Barrier for the Antimicrobial Action of Cationic AMPs on E. coli

  • Martin Jakubec,
  • Fredrik G. Rylandsholm,
  • Philip Rainsford,
  • Mitchell Silk,
  • Maxim Bril’kov,
  • Tone Kristoffersen,
  • Eric Juskewitz,
  • Johanna U. Ericson and
  • John Sigurd M. Svendsen
Biomolecules2023, 13(7), 1155;https://doi.org/10.3390/biom13071155

20 July 2023

Antimicrobial peptides (AMPs) are generally membrane-active compounds that physically disrupt bacterial membranes. Despite extensive research, the precise mode of action of AMPs is still a topic of great debate. This work demonstrates that the initia...

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  • Open Access
23 Citations
3,495 Views
14 Pages
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Graph Random Forest: A Graph Embedded Algorithm for Identifying Highly Connected Important Features

  • Leqi Tian,
  • Wenbin Wu and
  • Tianwei Yu
Biomolecules2023, 13(7), 1153;https://doi.org/10.3390/biom13071153

20 July 2023

Random Forest (RF) is a widely used machine learning method with good performance on classification and regression tasks. It works well under low sample size situations, which benefits applications in the field of biology. For example, gene expressio...

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