Conformational analysis of membrane-proximal segments of GDAP1 in a lipidic environment using synchrotron radiation suggests a mode of assembly at the mitochondrial outer membrane
Biophys Chem. 2023 Sep 25;303:107113. doi: 10.1016/j.bpc.2023.107113. Online ahead of print.ABSTRACTThe mitochondrial outer membrane creates a diffusion barrier between the cytosol and the mitochondrial intermembrane space, allowing the exchange of metabolic products, important for efficient mitochondrial function in neurons. The ganglioside-induced differentiation-associated protein 1 (GDAP1) is a mitochondrial outer membrane protein with a critical role in mitochondrial dynamics and metabolic balance in neurons. Missense mutations in the GDAP1 gene are linked to the most common human peripheral neuropathy, Charcot-Marie-...
Source: Biophysical Chemistry - October 1, 2023 Category: Chemistry Authors: Aleksi Sutinen Nykola C Jones S øren Vrønning Hoffmann Salla Ruskamo Petri Kursula Source Type: research
Conformational analysis of membrane-proximal segments of GDAP1 in a lipidic environment using synchrotron radiation suggests a mode of assembly at the mitochondrial outer membrane
Biophys Chem. 2023 Sep 25;303:107113. doi: 10.1016/j.bpc.2023.107113. Online ahead of print.ABSTRACTThe mitochondrial outer membrane creates a diffusion barrier between the cytosol and the mitochondrial intermembrane space, allowing the exchange of metabolic products, important for efficient mitochondrial function in neurons. The ganglioside-induced differentiation-associated protein 1 (GDAP1) is a mitochondrial outer membrane protein with a critical role in mitochondrial dynamics and metabolic balance in neurons. Missense mutations in the GDAP1 gene are linked to the most common human peripheral neuropathy, Charcot-Marie-...
Source: Biophysical Chemistry - October 1, 2023 Category: Chemistry Authors: Aleksi Sutinen Nykola C Jones S øren Vrønning Hoffmann Salla Ruskamo Petri Kursula Source Type: research
Conformational analysis of membrane-proximal segments of GDAP1 in a lipidic environment using synchrotron radiation suggests a mode of assembly at the mitochondrial outer membrane
Biophys Chem. 2023 Sep 25;303:107113. doi: 10.1016/j.bpc.2023.107113. Online ahead of print.ABSTRACTThe mitochondrial outer membrane creates a diffusion barrier between the cytosol and the mitochondrial intermembrane space, allowing the exchange of metabolic products, important for efficient mitochondrial function in neurons. The ganglioside-induced differentiation-associated protein 1 (GDAP1) is a mitochondrial outer membrane protein with a critical role in mitochondrial dynamics and metabolic balance in neurons. Missense mutations in the GDAP1 gene are linked to the most common human peripheral neuropathy, Charcot-Marie-...
Source: Biophysical Chemistry - October 1, 2023 Category: Chemistry Authors: Aleksi Sutinen Nykola C Jones S øren Vrønning Hoffmann Salla Ruskamo Petri Kursula Source Type: research
Conformational analysis of membrane-proximal segments of GDAP1 in a lipidic environment using synchrotron radiation suggests a mode of assembly at the mitochondrial outer membrane
Biophys Chem. 2023 Sep 25;303:107113. doi: 10.1016/j.bpc.2023.107113. Online ahead of print.ABSTRACTThe mitochondrial outer membrane creates a diffusion barrier between the cytosol and the mitochondrial intermembrane space, allowing the exchange of metabolic products, important for efficient mitochondrial function in neurons. The ganglioside-induced differentiation-associated protein 1 (GDAP1) is a mitochondrial outer membrane protein with a critical role in mitochondrial dynamics and metabolic balance in neurons. Missense mutations in the GDAP1 gene are linked to the most common human peripheral neuropathy, Charcot-Marie-...
Source: Biophysical Chemistry - October 1, 2023 Category: Chemistry Authors: Aleksi Sutinen Nykola C Jones S øren Vrønning Hoffmann Salla Ruskamo Petri Kursula Source Type: research
Conformational analysis of membrane-proximal segments of GDAP1 in a lipidic environment using synchrotron radiation suggests a mode of assembly at the mitochondrial outer membrane
Biophys Chem. 2023 Sep 25;303:107113. doi: 10.1016/j.bpc.2023.107113. Online ahead of print.ABSTRACTThe mitochondrial outer membrane creates a diffusion barrier between the cytosol and the mitochondrial intermembrane space, allowing the exchange of metabolic products, important for efficient mitochondrial function in neurons. The ganglioside-induced differentiation-associated protein 1 (GDAP1) is a mitochondrial outer membrane protein with a critical role in mitochondrial dynamics and metabolic balance in neurons. Missense mutations in the GDAP1 gene are linked to the most common human peripheral neuropathy, Charcot-Marie-...
Source: Biophysical Chemistry - October 1, 2023 Category: Chemistry Authors: Aleksi Sutinen Nykola C Jones S øren Vrønning Hoffmann Salla Ruskamo Petri Kursula Source Type: research
Analysis on the in-silico ensemble methods for 3D modelling of ssDNA aptamers
This study identified that the Guanine residues are crucial in the aptamer 3D structure prediction and in algorithms that generate secondary structures. Further, the GC content (<50%), GC bond percentage (<60%), and G:C ratio (<1.12) act as limiting factors in predicting the 2D structures of aptamers. There were variations in the 2D structure predictions by the web applications, even though all these applications were a combination of the MFE, MEA, and McCaskill functions. Processing these structures through the web applications described above produced best-fit 3D structures with the experimental one, thus offeri...
Source: Biophysical Chemistry - September 29, 2023 Category: Chemistry Authors: Vinay Bachu Kangkana Barman Pranab Goswami Source Type: research
Analysis on the in-silico ensemble methods for 3D modelling of ssDNA aptamers
This study identified that the Guanine residues are crucial in the aptamer 3D structure prediction and in algorithms that generate secondary structures. Further, the GC content (<50%), GC bond percentage (<60%), and G:C ratio (<1.12) act as limiting factors in predicting the 2D structures of aptamers. There were variations in the 2D structure predictions by the web applications, even though all these applications were a combination of the MFE, MEA, and McCaskill functions. Processing these structures through the web applications described above produced best-fit 3D structures with the experimental one, thus offeri...
Source: Biophysical Chemistry - September 29, 2023 Category: Chemistry Authors: Vinay Bachu Kangkana Barman Pranab Goswami Source Type: research
Elucidation of benzene sulfonamide derivative binding at a novel interprotomer pocket of wild type and mutants of coxsackievirus B3 viral capsid using molecular dynamics simulations and density functional theory
Biophys Chem. 2023 Sep 18;302:107109. doi: 10.1016/j.bpc.2023.107109. Online ahead of print.ABSTRACTCoxsackievirus B3 (CVB3), a serotype of enterovirus B, causes hand, foot, and mouth disease; pericarditis; and myocarditis. A benzene sulfonamide derivative is reported to have inhibitory activity against wild-type (WT) and eight mutants of the viral capsid of CVB3. Furthermore, the crystal structure of the complex formed between WT viral capsid of CVB3 and the derivative revealed binding at a novel druggable interprotomer pocket. We investigated how the compound could be a potent inhibitor of both WT and some mutants of CVB...
Source: Biophysical Chemistry - September 25, 2023 Category: Chemistry Authors: Pavinee Prapassornwattana Supa Hannongbua Patchreenart Saparpakorn Source Type: research
Elucidation of benzene sulfonamide derivative binding at a novel interprotomer pocket of wild type and mutants of coxsackievirus B3 viral capsid using molecular dynamics simulations and density functional theory
Biophys Chem. 2023 Sep 18;302:107109. doi: 10.1016/j.bpc.2023.107109. Online ahead of print.ABSTRACTCoxsackievirus B3 (CVB3), a serotype of enterovirus B, causes hand, foot, and mouth disease; pericarditis; and myocarditis. A benzene sulfonamide derivative is reported to have inhibitory activity against wild-type (WT) and eight mutants of the viral capsid of CVB3. Furthermore, the crystal structure of the complex formed between WT viral capsid of CVB3 and the derivative revealed binding at a novel druggable interprotomer pocket. We investigated how the compound could be a potent inhibitor of both WT and some mutants of CVB...
Source: Biophysical Chemistry - September 25, 2023 Category: Chemistry Authors: Pavinee Prapassornwattana Supa Hannongbua Patchreenart Saparpakorn Source Type: research
Elucidation of benzene sulfonamide derivative binding at a novel interprotomer pocket of wild type and mutants of coxsackievirus B3 viral capsid using molecular dynamics simulations and density functional theory
Biophys Chem. 2023 Sep 18;302:107109. doi: 10.1016/j.bpc.2023.107109. Online ahead of print.ABSTRACTCoxsackievirus B3 (CVB3), a serotype of enterovirus B, causes hand, foot, and mouth disease; pericarditis; and myocarditis. A benzene sulfonamide derivative is reported to have inhibitory activity against wild-type (WT) and eight mutants of the viral capsid of CVB3. Furthermore, the crystal structure of the complex formed between WT viral capsid of CVB3 and the derivative revealed binding at a novel druggable interprotomer pocket. We investigated how the compound could be a potent inhibitor of both WT and some mutants of CVB...
Source: Biophysical Chemistry - September 25, 2023 Category: Chemistry Authors: Pavinee Prapassornwattana Supa Hannongbua Patchreenart Saparpakorn Source Type: research
Elucidation of benzene sulfonamide derivative binding at a novel interprotomer pocket of wild type and mutants of coxsackievirus B3 viral capsid using molecular dynamics simulations and density functional theory
Biophys Chem. 2023 Sep 18;302:107109. doi: 10.1016/j.bpc.2023.107109. Online ahead of print.ABSTRACTCoxsackievirus B3 (CVB3), a serotype of enterovirus B, causes hand, foot, and mouth disease; pericarditis; and myocarditis. A benzene sulfonamide derivative is reported to have inhibitory activity against wild-type (WT) and eight mutants of the viral capsid of CVB3. Furthermore, the crystal structure of the complex formed between WT viral capsid of CVB3 and the derivative revealed binding at a novel druggable interprotomer pocket. We investigated how the compound could be a potent inhibitor of both WT and some mutants of CVB...
Source: Biophysical Chemistry - September 25, 2023 Category: Chemistry Authors: Pavinee Prapassornwattana Supa Hannongbua Patchreenart Saparpakorn Source Type: research
Serum albumin mitigated perfluorooctane sulfonate-induced cytotoxicity by affecting the cellular responses
Biophys Chem. 2023 Sep 18;302:107110. doi: 10.1016/j.bpc.2023.107110. Online ahead of print.ABSTRACTDuring the wide applications of perfluorinated materials such as perfluorooctane sulfonate (PFOS) in commercial and industrial products, the potential toxicity of these engineered compounds has attracted more and more attention. As a typical environmental pollutant, PFOS could preferentially bind to albumin protein in vivo. However, the role of protein-PFOS interactions in the cytotoxicity of PFOS was not stressed enough. Herein, we investigated the interactions of PFOS with human serum albumin (HSA, the most abundant protei...
Source: Biophysical Chemistry - September 23, 2023 Category: Chemistry Authors: Ya-Di Yang Jia-Xin Li Naihao Lu Rong Tian Source Type: research
Serum albumin mitigated perfluorooctane sulfonate-induced cytotoxicity by affecting the cellular responses
Biophys Chem. 2023 Sep 18;302:107110. doi: 10.1016/j.bpc.2023.107110. Online ahead of print.ABSTRACTDuring the wide applications of perfluorinated materials such as perfluorooctane sulfonate (PFOS) in commercial and industrial products, the potential toxicity of these engineered compounds has attracted more and more attention. As a typical environmental pollutant, PFOS could preferentially bind to albumin protein in vivo. However, the role of protein-PFOS interactions in the cytotoxicity of PFOS was not stressed enough. Herein, we investigated the interactions of PFOS with human serum albumin (HSA, the most abundant protei...
Source: Biophysical Chemistry - September 23, 2023 Category: Chemistry Authors: Ya-Di Yang Jia-Xin Li Naihao Lu Rong Tian Source Type: research
Effect of cycloastragenol and punicalagin on Prp(106-126) and A β(25-35) oligomerization and fibrillizaton
In this study, we have examined the effect of two NPs, cycloastragenol (CAG) and punicalagin (PCG), on the metal-induced oligomerization and aggregation of Aβ25-35 and PrP106-126 peptides. The peptide aggregation and inhibitory properties of both NPs were examined by the thioflavin-T (ThT) assay, MALDI-TOF, circular dichroism (CD) spectroscopy, and transmission electron microscopy (TEM). Among the two NPs, PCG significantly binds to the peptides, chelates metal ions (Cu2+ and Zn2+), inhibits peptide aggregation, substantially reduces oxidative stress, and controls the production of reactive oxygen species (ROS). Both NPs ...
Source: Biophysical Chemistry - September 21, 2023 Category: Chemistry Authors: Govinda R Navale Rahul Chauhan Saakshi Saini Partha Roy Kaushik Ghosh Source Type: research
Effect of cycloastragenol and punicalagin on Prp(106-126) and A β(25-35) oligomerization and fibrillizaton
In this study, we have examined the effect of two NPs, cycloastragenol (CAG) and punicalagin (PCG), on the metal-induced oligomerization and aggregation of Aβ25-35 and PrP106-126 peptides. The peptide aggregation and inhibitory properties of both NPs were examined by the thioflavin-T (ThT) assay, MALDI-TOF, circular dichroism (CD) spectroscopy, and transmission electron microscopy (TEM). Among the two NPs, PCG significantly binds to the peptides, chelates metal ions (Cu2+ and Zn2+), inhibits peptide aggregation, substantially reduces oxidative stress, and controls the production of reactive oxygen species (ROS). Both NPs ...
Source: Biophysical Chemistry - September 21, 2023 Category: Chemistry Authors: Govinda R Navale Rahul Chauhan Saakshi Saini Partha Roy Kaushik Ghosh Source Type: research
