In the Beginning: Let Hydration Be Coded in Proteins for Manifestation and Modulation by Salts and Adenosine Triphosphate DOI Open Access
Jianxing Song

International Journal of Molecular Sciences, Год журнала: 2024, Номер 25(23), С. 12817 - 12817

Опубликована: Ноя. 28, 2024

Water exists in the beginning and hydrates all matter. Life emerged water, requiring three essential components compartmentalized spaces: (1) universal energy sources driving biochemical reactions processes, (2) molecules that store, encode, transmit information, (3) functional players carrying out biological activities structural organization. Phosphorus has been selected to create adenosine triphosphate (ATP) as currency, nucleic acids for genetic information storage transmission, phospholipids cellular compartmentalization. Meanwhile, proteins composed of 20 α-amino have evolved into extremely diverse three-dimensional forms, including folded domains, intrinsically disordered regions (IDRs), membrane-bound fulfill roles. This review examines several unique findings: insoluble proteins, membrane can become solubilized unsalted while cytosolic acquire membrane-inserting capacity; Hofmeister salts affect protein stability by targeting hydration; ATP biphasically modulates liquid-liquid phase separation (LLPS) IDRs; (4) antagonizes crowding-induced destabilization; (5) triphosphates highest efficiency inducing folding. These findings imply following: hydration might be encoded sequences, central manifestation modulation structures, dynamics, functionalities; phosphate anions a capacity enhancing μs-ms likely through ionic state exchanges shell, underpinning ATP, polyphosphate, molecular chaperones folding; linking with adenosine, acquired spacetime-specifically release modulate hydration, thus possessing myriad energy-dependent -independent functions. In light success AlphaFolds accurately predicting structures neural networks store distributed patterns across nodes, fundamental question arises: Could also handle similarly but more intricate coding, topological architectures, spacetime-specific supply membrane-compartmentalized aqueous environments?

Язык: Английский

Elucidating ATP’s Role as Solubilizer of Biomolecular Aggregate DOI Creative Commons

Susmita Sarkar,

Saurabh Gupta,

Chiranjit Mahato

и другие.

eLife, Год журнала: 2024, Номер 13

Опубликована: Июль 10, 2024

Proteins occurring in significantly high concentrations cellular environments (over 100 mg/ml) and functioning crowded cytoplasm, often face the prodigious challenges of aggregation which are pathological hallmark aging critically responsible for a wide spectrum rising human diseases. Here, we combine joint-venture complementary wet-lab experiment molecular simulation to discern potential ability adenosine triphosphate (ATP) as solubilizer protein aggregates. We show that ATP prevents both condensation aggregation-prone intrinsically disordered Aβ40 promotes dissolution preformed Computer links ATP’s solubilizing role its modulate protein’s structural plasticity by unwinding conformation. is positioned superior biological aggregates over traditional chemical hydrotropes, potentially holding promises therapeutic interventions protein-aggregation-related Going beyond conventional activity energy currency, amphiphilic nature enables protein-specific interaction would enhance efficiency processes.

Язык: Английский

Процитировано

3
Dynamic structure of the cytoplasm DOI Creative Commons
Hyo-Jun Kim, Morgan Delarue

Current Opinion in Cell Biology, Год журнала: 2025, Номер 94, С. 102507 - 102507

Опубликована: Апрель 6, 2025

The cytoplasm is a dense and complex milieu in which plethora of biochemical reactions occur. Its structure not understood so far, albeit being central to cellular functioning. In this review, we highlight novel perspective the physical properties are regulated space time actively contribute function. Furthermore, underscore recent findings that dynamic formation local assemblies within cytoplasm, such as condensates polysomes, serves key regulator mesoscale cytoplasmic dynamics.

Язык: Английский

Процитировано

0
In the Beginning: Let Hydration Be Coded in Proteins for Manifestation and Modulation by Salts and Adenosine Triphosphate DOI Open Access
Jianxing Song

International Journal of Molecular Sciences, Год журнала: 2024, Номер 25(23), С. 12817 - 12817

Опубликована: Ноя. 28, 2024

Water exists in the beginning and hydrates all matter. Life emerged water, requiring three essential components compartmentalized spaces: (1) universal energy sources driving biochemical reactions processes, (2) molecules that store, encode, transmit information, (3) functional players carrying out biological activities structural organization. Phosphorus has been selected to create adenosine triphosphate (ATP) as currency, nucleic acids for genetic information storage transmission, phospholipids cellular compartmentalization. Meanwhile, proteins composed of 20 α-amino have evolved into extremely diverse three-dimensional forms, including folded domains, intrinsically disordered regions (IDRs), membrane-bound fulfill roles. This review examines several unique findings: insoluble proteins, membrane can become solubilized unsalted while cytosolic acquire membrane-inserting capacity; Hofmeister salts affect protein stability by targeting hydration; ATP biphasically modulates liquid-liquid phase separation (LLPS) IDRs; (4) antagonizes crowding-induced destabilization; (5) triphosphates highest efficiency inducing folding. These findings imply following: hydration might be encoded sequences, central manifestation modulation structures, dynamics, functionalities; phosphate anions a capacity enhancing μs-ms likely through ionic state exchanges shell, underpinning ATP, polyphosphate, molecular chaperones folding; linking with adenosine, acquired spacetime-specifically release modulate hydration, thus possessing myriad energy-dependent -independent functions. In light success AlphaFolds accurately predicting structures neural networks store distributed patterns across nodes, fundamental question arises: Could also handle similarly but more intricate coding, topological architectures, spacetime-specific supply membrane-compartmentalized aqueous environments?

Язык: Английский

Процитировано

1