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人類遺傳病中的RNA結(jié)合蛋白

 GCTA 2022-06-11 發(fā)布于貴州


RNA-binding proteins in human genetic disease.


|核心內(nèi)容:

RNA結(jié)合蛋白(RNAbindingProteins,RBPs)是基因表達(dá)的關(guān)鍵效應(yīng)分子,因此它們的功能障礙是許多疾病的根源。

RNA結(jié)合蛋白可以識(shí)別數(shù)百個(gè)轉(zhuǎn)錄本,并形成廣泛的調(diào)控網(wǎng)絡(luò),幫助維持細(xì)胞內(nèi)環(huán)境的穩(wěn)定。(蛋白質(zhì)的合成需要mRNA作為模板,還需要相關(guān)蛋白作為“生產(chǎn)機(jī)器/工廠”)

Fig. 1 | RnA-binding proteins control RnA life

Nuclear (transcription, splicing, capping, polyadenylation[,p?li,?dini'lei??n]) and cytoplasmic (transport, localization, translation, degradation) steps of mRNA metabolism are depicted. 

For a more detailed overview of the diversity of ribonucleoprotein particles (RNPs) present in the cell, see ref. 2 . 

RNA Pol II, RNA polymerase II; RBP, RNA-binding protein.


對(duì)系統(tǒng)范圍內(nèi)所有RNA結(jié)合蛋白的無偏識(shí)別使識(shí)別的RNA結(jié)合蛋白的數(shù)量增加到四位數(shù)范圍(上萬個(gè)),并揭示了新的范式:從結(jié)構(gòu)紊亂的RNA結(jié)合區(qū)在無膜細(xì)胞器的形成中起廣泛作用(相變)中間代謝和RNA調(diào)節(jié)之間毫無懷疑和潛在的普遍聯(lián)系。

隨著對(duì)RBP功能分子機(jī)制的日益詳細(xì)的了解,這些洞察正在促進(jìn)治療惡性腫瘤的新療法的發(fā)展。

在這里,我們提供了涉及人類遺傳疾病的RNA結(jié)合蛋白的概述,包括孟德爾和軀體疾病,并討論了該領(lǐng)域新出現(xiàn)的方面,重點(diǎn)是疾病的分子機(jī)制和治療干預(yù)。

Fig. 2 |High-throughput approaches to identify RnA-binding proteins and their binding sites on RnA. (all about method and end with MS identification)

 Fig. 3 |Human RnA-binding proteins involved in Mendelian(孟德爾的) and somatic genetic  diseases.

a|RNA結(jié)合蛋白的檢測(cè)頻率

b|人RBP超集。在RIC研究中至少有2次hit的RBPs(2,650)與以前注釋的RBPs的匯編相結(jié)合。

c|人RBPs和RNA結(jié)合域)。幾乎一半的蛋白質(zhì)計(jì)算預(yù)測(cè)含有RBD顯示RNA結(jié)合活性的實(shí)驗(yàn),并存在于我們的人RBP超集.

用從開放目標(biāo)平臺(tái)中提取的孟德爾和軀體疾病關(guān)聯(lián)注釋d,e|疾病相關(guān)的人類RBPs(d部分)和轉(zhuǎn)錄因子(T FS)(e部分)

f |疾病相關(guān)RBPs的GO生物過程富集分析

g,h疾病相關(guān)RBPs|治療區(qū)域。 對(duì)于RBPs、TFs和所有其他蛋白質(zhì)的選定治療區(qū)域,總結(jié)了OpenTarget中關(guān)聯(lián)評(píng)分>0.2的疾病突變。 同時(shí)也是TFs的RBPs在兩組中都被計(jì)算在內(nèi)。 每個(gè)類別的蛋白質(zhì)數(shù)量的累積關(guān)聯(lián)分?jǐn)?shù)被標(biāo)準(zhǔn)化。 有關(guān)方法的補(bǔ)充資料可在http://www.hentze./public/hRBPdiseases.查閱

 Fig. 4 | Potential effects of mutations in RBP genes. 

Only mutations in the transcribed  regions of genes have been considered. 

Mutations in non-coding regions (that is,  untranslated regions (UTRs) and introns) or coding exons (open reading frames (ORFs)) of  the pre-mRNA may lead to altered mRNA levels, defective intracellular localization of the  transcript or alternative transcript isoforms

For example, mutations in introns can lead  to intron retention and subsequent nonsense-mediated decay of the transcript (top).  

Mutations in the coding region may elicit various effects depending on the type and  location of the mutation. 

Nonsense mutations lead to protein truncation and defective  activity.(pre-happened termination)

Missense mutations affecting sites of post-translational modification (PTM) may  lead to altered signal perception. 

perception: Perception is the recognition of things using your senses, especially the sense of sight.

Mutations in RNA-binding domains (RBDs) or in  protein–protein interaction (PPI) domains lead to defects in ribonucleoprotein particle  (RNP) assembly and function. 

Mutations in low-complexity (LC) and disordered regions  may lead to changes in the solubility of RNA-binding proteins (RBPs), ultimately resulting  in accumulation of toxic aggregates. 

For those RBPs that display dual roles as enzymes,  mutations in the enzymatic (Enz) domain may lead to defective catalysis (bottom). 

The  consequences of mutations are not mutually exclusive. 

For instance, mutations in PTMs  may not only lead to altered signal perception but also modify the interaction of the RBP  with partners and its localization, stability or solubility

 Fig. 5 | Location and networks of disease-associated mutations.

 Fig. 6 | RnA-binding proteins and phase transitions. 

a | Physical states of ribonucleoprotein particle (RNP) assemblies.  Soluble RNPs can undergo initial de-mixing, resulting in liquid-like condensates that may further transit into more viscous  hydrogel-like states and solid-like pathological aggregates. Dynamic RNP assemblies within the cell are thought to  interchange between the first two states, whereas the last state is largely irreversible and toxic. 

核糖核蛋白顆粒(RNP)組裝的物理狀態(tài)。可溶性RNPs可以經(jīng)歷初始的去混合,導(dǎo)致液體狀凝聚,可能進(jìn)一步過渡到更粘稠的水凝膠樣狀態(tài)和固體狀病理聚集體。細(xì)胞內(nèi)的動(dòng)態(tài)RNP組件被認(rèn)為是在前兩種狀態(tài)之間交換的,而最后一種狀態(tài)在很大程度上是不可逆和有毒害的。

b | Principles of FUS (fused  in sarcoma) liquid de-mixing. Domain organization of FUS (top). Hotspots for mutations causing the neurodegenerative  disorders amyotrophic lateral sclerosis and frontotemporal dementia are indicated. Contacts between tyrosine residues  in the prion-like domain (PrLD) and arginine residues in the region rich in arginine and glycine residues (RGG) promote  liquid–liquid phase separation, with mutations promoting aberrant transitions to toxic aggregates (bottom). 

FUS(融合在肉瘤中)液體去混合的原理。域組織的FUS(TOP)。提示引起神經(jīng)退行性疾病、肌萎縮側(cè)索硬化癥和額顳葉癡呆的突變熱點(diǎn)。在富含精氨酸和甘氨酸殘基(RGG)的區(qū)域,朊蛋白樣結(jié)構(gòu)域(PrLD)中的酪氨酸殘基與精氨酸殘基之間的接觸促進(jìn)了液液相分離,突變促進(jìn)了向毒性聚集體(底部)的異常轉(zhuǎn)變)。 

NES, nuclear  export signal; NLS, nuclear localization signal; RRM, RNA recognition motif; ZF, zinc finger.

 Fig. 7 | Mechanisms of disease in fragile X syndrome and FXtAs.
原文摘要:


RNA-binding proteins (RBPs) are critical effectors of gene expression, and as such their malfunction underlies the origin of many diseases. 

RBPs can recognize hundreds of transcripts and form extensive regulatory networks that help to maintain cell homeostasis. (How many types of mRNA are produced in the cell?--Classical molecular biology believes that a gene can only express one kind of protein. The human genome contains about 20,000 genes, but there are more than 50,000 kinds of proteins or more. It is obvious that some genes can express at least more than two kinds of proteins, so as to satisfy the complex functional needs of the body. Until now, scientists have not agreed on the exact amount of protein in the body; And not all genes generate mRNA, but it is clear that not all mRNA utilize the same “protein-ribosome machine”,even though the ribosome may be identical;and its possible that different function of proteins are produced by a unique translation machine, hence some factors are specially responsible for pluripotency/differentiation/development proteins translation.

System-wide unbiased identification of RBPs has increased the number of recognized RBPs into the four-digit range and revealed new paradigms: 

from the prevalence of structurally disordered RNA-binding regions with roles in the formation of membraneless organelles to unsuspected and potentially pervasive connections between intermediary metabolism and RNA regulation. 

Together with an increasingly detailed understanding of molecular mechanisms of RBP function, these insights are facilitating the development of new therapies to treat malignancies. 

Here, we provide an overview of RBPs involved in human genetic disorders, both Mendelian and somatic, and discuss emerging aspects in the field with emphasis on molecular mechanisms of disease and therapeutic interventions.




參考文獻(xiàn):https:///10.1038/s41576-020-00302-y

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