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相关概念视频

From DNA to Protein03:06

From DNA to Protein

19.1K
The flow of genetic information in cells from DNA to mRNA to protein is described by the central dogma, which states that genes specify the sequence of mRNAs, which in turn specify the sequence of amino acids making up all proteins. The decoding of one molecule to another is performed by specific proteins and RNAs. Because the information stored in DNA is so central to cellular function, it makes intuitive sense that the cell would make mRNA copies of this information for protein synthesis...
19.1K
Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

7.4K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
7.4K
Leaky Scanning02:28

Leaky Scanning

5.2K
During most eukaryotic translation processes, the small 40S ribosome subunit scans an mRNA from its 5' end until it encounters the first start AUG codon. The large 60S ribosomal subunit then joins the smaller one to initiate protein synthesis. The location of the translation initiation is largely determined by the nucleotides near the start codon as there may be multiple translation initiation sites present on the mRNA.  Marilyn Kozak discovered that the sequence RCCAUGG (where R...
5.2K
DNA as a Genetic Template02:05

DNA as a Genetic Template

22.7K
Two structural features of the DNA molecule provide a basis for the mechanisms of heredity: the four nucleotide bases and its double-stranded nature. The Watson-Crick model of double-helical DNA structure, proposed in 1952, drew heavily upon the X-ray crystallography work of researchers Rosalind Franklin and Maurice Wilkins. Watson, Crick, and Wilkins jointly received the Nobel Prize in Physiology or Medicine for their work in 1962. Franklin was, controversially, excluded from the prize for...
22.7K
The Central Dogma01:20

The Central Dogma

28.1K
The central dogma explains the flow of genetic information from DNA nucleotides to the amino acid sequence of proteins.
RNA is the Missing Link Between DNA and Proteins
In the early 1900s, scientists discovered that DNA stores all the information needed for cellular functions and that proteins perform most of these functions. However, the mechanisms of converting genetic information into functional proteins remained unknown for many years. Initially, it was believed that a single gene is...
28.1K
Conserved Binding Sites01:49

Conserved Binding Sites

4.4K
Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally...
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相关实验视频

Updated: Sep 11, 2025

Identifying Amino Acid Overproducers Using Rare-Codon-Rich Markers
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Identifying Amino Acid Overproducers Using Rare-Codon-Rich Markers

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蛋白质语言模型揭示了同义选择的进化约束.

Helen Sakharova1, Liana F Lareau1,2,3

  • 1Center for Computational Biology, University of California, Berkeley, CA 94720, USA.

bioRxiv : the preprint server for biology
|August 13, 2025
PubMed
概括

进化压力塑造了密码子的使用,影响了翻译速度和蛋白质的产生. 这项研究揭示了共翻译定位和准确性,而不是折叠,是酵母菌中编码子选择约束的关键驱动因素.

科学领域:

  • 分子生物学分子生物学
  • 进化生物学 进化生物学
  • 基因组学就是基因组学.

背景情况:

  • 遗传密码显示了对同义代码的偏好,这是由进化压力驱动的.
  • 核糖体翻译速度因不同编码子而异,影响蛋白质的产生.
  • 对编码子选择的进化约束的分子基础在很大程度上是未知的.

研究的目的:

  • 为了研究酵母中同义代选择的进化约束.
  • 为了确定编码子使用偏差的分子驱动因素.
  • 使用蛋白质语言模型从蛋白质序列中预测密码子选择.

主要方法:

  • 利用蛋白质语言模型从氨基酸序列中预测密码子选择.
  • 关于蛋白质位置和结构的综合隐性信息.
  • 在酵母中进行了同义代码子替代的全基因组屏幕.

主要成果:

  • 确定了几百种同名变体影响酵母健康.
  • 证明大多数职位对增长没有可衡量的影响.
  • 展示了共翻译本地化和翻译准确性是选择性压力的主要驱动因素.

结论:

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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

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Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
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Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

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相关实验视频

Last Updated: Sep 11, 2025

Identifying Amino Acid Overproducers Using Rare-Codon-Rich Markers
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Identifying Amino Acid Overproducers Using Rare-Codon-Rich Markers

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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

Published on: July 25, 2013

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Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
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Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

Published on: July 14, 2015

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  • 仅仅从蛋白质序列来预测子的约束.
  • 同转化局部化和转化准确性是对代选择的关键进化压力.
  • 通过结合进化和实验方法揭示了对子选择的不被赞赏的生物约束.