Visualizing the complexity of proteins in living cells with genetic code expansion

Aphicho, Kanokpol; Kittipanukul, Narongyot; Uttamapinant, Chayasith

doi:10.1016/j.cbpa.2021.102108

“…[68] Expansion of the genetic code, in which a single amino acid is replaced by a non-natural amino acid, is also a way to create new proteins or to label proteins without disturbing their structure and thus to better visualize them in living cells. [71] One of the pioneering experiments in this field was the use of engineered tRNAs capable of incorporating non-canonical amino acids using four-letter codons. [72,73] Subsequently, it was created a semisynthetic organism that can stably store genetic information using a six-letter, three-base-pair alphabet [74] and it was demonstrated for the first time that synthetic organisms can use nonnatural nucleotides for DNA replication, RNA transcription, and protein translation in vivo.…”

Section: The Cao (Codon-altered Organisms)mentioning

confidence: 99%

The Lithbea Domain

Gómez‐Márquez

2024

Advanced Biology

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The tree of life is the evolutionary metaphor for the past and present connections of all cellular organisms. Today, to speak of biodiversity is not only to speak of archaea, bacteria, and eukaryotes, but they should also consider the “new biodiversity” that includes viruses and synthetic organisms, which represent the new forms of life created in laboratories. There is even a third group of artificial entities that, although not living systems, pretend to imitate the living. To embrace and organize all this new biodiversity, I propose the creation of a new domain, with the name Lithbea (from life‐on‐the‐border entites) The criteria for inclusion as members of Lithbea are: i) the acellular nature of the living system, ii) its origin in laboratory manipulation, iii) showing new biological traits, iv) the presence of exogenous genetic elements, v) artificial or inorganic nature. Within Lithbea there are two subdomains: Virworld (from virus world) which includes all viruses, regarded as lifeless living systems, and classified according to the International Committee on Taxonomy of Viruses (ICTV), and ii) Humade (from human‐made) which includes all synthetic organisms and artificial entities. The relationships of Lithbea members to the three classical woesian domains and their implications are briefly discussed.

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Sirtuin‐Derived Covalent Binder for the Selective Recognition of Protein Crotonylation

Ji

¹

,

Sun

²

,

Chen

³

et al. 2022

Angewandte Chemie

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Lysine crotonylation (Kcr) is increasingly recognized as a key protein post-translational modification. However, selective detection and enrichment of crotonylated proteins remains a challenging task. Herein we present a covalent binder for the selective recognition of protein crotonylation. Based on proximityinduced crosslinking, a bacterial sirtuin (CobB) was remodeled with genetically installed thiol-bearing noncanonical amino acids at the Kcr-interacting site, which subsequently could react with Kcr sites in a unique NAD + -dependent manner. The covalent binder has been used to selectively recognize crotonylated proteins in extracted histone samples and in fixed cells.

show abstract

Sirtuin‐Derived Covalent Binder for the Selective Recognition of Protein Crotonylation

Ji

¹

,

Sun

²

,

Chen

³

et al. 2022

View full text Add to dashboard Cite

Lysine crotonylation (Kcr) is increasingly recognized as a key protein post-translational modification. However, selective detection and enrichment of crotonylated proteins remains a challenging task. Herein we present a covalent binder for the selective recognition of protein crotonylation. Based on proximityinduced crosslinking, a bacterial sirtuin (CobB) was remodeled with genetically installed thiol-bearing noncanonical amino acids at the Kcr-interacting site, which subsequently could react with Kcr sites in a unique NAD + -dependent manner. The covalent binder has been used to selectively recognize crotonylated proteins in extracted histone samples and in fixed cells.

show abstract

Visualizing the complexity of proteins in living cells with genetic code expansion

Cited by 5 publications

References 75 publications

The Lithbea Domain

The Lithbea Domain

Sirtuin‐Derived Covalent Binder for the Selective Recognition of Protein Crotonylation

Sirtuin‐Derived Covalent Binder for the Selective Recognition of Protein Crotonylation

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