Split Deoxyribozyme for Selective Protein Translation
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Solution Overview
Problem
Current nucleic acid enzyme systems are ineffective in providing a rapid reaction or remedy to cellular malfunctions or genetic abnormalities, and they lack the ability to rapidly synthesize proteins in response to such issues.
Innovation Solution
A method involving a modified nucleic acid enzyme with a minimized 9DB1 deoxyribozyme core, split between nucleotides 35 and 39, and pendant assembly and binding arms, which binds to specific substrates to form a ligated product that enables selective translation of desired proteins, particularly in the presence of specific genetic sequences.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Measurement precision
If current nucleic acid enzyme systems are used for detection, then detection capability is achieved, but rapid response and protein synthesis capability are lacking
Solution Approach 1:
The patent combines detection and protein synthesis functions into a single nucleic acid enzyme system. The deoxyribozyme not only detects target sequences through hybridization but also catalyzes the ligation of mRNA substrates to produce functional proteins, merging sensing and therapeutic actions into one integrated system that responds rapidly to cellular abnormalities
Solution Approach 2:
The nucleic acid enzyme system is designed to perform multiple functions: it acts as a biosensor for detecting genetic abnormalities, a molecular switch for controlling protein synthesis, and a catalyst for ligating mRNA substrates. This multi-functionality allows a single system to address both detection and rapid protein production needs
2Productivity
If a minimized deoxyribozyme core is used, then catalytic efficiency is improved, but structural stability may be compromised
Solution Approach 1:
The deoxyribozyme is divided into two separate half-cores that are synthesized independently and then brought together through hybridization with complementary oligonucleotides. This segmentation allows each half-core to be optimized for catalytic efficiency while the hybridization process ensures proper assembly and structural stability of the complete active enzyme
Solution Approach 2:
Complementary oligonucleotides act as intermediaries that bridge the two half-cores. These intermediaries facilitate the assembly of the minimized deoxyribozyme components while maintaining structural integrity, allowing the system to achieve both catalytic efficiency and stability
3Adaptability or versatility
If multiple pendant arms are added to the deoxyribozyme, then substrate binding capability is enhanced, but device complexity increases
Solution Approach 1:
The system with multiple pendant arms is divided into two separate half-cores, each containing specific binding arms. This segmentation simplifies the synthesis and assembly process while maintaining the versatility of multiple substrate binding capabilities in the complete assembled enzyme
Solution Approach 2:
The pendant arms are designed with universal binding capabilities that can recognize different target sequences. By using a modular design where arms can be configured for different specificities, the system achieves high adaptability without proportionally increasing overall complexity
Applied Scientific Principles
This section explains which scientific principles are used to turn an abstract innovation direction into a practical engineering solution.
Function Achieved in This Case
This approach allows for the selective translation of proteins in response to targeted genetic sequences, enabling applications in cancer treatment, nucleic acid detection, and other biomedical uses by customizing the system to detect and respond to specific mutations or sequences, thereby providing a potential remedy for cellular malfunctions.
Implementation Method 1
binding a nucleic acid ligand to each of the two assembly arms to form an intermediate
Implementation Method 2
join the two half cores to form a core in order to form a ligated product
Implementation Method 3
General Deoxyribozyme-Catalyzed Synthesis of Native 3′-5′ RNA Linkages
Data Source
AI summary
There is a method for selective translation of a desired protein. The method has the steps of (a) providing a modified nucleic acid enzyme, including two half cores of a minimized 9DB1 deoxyribozyme split between nucleotides 35 and 39, wherein each half core includes a pendant assembly arm of a strand of nucleic acids extending therefrom and a separate, pendant binding arm extending therefrom of a strand of nucleic acids; (b) binding a nucleic acid ligand to each of the two assembly arms to form an intermediate; (c) binding the intermediate to (i) a first substrate of ribonucleic acid sequences capped at one end, (ii) a second substrate of a strand of ribonucleic acids having a 5′ triphosphate region at one end and a region of polyadenylated nucleotides at the other end and wherein the second substrate codes for the desired protein, (iii) join the two half cores to form a core in order to form a ligated product; and (d) allowing the translation for the desired protein to proceed from the ligated product. There is another method for selective translation of a desired protein. There is also a modified nucleic acid enzyme.