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Secondary Structure Analysis for Nucleic Acid Drugs

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CD Formulation specializes in offering our clients accurate analysis of nucleic acid secondary structures. Using cutting-edge methods like circular dichroism, we precisely assess how nucleic acids absorb circularly polarized light to glean detailed structural insights.

Why Conduct Secondary Structure Analysis of Nucleic Acid Drugs?

In biotechnology, scrutinizing nucleic acid drugs' secondary structures is vital as they affect physical/chemical properties and biological roles. DNA's helix ensures accurate gene replication and transfer, while the diverse forms of RNA enable it to modulate genetic activity and facilitate protein creation. Understanding these structures aids researchers in deciphering their functional mechanisms, refining sequence designs, and predicting molecular interactions, thus underpinning the development of nucleic acid drugs with essential scientific insights.

Explore Our Nucleic Acid Drug Secondary Structure Analysis Services

Structure Prediction Services

Items	Descriptions
Sequence or Structure Conservation Analysis	By comparing the sequence and structural conservation among different nucleic acid molecules, tools are used for alignment followed by structure prediction and sequence matching to identify conserved structural features of nucleic acid drugs.
Experiment-Driven Data Analysis	Using high-throughput experimental techniques such as deep sequencing, we acquire vast nucleic acid sequence data. Bioinformatics methods are then employed for data processing and feature description, enabling more accurate detection of novel structural features in nucleic acid drugs.

Thermodynamic Analysis

Thermodynamic analysis is critical in secondary structure research of nucleic acid drugs. By simulating various physiological and experimental conditions, we can accurately assess the thermodynamic stability of structures. This includes evaluating the melting temperature and melting curves of secondary structures at different temperatures and salt concentrations to reveal the thermal stability of nucleic acid molecules. Additionally, using high-performance computational technology for detailed polymorphism analysis can predict the conformational distribution, transition barriers, and conversion rates of nucleic acids in various biological environments.

Conformational Simulation Services

Our conformational simulation services offer an advanced and comprehensive toolkit focused on the detailed modeling and analysis of molecular and material conformations. We incorporate the latest techniques in quantum mechanical calculations, molecular dynamics, and machine learning, ensuring precise predictions of molecular behavior across different scales. Our platform supports highly customizable simulation processes, allowing users to define conditions and parameters to meet specific research needs.

Workflow of Nucleic Acid Drug Secondary Structure Analysis Services

Fig.1 Nucleic acid secondary structure analysis flow diagram. Fig.1 Flow chart of nucleic acid purity secondary structure analysis. (CD Formulation)

Sample Preparation - Extract and purify the nucleic acid samples to ensure high purity, preventing interference in subsequent analysis.
Sequence Prediction - Utilize bioinformatics tools to predict potential secondary structures of the nucleic acids.
Spectral Analysis - Employ circular dichroism and UV spectroscopy to gather spectral data, determining structural stability and characteristics.
Data Validation - Confirm the purity and integrity of the nucleic acids through HPLC and MS analysis, identifying any chemical modifications or degradation products.
Result Interpretation - Integrate all data to interpret the secondary structure features of the nucleic acids, providing detailed support for further research.

Our Technology Platforms

Platforms	Descriptions
CD Platform	Using circular dichroism, we gather insights into nucleic acids' secondary structures by observing their differential absorption of circularly polarized light, allowing us to pinpoint the arrangement and ratio of double and single strands.
UV Spectroscopy Platform	This method examines nucleic acids' melting curves, offering insights into secondary structure stability. It assesses absorbance changes across temperatures to identify the transition temperature, revealing thermal stability.
HPLC Platform	Essential for analyzing and purifying nucleic acid samples, HPLC separates nucleic acids by molecular weight or structure, yielding high-purity samples for analysis. It ensures quality by assessing polymer purity and binding states.
MS Platform	Mass spectrometry accurately detects the mass information of nucleic acids, aiding in the identification of any chemical modifications or degradation products. Combined with other techniques, MS provides critical data for structure confirmation and molecular composition, supporting more comprehensive structural characterization.

Our Advantages of Secondary Structure Analysis Services

Deliver precise sequence and structural information to aid drug development.
Identify key binding sites between nucleic acids and proteins.
Deploy advanced technologies to uncover secondary structure features.
Predict drug stability across various environmental conditions.
Facilitate optimization and enhancement of new drug structures and functions.
Strengthen quality control to ensure consistent production.

Publication Data

Technology: Nucleic acid secondary structure analysis by CD technology

Journal: Structural genomics: general applications

IF: 6.6

Published: 2021

Results:

Beyond its standard double helix form, DNA can adopt various secondary structures through inter- and intramolecular hydrogen bonds. These structures go through multiple, complex, and interchangeable conformations, with transient intermediates that conventional ensemble methods find hard to detect. However, single-molecule FRET (sm-FRET) microspectroscopy effectively addresses this by observing biological processes at rapid rates, allowing real-time tracking of molecular transitions. This technique directly measures rate constants for each transition, including those of fleeting intermediates not easily detected in bulk populations.

Fig.2 Diagrammatic depiction of the elements of secondary structure. Fig.2 Schematic representation of the secondary structure components. (Micsonai A, et al., 2021)

For more details about our nucleic acid secondary structure analysis services or any related collaboration inquiries, please feel free to contact our team. Our expert team will provide you with professional support and guidance to assist you in your research and development journey.

References

Micsonai A, Bulyáki É, Kardos J. BeStSel: from secondary structure analysis to protein fold prediction by circular dichroism spectroscopy. Structural genomics: general applications. 2021: 175-189.

How It Works

STEP 1

Submit a service request describing your specific research or development need.

STEP 2

We'll email you to provide your quote and confirm order details if applicable.

STEP 3

Execute the project with real-time communication, and deliver the final report promptly.

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