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Enzyme Activity Measurement for Isomerases

Creative Enzymes has established itself as a leading provider of enzyme activity measurement services, offering reliable, reproducible, and high-quality assays. Among all enzyme classes, isomerases (EC 5) play a particularly important role in biocatalysis, industrial production, and biomedical research. Our tailored isomerase activity measurement services are designed to deliver precise results for both routine samples and unique research applications.

Background on Isomerases and Their Enzymatic Activity

Isomerases are a major class of enzymes that catalyze structural rearrangements of molecules, either by intramolecular bond changes or conformational shifts. Representing nearly 4% of the reactions in central metabolism, isomerases play essential roles in carbohydrate metabolism, terpenoid/polyketide pathways, and beyond.

Isomerases are a major class of enzymes that catalyze nearly 4% of the reactions in central metabolismFigure 1. Biological importance of isomerases. Core metabolic pathways (the isomerase reactions are emboldened in black). Carbohydrate and terpenoid/polyketide metabolic pathways are highlighted in blue and green squares. (Cuesta et al., 2014)

EC Subclasses of Isomerases

Isomerases are classified based on the chemistry of the reactions they catalyze. There are six subclasses, 17 sub-subclasses, and 231 serial numbers, which correspond to nearly 300 biochemical reactions. The six subclasses are:

  • EC 5.1 Racemases and Epimerases
  • EC 5.2 Cis-trans-isomerases
  • EC 5.3 Intramolecular Oxidoreductases
  • EC 5.4 Intramolecular Transferases
  • EC 5.5 Intramolecular Lyases
  • EC 5.99 Miscellaneous Isomerases

EC subclasses of isomerasesFigure 2. EC classification of isomerases. (Cuesta et al., 2014)

Applications

  • Metabolic Engineering (e.g., xylose isomerase in biofuels and food industries)
  • Organic Synthesis (e.g., racemases for stereochemically pure amino acids)
  • Pharmaceutical Research (e.g., antimicrobial targets, neuropathological therapies)
  • Enzyme Design and Protein Engineering (modifying catalytic activity)

Methods for Isomerase Activity Assay

Accurate and efficient measurement of isomerase activity is crucial for understanding their functional significance. Common methods for measuring isomerase activity include:

  • Optical and Spectrophotometric Assays: These methods measure the change in absorbance or fluorescence as a result of the enzymatic reaction.
  • Protease-Coupled Assays: In these assays, the isomerase activity is measured indirectly by coupling the reaction to a protease that cleaves the substrate after the isomerization step.
  • High-Throughput Assays: These assays are designed for rapid screening of enzyme activity and can be used to identify new mutants or inhibitors.
  • Microfluidic Calorimetry: This technique measures the heat generated during the enzymatic reaction, providing a direct measure of enzyme activity. However, its application to isomerases is limited due to the low enthalpy change associated with many isomerase reactions.

Comprehensive Service Offerings

How It Works

Step Procedure Details
1 Enzyme Preparation We work with purified enzymes, recombinant proteins, or crude extracts, ensuring optimal handling for each source.
2 Substrate Selection Identification of natural or surrogate substrates with attention to stability, specificity, and availability.
3 Assay Development Custom assay design using:
  • Spectrophotometric assays for routine, reliable detection
  • Fluorescent assays for high sensitivity and throughput
  • Chromatographic methods for precise product analysis
  • Isotope labeling or kinetic isotope effects for mechanistic insights
4 Enzyme Activity Determination Quantitative measurement of catalytic activity (Km, Vmax, kcat, turnover rates).
5 Data Analysis & Reporting Detailed report including raw data, statistical validation, and expert interpretation.

Service Details

  • Routine and custom assay development
  • Single enzyme or pathway-level analysis
  • Support for high-throughput screening
  • Optional mechanistic studies (active-site mapping, inhibitor profiling, structural-functional integration)

Contact Our Team

Why Choose Creative Enzymes

Extensive Expertise

Decades of experience in enzymology and structural biology.

State-of-the-Art Facilities

Advanced analytical instruments ensuring precision and reproducibility.

Tailored Solutions

Custom assay design to meet specific research or industrial objectives.

Rapid Turnaround

Timely project completion without compromising quality.

Comprehensive Support

From initial consultation to data interpretation and application.

Confidentiality Guaranteed

Strict adherence to data security and IP protection.

Case Studies and Real-World Applications

Case 1: Mining Rumen Microbiota for Efficient Xylose Isomerases in Saccharomyces cerevisiae

Xylose metabolism in Saccharomyces cerevisiae is limited by the scarcity of efficient xylose isomerases (XIs). Using metagenomic and metatranscriptomic datasets from rumen microbiota of moose, camel, cow, and sheep, researchers identified seven putative XIs. Five exhibited activities, converting xylose to xylulose and producing ethanol. A camel-derived XI showed high substrate affinity (Km 16.25 mM). Sheep-derived enzymes XI11 and XI12 enabled depletion of 40 g/L xylose within 72–96 h, achieving ethanol yields of 90% and 88%. This study marks the first successful expression of camel and sheep rumen XIs in S. cerevisiae, advancing biofuel production from lignocellulosic feedstocks.

Enzymatic activity of different xylose isomerases (OrpXI, X9, X11, X13, and X15)Figure 3. Specific enzymatic activity of different xylose isomerases in crude cell extracts. (Vargas et al., 2025)

Case 2: Structural and Functional Insights into M. tuberculosis α-Methylacyl-CoA Racemase

α-Methylacyl-CoA racemase (MCR) is vital for fatty acid metabolism and cholesterol utilization in Mycobacterium tuberculosis, supporting its persistence. Researchers determined a new high-resolution crystal structure of wild-type MCR (1.65 Å) and structures of three active-site mutants (H126A, D156A, E241A). While the dimeric arrangement remained consistent, kinetic studies showed reduced activity in mutants due to disruption of catalytic hydrogen bonding and water-mediated interactions. No significant structural changes occurred outside the active site. These findings clarify MCR's catalytic mechanism and highlight its potential as a therapeutic target for anti-tuberculosis drug development.

Colorimetric assay for wild-type MCR and its three active-site mutantsFigure 4. Specific activity for wild-type (n = 4) and mutant MCR (n = 5). (Mojanaga et al., 2024)

FAQs

  • Q: What types of isomerases can you measure?

    A: We cover all subclasses, including racemases, epimerases, cis-trans-isomerases, oxidoreductases, intramolecular transferases, lyases, and others. Both purified and crude enzyme samples are accepted.
  • Q: Do you offer assay customization?

    A: Yes, we design tailored assays depending on substrate availability, enzyme class, and project objectives. This ensures accurate and relevant data.
  • Q: How do you ensure reproducibility?

    A: We follow standardized protocols, run controls, and use advanced instrumentation. Each dataset undergoes statistical validation to guarantee reliability.
  • Q: What applications do your isomerase activity services support?

    A: Applications range from drug discovery and biocatalyst optimization to food production and environmental biotechnology.
  • Q: How long does a typical project take?

    A: Most projects are completed within 2–4 weeks, depending on enzyme type and complexity. Rush services may be available for urgent studies.

References:

  1. Martinez Cuesta S, Furnham N, Rahman SA, Sillitoe I, Thornton JM. The evolution of enzyme function in the isomerases. Current Opinion in Structural Biology. 2014;26:121-130. doi:10.1016/j.sbi.2014.06.002
  2. Mojanaga OO, Woodman TJ, Lloyd MD, Acharya KR. α-methylacyl-CoA racemase from Mycobacterium tuberculosis—detailed kinetic and structural characterization of the active site. Biomolecules. 2024;14(3):299. doi:10.3390/biom14030299
  3. Vargas BDO, Carazzolle MF, Galhardo JP, et al. Engineering Saccharomyces cerevisiae with novel functional xylose isomerases from rumen microbiota for enhanced biofuel production. Biotechnology Journal. 2025;20(6):e70050. doi:10.1002/biot.70050

For research and industrial use only, not for personal medicinal use.

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