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Internal calibration Förster resonance energy transfer assay: a real-time approach for determining protease kinetics.

Jiang L, Liu Y, Song Y, Saavedra AN, Pan S, Xiang W, Liao J - Sensors (Basel) (2013)

Bottom Line: Unlike our previous method in which donor and acceptor direct emissions were excluded by standard curves, the three fluorescent emissions were determined quantitatively during the SENP digestion process from onesample.The kinetic parameters, kcat, KM, and catalytic efficiency (kcat/KM) of SENP1 catalytic domain for pre-SUMO1/2/3 were derived.Importantly, the general principles of this new quantitative methodology of FRET-based protease kinetic determinations can be applied to other proteases in a robust and systems biology approach.

View Article: PubMed Central - PubMed

Affiliation: School of Life Science, Northeast Agricultural University, Xiangfang District, Harbin 150030, Heilongjiang, China. ling.jiang@ucr.edu

ABSTRACT
Förster resonance energy transfer (FRET) technology has been widely used in biological and biomedical research. This powerful tool can elucidate protein interactions in either a dynamic or steady state. We recently developed a series of FRET-based technologies to determine protein interaction dissociation constant and for use in high-throughput screening assays of SUMOylation. SUMO (small ubiquitin-like modifier) is conjugated to substrates through an enzymatic cascade. This important posttranslational protein modification is critical for multiple biological processes. Sentrin/SUMO-specific proteases (SENPs) act as endopeptidases to process the pre-SUMO or as isopeptidases to deconjugate SUMO from its substrate. Here, we describe a novel quantitative FRET-based protease assay for determining the kinetics of SENP1. Our strategy is based on the quantitative analysis and differentiation of fluorescent emission signals at the FRET acceptor emission wavelengths. Those fluorescent emission signals consist of three components: the FRET signal and the fluorescent emissions of donor (CyPet) and acceptor (YPet). Unlike our previous method in which donor and acceptor direct emissions were excluded by standard curves, the three fluorescent emissions were determined quantitatively during the SENP digestion process from onesample. New mathematical algorithms were developed to determine digested substrate concentrations directly from the FRET signal and donor/acceptor direct emissions. The kinetic parameters, kcat, KM, and catalytic efficiency (kcat/KM) of SENP1 catalytic domain for pre-SUMO1/2/3 were derived. Importantly, the general principles of this new quantitative methodology of FRET-based protease kinetic determinations can be applied to other proteases in a robust and systems biology approach.

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Related in: MedlinePlus

Standard curves of fusion substrates and digested products. (A). CyPet-(pre-SUMO1)-Ypet. (B). CyPet-SUMO1 with YPet (1:1 molar ratio). (C). CyPet-(pre-SUMO2)-Ypet. (D). CyPet-SUMO2 with YPet (1:1 molar ratio). (E). CyPet-(pre-SUMO3)-Ypet. (F). CyPet-SUMO3 with YPet (1:1 molar ratio).
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f6-sensors-13-04553: Standard curves of fusion substrates and digested products. (A). CyPet-(pre-SUMO1)-Ypet. (B). CyPet-SUMO1 with YPet (1:1 molar ratio). (C). CyPet-(pre-SUMO2)-Ypet. (D). CyPet-SUMO2 with YPet (1:1 molar ratio). (E). CyPet-(pre-SUMO3)-Ypet. (F). CyPet-SUMO3 with YPet (1:1 molar ratio).

Mentions: In the previous method [23], standard curves were established to correlate the undigested and digested substrate concentrations to fluorescent signals (Appendix Figure A1). The direct emission of CyPet was determined from both the digested CyPet-SUMO1/2/3 (I′d-cs) and the remaining CyPet-(pre-SUMO1/2/3)-YPet (I′d-csy) substrates:(8)Id475/414′=Id475/414−csy′+Id475/414−cs′


Internal calibration Förster resonance energy transfer assay: a real-time approach for determining protease kinetics.

Jiang L, Liu Y, Song Y, Saavedra AN, Pan S, Xiang W, Liao J - Sensors (Basel) (2013)

Standard curves of fusion substrates and digested products. (A). CyPet-(pre-SUMO1)-Ypet. (B). CyPet-SUMO1 with YPet (1:1 molar ratio). (C). CyPet-(pre-SUMO2)-Ypet. (D). CyPet-SUMO2 with YPet (1:1 molar ratio). (E). CyPet-(pre-SUMO3)-Ypet. (F). CyPet-SUMO3 with YPet (1:1 molar ratio).
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3673099&req=5

f6-sensors-13-04553: Standard curves of fusion substrates and digested products. (A). CyPet-(pre-SUMO1)-Ypet. (B). CyPet-SUMO1 with YPet (1:1 molar ratio). (C). CyPet-(pre-SUMO2)-Ypet. (D). CyPet-SUMO2 with YPet (1:1 molar ratio). (E). CyPet-(pre-SUMO3)-Ypet. (F). CyPet-SUMO3 with YPet (1:1 molar ratio).
Mentions: In the previous method [23], standard curves were established to correlate the undigested and digested substrate concentrations to fluorescent signals (Appendix Figure A1). The direct emission of CyPet was determined from both the digested CyPet-SUMO1/2/3 (I′d-cs) and the remaining CyPet-(pre-SUMO1/2/3)-YPet (I′d-csy) substrates:(8)Id475/414′=Id475/414−csy′+Id475/414−cs′

Bottom Line: Unlike our previous method in which donor and acceptor direct emissions were excluded by standard curves, the three fluorescent emissions were determined quantitatively during the SENP digestion process from onesample.The kinetic parameters, kcat, KM, and catalytic efficiency (kcat/KM) of SENP1 catalytic domain for pre-SUMO1/2/3 were derived.Importantly, the general principles of this new quantitative methodology of FRET-based protease kinetic determinations can be applied to other proteases in a robust and systems biology approach.

View Article: PubMed Central - PubMed

Affiliation: School of Life Science, Northeast Agricultural University, Xiangfang District, Harbin 150030, Heilongjiang, China. ling.jiang@ucr.edu

ABSTRACT
Förster resonance energy transfer (FRET) technology has been widely used in biological and biomedical research. This powerful tool can elucidate protein interactions in either a dynamic or steady state. We recently developed a series of FRET-based technologies to determine protein interaction dissociation constant and for use in high-throughput screening assays of SUMOylation. SUMO (small ubiquitin-like modifier) is conjugated to substrates through an enzymatic cascade. This important posttranslational protein modification is critical for multiple biological processes. Sentrin/SUMO-specific proteases (SENPs) act as endopeptidases to process the pre-SUMO or as isopeptidases to deconjugate SUMO from its substrate. Here, we describe a novel quantitative FRET-based protease assay for determining the kinetics of SENP1. Our strategy is based on the quantitative analysis and differentiation of fluorescent emission signals at the FRET acceptor emission wavelengths. Those fluorescent emission signals consist of three components: the FRET signal and the fluorescent emissions of donor (CyPet) and acceptor (YPet). Unlike our previous method in which donor and acceptor direct emissions were excluded by standard curves, the three fluorescent emissions were determined quantitatively during the SENP digestion process from onesample. New mathematical algorithms were developed to determine digested substrate concentrations directly from the FRET signal and donor/acceptor direct emissions. The kinetic parameters, kcat, KM, and catalytic efficiency (kcat/KM) of SENP1 catalytic domain for pre-SUMO1/2/3 were derived. Importantly, the general principles of this new quantitative methodology of FRET-based protease kinetic determinations can be applied to other proteases in a robust and systems biology approach.

Show MeSH
Related in: MedlinePlus