Published July 23, 2020 | Version v1
Dataset Open

Catalysis of Ac-DEVD-AMC by caspase-3 (dataset formatted for analysis by interferENZY)

Description

Main description

This dataset depicts the catalysis of the fluorogenic substrate Ac-DEVD-AMC to the fluorescent substrate AMC by recombinant purified caspase-3, for fixed concentration of enzyme and variation of concentration of initial substrate. It was originally documented in Biophysical Chemistry 252 (2019) 106193 (https://doi.org/10.1016/j.bpc.2019.106193), and then used as a study case for the webserver interferENZY (a web-based tool for enzymatic assay validation and standardized kinetic analysis; visit https://interferenzy.i3s.up.pt for more information). To this end, it was converted to the format here presented: tab-separated *.txt input required for interferENZY analysis.

 

Dataset organization

Line 1: Tab-separated initial concentrations of substrate Ac-DEVD-AMC in micromolar (µM) concentration

Line 2: Concentration of enzyme (1 U)

Line 3: Units of time

Line 4: Units of concentration for substrate values and measurements

Line 5: Dataset name

Line 6 and downwards: Tab-separated column-pairs of the progress curves (time,Product) corresponding to the indicated values of initial concentrations of substrate in line 1

 

Contact information:

Maria Filipa Pinto (mfpinto@i3s.up.pt)
Pedro M. Martins (pmartins@ibmc.up.pt)

i3S – Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Rua Alfredo Allen, 208, 4200-135 Porto, Portugal. Telephone number: +351 226 074 900

Notes

Acknowledgements: This work was financed by (i) FEDER—Fundo Europeu de Desenvolvimento Regional funds through the COMPETE 2020—Operational Programme for Competitiveness and Internationalisation (POCI), Portugal 2020, and by portuguese funds through FCT—Fundação para a Ciência e a Tecnologia/Ministério da Ciência, Tecnologia e Ensino Superior (FCT/MCTES) in the framework of the projects POCI-01-0145-FEDER-031323, POCI-01-0145-FEDER031173 (PTDC/BIA-BFS/31173/2017) ("Institute for Research and Innovation in Health Sciences"), POCI-01-0145-FEDER-006939 and POCI-01-0145-FEDER-007728, (ii) Project UID/EQU/00511/2019 – Laboratory for Process Engineering, Environment, Biotechnology and Energy – LEPABE funded by national funds through FCT/MCTES (PIDDAC), (iii) FEDER through Norte Portugal Regional Operational Programme (NORTE 2020), under the PORTUGAL 2020 Partnership Agreement in the framework of Projects Norte-01-0145-FEDER-000008 and "LEPABE-2-ECO-INNOVATION" – NORTE-01-0145-FEDER000005, and by (iv) National Funds (FCT/MCTES), under the Partnership Agreement PT2020 UID/QUI/50006/2019 and the projects (3599-PPCDT) PTDC/DTP-FTO/1981/2014 – POCI-01-0145-FEDER016581. PhD fellowships SFRH/BD/109324/2015 (MFP) and SFRH/BD/119144/2016 (HR), and contract DL 57/2016/CP1355/CT0011 (J.R.-R.) from FCT – Fundação para a Ciência e a Tecnologia are acknowledged. Financial support was provided through the Doctoral Program in Biomedical Sciences (ICBAS-UP) and BiotechHealth Programme (ICBAS-UP/FFUP).

Files

interferENZY_caspase3.txt

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Additional details

Related works

Is derived from
Journal article: 10.1016/j.bpc.2019.106193 (DOI)
Is supplement to
Software: 10.5281/zenodo.3956410 (DOI)

References

  • Biophysical Chemistry 252 (2019) 106193