Institute of Biochemistry

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1,471 to 1,480 of 1,729 Results

Enspara_Clustering_Analysis.py Mar 2, 2022 - Additional data related to Schnee et al.: Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide Plain Text - 1.4 KB - MD5: 52c57eb9028afc94ccc2504c680e1ef6 Python script to analyse the output of the enspara output files (generated with "Enspara_Command.txt")
Enspara_Command.txt Mar 2, 2022 - Additional data related to Schnee et al.: Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide Plain Text - 642 B - MD5: 25782c1c72742bed83986eab713de328 Command line input for the enspara python library. Needs follow up from "Enspara_Clustering_Analysis.py".
Production_Peptide_in_solution.py Mar 2, 2022 - Additional data related to Schnee et al.: Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide Plain Text - 7.2 KB - MD5: c647bc59527d69986f4c89f3da39669d Python script for the production of peptide in solution MD simulation trajectories.
Production_SETD2-peptide-complex.py Mar 2, 2022 - Additional data related to Schnee et al.: Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide Plain Text - 13.5 KB - MD5: d90ac856931817507afa24516f17142c Python script for the production of enzyme-peptide complex MD simulation trajectories.
Production_SETD2_sMD.py Mar 2, 2022 - Additional data related to Schnee et al.: Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide Plain Text - 17.5 KB - MD5: 475202d1a38ec4bbdae9527e1514024b Python script for the production of peptide-enzyme association sMD simulation trajectories.
README.pdf Mar 2, 2022 - Additional data related to Schnee et al.: Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide Adobe PDF - 147.5 KB - MD5: 8f97c7be1d9767736e3b5cae7157c9be Description of the python scripts provided in this repository. Instructions for use, installation and outcome.
AnalysingInitialRateDataUsingMichaelisMentenKineticsinterferENZY.ipynb Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU Jupyter Notebook - 48.9 KB - MD5: f35f461622c4204a4e279458bccd14ce Used to generate an InterferEnzy file from an OMEX EnzymeML archive, which was the sent to the modeling platform to estimate the parameters.
AnalysingInitialRateDataUsingMichaelisMentenKineticsJupyterNotebook.ipynb Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU Jupyter Notebook - 55.2 KB - MD5: 12615450c9a703b35f21a3e9af6f2a4f Used to model the given OMEX EnzymeML archive using the Python package lmfit.
Desulfuration_Cysteine_Pinto_input_interferENZY.txt Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU Plain Text - 370 B - MD5: 679c41f97de6f72684385e95865cb715 Text file that is used as input for InterferEnzy
Desulfuration_Cysteine_Pinto.omex Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU Unknown - 6.5 KB - MD5: ef8907a79459d27a988be27c5a245a4c OMEX EnzymeML archive that was generated from the data using the given spreadsheet.

Enspara_Clustering_Analysis.py

Mar 2, 2022 - Additional data related to Schnee et al.: Mechanistic basis of the increased methylation activity of the SETD2 protein lysine methyltransferase towards a designed super-substrate peptide

Plain Text - 1.4 KB -

Python script to analyse the output of the enspara output files (generated with "Enspara_Command.txt")

Enspara_Command.txt

Plain Text - 642 B -

Command line input for the enspara python library. Needs follow up from "Enspara_Clustering_Analysis.py".

Production_Peptide_in_solution.py

Plain Text - 7.2 KB -

Python script for the production of peptide in solution MD simulation trajectories.

Production_SETD2-peptide-complex.py

Plain Text - 13.5 KB -

Python script for the production of enzyme-peptide complex MD simulation trajectories.

Production_SETD2_sMD.py

Plain Text - 17.5 KB -

Python script for the production of peptide-enzyme association sMD simulation trajectories.

README.pdf

Adobe PDF - 147.5 KB -

Description of the python scripts provided in this repository. Instructions for use, installation and outcome.

AnalysingInitialRateDataUsingMichaelisMentenKineticsinterferENZY.ipynb

Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU

Jupyter Notebook - 48.9 KB -

Used to generate an InterferEnzy file from an OMEX EnzymeML archive, which was the sent to the modeling platform to estimate the parameters.

AnalysingInitialRateDataUsingMichaelisMentenKineticsJupyterNotebook.ipynb

Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU

Jupyter Notebook - 55.2 KB -

Used to model the given OMEX EnzymeML archive using the Python package lmfit.

Desulfuration_Cysteine_Pinto_input_interferENZY.txt

Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU

Plain Text - 370 B -

Text file that is used as input for InterferEnzy

Desulfuration_Cysteine_Pinto.omex

Feb 15, 2022 - Catalysis of L-cysteine by IscS in the presence of IscU

Unknown - 6.5 KB -

OMEX EnzymeML archive that was generated from the data using the given spreadsheet.

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