Research Data Leeds Repository

Protein–lipid charge interactions control the folding of outer membrane proteins into asymmetric membranes

Citation

Machin, Jonathan (2023) Protein–lipid charge interactions control the folding of outer membrane proteins into asymmetric membranes. University of Leeds. [Dataset] https://doi.org/10.5518/1168¹

Dataset description

Raw data files

Subjects:	C000 - Biological sciences > C700 - Molecular biology, biophysics & biochemistry2
Divisions:	Faculty of Biological Sciences > Astbury Centre for Structural Molecular Biology3
Related resources:	Location Type https://doi.org/10.1038/s41557-023-01319-64 Publication https://eprints.whiterose.ac.uk/203469/5 Publication
License:	Creative Commons Attribution 4.0 International (CC BY 4.0)
Date deposited:	05 Sep 2023 20:06
URI:	https://archive.researchdata.leeds.ac.uk/id/eprint/11566
Additional details Additional details Creators or authors: Creators ORCID Other ID Email Primary affiliation Primary affiliation ID Primary affiliation ID type Secondary affiliation Secondary affiliation ID Secondary affiliation ID type Machin, Jonathan https://orcid.org/0000-0002-1920-149X7 University of Leeds https://ror.org/024mrxd33 ror Type of data: Dataset Research funders: Wellcome Trust, Royal Society Grant numbers: J.M.M is funded by Wellcome (222373/Z/21/Z). CryoEM imaging was carried out at the Astbury Biostructure Laboratory, which was funded by the University of Leeds and Wellcome (108466/Z/15/Z & 221524/Z/20/Z), SER holds a Royal Society Professorial Research Felowship Publication date: 2023 Resource language: English Metadata language: English Publisher: University of Leeds Contact email: bsjma@leeds.ac.uk8 Last Modified: 20 May 2024 10:54

Files

Documentation

README.txt [1kB] 9 README.txt [1kB] 10 README.txt [1kB] 11 Security: Anyone File name: README.txt12 Content type: Documentation Mime-Type: text/plain License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 1kB

Data

0figure_data [2MB] 13 0figure_data [2MB] 14 0figure_data [2MB] 15 Security: Anyone File name: 0figure_data.zip16 Content type: Data Description: excel files containing the underlying data used to generate each figure Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 2MB

absorbance [106kB] 17 absorbance [106kB] 18 absorbance [106kB] 19 Security: Anyone File name: absorbance.zip20 Content type: Data Description: all raw absorbance data (Stewart assay and exchange of DPPE-Rho doped liposomes) Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 106kB

bioinformatics [6MB] 21 bioinformatics [6MB] 22 bioinformatics [6MB] 23 Security: Anyone File name: bioinformatics.zip24 Content type: Data Description: tables containing accession codes for all bioinformatic datasets Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 6MB

dmpe-pc_FRET_asymmetry [33kB] 25 dmpe-pc_FRET_asymmetry [33kB] 26 dmpe-pc_FRET_asymmetry [33kB] 27 Security: Anyone File name: dmpe-pc_FRET_asymmetry.zip28 Content type: Data Description: raw data for controls and samples demonstrating the asymmetry of DMPE/DMPC liposomes Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 33kB

folding kinetics [609kB] 29 folding kinetics [609kB] 30 folding kinetics [609kB] 31 Security: Anyone File name: folding_kinetics.zip32 Content type: Data Description: all raw folding kinetic data and fitted parameters Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 609kB

gels [161MB] 33 gels [161MB] 34 gels [161MB] 35 Security: Anyone File name: gels.zip36 Content type: Data Description: raw images of all gels and resultant densitometry analysis Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 161MB

laurdan [88kB] 37 laurdan [88kB] 38 laurdan [88kB] 39 Security: Anyone File name: laurdan.zip40 Content type: Data Description: raw and processed fluorescent data Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 88kB

liposome_zeta_DLS [101kB] 41 liposome_zeta_DLS [101kB] 42 liposome_zeta_DLS [101kB] 43 Security: Anyone File name: liposome_zeta_DLS.zip44 Content type: Data Description: all DLS and zeta data for liposome validation Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 101kB

Molecular dynamics [8GB] 45 Molecular dynamics [8GB] 46 Molecular dynamics [8GB] 47 Security: Anyone File name: Molecular_dynamics.zip48 Content type: Data Description: mdp and tpr files for all simualations, and final gro files with thinned trajectories (every 20 frames) Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 8GB

supplementery_tables [1MB] 49 supplementery_tables [1MB] 50 supplementery_tables [1MB] 51 Security: Anyone File name: supplementry_tables.zip52 Content type: Data Description: the three external (excel) supplementary table files Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 1MB

thermodynamics_fluorescence.zip [163kB] 53 thermodynamics_fluorescence.zip [163kB] 54 thermodynamics_fluorescence.zip [163kB] 55 Security: Anyone File name: thermodynamics_fluorescence.zip56 Content type: Data Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 163kB

zeta_prediction [13kB] 57 zeta_prediction [13kB] 58 zeta_prediction [13kB] 59 Security: Anyone File name: zeta_prediction.zip60 Content type: Data Description: raw zeta potential data collated for model, and the model code Mime-Type: application/zip License: Creative Commons Attribution 4.0 International (CC BY 4.0) File size: 13kB

• 1. https://doi.org/10.5518/1168
• 2. https://archive.researchdata.leeds.ac.uk/view/subjects/C700.html
• 3. https://archive.researchdata.leeds.ac.uk/view/divisions/ACSMB/
• 4. https://doi.org/10.1038/s41557-023-01319-6
• 5. https://eprints.whiterose.ac.uk/203469/
• 6. https://archive.researchdata.leeds.ac.uk/id/eprint/1156
• 7. https://orcid.org/0000-0002-1920-149X
• 8. mailto:bsjma@leeds.ac.uk
• 9. https://archive.researchdata.leeds.ac.uk/1156/14/README.txt
• 10. https://archive.researchdata.leeds.ac.uk/1156/14/README.txt
• 11. https://archive.researchdata.leeds.ac.uk/1156/14/README.txt
• 12. https://archive.researchdata.leeds.ac.uk/1156/14/README.txt
• 13. https://archive.researchdata.leeds.ac.uk/1156/1/0figure_data.zip
• 14. https://archive.researchdata.leeds.ac.uk/1156/1/0figure_data.zip
• 15. https://archive.researchdata.leeds.ac.uk/1156/1/0figure_data.zip
• 16. https://archive.researchdata.leeds.ac.uk/1156/1/0figure_data.zip
• 17. https://archive.researchdata.leeds.ac.uk/1156/2/absorbance.zip
• 18. https://archive.researchdata.leeds.ac.uk/1156/2/absorbance.zip
• 19. https://archive.researchdata.leeds.ac.uk/1156/2/absorbance.zip
• 20. https://archive.researchdata.leeds.ac.uk/1156/2/absorbance.zip
• 21. https://archive.researchdata.leeds.ac.uk/1156/3/bioinformatics.zip
• 22. https://archive.researchdata.leeds.ac.uk/1156/3/bioinformatics.zip
• 23. https://archive.researchdata.leeds.ac.uk/1156/3/bioinformatics.zip
• 24. https://archive.researchdata.leeds.ac.uk/1156/3/bioinformatics.zip
• 25. https://archive.researchdata.leeds.ac.uk/1156/4/dmpe-pc_FRET_asymmetry.zip
• 26. https://archive.researchdata.leeds.ac.uk/1156/4/dmpe-pc_FRET_asymmetry.zip
• 27. https://archive.researchdata.leeds.ac.uk/1156/4/dmpe-pc_FRET_asymmetry.zip
• 28. https://archive.researchdata.leeds.ac.uk/1156/4/dmpe-pc_FRET_asymmetry.zip
• 29. https://archive.researchdata.leeds.ac.uk/1156/6/folding_kinetics.zip
• 30. https://archive.researchdata.leeds.ac.uk/1156/6/folding_kinetics.zip
• 31. https://archive.researchdata.leeds.ac.uk/1156/6/folding_kinetics.zip
• 32. https://archive.researchdata.leeds.ac.uk/1156/6/folding_kinetics.zip
• 33. https://archive.researchdata.leeds.ac.uk/1156/7/gels.zip
• 34. https://archive.researchdata.leeds.ac.uk/1156/7/gels.zip
• 35. https://archive.researchdata.leeds.ac.uk/1156/7/gels.zip
• 36. https://archive.researchdata.leeds.ac.uk/1156/7/gels.zip
• 37. https://archive.researchdata.leeds.ac.uk/1156/8/laurdan.zip
• 38. https://archive.researchdata.leeds.ac.uk/1156/8/laurdan.zip
• 39. https://archive.researchdata.leeds.ac.uk/1156/8/laurdan.zip
• 40. https://archive.researchdata.leeds.ac.uk/1156/8/laurdan.zip
• 41. https://archive.researchdata.leeds.ac.uk/1156/9/liposome_zeta_DLS.zip
• 42. https://archive.researchdata.leeds.ac.uk/1156/9/liposome_zeta_DLS.zip
• 43. https://archive.researchdata.leeds.ac.uk/1156/9/liposome_zeta_DLS.zip
• 44. https://archive.researchdata.leeds.ac.uk/1156/9/liposome_zeta_DLS.zip
• 45. https://archive.researchdata.leeds.ac.uk/1156/10/Molecular_dynamics.zip
• 46. https://archive.researchdata.leeds.ac.uk/1156/10/Molecular_dynamics.zip
• 47. https://archive.researchdata.leeds.ac.uk/1156/10/Molecular_dynamics.zip
• 48. https://archive.researchdata.leeds.ac.uk/1156/10/Molecular_dynamics.zip
• 49. https://archive.researchdata.leeds.ac.uk/1156/11/supplementry_tables.zip
• 50. https://archive.researchdata.leeds.ac.uk/1156/11/supplementry_tables.zip
• 51. https://archive.researchdata.leeds.ac.uk/1156/11/supplementry_tables.zip
• 52. https://archive.researchdata.leeds.ac.uk/1156/11/supplementry_tables.zip
• 53. https://archive.researchdata.leeds.ac.uk/1156/12/thermodynamics_fluorescence.zip
• 54. https://archive.researchdata.leeds.ac.uk/1156/12/thermodynamics_fluorescence.zip
• 55. https://archive.researchdata.leeds.ac.uk/1156/12/thermodynamics_fluorescence.zip
• 56. https://archive.researchdata.leeds.ac.uk/1156/12/thermodynamics_fluorescence.zip
• 57. https://archive.researchdata.leeds.ac.uk/1156/13/zeta_prediction.zip
• 58. https://archive.researchdata.leeds.ac.uk/1156/13/zeta_prediction.zip
• 59. https://archive.researchdata.leeds.ac.uk/1156/13/zeta_prediction.zip
• 60. https://archive.researchdata.leeds.ac.uk/1156/13/zeta_prediction.zip