Difference between revisions of "Progress:Kevin"
From Computational Biophysics and Materials Science Group
| Line 1: | Line 1: | ||
This page is used for checklists discussed during the weekly meetings. | This page is used for checklists discussed during the weekly meetings. | ||
| − | <span style="color: | + | <span style="color: LightGrey">Checked</span><br /> |
To be checked<br /> | To be checked<br /> | ||
<span style="color: red">In progress<br /> | <span style="color: red">In progress<br /> | ||
=20160706= | =20160706= | ||
| − | # <span style="color: | + | # <span style="color: LightGrey">Revision on supplementary text and legends |
#* colour definitions added to legends | #* colour definitions added to legends | ||
#* comparison between before and after MDFF added | #* comparison between before and after MDFF added | ||
#* comparison between MDFF and rigid-body docking added | #* comparison between MDFF and rigid-body docking added | ||
| − | # <span style="color: | + | # <span style="color: LightGrey">Figure indexes |
#* revised | #* revised | ||
| − | # | + | # <span style="color: LightGrey">Figure “rotational PH” revised |
| − | + | #* split into main and supp | |
| − | #* | + | #* re-plot distribution and delete class 2 |
| − | #* | + | #* re-draw schematic |
| − | #* | + | #* add bin size |
| − | # <span style="color: | + | # <span style="color: LightGrey">Figure "assembly process" revised |
#* revised and polished | #* revised and polished | ||
#* move legends | #* move legends | ||
| − | # | + | # <span style="color: LightGrey">Figure “structural angle” |
| − | + | #* re-plot to distribution | |
| − | # | + | # <span style="color: LightGrey">PTMC |
| − | + | #* PTMC of BAR-PH added to Fig1 | |
| − | #* | + | #* PTMC of other BAR added to Supp |
| − | #* | + | #* tables modified |
| − | #* | + | #* add two supp figures |
| − | #* | + | #* add supp text on other BARs |
| − | # <span style="color: | + | # <span style="color: LightGrey">Check residues |
| − | # <span style="color: | + | # <span style="color: LightGrey">Text name of interfaces: same-row, different-row, front, back interactions |
=20160713= | =20160713= | ||
| Line 35: | Line 35: | ||
#* Sun: compare stability of tetramers | #* Sun: compare stability of tetramers | ||
#* Sun: to be discussed for the manuscript | #* Sun: to be discussed for the manuscript | ||
| − | # <span style="color: | + | # <span style="color: LightGrey">Prepare Ups figures |
=20160720= | =20160720= | ||
| − | # | + | # <span style="color: LightGrey">Ups figure |
| − | + | #* read manuscript | |
| − | #* | + | #* examine contacting residues |
| − | #* <span style="color: | + | #* discuss |
| − | + | # <span style="color: LightGrey">Next BAR-PH paper | |
| − | #* | + | #* examine contacting residues |
| − | #* | + | #* discuss |
=20160727= | =20160727= | ||
Revision as of 14:28, 20 July 2016
This page is used for checklists discussed during the weekly meetings.
Checked
To be checked
In progress
Contents
[hide]20160706
- Revision on supplementary text and legends
- colour definitions added to legends
- comparison between before and after MDFF added
- comparison between MDFF and rigid-body docking added
- Figure indexes
- revised
- Figure “rotational PH” revised
- split into main and supp
- re-plot distribution and delete class 2
- re-draw schematic
- add bin size
- Figure "assembly process" revised
- revised and polished
- move legends
- Figure “structural angle”
- re-plot to distribution
- PTMC
- PTMC of BAR-PH added to Fig1
- PTMC of other BAR added to Supp
- tables modified
- add two supp figures
- add supp text on other BARs
- Check residues
- Text name of interfaces: same-row, different-row, front, back interactions
20160713
- Summarize BAR-PH simulations
- Sun: compare stability of tetramers
- Sun: to be discussed for the manuscript
- Prepare Ups figures
20160720
- Ups figure
- read manuscript
- examine contacting residues
- discuss
- Next BAR-PH paper
- examine contacting residues
- discuss
20160727
- US of BN-lipids
- help Yonghui setting up US in Gromacs, 2 set-ups (BN and membrane), DMPC, 3 temperatures
- Ups figure
- COM between protein and lipids
- tilting angles
- distance between residues (<10) and DOPA (resid 257)
- vector of binding pocket with membrane
- Next BAR-PH paper
- Theme: lipid specificity
- contacting residues in BAR-PH--membrane MD
- Setup US of PIP2/PS with PH domain
- read James' paper
- Martini
- many constrained BAR-PH on membrane
- Actin
- new MD data
- Others
- Send cluster configurations to CSC
- Move mini
- Quotation for new storage disks
