Jingjing Guo

6 Questions 11 Answers 0 Followers

Questions related from Jingjing Guo

How to calculate bending modulus of lipid bilayer based on MD simulations? Is there any tools to calculate this?

I want to calculate the bending modulus of a membrane.

09 September 2018 5,482 6 View

How to use "gmx select" to select atoms in gromacs like C1, C2, ..., C20?

I want to make index file of some atoms with similar name. What is the easiest way to do this in gromacs?

11 November 2017 5,690 7 View

What does the "Z" mean in DUB-Glo (Z-RLRGG-aminoluciferin)?

The DUB-Glo™ Protease Assay provides a luminescent substrate, Z-RLRGG-aminoluciferin, in a reagent optimized for protease and luciferase activity. The RLRGG sequence is the C-terminal pentapeptide...

09 September 2014 1,865 2 View

Why does the protein misfold in MD simulation with implicit solvent ?

I simulated a α-helical protein in implicit solvent using AMBER. However, no matter using the ff99SB or using the ff03 force field, the native secondary structure was lost. parameters: igb=5,...

09 September 2014 4,409 9 View

Which software or tool can calculate a protein structure network?

I want to search the inter-domain communication path of a protein. Except Wordom, is there any other softwares that can do this?

04 April 2014 5,028 3 View

Can PMF (potential of mean force) or FEL (Free energy landscape) be applied to regular MD simulation?

G=-kTln(P), Is this true? In regular MD, is the sampling time too short to sample every state of the system?

04 April 2014 6,523 3 View