How to make a movie of the slowest and fastest modes after PCA in gromacs?

06 June 2013 1 5K Report

I'd like to create a pymol movie on 10 fastest and 10 slowest modes after PCA. Can we do it in gromacs? I assume we can use g_anaeig but I am not quite sure of the commands. Any help would be really appreciated.

Abraham Yosipof

for PCA use spss

Badges
Science topic

More Ankita Naithani's questions See All

Beta carotene by hplc?

Hello everyone, Can anyone share method for analysis of beta carotene by HPLC? Thank you!

05 May 2024 9,163 3 View

What is the reason behind XRD plot start from below base and after some angle it will reach to higher base?

In spinel ferrite-type samples we can see this kind of cases.

31 March 2024 5,259 2 View

Why Ecoli cells (BL21 DE3 and Rosetta) aren't growing?

Hi, I have a peculiar problem which persists, so my strains BL21DE3 and Rosetta both have my GOI cloned in pET vectors with Ampicillin and Kanamycin resistance. I have grown them in shakeflasks...

14 March 2024 2,864 6 View

Why larger size DNA fragments bind with the silica membrane in manual DNA extraction method and not smaller size fragments?

I am currently engaged in cfDNA extraction, and capillary electrophoresis analysis reveals peaks for DNA ranging from 400 to 1000 bp. I employ silica spin column in my extraction process, Ana I'm...

28 November 2023 1,415 0 View

Is there a way to get rid of astrocytes to obtain pure microglia from a primary mixed culture?

Hello! We know of the traditional ways to isolate microglia from primary mixed cultures using shaking and tapping. However, these microglia are not very healthy and cause inconsistency in the...

18 November 2023 5,021 3 View

Analysis method for Beta carotene in durum wheat by HPLC or UV-VIS Spectrophotometer ?

Dear fellow researchers, Can anyone share method for analysis of beta carotene in durum wheat by HPLC or UV-VIS spectrophotometer? Thanks

21 September 2023 3,645 0 View

How to calculate electrostatic potential surface for 2D materials using VASP?

I am trying to calculate the electrostatic potential surface for a 2D material using VASP. Can you please provide the step wise procedure for the calculation and visulisation of ESP?

16 September 2023 5,731 0 View

plant extract concentration in DMSO is 30mg/ml in volume 500 microltr if volume decreases to 100microltr frm 500 microltr do Concentration is same?

I need to make the concentration to 5mg/ml from 30mg/ml but i am confused as my initial volume of 500 microlitre of 30mg/ml decrease to volume 100 microlitre .do the concentration remains 30mg/ml...

04 September 2023 332 1 View

Where to find Linkert Questionnaire on different learning styles?

Hi, As I am working on different learning styles, can someone provide me the link for the Linkert questionnaire of the following learning styles: 1. Dunn and Dunn Model 2. Gregorc Learning...

27 July 2023 9,693 3 View

How to work with IBM SPSS?

I am working on new research to identify the reliability of the different sets of questionnaires corresponding to different learning styles. I collected and cleaned the data and loaded it into the...

24 July 2023 7,356 4 View

Gromacs first step of minimization ?

I have face this problem anyone help me how to solve this issue ?which is below Fatal error: There are inconsistent shifts over periodic boundaries in a molecule type consisting of 78 atoms. The...

07 August 2024 2,598 1 View

Why does my protein refolded to beta sheet during thermal denaturation analysis?

Hi! So i attempted to understand a novel protein behavior towards heat application by analyzing its secondary structure change. I subjected the protein to a thermal denaturation analysis using...

06 August 2024 1,989 3 View

Are there instances where molecules with larger molecular weights exhibit greater mobility than those with smaller molecular weights?

Hi, I know that low molecular weight (MW) molecules generally tend to have higher mobility, while high molecular weight molecules tend to have lower mobility. However, in my experimental...

06 August 2024 1,495 2 View

Why did the authors extrapolate a phenotype that they experimentally proved in one bacterial strain across the whole genus of the organism?

I aim to be as skeptical as possible regarding whether a pair of orthologous genes results in the same phenotype in their different but related bacterial organisms under similar environmental...

05 August 2024 6,787 4 View

For an in-vitro drug release study, what molecular weight cut-off (MWCO) dialysis bag is required for a 117 kDa protein?

kindly reply me. Thanking you in advance.

05 August 2024 7,727 4 View

How to start a Molecular Dynamics Simulation?

Is it possible to conduct a molecular dynamics simulation to see the effects of a specific carbohydrate on the structure of lipids (e.g., micelle structure)? I am a beginner in this field and plan...

03 August 2024 3,371 3 View

Which will be the best software for the Hydration shell analysis with molecular dynamics?

I am using a windows system, what software I should use for hydration shell analysis with molecular dynamics?

02 August 2024 3,143 4 View

Can anyone provide me with molecular docking softwares/ websites?

Molecular docking software/ websites?

02 August 2024 8,704 7 View

Transfection in HEK293T cells?

Dear All, I am trying to transfect a pCDNA3.1 vector containing my gene of interest. The purpose is to figure out the localization of the protein of interest. I have fused the protein with GFP on...

31 July 2024 9,892 4 View

Can we patent a process flow diagram developed using a process simulator but no actual cases is carried out?

Can we patent a process flow diagram developed using a process simulator but no actual cases is carried out? For example consider a process for certain product manufacture where a new process flow...

31 July 2024 781 1 View