How does SEA software normally number subsystems?

Dear colleagues, What is the common subsystem numbering system in SEA modelling software (i.e. VA One, AutoSEA2)? Cheers, Feng

27 February 2021 7,073 3 View

Can a Golgi-stained dendritic spines picture processed by Image J be directly used for publication?

24 February 2021 3,348 2 View

How VASP perform selfconsistent noncollinear calculations?

Selfconsistent noncollinear magnetic calculations can be done in VASP. I am wondering how VASP update the spin directions at each local site. For molecular dynamics, VASP search the next...

16 January 2021 1,398 3 View

How to extract dry soils such as rocks and Debris from Sentinel-2 images using Google Earth Engine?

How to extract dry soils such as rocks and Debris from Sentinel-2 images using Google Earth Engine?

17 December 2020 6,600 2 View

How to make sure self-ligation of a linear plasmid?

I want to ligate a linear 1.7kbp plasmid with the EcoRI sites at two sides, but when I use the quick ligase kit from NEB to test the ligation efficiency it is hard to ligate it. Is there anyone...

08 December 2020 3,442 3 View

Protein concentration decrease after dialysis?

Recently I have been involved in this problem: After expressed by adding IPTG, lysed with B-PER, and resolved with Buffer B (8M urea), incubate with Ni-NTA beads, everything looks fine. When I...

21 November 2020 7,416 3 View

How to fix the part overlap problem in Abaqus Explicit?

Hi, I was doing the Abaqus explicit model for a plain woven fabric where two types of yarns(PU&PA) were set as the weft and one type of yarn(PA) was set as the warp. When the load applied to the...

10 September 2020 1,164 2 View

Why does the Abaqus simple tension simulation fail to converge for 2 elements perpendicular to load but not for 2 elements parallel to load?

I am simulating a simple uniaxial tension by pulling for a displacement of 0.4 in the Z-direction on a quarter symmetry cube with side lengths of 0.8. I am using an elastoplastic self-consistent...

08 September 2020 8,937 3 View

Can one find direct and elementary proofs for two integral formulas?

In the preprint W.-H. Li and F. Qi, A further generalization of the Catalan numbers and its explicit formula and integral representation, Authorea Preprints (2020), available online at...

24 August 2020 4,391 21 View

How to gain the access to image recognition?

I am graduate from other major, and now working in computer science and technology, my roomates are mostly researching on image recognition. I want to switch to it and learn how to cooperate with...

21 August 2020 2,888 9 View

How to analyze a particular region of my simulation box in GROMACS?

Hi, I am using GROMACS 5.1.4 to simulate water in contact with a surface. I am only interested to calculate some properties of water near the surface. Let's say at a distance of x nm from the...

03 March 2021 9,989 2 View

Why does blocking with my immunogenic peptide cause nuclear fluorescence in ICC?

Hi all, I am validating a polyclonal antibody raised against human ANT4, through WB and ICC. In most of my controls, the antibody shows very little off-target binding, but when I pre-incubate the...

03 March 2021 5,999 3 View

How can I calculate the rdf of water molecules around 'Na' ions that are closest(adsorbed) to the nanoparticle(solute)?

Hi, I want to calculate the radial distribution function for water molecules around the Na+ ions adsorbed on the surface of a spherical nanoparticle using the gromacs trajectory dynamically? For...

28 February 2021 5,650 1 View

How can I assign a velocity along one direction to CO2 molecules in a molecular dynamics simulation using GROMACS?

Dear all, I am trying to perform a MD simulation about the interaction between CO2 and a polymer. I create my model, solvate it and perform the NVT and NPT equilibration. Now I am not able to...

26 February 2021 10,014 3 View

How does GROMACS calculate the average structure of proteins?

I want to get a average structure from a pdb file containing multiple models. I used the command below: gmx cluster -f input.pdb -s topol.tpr -cutoff 20 -method gromos -av GROMACS...

25 February 2021 6,314 1 View

How do you mesh a thin solid in Fluent?

Hello, I have used the shell function on SpaceClaim to create thin solids for the model I am studying. These are contained within an enclosure for my study. I chose this approach as it avoids the...

24 February 2021 8,856 3 View

How to identify or create correct list from GROMACS options during analysis of trajectory ?

During topology preparation using pdb2gmx Protein_chain_A and Protein_chain_B were identified. However, when production MD was completed and I proceeded to do analysis, I find this list : Group...

23 February 2021 5,065 8 View

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23 February 2021 4,014 3 View

How to reduce static electricity of powder after lyophilization?

I am working on synthesizing and then purifying peptides using the SPPS system. After purification of the peptide, the peptide powder is obtained using a freeze dryer. When measuring the powder,...

22 February 2021 10,099 5 View

Can we remove the fmoc group after peptide cleavage?

I have synthesized the peptide using Fmoc based solid phase peptide synthesis. Also I have cleaved the peptide from the resin and lyophilized it, but later realized that, I forgot to deprotect the...

21 February 2021 4,537 3 View