How to build topology file of small molecule without using ATB or PRODRG?

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How to compare two Alpha Co-eff (same measure) in two indep samples in SPSS?

My samples are different in size and I need to see if the alpha coefficient in one group is significantly different from that in the other group. My data are in SPSS (I am not an R user,...

28 February 2021 2,688 4 View

Can bio-decomposer be a successful alternative to reduce residue burning?

To maintain the proper crop plan most of the times there is not enough time to make the field ready for the next crop. In this particular context , can bio-decompser be a solution? What about...

16 February 2021 7,068 24 View

Consensus sequence from ClustalX?

I am doing multiple sequence alignment to design primer for my gene. Can anyone tell me how to select the consensus sequence after alignment. I am using ClustalX for the alignment.

04 February 2021 8,872 2 View

After cutting bands having low molecular weight peptides obtained from SDS-PAGE,is it possible to elute these peptide(s) without digesting in trypsin?

Basically, I want to get the sequence of peptides. I assume, digesting these peptides from each band may give me a different sequence than the original through LC-MS analysis. If digestion doesn't...

30 January 2021 5,482 3 View

Are there existing studies in economic sociology that have applied Kalyan Sanyal's theoretical framework as a methodological basis?

To be precise, I am looking for studies on informal labour that have taken on board Sanyal's category of the Need Economy and his 'Politics of Exclusion' in studying the political-economy of...

26 January 2021 4,219 3 View

What software/app can I use to generate annotations for localizing hand joints in an RGB image?

I wanted to know if there is any software/app that helps to easily annotate hand joints in an RGB image manually.

28 October 2020 9,693 3 View

Can I use tryptone or tryptone peptone in place of trypticase to grow my microbe culture?

The ATCC media preparation mentions trypticase and I am not able to find trypticase from any company like HiMedia, Merck or Sigma

26 October 2020 1,822 6 View

What are the genetic/physiological differences between deep water rice cultivars of North-Eastern India from that of South East Asian Countries?

Deepwater rice cultivars found in various regions around the world have their own differences. Please mention how the deepwater rice cultivars of North-Eastern India varies from that of Southeast...

23 October 2020 1,333 3 View

How to calculate the dimensions and frequency, etc. of a pulse tube for required cold/hot temperatures?

Require to know the methodology for calculating dimensions (Lenght, diameter), operating frequency, etc. of a simple pulse tube refrigerator. Reference to handbook or manuscript would also be helpful.

29 September 2020 2,191 2 View

What is the effect of COVID-19 on agriculture specifically the prolonged lockdown that the farmers of whole world have faced?

I want to know how it is affecting agriculture around the globe. Because its a platform in which people from different parts of the world unites.

24 September 2020 400 27 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

16 June 2021 0 0 View

fatal error

16 June 2021 0 0 View

fatal error

16 June 2021 0 0 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

What kind of fluid could I use for a pitfall trap that also does not invalidate molecular testing?

Hi, I want to start testing pitfall trap to obtain ants samples, but I need to conduct molecular analysis on those insects. So, what kind of fluid can I use? Ethanol expires too early and I need...

03 March 2021 5,978 5 View

Arena simulation - how do i model the following model in ARENA (see description) (new to ARENA)?

Hello, I'm fairly new to ARENA and I have the following problem: I have two queues in which, in each queue, a different order type arrives (both having an arrival rate of exponential 10). Order...

02 March 2021 2,431 3 View

Why are the velocities so high in my Boussinesq approximation Fluent simulation?

Hello, I have a mechanism where air rises due to convective flows. In this simulation, nothing is driving the air except this. I understand that the Boussinesq approximation only works for small...

02 March 2021 4,910 3 View

Anu Manhas

use antechamber that can be found in AMBER tools, SwissParam

http://ambermd.org/#AmberTools

http://swissparam.ch/

Batsaikhan Mijiddorj

SwissParam generates charmm27 force field, it could not give GROMOS 53A6 forcefield. maybe ATB is better to use.

Dr Thirumal Kumar D

ATB is better optimized server than PRODRG.