How to see Interaction using Ligplot after using Hdock server?

More Haslina Asis's questions See All

Why does Tyrosinase suddenly become inactive when it was active previously?

Hi all. I ran the enzyme activity (pure Tyrosinase after purification using recombinant e coli) using L-Dopa with this condition 50 mM phosphate buffer ph 6, 1mM L-Dopa 25 C temperature 0.5 mM...

06 February 2024 8,350 4 View

What does it mean if inhibited line below the uninhibited line in lineweaver burk plot?

I am a bit confused about the matter. The majority of papers and explanations I have come across indicate that the inhibited line is generally positioned above the uninhibited line, but I have...

31 May 2023 3,098 1 View

Why does hdock file cannot be viewed using ligplot for protein-protein interaction?

I have done protein -protein docking using hdock server. however the interaction cannot be viewed using ligplot as shown in the attached photo. does anyone has the same experience? Thanks !

11 December 2022 4,158 5 View

Ic50 using graphpad prism?

Hi, I am currently calculating my ic50 using graphpad, however im confused whether to use my data from the raw data (triplicates) of each concentration or from the mean ? my ic50 is based on the...

27 February 2022 9,074 4 View

WHY THE FRLKGG-pNa (susbtrate for PLPRO) and Z-TSAVLQ-pNa (substrate for MPRO) DO NOT CHANGE COLOUR DURING ENZYME ASSAY?

Im doing enzyme assay for the proteases of sars cov 2 . However with different concentrations of the protein, the solution did not change colour to yellow. Im wondering if these substrates have...

11 November 2021 4,484 10 View

What kind of information one can get from capacitive current or from capacitive region in Cyclic voltammetry?

In cyclic voltammogram there are two region one is faradic and other is capacitive region. So If we know our Open circuit voltage (OCV) and we are restricting our study of Cyclic voltammetry...

08 March 2021 2,078 3 View

How to perform Charge discharge in Pine instrument?

i want to do GCD study of specific material in a specific potential let discharge from 1.0V to 0.2V and again Charge it to 1.0V. How to perform this experiment using pine instrument?

03 January 2021 10,112 1 View

What are the best tools to create Feedback Forms related to Excel sheets?

I want to gather feedback from the implementation of processes in order to optimize them and I was wondering what tools other than 'google forms' could allow me to implement them in a formal and...

23 December 2019 8,570 3 View

How to make Relationships between BPMN Process of Parent-Child Type to simplify process diagram's edition ?

I would like to figure out how can I create BPMN process's relationships within my process repository The idea is to have a Parent process with for example Task A, Task B and Task C. Then I made...

24 November 2019 7,716 0 View

What are the best process modeling standard notations to build an enterprise' process framework? How can I evaluate their adequacy?

What are the best process modeling standard notations to create and implement a process framework into a small and medium-size enterprise and which workflow softwares can be used to manage them...

20 November 2019 1,962 4 View

How do I replace a file with a more recent version of a paper that was uploaded to ResearchGate?

The paper in question is "Interpolation of Nitrogen Fertilizer Use in Canada from Fertilizer Use Surveys". This paper was very recently published by Agronomy (MDPI). Agronomy has, in the last day...

07 August 2024 9,934 3 View

How to solve g_mmpbsa error?

Program: g_mmpbsa, version 2024.1 Source file: extrn_apbs.cxx (line 152) Fatal error: Failed to execute command: $APBS pybYcUWA.in --output-file=pybYcUW.out

07 August 2024 6,066 0 View

How do you delete a duplicate pdf for the same paper on ResearchGate?

The first pdf file I uploaded had an error. So I uploaded an updated, corrected pdf of that paper with a different pdf name. I dpon't want the old copy to be download or read.

07 August 2024 9,508 1 View

AUX gas reading problem on QE with full MS and PRM method in one run?

Dear QE-users, In the method where full MS positive mode and PRM mode are used, we always get an incorrect auxiliary gas reading (41 instead of 25). This only happens in this method; other...

06 August 2024 4,953 0 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

JCPDS 65-7246 file please?

Dear Researchers Kindly share JCPDS 65-7246 file Thanks in advance

04 August 2024 5,613 1 View

Dirty and clean?

Hi everyone I need a file with a dirty and clean potato image

04 August 2024 7,199 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

How to change the version of the article full-text pdf file?

How to change the displayed full article text to its corrected version? In the file on the page of the journal where I published the article, there was an error in the text, the table is...

30 July 2024 3,229 2 View

Nor Farrah Wahidah Ridzwan

Hi Haslina Asis ,

First of all, did you use LigPlot or LigPlot+?

I believe only LigPlot+ has the program to plot interactions between protein-protein or domain-domain interfaces.

Secondly, on LigPlot+, did you make sure to use/select the DIMPLOT program?

Here is the link for the manual for your reference:

https://www.ebi.ac.uk/thornton-srv/software/LigPlus/manual2/manual.html

Hope this help. All the best.

Haslina Asis

Hi Nor Farrah Wahidah Ridzwan , thank you for your response! Im using Ligplot+ , however when I added the pdb file from Hdock, it says no protein-protein interaction.