Monday, January 23, 2012

pknB Inhibitors for MTB


To start with i just used various screening strategies like the pharmacophore, vROCS and Ftrees algorithm to screen the kinase datasets obtained from Otava Chemical library, Kindock, our own internal dataset(chem2Bio2Rdf) and ZINC pharmer hits .I Used Omega2 to generate the conformers compounds and then use the screening softwares to screen the datasets. Then i ranked the compound based on the harmonic mean of the ranked compounds of the screen sets. .After then using pipeline pilot's different admet filters listed some compounds.


There are hits which were highly ranked in pharmacophore but didnt show any ranks in other methods.

Other methods also had some compounds which were not ranked on other methods they are given below.


Also compounds where predicted for the biological activity using the pass prediction.Figure below shows the pass map of the biological activity with the targets.


3 comments:

Abhik Seal said...

I listed 95 Kinase Mtb proteins with PDB ID list and Pubmed list of Inhibitors for the Proteins
https://docs.google.com/spreadsheet/pub?hl=en_US&hl=en_US&key=0Aup08B0XapWSdDJDblVhcHI5bzk2V0cxUXNXWGNXeVE&single=true&gid=0&output=html

Anshu said...

On what basis you have identified 95 kinase Mtb proteins?
Anshu

Abhik Seal said...

Well The data is collected from the tuberculist i searched with the keyword "kinase" and it listed me out the kinases. If you have any other list i could just check if it matches. I found some PE_PGRS proteins in them having pfkb carbohydrate kinase signatures. I hope there are no more kinases.