Name: Computational Structural Biology - Karaca Lab
Type: User
Company: Izmir Biomedicine and Genome Center
Bio: We are interested in developing tools towards understanding the structure-dynamics-function relationships of biomolecules.
Location: Izmir, Turkey
Blog: https://www.ibg.edu.tr/research-programs/groups/karaca-lab/
Computational Structural Biology - Karaca Lab's Projects
Quick analysis for AlphaFold models
A structural benchmark to measure point mutations’ impact on kinase-ligand interactions
Data and analysis scripts of the CASP15 assembly category
This page is prepared to model the complex of phage G3P and E. Coli TolA
an interaction dynamics framework (IDF) applied on DNMT3A/B systems
The modeling of eif2g-eif2bg interactions
gmx_corr converts the covariance matrix which is produced by GROMACS covar to cross correlation matrix and creates a heat map figure.
Gromacs performance benchmarking on different HPC platforms
Webpage of the Bonvinlab @ Utrecht University and HADDOCK software
Contains the structural models of KDM6A, TLE1, HES1, RUNX1-2, HHEX interactions
Nucleosomal DNA Dynamics
Predicting the Specificity-Determining Positions of Paralogous Complexes
This repo contains the collection of codes to find designer interfacial mutations
This repo contains all necessary codes for deploying the PROT-ON web-server on your local.
Benchmarking the structure-based mutation predictors on ace2-rbd binding data set
It calculates the pairwise RMSD values of available pdb files in the folder recursively.
It is a repo to predict future protein-protein interaction dynamics
This repo creates MD Ensemble pdb from traj and topo files