CSB-KaracaLab
We are interested in developing tools towards understanding the structure-dynamics-function relationships of biomolecules.
Izmir Biomedicine and Genome CenterIzmir, Turkey
Pinned Repositories
AFanalysis
Quick analysis for AlphaFold models
BINDKIN
A structural benchmark to measure point mutations’ impact on kinase-ligand interactions
Bulasiciligi-Arttiran-Koronavirus-SARS-CoV-2-Mutasyonlarinin-Tahmini
CSB-WS
This page is prepared to model the complex of phage G3P and E. Coli TolA
gmx_performance_on_HPC
Gromacs performance benchmarking on different HPC platforms
interaction-analysis
NucDNADynamics
Nucleosomal DNA Dynamics
Paralog_SDP
Predicting the Specificity-Determining Positions of Paralogous Complexes
prot-on
This repo contains the collection of codes to find designer interfacial mutations
RBD-ACE2-MutBench
Benchmarking the structure-based mutation predictors on ace2-rbd binding data set
CSB-KaracaLab's Repositories
CSB-KaracaLab/prot-on
This repo contains the collection of codes to find designer interfacial mutations
CSB-KaracaLab/BINDKIN
A structural benchmark to measure point mutations’ impact on kinase-ligand interactions
CSB-KaracaLab/gmx_performance_on_HPC
Gromacs performance benchmarking on different HPC platforms
CSB-KaracaLab/RBD-ACE2-MutBench
Benchmarking the structure-based mutation predictors on ace2-rbd binding data set
CSB-KaracaLab/interaction-analysis
CSB-KaracaLab/Paralog_SDP
Predicting the Specificity-Determining Positions of Paralogous Complexes
CSB-KaracaLab/AFanalysis
Quick analysis for AlphaFold models
CSB-KaracaLab/Bulasiciligi-Arttiran-Koronavirus-SARS-CoV-2-Mutasyonlarinin-Tahmini
CSB-KaracaLab/CSB-WS
This page is prepared to model the complex of phage G3P and E. Coli TolA
CSB-KaracaLab/NucDNADynamics
Nucleosomal DNA Dynamics
CSB-KaracaLab/Sox-PTF
CSB-KaracaLab/CASP15_Assembly
Data and analysis scripts of the CASP15 assembly category
CSB-KaracaLab/CHEM101.6
CSB-KaracaLab/DNMT3AB_specificity
an interaction dynamics framework (IDF) applied on DNMT3A/B systems
CSB-KaracaLab/eif2g-eif2bg-ints
The modeling of eif2g-eif2bg interactions
CSB-KaracaLab/gmx_corr
gmx_corr converts the covariance matrix which is produced by GROMACS covar to cross correlation matrix and creates a heat map figure.
CSB-KaracaLab/haddocking.github.io
Webpage of the Bonvinlab @ Utrecht University and HADDOCK software
CSB-KaracaLab/KDM6A-interacting-models
Contains the structural models of KDM6A, TLE1, HES1, RUNX1-2, HHEX interactions
CSB-KaracaLab/RecursiveRMScheck
It calculates the pairwise RMSD values of available pdb files in the folder recursively.
CSB-KaracaLab/TROPIC