Homology modeling is a technique for generating 3D models of a target protein based on its amino acid sequence and the known 3D structure of homologous proteins. The key steps involve finding a suitable template protein, aligning the sequences, building the model, and evaluating the model. I-TASSER and Phyre2 are two servers that perform homology modeling, with I-TASSER being one of the best structure prediction methods and Phyre2 having additional features like ligand binding prediction and variant analysis.

1. Homology Modeling
(I-TASSER, Phyre2)
Presented to: Dr Afshan Kaleem
Presented by: Wafa Gulzar

2. Homology Modeling:
Homology Modeling refers to constructing an atomic resolution model
of the target protein from its amino acid sequence and an experimental
three dimensional structure of a related homologous protein, the
template.

3. Steps:
Find Template
Align Sequences
Build Model
Evaluate Model

4. I-TASSER
Is a server that provides an Internet-based service for
protein structure prediction. It was found to be one of
the best methods in the servers section of CASP
experiments.

9. Results Prediction:

16. Phyre2
This modeling uses various detection tools to generate
3D structures. It has special features like ligand binding
prediction and variant analysis among the protein
amino acid sequence.

26. References:
• Muhammed, M. T., & Aki‐Yalcin, E. (2019). Homology modeling in drug discovery:
Overview, current applications, and future perspectives. Chemical biology & drug
design, 93(1), 12-20.
• Kelley, L. A., Mezulis, S., Yates, C. M., Wass, M. N., & Sternberg, M. J. (2015). The
Phyre2 web portal for protein modeling, prediction and analysis. Nature
protocols, 10(6), 845-858.