Computational Protein Analysis

Proteins play key roles in almost all biological pathways in a living system, and their functions are determined by the three-dimensional shape of the folded polypeptide chain. Advances in DNA sequencing and structural biology over the years have revolutionized our understanding of structure-function relationship of these macromolecules. Especially, an increased number of protein structures in the Protein Data Bank have provided invaluable information about the precise position of each atom, which allows for the understanding of the protein structures and cellular machinery at atomic level and facilitates the discovery of therapeutic drugs. Complementary to experimental methods, in silico approaches can reveal additional information related to many aspects of the protein structure-function relationship, which could be masked by the static picture of the protein configuration.

At Profacgen, we utilize the most state-of-the-art computer software tools that enable comprehensive analyses for a protein by integrating both sequence data and structural information. Our experienced bioinformatics team can help reveal various features of the protein of interest, including but not limited to:

• Physico-chemical parameters
• Annotation of protein functions
• Homology detection and structural alignment
• Motif discovery
• Functional/binding sites analysis and calculation of cavity volume
• Global topological analysis and local structure characterization
• Identification of surface/interface contact map
• Mapping of H-bonding networks
• Electrostatics calculation
• Hydrophobic cluster analysis
• Evaluation of protein stability/folding energy
• Prediction of protein intrinsic disorder
• Estimation of structure quality and error correction
• Sequence- and structure-based PPI networks

We attempt to accurately characterize proteins in silico and to provide insights into the functions based on information such as their sequence, structure, dynamics, evolutionary history, and their association with other molecules. The results will offer an explanation of observed experimental data from a computational biology perspective, or serve as a guide for further lab experiments.

Computational Protein Analysis

We promise to offer customized service according to the specific need of our customers’ and integrate our computational procedures into your workflow. Please do not hesitate to contact us for more details about our computational protein analysis service.