Protein Structure Assessment Service

Creative Biolabs has years of experience in the field of protein engineering. We are capable of offering a full package of protein structure prediction and assessment services including protein structure modeling, protein fold recognition, as well as protein structure assessment, to help global customers improve their protein stability, affinity kinetics, solubility and activity.

It has been proved that amino acid sequences of protein carry all the information needed to guide protein folding into a specific spatial shape. In turn, protein structure can provide important insights into understanding the biological role of protein molecules in cellular processes. Based on these fundamental, protein structure prediction has been used as a vital tool to infer protein function, hint at protein interaction partners and binding site locations, design or improve novel enzymes or antibodies, create mutants to alter specific phenotypes, or explain phenotypes of existing mutations. Traditionally, protein structures are determined by X-ray crystallography or NMR spectroscopy. However, these experimental methods can solve only a small fraction of proteins sequenced by the large-scale genome sequencing projects, because of technology limitations and time constraints.

Fig.1 Protein structure prediction pipeline. (Fischer, 2016)

Over the past two decades, a number of approaches have been developed to analyze the correctness of protein structures and models. These methods use stereochemistry checks, molecular mechanics energy-based functions, statistical potentials, and machine learning approaches to tackle the problem. Typically, the features taken into account are the molecular environment, hydrogen bonding, secondary structure, solvent exposure, pair-wise residue interactions, and molecular packing. As a leading company in this field, Creative Biolabs is able to offer a series of protein structure assessment service for global clients, which including but not limited to:

Model Ranking and Analysis Service

After modeling, determining the correct structure of a protein from a large number of probable candidates still remains an arduous task. With years of experience and advanced platform, we could estimate the quality of a protein structure model and provide ranks for these models for further study.

Error Detection for Protein Modeling

The accuracy of a model is vital as it determines the protein’s function. We offer high-quality error detection services for protein modeling. The model can be evaluated as a whole as well as in the individual regions. Firstly, we need to determine if the model has the correct fold. Secondly, a more detailed evaluation of the overall model accuracy will be obtained based on the similarity between the target and template sequences.

Folding and Molecular Simulations

Understanding the dynamics and mechanism of protein folding is one of the central problems in molecular biology. With years of experience, Creative Biolabs is able to characterize the dynamics and molecular mechanisms of the early events of protein folding with adequate sampling, accurate forcefield parameters, and adequate timescales.

Creative Biolabs has long-term devoted to the development of protein engineering. Our professional scientists are happy to provide custom services for protein structure evaluation based on rational design strategy and directed evolution. For more detailed information, please feel free to contact us.

Reference

Fischer, A.W.; et al. CASP11-an evaluation of a modular BCL: fold-based protein structure prediction pipeline. PloS one. 2016, 11(4): p.e0152517.

All listed services and products are For Research Use Only. Do Not use in any diagnostic or therapeutic applications.

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