Q. Genetic methods (genetic algorithms and evolutionary programming) store multiple solutions. These solutions form a population of members.

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Q. Stochastic methods can guarantee reaching a global optimal solution and the methods are computationally costly in comparison to the other methods.

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Q. Which of the following is true regarding Protein flexibility?

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Q. In a similar way to structure prediction methods models can be evaluated using RMSD to measure the similarity between two molecular complexes.

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Q. In case of protein-protein docking, the level of success is dependent on the system under study.

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Q. There was little degree of success in docking an antibody-antigen complex in the second challenge for the protein-protein docking evaluation.

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Q. The ______ is an ongoing community-wide experiment on the comparative evaluation of protein-protein docking for structure prediction.

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Q. An understanding of the importance of different factors in a particular interaction is important if confidence in the results is required. Which of the following are not those factors?

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Q. Information about shape, hydrophobicity, electrostatics, evolutionary relationships and conformational flexibility is not always available and the search for a universally applicable scoring function as well as an adequate treatment of conformational flexibility is ongoing.

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Q. In practical circumstances there exists an experimental structure of the complex.

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Q. Visualization methods are very important in viewing molecular properties on molecules. Of particular note is the rendering of molecular surfaces according to their various properties (that can be expressed numerically).

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Q. The popular program RasMol can be made to view molecular properties by assigning those properties to the temperature factor column of the sdf file in question only.

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Q. The GRASP and VRLM have been incorporated into the GRASS server.

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Q. The physical contacts between domains are crucial for the functioning of the cellular machinery.

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Q. There exist three types of interactions between domains. Which of the following is not one of them?

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Q. Stable complexes consist of proteins that are _____ associated with each other, like many ____ proteins for instance.

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Q. Sets of proteins that are part of stable complexes and sets of proteins involved in transient interactions ____ in terms of the similarity in gene expression among the set of proteins.

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Q. Correlation of gene expression for pairs of transiently interacting proteins is ______ compared to randomly chosen pairs of proteins.

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Q. Membership in a stable complex also differs from transient interaction in terms of evolutionary constraints upon sequence divergence.

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Q. For proteins in stable complexes the average sequence identity is 46%, while for proteins in transient interactions it is 41%.

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