Q. SCOP is _______ based on manual comparison of structures by human experts with no quantitative criteria to group proteins.

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Q. CATH is a combination of manual curation and automated procedure, which makes the process less subjective.

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Q. The formation of _____ is determined by ______ interactions, whereas the formation of ____ is strongly influenced by ______ interactions.

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Q. The secondary structure prediction methods can be either ab initio based, which make use of single sequence information only, or homology based, which makes use of multiple sequence alignment information.

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Q. Which of the following is untrue regarding Ab Initio–Based Methods?

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Q. The Chou–Fasman algorithm determines the propensity or intrinsic tendency of each residue to be in the helix, strand, and β-turn conformation using observed frequencies found in protein crystal structures.

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Q. The GOR method is based on the “propensity” of each residue to be in one of the two conformational states, helix (H), strand(E).

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Q. Which of the following is untrue regarding Chou–Fasman and GOR methods?

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Q. Which of the following is untrue regarding Homology-Based Methods?

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Q. Because residues in the same aligned position are assumed to have the same secondary structure, any inconsistencies or errors in prediction of individual sequences can be corrected using a majority rule.

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Q. Which of the following is untrue regarding Prediction with Neural Networks?

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Q. Which of the following is untrue regarding Prediction with Neural Networks?

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Q. Which of the following is untrue regarding Prediction with Neural Networks?

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Q. Which of the following is untrue regarding PHD?

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Q. Which of the following is untrue regarding the transmembrane proteins?

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Q. The structures of this group of proteins, however, are comparatively a lot difficult to resolve either by x-ray crystallography or nuclear magnetic resonance (NMR) spectroscopy.

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Q. Which of the following is untrue regarding Prediction of Helical Membrane Proteins?

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Q. The early algorithms based their prediction on hydrophobicity scales.

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Q. Predictions solely based on hydrophobicity profiles have lowest error rates.

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Q. The presence of ______ signal peptides can significantly compromise the prediction _______ because the programs tend to confuse hydrophobic signal peptides with membrane helices.

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