Bioinformatics Ab Initio Protein Structural Prediction Homology Modeling Online Exam Quiz
Bioinformatics Ab Initio Protein Structural Prediction Homology Modeling GK Quiz. Question and Answers related to Bioinformatics Ab Initio Protein Structural Prediction Homology Modeling. MCQ (Multiple Choice Questions with answers about Bioinformatics Ab Initio Protein Structural Prediction Homology Modeling
Which of the following is untrue about homology modeling?
Options
A : Homology modeling predicts protein structures based on sequence homology with known structures
B : It is also known as comparative modeling
C : The principle behind it is that if two proteins share a high enough sequence similarity, they are likely to have very similar three-dimensional structures
D : It doesn’t involve the evolutionary distances anywhere
Which of the following is untrue about Loop Modeling Step?
Options
A : In the sequence alignment for modeling, there are often regions caused by insertions and deletions producing gaps in sequence alignment
B : In the sequence alignment for modeling, there are no regions producing gaps in sequence alignment
C : The gaps cannot be directly modeled
D : Loop modeling is required for closing the gaps requires
Which of the following is untrue about Backbone Model Building Step?
Options
A : Once optimal alignment is achieved, residues in the aligned regions of the target protein can assume a similar structure as the template proteins
B : Coordinates of the corresponding residues of the template proteins can be simply copied onto the target protein
C : If the two residues differ, everything other than the backbone atoms can be copied
D : If the two aligned residues are identical, coordinates of the side chain atoms are copied along with the main chain atoms
Which of the following is untrue about Sequence Alignment Step?
Options
A : Once the structure with the highest sequence similarity is identified as a template, the full-length sequences of the template and target proteins need to be realigned using refined alignment algorithms to obtain optimal alignment
B : The realignment is the most critical step in homology modeling
C : The realignment directly affects the quality of the final model
D : Errors made in the alignment step can be corrected in the following modeling steps
Which of the following is untrue about specialized programs for loop modeling?
Options
A : PETRA is a web server that models loops using the database approach
B : FREAD is a web server that models loops using the database approach
C : CODA is a web server that uses a consensus method based on the prediction results from FREAD and PETRA
D : For loops of three to eight residues, CODA uses consensus conformation of both methods
In Rosetta, The segments with assigned _______ structures are subsequently assembled into a ______ dimensional configuration.
Options
A : primary, three
B : secondary, three
C : secondary, two
D : primary, three
Which of the following is untrue about template Selection Step?
Options
A : The first step in protein structural modeling is to select appropriate structural templates
B : This forms the foundation for rest of the modeling process
C : There is no use of heuristic alignment search programs
D : The template selection involves searching the Protein Data Bank (PDB) for homologous proteins with determined structures
Which of the following is untrue about Ab initio prediction?
Options
A : The limited knowledge of protein folding forms the basis of ab initio prediction
B : The ab initio prediction method attempts to produce all-atom protein models based on sequence information alone without the aid of known protein structures
C : The ab initio prediction method attempts to produce all-atom protein models based on sequence information alone with some aid of known protein structures
D : The perceived advantage of this method is that predictions are not restricted by known folds and that novel protein folds can be identified
Energy minimization has to be used with caution because excessive energy minimization often moves residues away from their correct positions.
Options
A : True
B : False
C :
D :
In Side Chain Refinement step, A side chain can be built by searching every possible conformation at every torsion angle of the side chain to select the one that has the lowest interaction energy with neighboring atoms.
Options
A : True
B : False
C :
D :
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