Bioinformatics Mcqs

Page No. 29

Balls and sticks are solid spheres and rods, representing atoms and bonds, respectively.


aTrue


bFalse


ceither true and false


dnone of the mentioned


View Answer True

A Protein Data Bank (PDB) data file for a protein structure contains only x, and z coordinates of atoms.


aTrue


bFalse


ceither true and false


dnone of the mentioned


View Answer False

The main feature of computer visualization programs is interactivity, which allows users to visually manipulate the structural images through a graphical user interface.


aTrue


bFalse


ceither ture and false


dnone of the mentioned


View Answer True

VAST is a web server that performs alignment using intramolecular approaches only.


aTrue


bFalse


ceither true and false


dnone of the mentioned


View Answer False

Which of the following is incorrect about SSAP?


a It is a web server that uses an intramolecular distance–based method


bMatrices are built based on the Cβ distances of all residue pairs


cDynamic programming approach is not used here


dDynamic programming approach is used



Which of the following is incorrect about Multiple Structure Alignment?


aThe alignment strategy is different than the Clustal sequence alignment using a progressive approach


bll structures are first compared in a pairwise fashion


cA distance matrix is developed based on structure similarity scores such as RMSD


dThe aligned structures create a median structure that allows other structures to be progressively added for comparison based on the hierarchy described in the guide tree



Which of the following is incorrect about the intramolecular approach?


aThe method works by generating a distance matrix between residues of the same protein


bIt generates a string between residues of the same protein


cIn comparing two protein structures, the distance matrices from the two structures are moved relative to each other to achieve maximum overlaps


dBy overlaying two distance matrices, similar intramolecular distance patterns representing similar structure folding regions can be identified



The intramolecular approach does not depend on sequence similarity between the proteins to be compared.


aTrue


bFalse


ceither true and false


dnone of the mentioned


View Answer True

The root mean square deviation (RMSD), with the size dependency correction is?


aRMSD−1.3+0.5ln(N+1)


bRMSD−1.3+0.5ln(NxN)


cRMSD−1.3+0.5ln(N−1)


dRMSD−1.3+0.5ln(N)


View Answer RMSD−1.3+0.5ln(N)

The root mean square deviation (RMSD), without the size dependency correction is?


a∑Ni=1D2iN


b∑Ni=1D2iN+1


c∑Ni=1D2iNxN


d∑Ni=1D2iN–1


View Answer ∑Ni=1D2iN

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