In Swiss-Prot, what does a higher value of GMQE (near 1) indicate:

• A) Decreased reliability
• B) Decreased flexibility
• C) Higher reliability
• D) Higher flexibility

What is the main function of UniProt Knowledgebase (UniProtKB)?

• A) To store metagenomic and environmental sequences
• B) To provide comprehensive protein sequences and functional information
• C) To maintain a vast collection of bioinformatics databases and services
• D) To provide a reference set of clusters for all UniProtKB sequences

In UniProt, the database describing the complete set of proteins for a species is called the:

• A) UniProt Knowledgbase
• B) Proteome
• C) Proteomics
• D) Sequence Archive

Bootstrap value for generating a phylogenetic tree recommended by the literature is

• A) 1000
• B) 300
• C) 800
• D) 500

In MEGA 11, you can change font size of --------- phylogenetic tree.

• A) All these
• B) Bootstrap values
• C) Branch lengths
• D) Tax

A phylogenetic tree shows evolutionary relationships among …………. that have a common ancestor.

• A) All these
• B) Species
• C) Genomes
• D) Genes

What does the amino acid composition describe in Protparam results?

• A) The frequency of each amino acid in the protein sequence
• B) The isoelectric point of the protein
• C) The molecular weight of the protein
• D) The secondary structure of the protein

Computer structure modes are those models which are generate by

• A) Computer algorithms
• B) Manually by humans
• C) Databases
• D) Experiments

Which one of the following statements is not a step of ClustalW algorithm?

• A) Convert the sequence similarity
• B) Compute the multiple sequence alignments for all sequences
• C) Progressively align the sequence together into each branch point of the guide tree
• D) Construct a tree for the order in which pairs of sequences are to be aligned and combined with previous alignments

Nucleotide BLAST compares:

• A) Protein sequences against nucleotide databases
• B) Protein sequences against protein databases
• C) DNA sequences against protein databases
• D) Nucleotide sequences against nucleotide databases

What type of sequences can be found in UniMES?

• A) Metagenomic and environmental sequences
• B) None of these
• C) Protein sequence and functional information
• D) Reference set of clusters for all UniProtKB sequences

The protein is positively charged when its pH is:

• A) Below its isoelectric point (pI)
• B) Equal to its isoelectric point (pI)
• C) At pH 7
• D) Above its isoelectric point (pI)

Protein BLAST compares:

• A) Nucleotide sequences against nucleotide databases
• B) Protein sequences against protein databases
• C) Protein sequences against nucleotide databases
• D) DNA sequences against protein databases

ClustalW, used for Multiple Sequence Alignment, was developed by:

• A) Thompson, Higgins & Gibson
• B) Thompson, Higgins & Richard
• C) Thompson, Durbin & Gibson
• D) Durbin, Higgins & Richard

In RCSB PDB, the gallery view displays:

• A) Graphical Representations of Proteins
• B) Proteins in a Table Format
• C) Brief Introductions to Proteins
• D) Protein 3D Structures and IDs

_______ is a recently proposed scale for measuring the structural similarity between two structures

• A) Z-score
• B) TM-score
• C) C-score
• D) L-score

Sequence Alignment helps scientists

• A) All of these
• B) To trace out evolutionary relationship
• C) To infer the functions of newly synthesized genes
• D) To predict new members of gene families

Amino acid composition denotes ................... of individual residues of a protein.

• A) Total number
• B) Strength
• C) Concentration
• D) Charge

ClustalW, used for Multiple Sequence Alignment, was developed in:

• A) 1996
• B) 1993
• C) 1995
• D) 1994

TM-score _____ means a randomly selected protein pair with the gapless alignment taken from PDB

• A) <0.14
• B) <0.17
• C) <0.15
• D) <0.18