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DNA-Protein Interactions 1

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Sequence Specific & Antiviral Innate Immunity
gina_evans0312
Quiz por gina_evans0312, atualizado more than 1 year ago
gina_evans0312
Criado por gina_evans0312 mais de 10 anos atrás
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Resumo de Recurso

Questão 1

Questão
What is required for the protein surface to bind to the DNA surface?
Responda
  • For the protein surface to be complimentary to the DNA surface
  • For the protein surface to be positive (DNA backbone's are negative)
  • For the protein surface to contain hydrophobic residues

Questão 2

Questão
In which groove can the order of base pairs be differentiated?
Responda
  • Major groove
  • Minor groove

Questão 3

Questão
The major groove is 15A wide
Responda
  • True
  • False

Questão 4

Questão
Which is smaller?
Responda
  • Major groove
  • Minor groove

Questão 5

Questão
Proteins that bind in the major groove must be more specific than those that bind in the minor groove
Responda
  • True
  • False

Questão 6

Questão
Why is Arg such a useful residue?
Responda
  • It has 2 H acceptors, so it can bind to guanine
  • It has 2 H donors, so it can bind to guanine
  • It has 2 H acceptors, so it can bind to cytosine

Questão 7

Questão
Which of the following can bind to both G & A
Responda
  • Glu
  • Val
  • Asn
  • Tyr

Questão 8

Questão
What is base stacking?
Responda
  • Where hydrophobic bases stack to avoid water
  • Where hydrophobic bases pull the DNA inwards to avoid water
  • Where hydrophobic bases twist the DNA to avoid water

Questão 9

Questão
What is required for a protein to take advantage of base stacking?
Responda
  • Residues with delocalised electrons
  • Hydrophobic residues
  • Hydrphillic residues
  • For it to make a gap between bases

Questão 10

Questão
10bp covers a distance of 34 A
Responda
  • True
  • False

Questão 11

Questão
Describe DNA
Responda
  • Long, repetitious and thin
  • Long, non-repetitious and thick
  • Short, repetitious and thin
  • Long, repetitious and thick
  • Short, non-repetitious and thin

Questão 12

Questão
DNA can bend 180 dgrees over how long a stretch?
Responda
  • 40
  • 30
  • 20

Questão 13

Questão
What does Phage Lamda Repressor bind to?
Responda
  • Phage DNA
  • Bacterial DNA

Questão 14

Questão
What is being shown here?
Image:
Half_Sites (image/png)
Responda
  • A half site
  • A palindromic sequence
  • A restriction site

Questão 15

Questão
How does Phage Lambda Repressor Work?
Responda
  • Binds to bacterial DNA at the lambda cro gene
  • Binds to phage DNA at the Lambda cro gene
  • And blocking RNA polymerase binding

Questão 16

Questão
Phage Lambda Repressor binds to only one target sequence
Responda
  • True
  • False

Questão 17

Questão
The Phage Lambda repressor binds as a _
Responda
  • Monomer
  • Dimer
  • Tetramer

Questão 18

Questão
Each subunit attaches to the DNA using a _ and binds to the other subunits using a _
Responda
  • Alpha helix, alpha helix
  • Alpha helix, nothing- it's a monomer
  • Beta sheet, beta sheet
  • Beta sheet, nothing- it's a monomer

Questão 19

Questão
Phage Lambda Repressor has multiple subunits because ...
Responda
  • It binds to a sequence long enough that the protein cannot be removed
  • It binds to a sequence long enough that the sequence becomes unique int the DNA
  • It binds more exactly - so it only has a single target sequence

Questão 20

Questão
Where does Phage Lambda Suppressor bind?
Responda
  • 2 adjacent major grooves
  • 2 adjactent minor grooves
  • An adjactent major & minor groove
  • 32A apart
  • 34A apart
  • 36A apart

Questão 21

Questão
A non-specific interaction doesn't involve bonding with any particular base
Responda
  • True
  • False

Questão 22

Questão
List some specific interactions between Phage Lambda Repressor and DNA
Responda
  • Ser - G, and Gly - T,
  • Gly- T and Ser-G
  • Gly- C- and Ser-T

Questão 23

Questão
The DNA sequence is all read from the same DNA strand
Responda
  • True
  • False

Questão 24

Questão
A helix-turn-helix motif is often used for reading DNA
Responda
  • True
  • False

Questão 25

Questão
Different alpha helices (of the helix-turn-helix) motif perform specific and non-specific interactions
Responda
  • True
  • False

Questão 26

Questão
Proteins don't have to land on the DNA in exactly the right spot, they only need to...
Responda
  • Bind to the phosphate backbone
  • Bind to the bases
  • And then roll freely along the DNA

Questão 27

Questão
Methionine repressor...
Responda
  • prevents methionine production
  • prevents binding of methionine to tRNA
  • prevents methionine being added to the amino acid chain

Questão 28

Questão
The Methionine Repressor binding site is...
Responda
  • Palindromic
  • Almost palindromic
  • 8bp
  • 16bp

Questão 29

Questão
The binding site of most helix-turn-helix proteins are 16-18bp long
Responda
  • True
  • False

Questão 30

Questão
How does the Methionine repressor bind to the DNA?
Responda
  • Uses 2 alpha helices
  • Uses 2 beta sheets
  • One from each monomer
  • One from each end of the monomer
  • Into one major groove
  • Into two major grooves

Questão 31

Questão
Two beta strands have the same diameter as an alpha helix
Responda
  • True
  • False

Questão 32

Questão
Specific interactions in the methionine repressor happen between Lysine, Threonine, A & G
Responda
  • True
  • False

Questão 33

Questão
Restrictions enzymes are part of the bacterial immunity... how?
Responda
  • Recognises and destroys non-self DNA
  • Cuts around viral DNA that has infected the genome
  • Proteases break down the viral coat

Questão 34

Questão
Restriction enzymes and transferases come in pairs, with the restriction enzyme made first
Responda
  • True
  • False

Questão 35

Questão
How does EcoRI bind?
Responda
  • Phosphate backbone reactions in the minor groove
  • Phosphate backbone reactions in the major groove
  • Specific interactions in the minor groove
  • Specific interactions in the major groover

Questão 36

Questão
EcoRI looks for 2 G-C on top of each other because they're more bendable
Responda
  • True
  • False

Questão 37

Questão
Where in the GAATTC sequence does EcoR1 cut?
Responda
  • After the C, before the C
  • After the A & T
  • In the middle

Questão 38

Questão
Eco RI needs an Fe iron to bind
Responda
  • True
  • False

Questão 39

Questão
Where are the distortions of the DNA caused by EcoRI?
Responda
  • In the centre of GAATTC
  • G/AATT/C
  • GA/AT/TC

Questão 40

Questão
Hydrophobic interactions in ECORI-DNA ineractions recognise what?
Responda
  • AA atacking
  • AT stacking
  • TT stacking

Questão 41

Questão
ECORI uses water mediated interactions to assist DNA recognition
Responda
  • True
  • False

Questão 42

Questão
What is strange about the EcoRV restriction enzyme?
Responda
  • It has an abnormally large binding site
  • It leaves blunt ends
  • It binds to 2 different sequences

Questão 43

Questão
EcoRV forms a dimer
Responda
  • True
  • False

Questão 44

Questão
ECORV creates major distortions where?
Responda
  • In the middle
  • At the ends
  • One residue in

Questão 45

Questão
ECORV binds to the backbone in the minor groove and wraps 'arms' around into the major groove
Responda
  • True
  • False

Questão 46

Questão
The recognition loops in the major groove cause...
Responda
  • H bonding between stacks
  • H bonding between A-G
  • H bonding between T-C

Questão 47

Questão
ECORV looks for ATAT bases
Responda
  • True
  • False

Questão 48

Questão
Where in the GCGC sequence does M.Hal methylate?
Responda
  • The first G
  • The first C
  • The second G
  • The last C

Questão 49

Questão
Methylation prevents the restriction enzyme from recognizing a sequence, so it cannot be cot
Responda
  • True
  • False

Questão 50

Questão
Describe the actions of methylases
Responda
  • Methylate both strands at once
  • Methylate one strand at a time
  • Are monomers
  • Are dimers

Questão 51

Questão
Interactions 'pull out' one of the bases to gain chemical access
Responda
  • True
  • False

Questão 52

Questão
What is the donor for methylation?
Responda
  • S-adenosyl-methionine
  • Methanol
  • Methide

Questão 53

Questão
How the methylation interaction studied?
Responda
  • The cystine had the 5th H replaced with an F
  • Trapping it in the active site
  • The cystine had the 3rd H replaced with an F

Questão 54

Questão
Once in the active site, a thiol bond forms between the cystine and the cytosine so the methyl can be added
Responda
  • True
  • False

Questão 55

Questão
What is inserted to bind with the widowed G?
Responda
  • Glu
  • Arg
  • Cys

Questão 56

Questão
The inserted bases fill up the space left by the flipped out cytosine
Responda
  • True
  • False

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