DNA-Protein Interactions 1

Beschreibung

Sequence Specific & Antiviral Innate Immunity
gina_evans0312
Quiz von gina_evans0312, aktualisiert more than 1 year ago
gina_evans0312
Erstellt von gina_evans0312 vor fast 11 Jahre
494
1

Zusammenfassung der Ressource

Frage 1

Frage
What is required for the protein surface to bind to the DNA surface?
Antworten
  • 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

Frage 2

Frage
In which groove can the order of base pairs be differentiated?
Antworten
  • Major groove
  • Minor groove

Frage 3

Frage
The major groove is 15A wide
Antworten
  • True
  • False

Frage 4

Frage
Which is smaller?
Antworten
  • Major groove
  • Minor groove

Frage 5

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

Frage 6

Frage
Why is Arg such a useful residue?
Antworten
  • 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

Frage 7

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

Frage 8

Frage
What is base stacking?
Antworten
  • 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

Frage 9

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

Frage 10

Frage
10bp covers a distance of 34 A
Antworten
  • True
  • False

Frage 11

Frage
Describe DNA
Antworten
  • Long, repetitious and thin
  • Long, non-repetitious and thick
  • Short, repetitious and thin
  • Long, repetitious and thick
  • Short, non-repetitious and thin

Frage 12

Frage
DNA can bend 180 dgrees over how long a stretch?
Antworten
  • 40
  • 30
  • 20

Frage 13

Frage
What does Phage Lamda Repressor bind to?
Antworten
  • Phage DNA
  • Bacterial DNA

Frage 14

Frage
What is being shown here?
Antworten
  • A half site
  • A palindromic sequence
  • A restriction site

Frage 15

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

Frage 16

Frage
Phage Lambda Repressor binds to only one target sequence
Antworten
  • True
  • False

Frage 17

Frage
The Phage Lambda repressor binds as a _
Antworten
  • Monomer
  • Dimer
  • Tetramer

Frage 18

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

Frage 19

Frage
Phage Lambda Repressor has multiple subunits because ...
Antworten
  • 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

Frage 20

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

Frage 21

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

Frage 22

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

Frage 23

Frage
The DNA sequence is all read from the same DNA strand
Antworten
  • True
  • False

Frage 24

Frage
A helix-turn-helix motif is often used for reading DNA
Antworten
  • True
  • False

Frage 25

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

Frage 26

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

Frage 27

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

Frage 28

Frage
The Methionine Repressor binding site is...
Antworten
  • Palindromic
  • Almost palindromic
  • 8bp
  • 16bp

Frage 29

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

Frage 30

Frage
How does the Methionine repressor bind to the DNA?
Antworten
  • 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

Frage 31

Frage
Two beta strands have the same diameter as an alpha helix
Antworten
  • True
  • False

Frage 32

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

Frage 33

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

Frage 34

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

Frage 35

Frage
How does EcoRI bind?
Antworten
  • 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

Frage 36

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

Frage 37

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

Frage 38

Frage
Eco RI needs an Fe iron to bind
Antworten
  • True
  • False

Frage 39

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

Frage 40

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

Frage 41

Frage
ECORI uses water mediated interactions to assist DNA recognition
Antworten
  • True
  • False

Frage 42

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

Frage 43

Frage
EcoRV forms a dimer
Antworten
  • True
  • False

Frage 44

Frage
ECORV creates major distortions where?
Antworten
  • In the middle
  • At the ends
  • One residue in

Frage 45

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

Frage 46

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

Frage 47

Frage
ECORV looks for ATAT bases
Antworten
  • True
  • False

Frage 48

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

Frage 49

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

Frage 50

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

Frage 51

Frage
Interactions 'pull out' one of the bases to gain chemical access
Antworten
  • True
  • False

Frage 52

Frage
What is the donor for methylation?
Antworten
  • S-adenosyl-methionine
  • Methanol
  • Methide

Frage 53

Frage
How the methylation interaction studied?
Antworten
  • 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

Frage 54

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

Frage 55

Frage
What is inserted to bind with the widowed G?
Antworten
  • Glu
  • Arg
  • Cys

Frage 56

Frage
The inserted bases fill up the space left by the flipped out cytosine
Antworten
  • True
  • False
Zusammenfassung anzeigen Zusammenfassung ausblenden

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