Lecture 11 DA Flashcards

1
Q

To which carbon does the phosphate group attach to in nucleic acids? Where will the next nucleotide join to, and what group is found here?

A

5’ carbon.

Next nucleotide joins to the 3’ hydroxyl.

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2
Q

What is found at the 2’ carbon in DNA vs RNA?

A

DNA - H

RNA - OH

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3
Q

What bases are purines, and how many rings do they have? What about the pyrimidine bases?

A

Purines
A, G - are double ringed
Pyrimidines
C, U, T - are single ringed

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4
Q

If a base has a sugar attached, what is the naming convention?

A

-sine suffix is added.

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5
Q

How can genes be inactivated?

A

Methylation.

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6
Q

What is the link between nucleotides?

A

Phosphodiester bond.

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7
Q

What wavelength do nucleotides absorb highly at, and why?

A

At 260nm, due to their ring structure.

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8
Q

How long is an AT bond? What about GC? How many pairs of H bond each?

A

AT - 11.1A long, 2 H bonds

GC - 10.8A long, 3 H bonds

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9
Q

Which is stronger, AT or GC bonds?

A

GC

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10
Q

How much space is between each nucleotide?

A

Bases are spaced out 3.4A apart.

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11
Q

How wide is DNA?

A

10A

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12
Q

What are the minor and major grooves?

A

Minor grooves are where the DNA pairs bind, between them are the major grooves.

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13
Q

How long is one turn of the DNA?

A

36A.

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14
Q

What direction does DNA synthesis occur?

A

5’ to 3’.

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15
Q

In DNA synthesis/replication, are both strands synthesised continuously?

A

No, the 3’ to 5’ direction is synthesised in pieces at a time known as okazaki fragments and later ligated by DNA ligase.

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16
Q

Name the three forms of DNA. Which is the most common, and are they left handed or right handed?

A

A form - right handed, like the B form, but shorter and thicker.
B form - right handed, most common.
Z form - left handed, very unstable.

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17
Q

What is the base pair sequence of Z form DNA?

A

Alternating purines and pyrimidines.

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18
Q

What is a palindrome in nucleic acids? What about mirror images?

A

Palindrome sequences repeat on the other strand.

Mirror images repeat on the same strand.

19
Q

What structures can palindromes and mirror images form? Is it spontaneous?

A

Hairpins, cruciforms, bulges and internal loops. Requires energy.

20
Q

What is the rate of annealing determined by?

A

The GC content, higher GC means it will melt more quickly.

21
Q

What is the melting temperature for DNA?

A

The point where half the DNA is melted.

22
Q

What can UV light on DNA induce (which bases specifically)? What is a consequence of this?

A

Can induce pyrimidine dimers. Makes a kink in the DNA, causing mutation.

23
Q

What is a common source of DNA mutation?

A

Methylation.

24
Q

What does mitochondrial DNA encode? Is it enough for what the mitochondria needs?

A

DNA replication, transcription, translation, but not anything the mitochondria needs, such as proteins etc. Mitochondria’s needs come from the cytosol.

25
Q

What are genes composed of (3)?

A

Start codon, reading frame, stop codon.

26
Q

What sequences in genes contribute, and dont contribute to proteins?

A

Introns dont contribute, exons do.

27
Q

What percentage of the genome do exons make up?

A

1.5%

28
Q

What are the ends of DNA called, and what is its typical sequence in humans?

A

Telomeres, and shorten over time. TTAGGG repeats can be found in human telomeres.

29
Q

What are telomeres like in cancer?

A

Well taken care of.

30
Q

What is a chormatin?

A

When DNA wraps around a histone protein.

31
Q

Name the order of DNA coiling beginning with chromatin (6)?

A

Chormatin wraps around to form a fibre.
Fibres loop around once to form a loop.
6 loops form a giant loop to form a rosette.
30 rosettes form a giant loop to form one coil.
10 coils form 1 chromatid.
2 chromatids per chromosome.

32
Q

Where do two chromatids join to form a chromosome?

A

Centromere.

33
Q

What enzyme carries out transcription? How many bases are unwound by it at any given time?

A

RNA polymerase. Unwinds 17 bases at any given time. RNA is formed from it, then rewound.

34
Q

In RNA transcription, is the coding strand the template strand?

A

No, it is the non-template strand.

35
Q

What is an easy way to convert the template strand to the RNA transcript?

A

Change all the Ts to a U.

36
Q

What is the promoter sequence?

A

Recruits the polymerase.

37
Q

What do all reading frames begin with, and what does it code for?

A

AUG, coding for methionine.

38
Q

What are the three stop codons?

A

UAA
UAG
UGA

39
Q

What is meant by the degeneracy of the genetic code? What is its purpose?

A

More than one codon per amino acid. 20 amino acids, but 64 possibilities.
Allows for redundancies, and allows different organisms to use different codons according to what resources are available.

40
Q

Are codons always specific to one amino acid? Is this universal in all organisms?

A

No, there are exceptions where codons can code for a different amino acid, not always consistent.

41
Q

What is the anticodon?

A

Codon found on the tRNA.

42
Q

What is the tRNA wobble?

A

The first and second bases on the anticodon bind well, but the third can wobble, but doesnt affect efficiency of tRNA.

43
Q

What sequence does the ribosome bind to? Where is it found (2)?

A

Shine-delgano sequence. Found upstream of the start codon, also found in 16S RNA for complimentarity.