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TRANSCRIPTION
Transcription
 Prokaryotictranscription
 The RNA polymerase
 Theorigin & prokaryotic promoters
 The initiation, elongation,& termination.
 Prokaryotic termination signals
 Prokaryotic transcription product
 Eukaryotictranscription
 Eukaryotic RNA polymerases
 Eukaryotic promoters
 Enhancers & transcriptional elements
 The processesof initiation, elongation &
 termination
 Eukaryotictermination signals
 RNA processing & modifications
Thespliceosomes
Thalassemias & globin mRNA splicing
Modification to mRNA, tRNA
The Central
Dogma
• DNAcodes for RNA
• RNA codes for protein
Transcription: synthesis of one RNA
molecule using one of the two DNA
strands as a template by the enzyme
RNA Polymerase.
Newly Synthesized RNA
The RNA polymerase-catalyzed synthesis of
RNA on a DNA template strand
Eukaryotes
exons introns
nucleus
nuclear export
cytosol
translation
transcription
translation
Prokaryotes
DNA
mRNA
transcription
pre-mRNA
processing
splicing
Eukaryotic Transcription and Tanslation are separated
by space and time
RNA Polymerase
• Theenzyme responsible for the RNA
synthesis is DNA-dependent RNA
polymerase.
–The prokaryotic RNA polymerase
is a multiple-subunit protein of
~480kD.
1. Requires no primerforpolymerization.
2. Requires DNA for activity and is most
active with a double-stranded DNA as
template.
3. 5’  3’ synthesis.
4. Require Mg2+ for RNA synthesisactivity.
5. lacks 3’  5’ exonuclease activity, and the
error rate of nucleotides incorporation is
10-4 to 10-5.
6. Usuallyare multisubunitenzyme.
RNA Polymerase
(NMP)n + NTP  (NMP)n+1 + PPi
The holoenzyme of RNA-polymerase in E.coli
consists of 5 different subunits: 2    
Subunit MW Function
 36.5 KD
Determines the DNA to be
transcribed
 150 KD Catalyzes polymerization
 155.5 KD Binds & open DNA template
 70 KD
Recognizes the promoter
for synthesis initiation
ω 11 KD Subunit packing
RNA Polymerase of E. Coli
Eukaryotic Promoter Sequences
Promoter
Enhancers
Activators
Structure of bacterial prokaryotic
promoter region
TATA-Box / Pribnow box
• This is a stretch of 6
nucleotides ( 5'- TATAAT-3')
centered about 8-10
nucleotides to the leftof the
transcriptionstartsite.
-35 Sequence
• A second consensus
nucleotidesequence
( 5'- TTGACA-3'), is centered
about 35 bases to the left of
the transcriptionstartsite.
Biochemistry For Medics- Lecture Notes 17
Transcription process
1. Promoter binding
2. DNAunwinding
3. RNAchain initiation
4. RNAchain elongation
5. RNAchain termination
• Initiation phase: RNA-polymerase
recognizes the promoter and starts
the transcription.
• Elongation phase: the RNA strand
iscontinuouslygrowing.
• Termination phase:
RNA-polymerase stops synthesis
and the nascent RNA isseparated
from the DNA template.
Transcription of Prokaryotes
Initiation of Transcription at
Promoters
Transcription isdivided into threesteps for
both prokaryotesand eukaryotes.
Initiation, Elongation and Termination.
The process of elongation is highly
conserved between prokaryotesand
eukaryotes, but initiation and
terminationaresomewhatdifferent.
Initiation
• RNA-polymerse recognizes the
TTGACA region (-35 sequence), and
slides to the TATAAT region
(-10 sequence), then opens the DNA
duplex.
• The unwound region isabout 17 bp.
• The first nucleotideon RNA transcript
isalwayspurine triphosphate. GTP is
moreoften than ATP.
• ThepppGpN-OH structure remainson
the RNA transcript until the RNA
synthesis iscompleted.
• The three molecules form a
transcription initiationcomplex.
RNA-pol (2) - DNA - pppGpN- OH 3
• No primer is needed for RNAsynthesis.
• The  subunit falls off from the
RNA-polymerase once the first
3,5-phosphodiester bond is formed.
• The core enzyme moves along the DNA
template to enter the elongation phase.
Elongation
• The release of the  subunit causes
the conformational change of the
core enzyme. The core enzyme slides
on the DNA template toward the 3
end.
• Free NTPs are added sequentially to
the 3 -OH of the nascent RNA strand.
(NMP)n+1
elongated
RNA strand
+ PPi
(NMP)n + NTP
RNA strand substrate
• RNA-polymerase, DNA segment of
~40nt and the nascent RNA form a
complex called the transcription
bubble.
• The 3 segment of the nascent RNA
hybridizes with the DNA template, and
its 5 end extends out the
transcription bubble as the synthesis
is processing.
Transcription bubble
Nascent RNA
RNA Polymerase
Nascent RNA
Removal of
Sigma subunit
RNA
5’ 3’
Hairpin
Termination
• The RNA Polymerase stops moving on
the DNA template. The RNA transcript
falls off from the transcription complex.
• The termination occurs in either
 -dependent or  -independent manner.
The  factor, a hexamer, is a ATPase
and a Helicase.
Termination function of  factor
-dependent termination
-independent termination
• The termination signal is a stretch of
30-40 nucleotides on the RNA
transcript, consisting of many GC
followed by a series of U.
• The sequence specificity of this
nascent RNA transcript will form
particular stem-loop structures to
terminate the transcription.
 -independent termination
Hairpin

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1123

  • 2. Transcription  Prokaryotictranscription  The RNA polymerase  Theorigin & prokaryotic promoters  The initiation, elongation,& termination.  Prokaryotic termination signals  Prokaryotic transcription product  Eukaryotictranscription  Eukaryotic RNA polymerases  Eukaryotic promoters
  • 3.  Enhancers & transcriptional elements  The processesof initiation, elongation &  termination  Eukaryotictermination signals  RNA processing & modifications Thespliceosomes Thalassemias & globin mRNA splicing Modification to mRNA, tRNA
  • 4. The Central Dogma • DNAcodes for RNA • RNA codes for protein
  • 5.
  • 6. Transcription: synthesis of one RNA molecule using one of the two DNA strands as a template by the enzyme RNA Polymerase. Newly Synthesized RNA
  • 7.
  • 8. The RNA polymerase-catalyzed synthesis of RNA on a DNA template strand
  • 10. RNA Polymerase • Theenzyme responsible for the RNA synthesis is DNA-dependent RNA polymerase. –The prokaryotic RNA polymerase is a multiple-subunit protein of ~480kD.
  • 11. 1. Requires no primerforpolymerization. 2. Requires DNA for activity and is most active with a double-stranded DNA as template. 3. 5’  3’ synthesis. 4. Require Mg2+ for RNA synthesisactivity. 5. lacks 3’  5’ exonuclease activity, and the error rate of nucleotides incorporation is 10-4 to 10-5. 6. Usuallyare multisubunitenzyme. RNA Polymerase (NMP)n + NTP  (NMP)n+1 + PPi
  • 12.
  • 13. The holoenzyme of RNA-polymerase in E.coli consists of 5 different subunits: 2     Subunit MW Function  36.5 KD Determines the DNA to be transcribed  150 KD Catalyzes polymerization  155.5 KD Binds & open DNA template  70 KD Recognizes the promoter for synthesis initiation ω 11 KD Subunit packing RNA Polymerase of E. Coli
  • 14.
  • 15.
  • 17. Structure of bacterial prokaryotic promoter region TATA-Box / Pribnow box • This is a stretch of 6 nucleotides ( 5'- TATAAT-3') centered about 8-10 nucleotides to the leftof the transcriptionstartsite. -35 Sequence • A second consensus nucleotidesequence ( 5'- TTGACA-3'), is centered about 35 bases to the left of the transcriptionstartsite. Biochemistry For Medics- Lecture Notes 17
  • 18. Transcription process 1. Promoter binding 2. DNAunwinding 3. RNAchain initiation 4. RNAchain elongation 5. RNAchain termination
  • 19. • Initiation phase: RNA-polymerase recognizes the promoter and starts the transcription. • Elongation phase: the RNA strand iscontinuouslygrowing. • Termination phase: RNA-polymerase stops synthesis and the nascent RNA isseparated from the DNA template. Transcription of Prokaryotes
  • 20. Initiation of Transcription at Promoters Transcription isdivided into threesteps for both prokaryotesand eukaryotes. Initiation, Elongation and Termination. The process of elongation is highly conserved between prokaryotesand eukaryotes, but initiation and terminationaresomewhatdifferent.
  • 21. Initiation • RNA-polymerse recognizes the TTGACA region (-35 sequence), and slides to the TATAAT region (-10 sequence), then opens the DNA duplex. • The unwound region isabout 17 bp.
  • 22. • The first nucleotideon RNA transcript isalwayspurine triphosphate. GTP is moreoften than ATP. • ThepppGpN-OH structure remainson the RNA transcript until the RNA synthesis iscompleted. • The three molecules form a transcription initiationcomplex. RNA-pol (2) - DNA - pppGpN- OH 3
  • 23. • No primer is needed for RNAsynthesis. • The  subunit falls off from the RNA-polymerase once the first 3,5-phosphodiester bond is formed. • The core enzyme moves along the DNA template to enter the elongation phase.
  • 24. Elongation • The release of the  subunit causes the conformational change of the core enzyme. The core enzyme slides on the DNA template toward the 3 end. • Free NTPs are added sequentially to the 3 -OH of the nascent RNA strand. (NMP)n+1 elongated RNA strand + PPi (NMP)n + NTP RNA strand substrate
  • 25. • RNA-polymerase, DNA segment of ~40nt and the nascent RNA form a complex called the transcription bubble. • The 3 segment of the nascent RNA hybridizes with the DNA template, and its 5 end extends out the transcription bubble as the synthesis is processing.
  • 27.
  • 31. Termination • The RNA Polymerase stops moving on the DNA template. The RNA transcript falls off from the transcription complex. • The termination occurs in either  -dependent or  -independent manner.
  • 32. The  factor, a hexamer, is a ATPase and a Helicase. Termination function of  factor -dependent termination
  • 33. -independent termination • The termination signal is a stretch of 30-40 nucleotides on the RNA transcript, consisting of many GC followed by a series of U. • The sequence specificity of this nascent RNA transcript will form particular stem-loop structures to terminate the transcription.