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Eukaryotic gene regulation, Lecture notes of Biology

During transcription, translation, and beyond, there are specific modifications that occur in a eukaryotic cell. These steps are broken down at each step during transcription and translation.

Typology: Lecture notes

2019/2020

Uploaded on 12/09/2020

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Eukaryotic Gene regulation: Events
What happens
Pre-Transcription
Chromatin remodeling
Acetylation unwinds DNA from histones,
making genes accessible to transcribe.
HAT- Histone acetyltransferase enzyme
adds acetyl groups to offset some of the
positive histone charge, decreasing
DNA’s affinity for the histones.
HDAC-removes acetyl groups once a
specific region of DNA is accessible.
CRC-Chromatin remodeling complex
uses ATP to move the histone away from
the DNA.
Methylation winds DNA around histones
tighter, preventing gene transcription.
Regulatory TFs are proteins that regulate
transcription, are produced specific to
cell’s environmental signals, help turn
on/off genes, can be *activators &
enhancers* help RNA Polymerase form
an active transcription initiation complex
on the promoter region.
Post-Transcription
Modify pre-mRNA: inc mRNA stability,
facilitates transport into cytoplasm,
protects coding regions from degradation,
allows the two ends of mRNA to
associate with each other and helps find
the ribosome to initiate translation.
5’ Guanine cap
3’ poly-a tail - inc. length inc. rounds
available for translation. The enzymatic
shortening of poly-a-tail helps trigger
removal of 5’ cap, endonucleases ready
to chew up the mRNA.
Alternative splicing of exons by different
spliceosomes in different cells leads to
different protein expression across
different cell types. This amplifies the
number of proteins that can be produced
from a set number of genes.
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Eukaryotic Gene regulation: Events What happens Pre-Transcription Chromatin remodeling Acetylation unwinds DNA from histones, making genes accessible to transcribe. HAT- Histone acetyltransferase enzyme adds acetyl groups to offset some of the positive histone charge, decreasing DNA’s affinity for the histones. HDAC-removes acetyl groups once a specific region of DNA is accessible. CRC-Chromatin remodeling complex uses ATP to move the histone away from the DNA. Methylation winds DNA around histones tighter, preventing gene transcription. Regulatory TFs are proteins that regulate transcription, are produced specific to cell’s environmental signals, help turn on/off genes, can be activators & enhancers help RNA Polymerase form an active transcription initiation complex on the promoter region. Post-Transcription Modify pre-mRNA: inc mRNA stability, facilitates transport into cytoplasm, protects coding regions from degradation, allows the two ends of mRNA to associate with each other and helps find the ribosome to initiate translation. 5’ Guanine cap 3’ poly-a tail - inc. length inc. rounds available for translation. The enzymatic shortening of poly-a-tail helps trigger removal of 5’ cap, endonucleases ready to chew up the mRNA. Alternative splicing of exons by different spliceosomes in different cells leads to different protein expression across different cell types. This amplifies the number of proteins that can be produced from a set number of genes.

Translation Silencing - miRNA +RISC Micro RNA is complementary to a mRNA that is defective or damaged. Localizes the risk, used in viral RNA recognition, and cuts mRNA stopping the translation of viral proteins. Initiation of translation Eukaryotic initiation factor (EIF-2) unphosphorylated is turned ON, binds to the small subunit of Ribosome to initiate translation. If EIF-2 is phosphorylated, its shape is changed, turned OFF and it cannot bind to ribosome or initiate translation. This is useful if a cell doesn't have enough nutrients to make more proteins. Eukaryotic elongation factors (eEFs) that help move the mRNA through the ribosome. eEFs are also inactivated by phosphorylation. Rate of translation Regulatory proteins bind to specific sequences or structures within the 5’ end preventing attachment of ribosomes. Post-Translation Protein processing

  • glycosylation : signal sequence, cell-surface proteins.
  • proteolysis : cleaving a polypeptide can activate it, helps it fold into a mature protein.
  • phosphorylation : add phosphate groups, activate an enzyme Chaperone proteins help fold proteins from a polypeptide chain Protein Degradation The proteasome recognizes a ubiquitin-tagged protein, unfolds it and breaks it into smaller peptide fragments for further breakdown in the cytosol.

RNA Polymerase Transcriptional machinery binds to the promoter with help from Basal TFs, RTFs, sigma factor, PPE, mediator complex, pre-initiation complex, activators, and enhancers. Mediator Complex Recruits RNA Polymerase and TFs to help initiate transcription. This enormous, multi-subunit protein complex regulates gene expression by helping activators bound to enhancers reach the promoter. Co-activator Helps TFs bind to each other, helping RNA Polymerase stick to the promoter. Transcription initiation complex TFs and RNA Polymerase active when assembled at initiation site of promoter region. Pre-initiation complex Recruit RNA Polymerase, allow binding of this enzyme with promoter region of DNA. activator Protein TF binds to enhancer regions that interact with the promoter to activate gene transcription. repressor Protein TF that blocks the binding of activator to enhancer region, suppress gene transcription.