导图社区 Regulation of Gene expression
Regulation of Gene expression:Initiation of transcription、processing of primary transcripts、nuclear pore……
编辑于2022-06-09 22:47:35Regulation of Gene expression
Initiation of transcription
changes on epigenetics chromosomal structures
example: histone deacetylase 3 represses some gene expression
it's normally binds by zinc-finger transcription factor YY1
which down regulates p53 function
modulates cell growth & oppoptosis
HDAC3 heterozygous deletion mouse lake paneth cells on their guts
changes on genetics protein factors
DNA Initiation site
Prokaryotic
promotor
regulatory sequences
operater
CAP binding site
no primer
Eukaryotic
core elements/promotor
distal elements
Enhancer
binds by Distal activator proteins
when DNA folds it will approximate initiation complex
it interacts with the complex and increase the rate of transcription
sometimes observed in bacteria..
necessary for high levels of transcription
Reducer
Silencer
regulatory proteins
name
eukaryotic
initiation factors
general
specific
distal activators
DNA recognized
10-15nt DNA regions
biggest only 20nt
effects
blockage
block RNA pol binds to promotor
stimulation
facilitate RNA pol binds to promotor
modulates the affinity of RNA polymerase to promoter
pi-p53 is a transcription factor for p21
processing of primary transcripts
pre mRNA Splicing
alternative splicing
examples
sex determination in drosophila
same transcript produces calcitonin in thyroid gland but CGRP in hypothalamus
tissue specific factors determine primary transcripts' regulation
SLO gene (Potassium channel) in the inner ear cochlea
RNA editing
chemically changes a base's base pairing property
usually deamination
cytosine to uracil
adenine to inosine
inosine pairs as G during translation
examples
Apolipoprotein B
2 isoforms of this protein
full-length APOB100
in liver
part of LDL(low density lipoprotein) particle that carries cholesteral
high level of LDL is major predictor of human atherosclerosis
truncated APOB48
by mRNA editing, change glutamine codon into stop, only in intestine
5-HT serotonin receptor
the primary transcrip is edited at multiple sites to produce 12 isoforms of the protein
nuclear pore
transport channels control efficiency/ accessibility of mRNAs transcripts
recognation
by receptors lining on the interior of the pores
transcripts
poly A tail is essential for recognation
mRNA statistics
10% is completely spliced
5% is transported in cytoplasm
weak evidence for selectivity
-The nuclear/cytoplasmic (N/C) ratio of some mRNAs (e.g. cyclin D3 mRNA), was decreased in Nup96+/- cells in G1 phase, which led to an increase in protein levels
means heterozygocity of this nuclear complex gene increase those mRNA transport
means they normally limits their transport
mRNA degredation
harf-life of mRNA transcripts
prokaryotics
about 3min
eukaryotics
more than 10hs for β-globin
"eternity" relative to cell metabolism
transcripts for regulatory proteins and growth factors are much shorter
A sequence of A and U nucleotides near the 3' poly-A tail of a transcript promotes removal of the tail, which destabalizes the mRNA
1. by targets it for 3' to 5' RNA exonucleases
2. by stimulates the decapping enzymes that remove the 5' cap leading to degredation by 5' to 3' RNA exonuclease
Other mRNA transcripts contain recognation sites for endonuclease near 3'end
in order to alter these protein's level rapidly
Iron-dependent regulation of the stability of transferrin-receptor (TfR) mRNA
The 3′ iron-response elements (IREs) in this mRNA have a stem-loop structure containing AU-rich sequences (yellow) that promote mRNA degradation. At low intracellular iron concentrations, the conformation of IRE-BP (dark green) is such that it binds to the IREs, thereby inhibiting degradation. As a result, the level of transferrin receptor increases, so that more iron can be brought into the cell.
The transferrin-receptor transfers extracellular iron into cell
RNA interference
miR
siR
Translation
translation repressor proteins
attaches the 5'end of mRNA, stop formation of 48S initiation complex
ex. aconitase normally shut off ferritin production
aconitase binds to a 30-nt sequence at the beginning of the ferritin mRNA, forming a stable loop to which ribosome cannot bind.
iron as inducer binds to aconitase, and causes it to dissociate from the ferritin mRNA
increases ferritin production for 100-fold
efficiency of translation
5'UTR
secondary structures
length
poly A
kinase phosphorylates elF2-GDP inhibits translation
Selective Translation
feed back inhibition mechanism
experiment
Colchicine increases cytoplasm tubulin subunits: tubulin mRNA translation is inhibited
Vinblastine decreses cytoplasm tubulin subunits: tubulin mRNA translation is stimulated
Conclusion: α/β tubulin subunits together inhibits tubulin mRMA translasion
post translational protein modification
Covalent
Substitution
phosphorylation
ubiquitination
tragets protein degredation
Cleavage
zymogen
control protein folding
improper folding overtime
protein aggregates
insoluble
neurodegenerative disease causing: Alzheimer dementia, Parkinson disease, and mad cow disease
form characteristic plaques in brain cells
control protein turnover
very rapid in prokayotes
less rapid but controled in eukaryotes
ubiquitin ligase polyubiquitinates target proteins and directs it for degredation
ubiquitin
exist in all eukaryotic cells
76-amino acid protein
exist as isolated molecule or long chains attached to other protein
polyubiquitination
means attaching a long chain of ubiquitin and target it for degredation
a multi step, regulated process require ATP and other proteins
proteins being polyubiquitinated
1. nonfunctional like those folds improperly
2. turn over controlled regulatory proteins
ex. cyclin in cell cycle control
proteasome complex
organell which degrades polyubiquinated proteins
stucture
flanking regions
regulatory regions
central region complex
contains proteolytic activity
process
proteins enter one end of the cylinder and are cleaved to peptide fragments that exit the other end
proteosome not destruct ubiquitin
deubiquitination
accuors after the degredation of target protein, cleaves ubiquitin chain to single ubiquitin: to recycle the ubiquitin
called ubiquitin-proteosome pathway
definations
Gene expression
the process from phenotype to genotype
homeostasis
the maintenance of a constant internal environment by altering gene expression
growth factors
hormones
turn over
The synthesis and degradation cycle of a molecule
evolutionary explanations
molecular
control points may arbituary selected
mostly on initiation of transcription
functional
single cellular
survives rapid changing enviroments
temperature
oxygen
exploits transient resources
nutrients
devides in maximum speed
proteins
turn over most quik
reversible gene expression changes
multicellular
achieve multicellular emergent properties
direct development
spacial
express in correct cells
temperal
start in correct developmental time
cease in correct developmental time
maintain homoestasis
create constant immediate condations
conpensate physiological enviroment changes
proteins
most are enzymes
catalysts large, compex biochemical pathways
expressed in a defined spacial/order/ time duration
so some proteins only synthesis one time
responds to many fixed genetic programs
apoptisis
one for all, but no all for one