cell physiology Flashcards
MITOCHONDRIA STRUCTURE
Majority of cells contain many mitochondria that can occupy up to 25% of cell volume. Mitochondria has two membranes (see figure). The outer membrane is semi-permeable. The inner membrane is much less-permeable and contains most of the machinery required for oxidative phsophorylation. The surface area of inner membrane is greatly increased by a large number of infoldings known as cristae. The central space of mitochondria is known as matrix. Mitochondria have their own DNA that is located in the matrix. Since majority of mitochondrial proteins are encoded in nucleus, these proteins are synthesized in cytosol and imported via TOM (translocase of outer membrane) and TIM (translocase of inner membrane) complexes. Transport through TOM is passive, while transport through TIM is ATP-dependent. Mitochondria are very dynamic organelles that undergo constant fusion and fission. Fusion plays a key role in repairing damaged mitochondria. Fission is required for mitophagy. Fussion and fission are both dependent on cellular GTPases: Mfn and OPA1 (fusion), as well as Fis1 and Drp (fission).
TIM (translocase of inner membrane)
a complex of proteins found in the inner mitochondrial membrane of the mitochondria. Components of the TIM complex facilitate the translocation of proteins across the inner membrane and into the matrix (biology). to get to inner membrane you have TIM23 and 22. Both are highly gated. Proteins need MT targeting seq to open port. protein plugs port as is passes through then it closes immediately after. The port is small but this means that folded proteins cant fit. MT forces protein through with mtHsp 70 (diff than hsp 70) are ATPases binds to mt targeting seq, creates kink and pulls protein through hole, if doesnt fit
it denatures protein as it pulls it through. MT has a lot of heat shock proteins that refold proteins.
TOM (translocase of outer membrane)
a complex of proteins found in the outer mitochondrial membrane of the mitochondria. Its function is to allow movement of proteins through this barrier and into the intermembrane space of the mitochondrion. Most of the proteins needed for mitochondrial function are encoded by the nucleus of the cell. The outer membrane of the mitochondrion is impermeable to large molecules greater than 5000 Daltons. GIP recongizes proteins and shuttle it. this is not gated always open
OPA1
Dynamin-related GTPase required for mitochondrial fusion and regulation of apoptosis. May form a diffusion barrier for proteins stored in mitochondrial cristae. Proteolytic processing in response to intrinsic apoptotic signals may lead to disassembly of OPA1 oligomers and release of the caspase activator cytochrome C (CYCS) into the mitochondrial intermembrane space. Mutations in this gene can cause autosomal dominant optic atrophy
Mfn
Mfn plays a role in MT fusion. Has a coiled-coild domain that causes fusion similiarl to Snares. Mutations in this gene can cause Charcot-Marie-Tooth neuropathy 2A.
Fis1
Promotes fission
Drp
Dynamin related protein is a key component in mitochondrial fission and is required to promoted MT fission and apoptosis. The structural and functional similarities between dynamin and Drp1 suggest that Drp1 wraps around the constriction points of dividing mitochondria, analogous to dynamin collars at the necks of budding vesicles.
ELECTRON TRANSPORT AND GENERATION OF PROTON GRADIENT
Most of the free energy released during oxidation of glucose is retained in the reducing coenzymes such as NADH (nicotinamide adenine dinucleotide). During respiration in mitochondria electrons are released from NADH and transferred to O2 to form H2O. All of this electron transfer occurs across inner mitochondria membrane and is achieved by a four major protein complexes that are embedded in the inner mitochondria membrane. During electron transfer process, protons from mitochondrial matrix are pumped across the inner membrane. This transport generates a proton concentration gradient. In addition, proton transport also generates electric potential across the inner mitochondria membrane (more negative in matrix as compared to outside of mitochondria). Thus, the energy released from NADH is stored both as an electric potential and a proton concentration gradient in mitochondria.
ATP synthase
The ATP synthesis from ADP and Pi (inorganic phosphate) coupled to electron transfer from NADH is a major source of ATP (and energy) in animal cells. Proton gradient and electric potential is directly used to make ATP. That is achieved by the inner membrane embedded protein complex known as ATP synthase. ATP synthase consists from two main parts: F1 and F0. F0 protein complex spans the inner mitochondria membrane and forms a proton channel. F1 protein complex is bound to F0 and is an actual enzyme that makes ATP. F0 uses the energy of proton movement through the channel to generate ATP. Three protons are needed to generate one ATP molecule. Once made, ATP is transported out of mitochondria via ATP-ADP antiporter.
MITOCHOMNDRIA AND CELL DEATH
In addition to production of ATP, mitochondria is also involved in regulating cell death. Cell damage induces Bak/Bax-dependent permeabilization of outer mitochondria membrane, leading to cytochrome c release. Cytochrome c then binds to several cytpolasmic proteins forming protein complex known as apoptosome. Apoptosome activates caspases, thus intiating apoptosis (regulated cell death). During ischemic injury, mitochondria also promotes necrotic cell death. Ischemic injury results in MPTP-dependent permeabilization of inner and outer mitochondria membranes, resulting in cytochrome release and elimination of proton gradient. Lack of protein gradient blocks ATP production. Furthermore, in the absence of proton gradient, ATP synthase is converted into ATPase, thus using up available ATP. That leads to ATP depletion and necrosis.
reactive oxygen (ROS)
Damaged mitochondria not only is uncapable of producing ATP, but also generate excessive amounts of reactive oxygen (ROS). ROS causes cell damage and senescence by oxidating various cellular proteins, lipids and DNA. As the result, the mitochondria quality s strictly controlled at three levels. First, several mitochondrial proteases, such as mAAA, iAAA and Lon are responsible for recognizing and degrading misfolded proteins. Second, damage mitochondria can be “fixed” by fusing with healthy mitochondria, or can be eliminated by mitophagy. Finally, if mitochondria damage is extensive, mitochondria induces apoptotic cell death.
MITOCHONDRIAL DISEASES
Accumulation of mitochondria damage and increase in ROS is related to senescence and increased sensitivity to neuronal degeneration. In addition, several mutations of the proteins in mitochondria quality control pathways result in various neuropathys. Mutations in mitochondria fusion machinery causes autosomal dominant optic atrophy (OPA1 gene) and Charcot-Marie-Tooth neuropathy type 2A (Mfn2 gene). Mutation in mAAA protease causes hereditary spastic paraplegia.
arsenic
works by inhibiting oxidative phosphorylation and inhibiting ATP production.
Mitochondria Functions
1) Generation of ATP 2) Apoptosis 3) Regulation of intracellular Ca ions
autosomal dominant optic atrophy
a neuro-ophthalmic condition characterized by a bilateral degeneration of the optic nerves, causing insidious visual loss, typically starting during the first decade of life. The disease affects primary the retinal ganglion cells (RGC) and their axons forming the optic nerve, which transfer the visual information from the photoreceptors to the lateral geniculus in the brain. Two genes (OPA1, OPA3) encoding inner mitochondrial membrane proteins and three loci (OPA4, OPA5, OPA8) are currently known for DOA. Additional loci and genes (OPA2, OPA6 and OPA7) are responsible for X-linked or recessive optic atrophy. All OPA genes yet identified encode mitochondrial proteins embedded in the inner membrane and ubiquitously expressed, as are the proteins mutated in the Leber Hereditary Optic Neuropathy. OPA1 mutations affect mitochondrial fusion, energy metabolism, control of apoptosis, calcium clearance and maintenance of mitochondrial genome integrity. OPA3 mutations only affect the energy metabolism and the control of apoptosis.
Nicotinamide adenine dinucleotide (NAD)
a coenzyme found in all living cells. The compound is a dinucleotide, because it consists of two nucleotides joined through their phosphate groups. Nicotinamide adenine dinucleotide, like all dinucleotides, consists of two nucleotides joined by a pair of bridging phosphate groups. The nucleotides consist of ribose rings, one with adenine attached to the first carbon atom (the 1’ position) and the other with nicotinamide at this position. The nicotinamide is what is reduced.
oxidative phosphorylation
Glucose- 6P, goes to glycolases cycle leading to two pyruvate. (2ATP). not dependent on o2. Pyruvate- 3c goes to oxidatize phosphorylation when there is o2. without o2 just keep making pyruvate, which gets converted to lactic acid through reductions. Yeast can convert pyruvate into CO2 and ethanol (2c). Pyruvate is transported in to inner mem and enters citric cycle makeing actely coA and 3 nadh 1fadh
ATP synthesis
synthase part with three alpha and three beta gamma makes it spin in place. As it spins it goes through three phases making conformation shift of alpha subunit. 1) binds to ADP and Pi 2) combines to make ATP 3) low affinity to ATP than goes back to 1st conformation spinning is reduced by proton passing through
Cytochrome c
Cytochrome c is a component of the electron transport chain in mitochondria. Cytochrome c is also an intermediate in apoptosis, a controlled form of cell death used to kill cells in the process of development or in response to infection or DNA damage. cytocrome c is in mt. with damage, pore is made in MT and cytrochrome c is leaked out. Cell can still retrake at this point by reducing it and inactivating it. This is important in hypoxia for heart cells. Maybe you can save these cells by restoring blood flow.
Mitochondrial Permeability Transition, or MPT
The MPT pore is a protein pore that is formed in the inner membrane of the mitochondria under certain pathological conditions such as traumatic brain injury and stroke. Induction of the permeability transition pore can lead to mitochondrial swelling and cell death through apoptosis or necrosis depending on the particular biological setting. In some mitochondria, such as those in the central nervous system, high levels of Ca2+ within mitochondria can cause the MPT pore to open. Reactive oxygen species (ROS) are also produced as a result of opening the MPT pore. MPT can allow antioxidant molecules such as glutathione to exit mitochondria, reducing the organelles’ ability to neutralize ROS. In addition, the electron transport chain (ETC) may produce more free radicals due to loss of components of the ETC, such as cytochrome c, through the MPTP. Loss of ETC components can lead to escape of electrons from the chain, which can then reduce molecules and form free radicals. This event may lead mitochondria to swell and may cause the outer membrane to rupture, releasing cytochrome c.[34] Cytochrome c can in turn cause the cell to go through apoptosis (“commit suicide”) by activating pro-apoptotic factors. In cell damage resulting from conditions such as neurodegenerative diseases and head injury, opening of the mitochondrial permeability transition pore can greatly reduce ATP production, and can cause ATP synthase to begin hydrolysing, rather than producing, ATP, which can also lead to induction of MPTP
i-AAA
Catalytic subunit of the mitochondrial inner membrane i-AAA protease supercomplex required for mitochondrial inner membrane protein turnover. The protease is probably ATP-dependent. Important to maintain the integrity of the mitochondrial compartment.
m-AAA
m-AAA proteases are ATP-dependent proteolytic machines in the inner membrane of mitochondria which are crucial for the maintenance of mitochondrial activities. mutations in this protein can cause hereditary spastic paraplegia
Lon
In molecular biology, the Lon protease family is a family of proteases. In the eukaryotes the majority of the Lon proteases are located in the mitochondrial matrix.
Mitochondria Quality Control
MT produces more and more ROS as it lives longer, this is why fusion and fissionis important to mix up damaged proteins or you can fragment it and degrade it.