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#polymerization

7 public questions tagged with this topic.

Which of the following conditions favors F-actin polymerization?

F actin formation prerequisites can be recapitulated in vitro using purified muscle actin from rabbit skeletal muscle. G actin in Ca ATP state low ionic strength is monomeric. Initiation requires exchange of Ca2+ for Mg2+ at high affinity site by adding 2 millimolar MgCl2 and 50 to 100 millimolar KCl to screen electrostatic repulsion, plus 1 millimolar ATP to maintain ATP actin. Crucially thermodynamic requirement total G actin concentration must exceed critical concentration about 0.1 micromolar at plus end. Below this no polymer forms, above this equilibrium free monomer remains at Cc and excess converts to filament, detected by increase in pyrene fluorescence, light scattering or sedimentation. High cofilin raises effective Cc by increasing off rate and severing, low salt prevents nucleation by failing to neutralize surface charges, absence ATP yields ADP actin with higher Cc and unstable filaments. Experiments routinely use 5 micromolar actin in F buffer containing MgCl2 KCl ATP, often adding spectrin actin seeds or formin FH2 to bypass slow nucleation phase, ensuring rapid polymerization for motility assays and structural studies.

Ref: Pollard and Earnshaw, Cell Biology, Chapter 12: Conditions for F-Actin Polymerization and Cc.

Which actin-binding protein promotes actin polymerization by catalyzing the exchange of ADP for ATP on G-actin?

Actin nucleotide state dictates polymerization competence. ATP G actin incorporates into barbed end with high affinity Kd 0.1 micromolar, ADP G actin weak Kd 1 micromolar and depolymerizes. After filament turnover ADP actin accumulates needing recharge. Profilin, 15 kilodalton ubiquitous protein present at 50 to 100 micromolar, binds actin subdomain 1 and 3 cleft with 1 to 1 stoichiometry. Structural studies show binding opens nucleotide binding pocket between subdomains 2 and 4, reducing affinity for ADP 1000 fold and accelerating its dissociation rate from 0.02 to 1 per second, allowing abundant cellular ATP 1 to 5 millimolar to bind. Resulting profilin ATP actin complex sterically inhibited from adding to pointed end due to clash with incoming filament, but adds efficiently to barbed end, upon incorporation profilin falls off. Profilin also binds poly L proline stretches via aromatic cradle, targeting complex to enabled VASP and formin FH1 for processive elongation. Thymosin beta4 sequesters ATP actin blocking all assembly, tropomodulin caps minus end, formin nucleates without exchange activity, making profilin unique catalyst of ADP to ATP exchange promoting polymerization.

Ref: Pollard and Earnshaw, Cell Biology, Chapter 12: Profilin and Nucleotide Exchange on G-Actin.

The rate of actin polymerization is highest at which end of the filament?

Polarity arises because actin protomers are asymmetric and assemble head to tail orienting ATP hydrolysis vector. Myosin S1 decoration electron microscopy historically defined barbed and pointed ends based on arrowhead appearance. Kinetic measurements show association rate constant for ATP G actin about 11.6 per micromolar per second at plus end versus 1.3 at minus end, dissociation rate 1.4 per second versus 0.8. Net result polymerization velocity ten times faster at barbed end at any monomer level above Cc. This asymmetry explained by structural differences: barbed end exposes W loop and hydrophobic cleft accommodating incoming monomer, while pointed end requires subdomain rearrangement less favorable with ADP actin. In migrating cells free barbed ends concentrate at plasma membrane oriented outward producing pushing force for lamellipodia elongation. Minus ends face cell interior often capped by tropomodulin or embedded in Arp2/3 branch. Myosin V and most myosins move toward plus end guided by polarity, myosin VI moves opposite. This rapid growth bias enables directional protrusion and polarized transport.

Ref: Lodish et al., Molecular Cell Biology, 9th ed., Chapter 18: Actin Polarity and Barbed End Growth.

The critical concentration (Cc) of actin filaments is defined as the concentration at which:

Assembly of G actin into F actin follows reversible nucleation condensation kinetics characterized by critical concentration. Defined as monomer concentration at which rate of subunit addition equals rate of loss at filament ends, Cc reflects equilibrium constant Kd equal to k off divided by k on. Experimental determination uses pyrene fluorescence plateau where increasing total actin beyond Cc goes into polymer, free monomer stays constant. Because barbed plus end and pointed minus end have distinct kinetic constants due to ATP versus ADP actin states, each end possesses its own Cc approximately 0.1 micromolar for barbed and 0.8 micromolar for pointed under physiological 50 millimolar KCl 2 millimolar MgCl2. Between these values treadmilling operates, barbed elongates while pointed shrinks, net polymer constant. Complete depolymerization requires dropping below both Cc values or adding sequestering drugs like latrunculin. Branch angle 70 degrees relates to Arp2/3 geometry not Cc, and ATP hydrolysis rate is consequence not definition. Understanding Cc enables prediction of growth versus shrinkage and design of polymerization assays.

Ref: Pollard and Earnshaw, Cell Biology, Chapter 12: Actin Polymerization and Critical Concentration.

Which of the following proteins nucleates actin polymerization and remains bound to the (+) end?

Spontaneous formation of actin nuclei is thermodynamically unfavorable because dimers and trimers dissociate rapidly, creating lag phase in polymerization assays. Formins overcome this by stabilizing nucleation intermediate and remaining processively attached. Family members such as mDia1, mDia2, INF2, FMNL and yeast Bni1 and Bnr1 contain FH1 proline rich region and FH2 donut shaped dimer. Each FH2 hemidimer contacts actin, encircling barbed end and forming stable dimer nucleus that templates addition of subsequent ATP actin subunits. FH1 recruits profilin ATP actin via polyproline interactions, increasing effective concentration near growing end up to fifty fold and accelerating elongation to over 100 subunits per second while protecting from capping proteins CapZ and gelsolin. Processive stepping mechanism allows formin to walk with barbed end as filament grows, generating long unbranched filaments that compose stress fibers, filopodia, lamellar arcs and cytokinetic contractile rings. This contrasts with Arp2/3 which branches, and with sequestering proteins thymosin beta4 and profilin alone regulating monomer pool.

Ref: Alberts et al., Molecular Biology of the Cell, 7th ed., Chapter 16: Actin Nucleation by Formins and FH Domains.

Which of the following is a photochemical polymerization initiator?

Polyacrylamide polymerization can be initiated chemically via APS-TEMED or photochemically via riboflavin. Riboflavin (vitamin B2) undergoes photolysis under visible or UV light to generate free radicals that initiate acrylamide polymerization, particularly when combined with TEMED as co-catalyst. This light-controlled method allows slower, more uniform gelation, useful when rapid chemical polymerization is undesirable and for preparing low-percentage gels. Ethidium bromide is an intercalating fluorescent dye, TEMED alone is a chemical catalyst not photochemical, and TAE is an electrophoresis buffer. Hence riboflavin functions as classic photochemical initiator for gel formation.

Ref: NCERT Biology Class XII Principles on Klenow fill-in labeling, Lehninger Chapter 9 DNA cloning techniques, and Molecular Cloning by Sambrook Chapter 10 documenting end-labeling of cohesive termini.

Five-carbon isoprene units polymerize to form:

The right choice is B: Terpenes. In PSS- Sec G- Sec metabolites, that matches how the process or concept actually works — the other choices mix up related ideas or use the wrong mechanism. Skip these: A) Phenolics; C) Alkaloids; D) Lignins. A quick check: if an option needs energy, pumps, or the opposite direction of movement, ask whether that really applies.

Ref: Best CSIR NET Plant Physiology books: Master Unit 6 with Taiz & Zeiger and Salisbury & Ross. Crack Part C experimental questions with top textbooks.