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Membrane Ternary Binding

Explore how ligand concentration and membrane-site availability influence ternary bridging.

Generic mechanistic model · Synthetic parameters

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Choose a starting point to view its result. Adjust key model inputs when you want to explore a different outcome.

Low ligand

Tests the ligand-limited side of the ternary-bridge response.

0–24 hour

Study

Low ligand

Tests the ligand-limited side of the ternary-bridge response.

Readouts

Total binary complex· nM
Ligand bound to only one membrane site class.
Ternary bridge· nM
Ligand simultaneously engaging both modeled site classes.
Left sites in ternary bridges· percent
Fraction of the conserved left-site ledger in ternary bridges.
Right sites in ternary bridges· percent
Fraction of the conserved right-site ledger in ternary bridges.

Study purpose

  • How much ternary bridge forms when ligand is limiting?

Interpretation limits

  • Concentrations and kinetics are synthetic.
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Edit inputs

Ligand

Synthetic constant free-ligand concentration supplied by an open external reservoir.

nM

Suggested: 0.04–0.12. You can explore beyond this range.

0.08 → —
Binding kinetics

Synthetic association rate for free ligand and a free left site.

1/(nM*h)

Suggested: 0.04–0.12. You can explore beyond this range.

0.08 → —

Synthetic dissociation rate of the left binary complex.

1/h

Suggested: 0.2–0.6. You can explore beyond this range.

0.4 → —

Synthetic association rate for free ligand and a free right site.

1/(nM*h)

Suggested: 0.02–0.06. You can explore beyond this range.

0.04 → —

Synthetic dissociation rate of the right binary complex.

1/h

Suggested: 0.4–1.2. You can explore beyond this range.

0.8 → —
Site availability

Initial site amounts follow the starting configuration.

Simulation time
hour
hour
24 → 168

Time between reported samples.

hour
0.25 → 1

2 changes · Variation 1

Continue in the background and keep the result.

Biology

A generic bifunctional ligand can bind either of two membrane site classes and then capture the opposite site to form a bridge. At high ligand, separate binary complexes can compete with ternary bridging and create a hook regime.

Binding mechanism

Left membrane sites · A

Right membrane sites · B

Free sites

A constant ligand reservoir supplies two finite membrane-site classes. Ligand is not depleted in this model.

Both routes are reversible
L + A ⇌ LALA + B ⇌ LABL + B ⇌ LBLB + A ⇌ LAB

A and B are membrane-site classes; L is ligand; LAB is the ternary bridge. Each site ledger is conserved.

Conceptual illustration · use the simulation above for quantitative results.
States & equation dependencies
What are the modeled states and equation-linked processes?Representative technical topology with 5 selected states: Ternary membrane bridge, Left site binary complex, Free left membrane sites, Right site binary complex, Free right membrane sites. Displayed equation-linked dependencies: between Left site binary complex and Ternary membrane bridge; between Free left membrane sites and Ternary membrane bridge; between Right site binary complex and Ternary membrane bridge; between Free right membrane sites and Ternary membrane bridge; between Free left membrane sites and Left site binary complex; between Free right membrane sites and Left site binary complex; between Right site binary complex and Free left membrane sites; between Free right membrane sites and Right site binary complex. There are no displayed entry points. There are no separately labeled equation controls.TECHNICAL TOPOLOGYWhat are the modeled states and equation-linked processes?Selected equation-linked states · model time unit: hourTernary membrane bridgenMLeft site binary complexnMFree left membrane sitesnMRight site binary complexnMFree right membrane sitesnM
Teal arrows show relationships between modeled states and do not always represent material transfer. Peach arrows mark administered or scenario-defined entry points.

Assumptions & evidence

Assumptions & limitations

  • All parameters and scenarios are synthetic.
  • No paper-specific numerical comparator is distributed or executed.
  • No external dataset supports molecule-specific or translational claims.
  • Released use is limited to curated simulation and bounded parameter scans.
  • Fitting is outside the release scope and must fail closed.
  • Concentrations and kinetics are synthetic.
  • The output is a generic mechanism probe, not a molecule-specific prediction.
  • The high concentration is synthetic and not a dose recommendation.
  • Site densities are concentration-equivalent synthetic quantities.

Parameter origins

  • UBI synthetic presentation assumption
  • UBI synthetic exploratory assumption

Validation & references

The implementation has validation evidence, but unavailable source material limits full reproduction.

No reference paper is attached to this model.

No paper comparator or molecule-specific experimental dataset is provided. These simulations illustrate the mechanism.

Model details

9 parameters · 5 states · 5 equations · 9 derived outputs

Classification & API access
Therapeutic
generic bifunctional membrane ligand
Modality
Other biologic or therapeutic modality
Target
configurable left membrane site, configurable right membrane site
Disease / scope
Mechanism-agnostic membrane-bridging research
ParameterDefaultUnitDescription
Contact zone copy conversioncopies_per_nM_contact41/nMSynthetic scale converting concentration-equivalent ternary bridges to an illustrative copy count.
Free ligand reservoirfree_ligand_nM8nMSynthetic constant free-ligand concentration supplied by an open external reservoir.
Left site crosslink dissociationkoff_cross_left_h0.31/hSynthetic rate at which the left arm of a ternary bridge releases.
Right site crosslink dissociationkoff_cross_right_h0.251/hSynthetic rate at which the right arm of a ternary bridge releases.
Left site dissociationkoff_left_h0.41/hSynthetic dissociation rate of the left binary complex.
Right site dissociationkoff_right_h0.81/hSynthetic dissociation rate of the right binary complex.
Right site crosslink associationkon_cross_right_per_nM_h0.051/(nM*h)Synthetic rate for a left binary complex capturing a free right site.
Left site associationkon_left_per_nM_h0.081/(nM*h)Synthetic association rate for free ligand and a free left site.
Right site associationkon_right_per_nM_h0.041/(nM*h)Synthetic association rate for free ligand and a free right site.

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