Language Model based
Virtual Screening Service

Achieve Breakthrough Drug Discovery With Al-Powered Virtual Screening

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What LM-VS™ Solves: Breaking the Bottleneck in Hit Discovery

The Untapped Frontier of Drug Development: Innovation in Hit Discovery

Drug development is a long and complex journey that begins with basic research to uncover the causes of specific diseases and define drug targets, and extends through preclinical and clinical stages. Among these, the stage of initial candidate compound discovery (Hit Discovery) remains the most persistent bottleneck. Unlike other stages that progress in a structured manner, this phase still relies heavily on random and inefficient approaches. As a result, it has become a key driver of low success rates, enormous costs, and development delays that hinder the entire pipeline. However, AI-driven rational strategies and innovative technologies can deliver a transformative impact, especially at this bottleneck. LM-VS™ turns this challenge into an opportunity for innovation.

Why Does Hit Discovery Fail?

Unsystematic Approach

Reliance on random HTS and inefficient, non-systematic methods

High Costs and Delays

Repeated setup of new conditions and experiments, leading to prolonged timelines

Uncertain Outcomes

Low reproducibility and poor reliability from unpredictable trial-and-error processes

How is LM-VS™ Different?

Rational Approach

AI-driven foundational design through precise 3D structural analysis of targets integrated with AI-powered screening

Breakthrough in Cost & Time

Swift exploration of Bn. compounds, built on a rational design foundation through AI

Higher Success Rate

Enhanced accuracy through structure-informed simulation and multi-step validation
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How LM-VS™ Starts: Designed Scaffold as the Scientific Foundation

Innovative Hit Discovery through a Hybrid Approach
Combining AI-Based Design and Precision Screening

With the Designed Scaffold, LM-VS™ applies a hybrid approach that unites AI-driven design with intelligent screening, enabling faster and more accurate Hit discovery anchored in a solid scientific foundation.

What is a Designed Scaffold?
  • A structural anchor (pre-organized conformational anchor) designed to maintain stable orientation and positioning within the target protein's binding pocket
  • Serves as the launch point for AI-driven molecular exploration
Scaffold Design Process
  • 3D structural analysis of the binding pocket to identify key interactions
  • Rigorous validation via MD simulations
    • a. Assess structural flexibility and stability
    • b. Evaluate feasibility of maintaining distances and angles upon functional group binding
  • Confirm suitability as a scaffold for rational design
Application of AI-Based Screening
  • Scientific Foundation: Establishes clear anchor points for AI-driven exploration
  • Efficient Exploration: Identifies optimal functional groups based on the scaffold foundation
  • Outcome: Greater precision and shorter timelines, leading to maximized efficiency in Hit discovery
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How LM-VS™ Works: The 4-Step Process for Finding the Optimal Compound

How LM-VS™ Identifies Optimal Candidates from Billions of Compounds

Using rational scaffold points within the target protein’s binding site, LM-VS™ quantitatively evaluates compound binding potential, enabling the selection of the most promising HIT candidates

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Binding Pocket and Key Residue Definition

Structural analysis of the target protein's 3D binding pocket to map interaction networks and define key binding residues.
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Designed Scaffold Construction

Designing structural anchors within the binding pocket to maintain stable orientation and positioning for reliable interaction modeling.
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AI-Driven Structural Learning and Exploration

Using AI to learn structural patterns from reference anchors, explore vast chemical variations, and calculate binding feasibility.
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Quantitative Evaluation & Hit Selection

Applying CNN-based predictive metrics to quantitatively assess binding strength and objectively identify promising hit candidates.
Experience firsthand how LM-VS™ works.
See how it transforms Hit Discovery into a simpler, faster, and more innovative process.
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Use Cases

Designed Scaffold LM-VS™: Proven in Real Applications

Designed Scaffold LM-VS™ is adaptable to a wide range of targets and has been successfully applied to the discovery of compounds with diverse mechanisms of action. Explore the representative cases below to see how scaffold-based structural design drives both precision and broad applicability in drug discovery.

Case 1.
Membrane Binding Scaffold for GPCR Targets
Remdesivir, developed as a viral RdRp inhibitor, was later found to also bind UTS2R (GPCR). Though off-target and limited as a therapy, its stable binding unit was extracted and defined as a Scaffold. LM-VS™ leveraged this to enable further exploration and new repurposing opportunities.
Case 2.
Molecular Glue Binding Scaffold
Building on scientific evidence from studies of CDK12-DDB1 stabilization by the molecular glue CR8, LM-VS™ designs and explores these binding regions as Scaffolds, demonstrating broad potential for diverse modalities and expanded applications.
Case 3.
Fused-Scaffold Search
A Fused-Scaffold was designed from a seed compound tailored to the dual targets BRD4-CRBN. Through a linker-based structure, PROTAC candidates were derived, and LM-VS™ can further extend their design and exploration.
Dive deeper into LM-VS™ technology
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How To Use

From Target to Hit: Four Streamlined Steps

Designed Scaffold LM-VS™ provides a simple, user-friendly workflow that begins as soon as you enter a protein target. From pocket definition to scaffold design, compound exploration, and results review, the entire hit discovery process is streamlined into four clear steps.

Step 1. Select Target Protein
  • Search by protein or gene name
  • Even when no experimental PDB structure is available, structures can be predicted with AlphaFold and supported for exploration
Step 2. Pocket Definition & Scaffold Design
  • AI defines the binding pocket for the target with optimized precision
  • A tailored scaffold is proposed for the identified site — with options for user input or customization if desired
Step 3. LLM-Based Compound Exploration
  • The Language Model explores compounds on the foundation of the scaffold
  • From tens of millions of candidates, extracts high-scoring hit compounds
Step 4. Review Hit Discovery Outcomes
  • Receive a comprehensive report in PDF (figures and tables)
  • Download hit lists and structural files in EXCEL / CSV / PDB formats
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Deliverables

From Hits to Full Insights: Reports, Structures, and Raw Data

Along with a prioritized list of candidate hits selected from a library of up to 10 billion compounds, we provide all the essential data you need for analysis — including raw data, 3D structures (PDB), and comprehensive reports. Explore below to see actual analysis results and sample deliverables in detail.

Curious about what the results look like?

Download a Sample LM-VS™ Screening Report

See how LM-VS™ presents AI screening outcomes in a real report format.
The sample includes lead compound candidates, structural visuals, and scoring insights—just like what clients receive.
Get candidate lists and key data for your target—all in one place.
Submit your request today and start screening within a week.
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Core Technology

Hybrid Hit Discovery Reinvented: Innovation in AI-Driven Design + Screening

LM-VS™ Workflow: LM-VS™ (Language Model-based Virtual Screening Service) begins by analyzing the selected protein target, precisely defining its binding pocket and key residues to establish a Designed Scaffold — a structural anchor optimized for the pocket. Using this scaffold as the reference point, LM-VS™ explores up to 10 billion compounds to identify optimal functional group combinations, while structure-based pattern learning predicts binding potential. Candidates are then quantitatively evaluated through CNN-based structure-activity metrics, and the most promising hits are iteratively refined across multiple learning rounds to enhance accuracy.

[Advanced Option] DeepMatcher®: The DeepMatcher® stage provides in-depth analysis, integrating evaluations of binding stability, monitoring of conformational changes, and binding energy calculations. This enables the selection of physiologically relevant hit candidates, delivered within two weeks.

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Pricing

Simple Pricing, All-Inclusive Plan

One plan, end-to-end—scaffold design through AI screening for fast, accurate discovery.

Compound Library

10 Billion

Ready for Purchase & Synthesis
Price

$20,000

Approx. $400 per round
AI Training

50 Rounds

Progressive Iterative Learning
Timeline

1 Week

Completed within 7 Days
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Experience Syntekabio’s Designed Scaffold LM-VS™ today.
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FAQ

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