Engineer Proteins That Perform
Tell us your protein and your performance target. We build the assay, screen the variants, and iterate with ML-guided evolution until your protein meets spec, or produce your construct at scale across four expression systems.
Industrial biotech, therapeutics, or diagnostics teams
Optimized variants with functional data, or production-ready protein
Varies by scope
Compute-build-test-learn cycle: each round gets smarter
Traditional approaches leave performance on the table.
Protein engineering has evolved, but most programs are still stuck choosing between random mutagenesis and pure computation. Neither alone delivers reliably.
Random Mutagenesis Alone
Explores sequence space blindly. Massive libraries, low hit rates, and dependence on ultra-high-throughput screens that most targets don’t have. Works for model enzymes in academia but fails for complex industrial targets.
Pure Computation Alone
Structure-based predictions are improving but can’t reliably predict function from sequence. Designed variants often don’t express, fold incorrectly, or lose activity that wasn’t modeled. Computation informs, but it doesn’t replace the wet lab.
No Validated Assay
The most common failure mode. Teams invest in library generation and screening with a poorly developed assay, then discover their hits don’t hold up under real conditions. The assay is the foundation. Skip it at your peril.
Reliable protein engineering requires all three: intelligent design, robust screening, and iterative learning.
The Iterative Cycle
Every campaign follows the same disciplined loop: Compute → Build → Test → Learn. Each round gets smarter. Round 1 explores. Rounds 3–5 converge on your target specs.
Compute
Structure analysis, ML-guided variant design, and sequence-function landscape modeling identify the highest-value mutations to test.
Build
Gene synthesis, intelligent library construction, and expression in the matched host system: E. coli, Pichia, insect, or mammalian cells.
Test
High-throughput screening in your validated biofunctional assay. Every hit is real because the assay was built first.
Learn
Data integration, ML model training, landscape refinement. The model learns what works and what to try next.
Expression Systems
We match the expression system to your protein's requirements and your downstream application. No forcing everything into E. coli.
E. coli
Fast & Scalable
Overnight expression, high yield, extensive genetic toolkit. Ideal for enzymes and non-glycosylated proteins under 60 kDa.
Pichia pastoris
Eukaryotic Workhorse
Eukaryotic folding machinery, efficient secretion, scalable fermentation. The industrial enzyme production standard.
Insect Cells
Complex Proteins
Baculovirus expression for complex multi-domain proteins requiring eukaryotic post-translational modifications.
Mammalian
Therapeutic Grade
Full human glycosylation in CHO or HEK293. The gold standard for therapeutic proteins destined for clinical development.
Application Areas
The same compute-build-test-learn cycle applies whether you're engineering a detergent protease or a therapeutic enzyme. The targets change; the methodology doesn't.
Industrial Enzymes
Thermostability, pH tolerance, substrate specificity, and organic solvent resistance, all engineered for process conditions.
Therapeutic Proteins
Stability, immunogenicity reduction, PK optimization, and enhanced potency for clinical-stage proteins.
Diagnostic Enzymes
Signal amplification, substrate specificity, and storage stability for diagnostic and biosensor applications.
Research Reagents
Engineered tools for molecular biology: tagged variants, reporter fusions, and high-fidelity enzyme variants.
Engagement Models
Start where you are. Assay-only clients can expand to full campaigns. Production-only clients get reliable protein without engineering overhead.
Engineering Track
Progressive engagement: each phase builds on the last
- Assay Development: Validated biofunctional assay for your specific protein and engineering goals
- Single-Round Design: Computational analysis + one variant library for proof-of-concept improvement
- Multi-Round ML Campaign: Iterative compute-build-test-learn cycles for significant property improvement
- Novel Protein Design: Domain engineering, fusion proteins, chimeric constructs, and multifunctional architectures
Production Track
Recombinant protein production without engineering
- E. coli Expression: Fast turnaround, high yield, ideal for enzymes and non-glycosylated proteins
- Pichia Expression: Eukaryotic folding, secretion, scalable fermentation for industrial proteins
- Insect & Mammalian: Complex post-translational modifications, human glycosylation, therapeutic-grade
- Scale-Up & QC: Process development, purification optimization, full characterization package
Integrated Services
Protein engineering connects directly to the broader NexysBio platform. Same team, same infrastructure, zero handoff delays.
Antibody Engineering
Shared ML infrastructure and protein expression platforms. Antibodies are proteins too.
View serviceNano-Drug Formulation
Engineered therapeutic proteins as payloads for nanoparticle delivery systems.
View serviceBiomarker Discovery
Engineered enzymes for diagnostic assay development and signal amplification.
View serviceVaccine Antigen Discovery
Engineered antigens with improved immunogenicity and stability for vaccine programs.
View serviceBio-Digital Solutions
Custom software built by scientists who understand your workflows, from data dashboards to regulatory-compliant systems.
View serviceReady to engineer your protein?
Whether you need a validated assay, a quick proof of concept, or a full ML-guided campaign, we'll match the approach to your protein and your goals.
Or email us directly at info@nexysbio.com