ProfessionalAlphaFold2 Predictions
Get high-quality protein structure predictions in hours, not weeks.
Powered by NVIDIA DGX Spark.
We Built This Because
We Felt Your Pain
The Old Way
- •Free AlphaFold Server: 20-30 jobs then cutoff
- •University HPC clusters: 2-4 week wait times
- •Premium services: $300-1000+ per prediction
- •DIY local setup: Complex infrastructure required
The Protogen Way
- •6-24 hour turnaround guaranteed
- •$75-250 transparent pricing
- •30% student discount with .edu email
- •Full confidentiality with optional NDA
Simple, Transparent Pricing
No hidden fees. Pay per prediction.
30% discount for students with .edu email.
Basic
24-hour turnaround
- Standard AlphaFold2 prediction
- PDB file output
- Quality metrics (pLDDT)
- Email delivery
Standard
12-hour turnaround
- Everything in Basic
- Priority queue
- 12-hour turnaround
- Dashboard tracking
Premium
6-hour turnaround
- Everything in Standard
- AMBER relaxation
- 6-hour turnaround
- Real-time progress updates
Need multimer predictions or confidential processing with NDA?
How It Works
Upload Sequence
Upload your FASTA file or paste sequence directly
Choose Plan
Select turnaround time and any add-ons
We Process
Our DGX Spark runs AlphaFold2 on your sequence
Get Results
Download PDB files and quality metrics
Frequently Asked Questions
How accurate are AlphaFold2 predictions?
AlphaFold2 achieves median accuracy of ~95 RMSD for backbone atoms, comparable to experimental structures. Confidence scores (pLDDT) help identify well-predicted regions. We provide all metrics with your results.
What file formats do you accept and provide?
Input: FASTA format (.fasta or .fa) with your amino acid sequence. Output: PDB files, confidence scores (pLDDT per residue), PAE matrices, and optional relaxed structures with AMBER.
Is my data confidential?
Absolutely. All data is encrypted in transit and at rest. We automatically delete your data 30 days after completion. For additional confidentiality, we offer NDA agreements at no extra cost.
Do you offer academic discounts?
Yes! Students and postdocs with .edu email addresses automatically receive 30% off all predictions. No application needed—just sign up with your academic email.
Can you handle multimer predictions?
Yes, we support AlphaFold-Multimer for protein complexes. Contact us for custom pricing based on the number of chains and complexity of your system.
What if I need help interpreting results?
Premium tier includes consultation support. We can help interpret pLDDT scores, identify confident regions, and discuss structural biology best practices. All tiers include comprehensive documentation.
Ready to Get Started?
Join researchers who trust Protogen Bio for fast, accurate, and confidential protein structure predictions.
Submit Your First Job →