Help & Support
Comprehensive documentation and guides for MoroChem platform
Getting Started
Creating Your Account
Welcome to MoroChem! Getting started is easy. Follow these steps to create your account:
- Navigate to the Sign In page
- Choose your preferred authentication method (Google, GitHub, or LinkedIn)
- Complete the OAuth authentication flow
- You'll be automatically redirected to your dashboard
💡 Tip: We recommend using your institutional email for research collaboration features.
First Steps
Once you've created your account, here's what to do next:
1. Explore the Database
Browse our comprehensive collection of Moroccan botanical compounds and proteins.
2. Try a Search
Use the search bar to find specific plants, compounds, or proteins.
3. Run Your First Docking
Select a protein and compound to perform molecular docking analysis.
4. View 3D Structures
Visualize molecular structures in our interactive 3D viewer.
Interface Overview
The MoroChem interface is designed for intuitive navigation:
- ▸Header: Quick access to search, navigation, and your account
- ▸Sidebar: Navigate between proteins, view history, and manage projects
- ▸Main Content: View detailed information, results, and visualizations
- ▸3D Viewer: Interactive molecular structure visualization
Platform Features
Molecular Docking
Our molecular docking engine uses advanced algorithms to predict protein-ligand interactions:
Key Features:
- ✓ AutoDock Vina integration for accurate binding affinity predictions
- ✓ Multiple conformer generation and scoring
- ✓ Flexible ligand and rigid protein docking
- ✓ Binding site detection and analysis
- ✓ Energy minimization and optimization
📊 Results Include: Binding affinity scores, RMSD values, interaction diagrams, and 3D pose visualization
Protein Database
Access a curated collection of therapeutically relevant proteins:
Compound Search
Search through thousands of Moroccan botanical compounds:
- • Search by plant family, genus, or species
- • Filter by molecular properties (MW, LogP, etc.)
- • View compound structures and properties
- • Access PubChem and literature references
3D Visualization
Interactive 3D molecular visualization powered by 3Dmol.js:
- ✓ Rotate, zoom, and pan molecular structures
- ✓ Multiple rendering styles (cartoon, stick, surface)
- ✓ Highlight binding sites and interactions
- ✓ Export high-quality images
How-to Guides
Running Your First Docking
Follow this step-by-step guide to perform molecular docking:
Select a Protein
Navigate to the dashboard and choose a protein target from your list or browse the database.
Choose a Compound
Search for a botanical compound or select from recommended ligands.
Configure Parameters
Set docking parameters (grid box, exhaustiveness, etc.) or use default settings.
Start Docking
Click "Start Docking" and wait for results (typically 2-5 minutes).
Analyzing Results
Understanding your docking results:
- Binding Affinity: Lower (more negative) values indicate stronger binding
- RMSD: Root-mean-square deviation between poses
- Interactions: Hydrogen bonds, hydrophobic contacts, π-π stacking
- Pose Ranking: Multiple poses ranked by affinity
Exporting Data
Export your results in multiple formats:
📄 CSV/Excel
Export binding affinity scores and parameters
🧬 PDB Files
Download docked poses for further analysis
📊 Reports
Generate comprehensive PDF reports
🖼️ Images
Export 3D visualizations as PNG/SVG
Collaborating with Team
Share your research with collaborators:
- • Share protein projects with team members
- • Collaborative annotations and notes
- • Version control for docking experiments
- • Team activity feed and notifications
API Documentation
API Overview
MoroChem provides a RESTful API for programmatic access to our platform:
Base URL: https://api.morochem.ma/v1Authentication
All API requests require authentication using an API key:
API Endpoints
/proteinsList all available proteins
/dockSubmit a docking job
/compounds/searchSearch botanical compounds
Rate Limits
API rate limits by plan:
Troubleshooting & FAQ
Common Issues
Docking job fails to start
Solution: Check that your protein structure is valid and the compound is properly formatted. Ensure you have sufficient credits.
3D viewer not loading
Solution: Clear your browser cache and ensure JavaScript is enabled. Try using a modern browser (Chrome, Firefox, Safari).
Cannot sign in
Solution: Verify your OAuth provider credentials. Check if pop-ups are blocked in your browser.
Frequently Asked Questions
Q: Is MoroChem free to use?
A: Yes! We offer a free tier with limited docking jobs per month. Upgrade to Pro for unlimited access.
Q: Can I use MoroChem for commercial research?
A: Yes, with our Pro or Enterprise plans. Contact us for licensing details.
Q: How accurate are the docking results?
A: Our platform uses AutoDock Vina, which has been validated in numerous studies. Results should be verified experimentally.
Q: Can I upload my own protein structures?
A: Yes! Pro and Enterprise users can upload custom PDB files for docking.
Error Messages
Error 401: UnauthorizedYour session has expired. Please sign in again.
Error 429: Rate Limit ExceededYou've exceeded your API rate limit. Wait or upgrade your plan.
Error 500: Server ErrorOur servers are experiencing issues. Please try again later.
Contact Support
Can't find what you're looking for? Our support team is here to help!
📚 Documentation
Browse our comprehensive guides:
You're already here!⏱️ Response Time
We typically respond within:
24-48 hoursNeed immediate assistance?
For urgent issues, please email us with "URGENT" in the subject line.
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