Choose Your Analysis Mode
Select the appropriate analysis workflow for your research needs
Single Complex Analysis
Deep structural analysis of one protein complex — from atomic contacts to buried surface area, with an interactive 3D viewer
- Upload PDB or fetch from RCSB by ID
- H-bond, salt bridge & VdW contacts
- Interface residue mapping
- Per-residue SASA & burial
- VdW interaction energy scoring
- Atom & residue distance matrices
- Geometry & angle analysis
- Interactive 3D molecular viewer
Multi-Complex Comparison
Batch-compare structural variants against a wild-type reference — quantify, and visualize differences
- Upload variants + wild-type reference
- Modular selection of analysis types
- Cross-variant SASA, VdW, contacts, interface, and geometry
- Overlaid and side-by-side 3D view and filtering of comparing complexes
- Publication ready visualization
- Export residue-level comparison
Cookie Usage
SPICE uses essential session cookies to maintain uploaded PDB files, analysis configurations, and results during your session.
Sessions expire after 1 hour of inactivity. No personal data is collected or shared with third parties.
SPICE is free to use for academic, research, and commercial purposes.
Capabilities
What SPICE Computes
Solvent Accessibility (SASA)
Per-residue and per-chain buried surface area with interface burial across chain pairs.
Atomic Contacts & Bonds
H-bonds, salt bridges, hydrophobic and van der Waals contacts at residue and atom level.
Interface Analysis
Interface residue identification, contact maps, distance matrices, and geometric measurements.
VdW Interaction Energy
Lennard-Jones scoring for inter-chain atom pairs, ranked by residue contribution to binding.
3D Molecular Viewer
Interactive chain coloring, interface highlighting, contact overlays, and exportable outputs.
Multi-Variant Comparison
Batch-compare variants vs. wild-type — overlaid 3D views, delta metrics, residue-level export.
Data Export (CSV & HTML)
Structured CSV tables and self-contained interactive HTML reports for downstream analysis.
Publication-Ready Figures
Plotly-rendered plots, exportable as high-resolution format for manuscripts.
Python Package Available
Full pipeline as a standalone
PyPdbComplex package for custom workflows and scripting.