ProteinIQ for PDB format

Fix PDB files instantly

Visualize protein structures in 3D, repair common PDB errors, and convert between formats—all in one streamlined workflow.

PDB Viewer

Interactive 3D visualization with advanced rendering, measurements, and molecular surface analysis.

PDB Fixer

Repair missing atoms, add hydrogens, fix residues. Essential for preparing structures for computation.

PDB2PQR

Add hydrogens, assign charges, optimize H-bonds. Prepare structures for electrostatics and MD.

PDB to FASTA

Extract amino acid sequences from PDB structures. Get sequences for all chains in one click.

PDB to CIF

Convert PDB to mmCIF format. Required for modern structure databases and some analysis tools.

PDB to MOL2

Convert to MOL2 for molecular modeling and docking. Preserves atom types and connectivity.

Why researchers choose ProteinIQ

PDB Fixer automatically repairs and standardizes files

PDB files from different sources have inconsistent formatting

Browser-based viewer works instantly on any device

Desktop molecular viewers require installation and updates

Validated converters preserve atom types and connectivity

Converting between formats often loses information

Automatic detection and repair of missing residues and atoms

Missing atoms cause downstream tool failures

How it works

Complete toolkit for working with PDB files. Visualize structures interactively, fix formatting issues, and convert between file formats with professional-grade tools.

Upload pdb

Drop your PDB file or fetch from RCSB by ID

Visualize

Explore structure in interactive 3D viewer

Fix issues

Repair missing atoms, add hydrogens, fix formatting

Convert & export

Convert to MOL2, CIF, or other formats