PDB Editor

About the tool

The Protein Data Bank (PDB) is a database for the three-dimensional structural data of large biological molecules, such as proteins and nucleic acids. The data is available for download in the PDB format which is a text format that describes each atom in a molecule in three dimensional space.

This tool is a simple editor for PDB files.

Demo

See also

• PDB to FASTA - Extract protein/nucleotide sequences from PDB files.
• ADL Editor - An online editor for openEHR Archetype Definition Language (ADL) files.
• Sequence Logo Generator - Create sequence logos from FASTA alignments.
• WebLogo in the browser - Bringing WebLogo to the browser + demo of a pure client side sequence logo maker.
• BLAST WASM - Compiling the BLAST sequence search/alignment tool to WASM.
• DESeq2 in the browser - Running DESeq2 in the browser.
• Genome Browser - Explore the human genome.
• Sequence Alignment Viewer - Open FASTA files in the browser.
• Phylogenetic Tree Editor - An online visual editor for phylogenetic trees (WIP).
• Phylogenetic Tree Builder - Reconstruct phylogenetic trees from protein or DNA/RNA sequence alignments.
• Plasmid Map Generator - A tool to generate plasmid maps from GenBank files.
• WikiPathways: A Wikipedia for biological pathways - An overview of the collaboratively edited structured pathway encyclopedia.
• The RDF model of the Gene Ontology, demystified - An outline of the structure of the Gene Ontology RDF graph and ways to query it.
• The ambitious challenge of finishing the human genome - Generating a complete human genome sequence, chromosome by chromosome.
• Scalable genomic alignment with Progressive Cactus - How progressive alignment makes it possible to efficiently align hundreds to thousands of large genomes.
• GenBank to FASTA - Convert GenBank flat files to FASTA format.
• ABI to FASTA - Convert AB1 files (Applied Biosystems/ABI trace files) to FASTA format.
• Awesome bioinformatics - A curated list of awesome resources on bioinformatics.
• NCBI Taxonomy Browser - A simple tool for viewing the NCBI taxonomy tree.
• What is FASTA and how is it used? - Learn about the FASTA format and its applications.
• FASTA Editor - A FASTA editor for creating and editing FASTA files.
• FASTA Parse Tree Viewer - Visualize the parse tree of FASTA files.
• FASTQ to FASTA Converter - Convert FASTQ files to FASTA format.
• FASTQ Editor - A FASTQ editor for creating and editing FASTQ files.
• Newick Editor - An online editor for phylogenetic trees in the Newick format.
• Newick Parse Tree Viewer - View the parse trees of Newick strings.
• Bioinformatics Crossword - A daily crossword puzzle for bioinformatics terms.
• Bioinformatics pronunciation guide - A pronunciation guide for bioinformatics terms.
• 3D Mol Viewer - View molecular models in 3D.
• Simple Text Editor - Edit text files in the browser.
• Markdown Editor - Edit Markdown files in the browser.
• ABAP Editor - An online editor for ABAP code.
• JSGF Editor - Edit speech recognition grammars online.
• LookML Editor - Edit LookML code online.