Utility to parse PDB(Protein Data Bank) file format 3.3 into JSON format
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Updated
Jul 21, 2022 - TypeScript
Utility to parse PDB(Protein Data Bank) file format 3.3 into JSON format
Tiny Scala API to stream, parse, and cache atom coordinates from Protein Data Bank files
Basic analysis of ligands extracted from structures described in Protein Data Bank
local PDB manager
Web-based front- and backend for PDB2Movie scripts
Object-oriented processing of PDB files in Python
Superpose3D is a software for local comparison of protein structures that allows for user-defined structure representations
Lattice2Backbone is a software tool that converts lattice representations of protein structures into detailed, carbon alpha-only backbone structures, bridging the gap between simplified models and comprehensive biological analysis in structural biology and bioinformatics.
Some miscellaneous scripts I made to do protein analysis using the pytraj library
A Python Framework for Integrating Classical and Quantum Mechanical Simulation Data, Experimental Data, and Cheminformatics into a Unified Predictive Engine for Macromolecular Design
A simple C library to extract the amino acid sequence from a file in PDB (Protein data bank) format and output to a FASTA format file.
CA-2-HCOMB is a tool for simplifying single-chain protein structures from PDB files into manageable models like various honeycombs, retaining essential information for in-depth computations. It's efficient for large datasets and machine learning, and user-friendly for research and education.
defines the interface region of a protein complex making possible to calculate the i_rmsd between native and predicted structures following the CAPRI criteria
Visualization of proteins directly from the PDB database or from a .pdb file.
Parse the CIF file format for Protein Data Bank (PDB) data.
A console application for the estimation of the primary and secondary structure's elements. Input should be the FASTA-formatted "ss.txt" file generated by PDB database.
BPL is an Python app to solve Loop Closure Problems.
Analysis of Protein-Flavin Interactions that Control Chemical Reactivity
BioJava examples in Jupyter Notebooks
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