smutao/LModeA-nano

calculate chemical bond strength in solids, surfaces and molecules

Language: Python - Size: 112 KB - Last synced at: 2 days ago - Pushed at: over 2 years ago - Stars: 23 - Forks: 2

patonlab/wSterimol

Generate Boltzmann-weighted Sterimol Steric Parameters for Conformationally-Flexible Substituents

Language: Python - Size: 989 KB - Last synced at: 21 days ago - Pushed at: almost 3 years ago - Stars: 29 - Forks: 10

rasbt/BondPack

A collection of PyMOL plugins to visualize atomic bonds.

Language: Python - Size: 8.93 MB - Last synced at: 21 days ago - Pushed at: over 4 years ago - Stars: 21 - Forks: 12

GoetzParsiegla/Smina-plugin

This is a plugin for PyMol 2.x to use the vina/Autodock fork SMINA under Windows 10 or 11 with the wsl2 linux subsystem installed.

Language: Python - Size: 58.6 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 4 - Forks: 2

MooersLab/pymolshortcuts

The repository pymolschortucts contains the a collection of shortcuts that are loaded on startup of PyMOL. These shortcuts enable websearches from within PyMOL as well as many other convienent functions that make work in PyMOL more productive..

Language: Python - Size: 29.1 MB - Last synced at: 21 days ago - Pushed at: 12 months ago - Stars: 75 - Forks: 16

smutao/PyVibMS

A PyMOL plugin for visualizing vibrations in molecules and solids

Language: Python - Size: 2.81 MB - Last synced at: 2 days ago - Pushed at: 7 months ago - Stars: 42 - Forks: 8

keni105/select_residue_water_residue_combined.py

This tool is particularly useful for studying water-mediated interactions in protein complexes and macromolecular structures.

Language: Python - Size: 9.77 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

keni105/align_and_color_with_selection.py

The align_and_color_with_selection.py script is a PyMOL plugin designed to streamline the comparison of two structural models. It performs structural alignment, highlights differing residues, and creates selections for these residues, making it a valuable tool for structural biologists analyzing homologous structures or variants.

Language: Python - Size: 0 Bytes - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

tsj5/APBS_Qt_plugin

Demo/experimental port of APBS plugin to PyQt for PyMOL 2.x.

Language: Python - Size: 459 KB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

pymodproject/pymod

PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.

Language: Python - Size: 1.69 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 69 - Forks: 19

paiardin/DockingPie

A Consensus Docking Plugin for PyMOL

Language: Python - Size: 212 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 61 - Forks: 12

abdullateefv/PyMolCopilot

An AI Assistant for the PyMOL molecular visualization software

Language: Python - Size: 3.34 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

xing1wan/list_unaligned_resi

A PyMOL script to calculate alpha carbon distances between two aligned protein structures

Language: Python - Size: 8.79 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

filipsPL/fingernat-pymol-plugin

PyMOL plugin to visualize interactions detected by the fingeRNAt program

Language: Python - Size: 1.81 MB - Last synced at: 9 days ago - Pushed at: over 2 years ago - Stars: 4 - Forks: 0

LBC-LNBio/parKVFinder

parKVFinder: thread-level parallel KVFinder

Language: Python - Size: 21.9 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 10 - Forks: 7

unizar-flav/PyViewDock

Docking viewer plug-in for PyMOL

Language: Python - Size: 1.39 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 0

JMB-Scripts/dssp-to-pymol

Assess the secondary structure in Pymol

Language: Python - Size: 8.79 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

MengwuXiao/GetBox-PyMOL-Plugin

A PyMOL Plugin for calculating docking box for LeDock, AutoDock and AutoDock Vina.

Language: Python - Size: 2.73 MB - Last synced at: over 1 year ago - Pushed at: almost 6 years ago - Stars: 57 - Forks: 14

ArturKlauser/pymol-pdb-plugin

PDB plugin for PyMOL

Language: Python - Size: 5.45 MB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 3 - Forks: 0

RUBi-ZA/pyMODE-TASK

MODE-TASK plugin for PyMOL

Language: C++ - Size: 9.18 MB - Last synced at: about 1 year ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 1

HNUBioinformatics/InPrNa

A tool for insight into protein-nucleic acids interaction information

Language: Python - Size: 515 MB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 2 - Forks: 2

GoetzParsiegla/Dipolemoment-plugin

This is a plugin for PyMol 2.x to calculate and show the dipole moment vector of a proteine structure in pdb format.

Language: Python - Size: 11.7 KB - Last synced at: 6 months ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 0

scatter3d/noodle-strut

noodle-strut is an interactive 3D printing structural support module for PyMOL

Language: Python - Size: 3.73 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 1

miroslavkurka/wkplugin

A PyMol plugin for calculating Wu-Kabat Variability and displaying it on the pdb model

Language: Python - Size: 17.6 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

NRGlab/NRGsuite Fork of lmorency/NRGsuite

NRGsuite is a PyMOL plugin (GUI) for FlexAID

Language: Python - Size: 12.2 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 3

smutao/Three-Arm-Turnstile-Assistant

PyMOL plugin to modify molecular structure via turnstile rotation

Language: Python - Size: 18.6 KB - Last synced at: 2 days ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

HaolingZHANG/pymolBE

Customized batch exhibition of three-dimensional molecules based on pymol framework

Language: Python - Size: 32.1 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 4 - Forks: 0

zmactep/pymol-designer

Protein design tools as PyMOL plugin

Language: Python - Size: 7.81 KB - Last synced at: 17 days ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

SerenaRosi/PyMOL-toolbox

Language: Python - Size: 36.1 KB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 1 - Forks: 0

LBC-LNBio/parKVFinder-win

parKVFinder-win: thread-level parallel KVFinder for Windows

Language: C - Size: 1.85 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 7 - Forks: 4

LBC-LNBio/PyMOL-KVFinder-web-Tools

PyMOL KVFinder-web Tools: a PyMOL v2 plugin for interacting with KVFinder-web service

Language: Python - Size: 1.83 MB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0

cbalbin-bio/pymol-color-alphafold

PyMOL extension to color AlphaFold structures by confidence (pLDDT).

Language: Python - Size: 1.88 MB - Last synced at: about 2 years ago - Pushed at: about 3 years ago - Stars: 33 - Forks: 13

rinikerlab/restraintmaker

Restraintmaker is a tool intended to build Position or Distance restraints for Molecular Dynamics simulations (or any other simulation technique with coordinate-based particles). It can be used on a script layer or as an interactive plugin for PyMol. Features are different selection modes and Optimizers to distribute restraints.

Language: Python - Size: 34 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 8 - Forks: 3

tongalumina/rmsdca

PyMOL script to calculate backbone RMSD of two polypeptides of same origin

Language: Python - Size: 1.95 KB - Last synced at: almost 2 years ago - Pushed at: about 4 years ago - Stars: 1 - Forks: 1

cbalbin-bio/pymol-map-pocket

PyMOL extension to map a protein pocket, generated from PockDrug, to the full protein structure.

Language: Python - Size: 6.27 MB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

FabioFalcioni/PyMol_SphericalHarmonics

Spherical Harmonics plugin/extension for PyMol

Language: Python - Size: 20.8 MB - Last synced at: about 2 months ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

atfrank/PyShifts

Pyshifts: A Pymol Plugin for Chemical Shift-Based Analysis of Biomolecular Ensembles

Language: Python - Size: 51.9 MB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 4 - Forks: 0

exTerEX/pymol-ramachandran

A simple script to generate Ramachandran plot from Pymol.

Language: Python - Size: 1.78 MB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 2 - Forks: 1

GoetzParsiegla/FEATURE-plugin

This is a plugin for PyMol 2.x under Windows to find and show Ca-ion sites in a protein structure in pdb format using the Feature program.

Language: Python - Size: 24.4 KB - Last synced at: 6 months ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

vlasenkov/pymol-iellipsoid

Pymol plugin allowing to draw inertia ellipsoid for a selection.

Language: Python - Size: 133 KB - Last synced at: about 2 years ago - Pushed at: almost 9 years ago - Stars: 0 - Forks: 0