OneAngstrom
OneAngstrom
Member since February 24, 2015

OneAngstrom is a deep tech spin-off of the NANO-D group at Inria, the French Institute for Computer science. NANO-D was founded in 2008 by Stephane Redon, our CEO, to research algorithms for modeling and simulating nanosystems.

For their research, the NANO-D group was awarded multiple prestigious grants from France’s National Research Agency and the European Research Council.

Ten years of research in the group culminated in the development of the SAMSON platform, which led to the creation of OneAngstrom in 2018.

Published documents (10)
Labels hierarchy
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Embedded App Demo
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Bonding animation
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Zinc ligand unbinding trajectory
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Sculpted batarang
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Non-linear modes of 1VPK
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Multi-walled nanotube
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Capped nanotube
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Graphane model
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1YRF
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Published extensions (90)
Adaptive Lennard-Jones
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1453
465
1

Simulate with an adaptive version of the Lennard-Jones potential.

Animation Toolkit

Included with all plans

Rapidly create advanced molecular animations with these thirty-two animation templates.

ARAP Interpolator
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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227
3

Generate paths between two protein conformations within a few seconds thanks to ARAP interpolation.

Assets Collection

Included with all plans

A collection of various assets that can be used to build molecular systems.

Atoms Selector
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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1

Select atoms based on expressions with NSL-like variables, standard mathematical and logical operations.

AutoDock Vina Extended

Free trial

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Dock thousands of ligands into proteins and rank them with this extended version of AutoDock Vina.

Batch Protein Prepare
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1004
66
1

Prepare proteins in a batch: remove alt. locations, water, ligands, ions, add hydrogens.

Bond Angle Distribution
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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1

Compute the bond angle distribution of the selected atoms.

Bond Distortion Visualisation
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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1

Visualize the angle, bond, and projected bond distortions of a molecular or crystalic structure.

Brenner interaction model

Free trial

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3

Perform interactive simulations of carbon nanotubes, graphene and hydrocarbon systems. Build complex geometries thanks to this reactive force field.

Cluster Game
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1466
350
3

A game where you build optimal assemblies of interacting atoms.

Code Editor

Included with all plans

Develop using the Monaco Editor.

Commands Collection

Included with all plans

A collection of commands that constitute menus and allow you to perform tasks.

Conformer Creator

Free trial

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2

Compute low-energy conformers of small molecules.

Crystal Creator

Free trial

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Generate crystal models in a few clicks. Describe unit cells, import CIF files, model defects and impurities. Cut crystals.

Discovering Alkanes
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1447
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3

A game where you search and build molecules.

Documentation Links

Included with all plans

Preview and access the User guide pages directly from SAMSON.

Editors Collection

Included with all plans

A collection of editors to build, modify, move, measure, and label molecular systems.

Export along paths
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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264
1

Export atoms along paths in PDB files.

Exporters Collection

Included with all plans

A collection of exporters for the GRO, MOL2, PDB, and XYZ formats.

Exposed functionality viewer
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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2

View the exposed functionality of SAMSON Extensions

FIRE state updater
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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2

Optimize molecular structures with FIRE.

FITTED Suite

Free trial

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2

Perform covalent and non-covalent protein-ligand docking with the FITTED Suite by Molecular Forecaster

glTF Importer and Exporter

In Professional and Enterprise plans

Import and export 3D models in glTF format.

Glycans
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1591
50
3

Build glycans using a library of monosaccharides

Glycans Visual Models

Included with all plans

Visualize glycans with the 3D Symbol Nomenclature for Glycans (SNFG) representation.

Graphene Image Analyzer

Free trial

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3

Build a graphene model from a TEM image

Graphene Sheet Creator
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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5

Create a graphene sheet in one click.

GROMACS interaction models

Free trial

1972
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3

Perform interactive simulations with GROMACS force fields.

GROMACS Wizard

Free trial

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6

Prepare, minimize, equilibrate, and simulate systems using GROMACS on your computer or in the cloud.

Gzip Importer

Included with all plans

Importer for gzipped (.gz) files of already supported formats (e.g., .pdb.gz).

Hex

Free trial

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8

Perform protein-protein docking.

Hydrogen Bond Finder
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
2274
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5

Find and visualize hydrogen bonds.

IM-UFF

Free trial

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4

Simulate molecular systems using this generalized, Interactive-Modeling version of the Universal Force Field capable of automatic bond creation and br...

Image Loader

Included with all plans

Load images as visual models or meshes to include them in visualizations and presentations, or to help you construct structures.

Importers Collection

Included with all plans

A collection of importers for the CML, GRO, MOL, MOL2, PDB, SD, SDF, and XYZ formats

Interactive Ramachandran Plot
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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2

Display Ramachandran diagram of selected residues. Move a residue on the plot and see the effect it has on the protein.

Interactive Tutorials

Included with all plans

Learn molecular design with SAMSON thanks to these interactive, step-by-step tutorials.

iSafeRat MechoA
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1891
345
3

Predict mechanisms of toxic action of molecules.

Lennard-Jones model
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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1

The Lennard-Jones interaction model.

Ligand Path Finder

Free trial

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Find ligand unbinding pathways from a protein within minutes.

Ligand Unbinding Search
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
783
274
1

Find ligand unbinding pathways within minutes with the new ART-RRT method.

Log Viewer
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1252
257
3

Want to check logs and outputs? This extension redirects C/C++ standard streams and Qt messages.

MMTF Importer

Included with all plans

Importer for the macromolecular transmission format (MMTF) files (*.mmtf).

Molecular Box Builder
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1465
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3

Construct systems by filling a box with molecules.

Molecular Cycles

Included with all plans

Make studio-quality visuals and animations with Cycles, the Blender renderer.

Molecular Motif Grafter
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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1

Place molecules on a surface

Movie Exporters

Included with all plans

Export animations and presentations as movies in GIF, MP4, and WEBM formats.

Nanotube Creator
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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Create a carbon nanotube (CNT) in just two clicks.

NMR2

Free trial

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1

Compute structures of protein-ligand complexes using NMR data.

Normal Modes Advanced

Free trial

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Compute nonlinear normal modes that open and close binding pockets of proteins.

Normal Modes Analysis
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1779
481
1

Compute the nonlinear normal modes of a molecular system (protein, RNA, DNA) very quickly using the NOLB algorithm developed by Alexandre Hoffmann and...

OBJ Exporter

In Professional and Enterprise plans

Export molecular structures, visual models and surfaces to OBJ - including their colors - to import them in 3D animation software, or even PowerPoint™...

OBJ Importer

Included with all plans

Import OBJ files into SAMSON.

P-NEB
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1943
213
1

Use a parallel implementation of the nudged elastic band (NEB) method to find saddle points and minimum-energy paths.

Pathlines
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1654
264
2

Visualize paths of a set of atoms.

PDB trajectory loader
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1590
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1

Create a trajectory (path) based on a series of PDB files.

PDBx/mmCIF Importer

Included with all plans

Importer for the PDBx/mmCIF file format.

Pepsi-SAXS

Free trial

1697
68
1

Rapidly compute small-angle X-ray scattering profiles.

Polyhedral visual model

Included with all plans

Visualize MOFs and crystals with Polyhedrons

Polymer Builder
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1222
53
1

Construct polymers out of various building blocks (monomers and their sequences).

Protein Aligner
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
2022
645
5

Align multiple sequences and structures of proteins.

Protein Path Finder

Free trial

1671
53
5

Find protein conformational transition paths within minutes.

Protein Path Search
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
646
242
1

Find protein conformational transition paths within minutes with the newly developed ART-RRT method.

Protein Structure Downloader

Included with all plans

Fetch structures from the RCSB Protein Data Bank and the AlphaFold Protein Structure Database.

Protein Structure Prediction

Included with all plans

Predict protein structures from sequences using AlphaFold, ESMFold, OpenFold and NVIDIA BioNeMo services.

Protein-Ligand Interaction Analyzer
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
2591
295
5

Analyze protein-ligand interactions

Python Scripting

Included with all plans

Script SAMSON using Python. Model and simulate from scripts. Pipeline calculations. Integrate Python packages for machine learning and more.

Rotamers editor
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1510
148
5

Modify an amino acid residue into its rotamer or mutate it into an amino acid residue of a different type.

SAMSON AI ✨

Included with all plans

Your next-generation modeling assistant.

SAMSON Extension Generator
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1960
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4

Want to create a SAMSON Extension ? Generate source code from a template in a few clicks and start developing.

SAMSON Extension Packager
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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Package and validate a SAMSON Extension you developed to publish it on SAMSON Connect.

Selection statistics
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
997
253
1

Basic geometry and concentration statistics for the selected atoms.

Selectors Collection

Included with all plans

A collection of selectors used across various commands, visual presets, and extensions.

Simple Script
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1586
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1

Modify atoms' parameters (position, selection, etc) using a simple scripting language, NSL-like variables, mathematical and logical operations.

SMILES Manager

Free trial

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Import thousands of SMILES codes. Filter them using custom patterns. Modify them and generate their corresponding 2D image. Add them to the SAMSON Doc...

State Updaters Collection

Included with all plans

A collection of state updaters used for interactive minimization simulation.

STL Importer

Included with all plans

Import Stereolithography (.stl) binary and ASCII files to display them and generate carbon atoms based on vertices positions.

Structure validation

Included with all plans

Validate biological structures and prepare them for further calculations.

Symmetry Detection
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1284
295
2

Detect axes of cyclic, dihedral and cubic symmetries in protein complexes.

Symmetry Mate Editor
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
1508
239
2

Interactively generate symmetry mates of a protein based on the crystallographic information from a pdb file.

TMD Image Analyzer

Free trial

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Construct transition metal dichalcogenide monolayers from experimental images.

Trajectory Importers

Included with all plans

Import and export molecular dynamics trajectories in various formats.

Twister

Included with all plans

Perform large-scale deformations of materials and biomolecules interactively with this powerful editor.

Universal force field

Included with all plans

Simulate molecular systems using the Universal Force Field (UFF) with automatic structure perception.

UUID Generator
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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1

Generate UUIDs directly from SAMSON in one click.

Virtual Reality Portal
This extension is free.

A Standard plan or above is required to
use more than one free extension at a time.
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4

Visualize, build and simulate in virtual reality.

Visual Models Collection

Included with all plans

Visualize molecular structures using a collection of representations and color schemes.

Visual Presets

Included with all plans

A collection of visual presets to rapidly create publication-quality images.

Workspaces Collection

Included with all plans

A collection of workspaces that customize the SAMSON interface.