Explainers
Answers to common questions about molecular visualization, drug discovery software, XR, and AI copilots for chemistry, and where Nanome fits alongside the tools teams already use.
- Tools for protein structure analysisSeptember 24, 2026The best tools for protein structure analysis, from PyMOL and ChimeraX to Nanome's interactive 3D and XR inspection with MARA agents.
- VR tools for molecular modelingSeptember 24, 2026VR tools for molecular modeling let you build and study molecules in 3D. Nanome is the purpose-built VR/XR platform, with a web app too.
- The best molecular modeling softwareSeptember 22, 2026The best molecular modeling software depends on your task. Nanome lets you build, edit, and minimize structures in 3D and XR.
- The best tools for structure-based drug designSeptember 22, 2026The best tools for structure-based drug design, from Schrödinger and MOE to Nanome and MARA for collaborative visualization and AI-run docking.
- The best free molecular visualization softwareSeptember 22, 2026The best free molecular visualization software, from PyMOL and ChimeraX to Nanome's free browser seat for 3D structures.
- The best molecular visualization tools in 2026September 22, 2026The best molecular visualization tools in 2026, from PyMOL and ChimeraX to Nanome's collaborative XR and AI copilot.
- The best AI tools for drug discoverySeptember 17, 2026The best AI tools for drug discovery, by category, plus how Nanome and MARA run them in plain English.
- The best cheminformatics tools for drug discovery teamsSeptember 17, 2026The best cheminformatics tools for drug discovery teams: RDKit, KNIME, CDD Vault, Schrodinger, and Nanome with MARA in plain English.
- Spatial computing for pharmaceutical researchSeptember 17, 2026Spatial computing for pharmaceutical research: Nanome runs immersive 3D structure review and MARA tools across headsets and the web.
- Running AlphaFold and Boltz-2 in a molecular workflowSeptember 17, 2026How to run AlphaFold in a workflow with Boltz-2 structure prediction, then assess confidence and visualize the result in 3D and XR with Nanome and MARA.
- Natural language interfaces for molecular modelingSeptember 15, 2026Natural language molecular modeling with Nanome and MARA: type a plain-English request, watch the real tool run, and see results in 3D or XR.
- Software for visualizing molecular dynamics trajectoriesSeptember 15, 2026The best software for molecular dynamics trajectory visualization covers playback, RMSD, and per-frame analysis. Nanome does all 3 with MARA.
- How to share a 3D molecular structure with your teamSeptember 15, 2026Sharing a 3D molecular structure with a colleague: a workspace link carries the saved view, representations and labels, so nothing gets rebuilt.
- How to present computational results to an experimental teamSeptember 15, 2026How computational chemists get a docked pose, an MD trajectory or a packing difference across to a bench team, and when a plot is the better medium.
- How Nanome is different from UCSF ChimeraXSeptember 10, 2026A fair look at Nanome as a ChimeraX alternative: real-time multiplayer, native XR, an AI copilot, and a web app that opens the same files.
- Tools for visualizing protein-ligand interactionsSeptember 10, 2026The best protein-ligand interaction visualization tools, from PyMOL to Nanome's interactive 3D and XR inspection with MARA.
- How Nanome is different from VMDSeptember 10, 2026A fair VMD alternative guide: where VMD leads on MD trajectories and scripting, and where Nanome adds multiplayer, XR, and its MARA AI copilot.
- How to run an SAR meeting on a 3D structureSeptember 10, 2026An SAR meeting decides what to make next. How to run one on a live 3D structure: scenes as the agenda, a shared session, and a record that outlives the room.
- How Nanome is different from Schrödinger MaestroSeptember 8, 2026A Schrödinger Maestro alternative? Nanome is a collaborative, XR-native platform with an AI copilot, and it integrates with Schrödinger LiveDesign.
- How Nanome is different from PyMOLSeptember 8, 2026Nanome is a collaborative, XR-native alternative to PyMOL with an AI copilot that runs docking and structure tools from plain English.
- How Nanome is different from BIOVIA Discovery StudioSeptember 8, 2026A Discovery Studio alternative for teams who want real-time multiplayer, native XR, and a plain-English AI copilot behind their firewall.
- How Nanome is different from MOESeptember 8, 2026A fair MOE alternative guide: where the Molecular Operating Environment fits, and where Nanome adds multiplayer XR and the MARA AI copilot.
- An AI copilot for drug discovery workflowsSeptember 3, 2026MARA is Nanome's AI copilot for drug discovery workflows: plain-English orchestration of docking, co-folding, ADMET, and structure prediction.
- MCP servers for cheminformatics and drug discoverySeptember 3, 2026MCP server for cheminformatics and drug discovery: Nanome exposes docking, structure prediction, and analysis to an LLM behind your firewall.
- Agentic AI for computational chemistrySeptember 3, 2026Agentic AI for computational chemistry: how Nanome's MARA plans and runs real scientific tools from plain English, behind your firewall.
- Software for molecular docking visualizationSeptember 1, 2026The best software for molecular docking visualization lets you rank poses and inspect protein-ligand interactions in 3D. Nanome adds XR and team review.
- Drug discovery software for computational chemistrySeptember 1, 2026Top drug discovery software for computational chemistry, plus how Nanome and MARA tie your comp-chem stack together with AI.
- The best molecular visualization toolsSeptember 1, 2026The best molecular visualization tools, from PyMOL and ChimeraX to Nanome's collaborative XR and AI copilot.
- Software for computational antibody designSeptember 1, 2026The best antibody design software for CDR analysis, numbering, structure prediction, and de novo design, with Nanome and MARA agents.
- The molecular PowerPoint: what a modern molecular presentation looks likeAugust 31, 2026A molecular presentation shows a 3D structure to the people who act on it. How Nanome builds one from scenes, and when a slide is still the right call.
- How to analyze protein-ligand interactionsAugust 31, 2026How to analyze protein-ligand interactions in Nanome: load a complex, show hydrogen bonds and contacts in 3D, and get a MARA report.
- Collaborative drug discovery software for remote teamsAugust 31, 2026Collaborative drug discovery software for remote teams: Nanome runs real-time shared molecular sessions across web and XR, behind your firewall.
- VR for medicinal chemistsAugust 31, 2026VR for medicinal chemistry, explained. How medicinal chemists use Nanome to review SAR, ligands, and pockets in immersive 3D.
- Molecular visualization for structural biologistsAugust 31, 2026Molecular visualization for structural biology: how Nanome pairs with PyMOL, ChimeraX, and Coot for immersive 3D review of PDB and mmCIF structures.
- How to view PDB files in 3D, and the tools that do it wellAugust 31, 2026The best software for viewing PDB files in 3D: PyMOL, ChimeraX, Mol*, and Nanome, which opens PDB and SDF in a browser or XR.
- How to visualize proteins in VRAugust 31, 2026How to visualize proteins in VR with Nanome: pick a headset, load a PDB or SDF structure, choose representations, then collaborate or run MARA tools.