Nanome

Nanome is a molecular visualization and drug discovery platform for reviewing protein and small-molecule structures. People can work together in real time in shared workspaces across web and XR. Its tools cover measurement, selection, molecule building, protein-ligand interaction analysis, docking pose review, molecular dynamics playback, and rendering. The MARA AI copilot offers more than 300 scientific tools in 26 categories, including docking, structure prediction, cheminformatics, genomics, and materials science. Nanome provides a REST API for each MARA tool, along with Jupyter integration, a Claude Code skill, and an MCP server. Listed integrations include Schrödinger LiveDesign, CDD Vault, OpenEye/Cadence, Discngine 3decision, KNIME Server, CCG MOE, Boltz, and OpenFold. The free web tier accepts PDB, SDF, and CIF uploads. Starter includes three workspaces, one project, 50 MARA credits, five recent files, and seven days of chat history. Paid plans start at $4.17/user/mo billed annually, and new accounts get a 14-day Full license trial without a credit card.

Nanome combines molecular review tools and collaborative workspaces with MARA's scientific tool library and programmatic access. The free web tier and trial offer ways to begin, while paid plans start at $4.17/user/mo billed annually.

Nanome suits researchers and teams who need to review molecular structures collaboratively across web and XR. Academic users can choose an individual plan or a department option intended for labs and institutions deploying at scale.

Overview

Nanome is a molecular visualization and drug-discovery workspace for examining protein and small-molecule structures in web and XR environments. It suits researchers and teams that need to review structures together or connect that work to scientific tools. Its breadth is compelling, but the free tier is constrained and department-scale academic access carries a 50-license minimum.

Key features

Nanome combines measurement, selection, molecular building, protein–ligand interaction analysis, docking-pose review, molecular-dynamics playback and rendering. That makes it more useful for active structure review than a viewer limited to displaying models. The free web tier accepts PDB, SDF and CIF uploads; the broader format support includes mmCIF/PDBx, MOL, MOL2, SMILES, XYZ, PQR, PDBQT, MAE, MAEGZ, MOE, PSE, GRO, XTC, TRR, DCD and DX. The range helps teams bring varied molecular data into one workspace, although Starter users can access only their five most recent files.

Multiple people can join a workspace in real time across web and XR, a practical advantage for shared review. Nanome integrates with Schrödinger LiveDesign, CDD Vault, OpenEye/Cadence, Discngine 3decision, KNIME Server, CCG MOE, Boltz and OpenFold. Its MARA copilot offers a growing library of more than 300 scientific tools across 26 categories, including docking, structure prediction, cheminformatics, genomics and materials science. A REST API is available for every MARA tool, with Jupyter integration, a Claude Code skill and an MCP server providing programmatic routes into those tools.

Supported devices include Meta Quest 3 and 3S, Samsung Galaxy XR, Apple Vision Pro, Windows PCs using Meta Link, and the browser app without a headset. This gives teams a choice between conventional browser review and immersive collaboration, but headset support is relevant only to users with compatible hardware. Account administrators can configure single sign-on and enable two-factor authentication in license management.

Pricing

Starter / Free Web Seat costs nothing. It provides web-based visualization, three workspaces, one project, 50 MARA credits, five most recent files and seven days of chat history. That is a useful entry point for individual evaluation, but the file, project and credit ceilings make sustained or broad use difficult.

Academic Department Full Web Seat starts at $4.17 a month, billed annually, with a minimum of 50 licenses. It offers the lower-cost full web seat for institutions deploying at scale, but the seat minimum makes it a poor fit for a small lab. Academic Department Full seat costs $12.50 a month, billed annually, also with a 50-license minimum; MCP calls are custom. Its seat adds a department deployment path with custom MCP calls, while retaining the same substantial minimum commitment.

Academic Personal Full seat costs $20.83 a month, billed annually, and includes 100 MCP calls, a Nanome-hosted shared tenant collaboration server and more than 300 tools. It is the clearer paid option for an individual student or researcher who needs the tool library and shared collaboration without a department-scale license purchase. Commercial Cloud / Enterprise has custom pricing, custom MCP calls, cloud or enterprise deployment and premium support. Enterprise deployment can be private cloud or on-prem, with internal database integration, custom or internal LLM and MCP servers, and custom development; that flexibility is aimed at organizations with deployment requirements beyond a hosted individual seat.

Every new account receives a 14-day Full license trial with no credit card required. That gives teams a way to assess paid capabilities before committing, but the trial is time-limited.

Platforms

Nanome supports web, Windows and Android XR, as well as supported XR headsets. Browser access without a headset lowers the barrier to joining a workspace; immersive use depends on a compatible device. The free web tier supports direct PDB, SDF and CIF uploads.

Who it's for

Nanome is best suited to molecular scientists, students and research teams who need collaborative protein or small-molecule review, especially when MARA tools or programmatic access are part of the workflow. Academic Personal is the more natural paid fit for an individual; departments planning broad institutional deployment should weigh the 50-license minimum. A reader seeking only a basic general-purpose 3D model viewer is unlikely to need Nanome’s scientific toolset.

Pros and cons

• Pro: Molecular interaction, docking-pose and dynamics tools sit alongside measurement and rendering, supporting several kinds of structure review in one product.
• Pro: Real-time collaboration works across web and XR, and the browser can be used without a headset.
• Pro: MARA’s 300+ tools and REST API for every tool give technical teams both a broad scientific library and programmatic access.
• Con: Starter limits users to three workspaces, one project, 50 MARA credits, five recent files and seven days of chat history.
• Con: Academic Department seats require at least 50 licenses, a significant commitment for smaller groups.
• Con: Immersive review depends on supported XR hardware; the browser option is less of a draw for teams specifically seeking a headset-free scientific workflow with the same immersive setting.

Alternatives

For a straightforward 3D viewing need rather than molecular research collaboration, Aspose.3D Viewer is a free option with apps across mobile, desktop and web platforms. Graphisoft BIMx is another free app and browser viewer; choose it when its BIMx project-viewing approach is the relevant fit, noting that a Graphisoft account is required to open projects on several platforms.

OmniView 3D suits users who need a freemium general 3D model viewer, with a Starter allowance of three models and 100 MB storage plus auto-deletion after three days. p3d.in is a freemium alternative for sharing 3D models, with a free Basic tier capped at 100MB storage and model size and 1024px textures.

BIMx Web Viewer is a free browser choice for viewing BIMx models; its Pro features on Model Transfer require membership in an eligible company and Graphisoft ID sign-in. Dalux makes more sense when the need is a free punch-list tool, with unlimited tasks and up to three active projects or buildings under its free-use terms. F3D is a free, open-source viewer for users who prefer software under the BSD 3-Clause License. Marmoset Viewer is another option for readers comparing 3D viewers.

Browse 3D Model Viewer Software or 3D Visualization Software for more options in those categories.

Verdict

Choose Nanome if you are a molecular researcher or team that needs shared protein and small-molecule review, with MARA’s scientific tools and API access as meaningful extensions. Its specialized analysis and cross-web/XR collaboration are the main reasons to pick it; look elsewhere if Starter’s strict caps or the 50-license academic minimum do not fit your scale or budget.