--- title: Accelerating End-to-End Co-Folding Performance with... description: NVIDIA's BioNeMo Agent Toolkit accelerates the end-to-end co-folding pipeline for biomolecular structure prediction. Key components include: MMseqs2-GPU for... canonical: https://daily.dev/posts/accelerating-end-to-end-co-folding-performance-with-nvidia-bionemo-agent-toolkit-fqlptrm61 twitter:card: summary_large_image twitter:site: @dailydotdev og:type: website og:site_name: daily.dev og:title: Accelerating End-to-End Co-Folding Performance with NVIDIA BioNeMo Agent Toolkit | daily.dev og:description: NVIDIA's BioNeMo Agent Toolkit accelerates the end-to-end co-folding pipeline for biomolecular structure prediction. Key components include: MMseqs2-GPU for... og:url: https://daily.dev/posts/accelerating-end-to-end-co-folding-performance-with-nvidia-bionemo-agent-toolkit-fqlptrm61 og:image: https://api.daily.dev/og/posts/fQLPTRM61.png og:image:alt: Accelerating End-to-End Co-Folding Performance with NVIDIA BioNeMo Agent Toolkit og:image:width: 1200 og:image:height: 630 og:locale: en --- > ## Documentation Index > Fetch the complete documentation index at: https://daily.dev/llms.txt > Use this file to discover all available pages before exploring further. # Accelerating End-to-End Co-Folding Performance with NVIDIA BioNeMo Agent Toolkit **[NVIDIA Developer](https://daily.dev/sources/nvidiadev)** · 8 min read · 0 upvotes · 0 comments ## Summary NVIDIA's BioNeMo Agent Toolkit accelerates the end-to-end co-folding pipeline for biomolecular structure prediction. Key components include: MMseqs2-GPU for MSA generation (up to 177× faster than CPU JackHMMER), cuEquivariance CUDA-X library that cuts OpenFold3 inference latency up to 3× on B300 GPUs, the OpenFold3 NIM for further optimized inference reaching ~6,400 tokens on a single B300, and Fold-CP — a new context-parallelism technique that scales co-folding to 32,000 tokens across 64 B300 GPUs. These tools are integrated into open-source models (OpenFold3, Boltz, RosettaFold3) and can be composed into agentic workflows via the BioNeMo Agent Toolkit, enabling virtual screening at large compound library scales and prediction of massive molecular assemblies like ribosomes. ## Full article daily.dev links to this article rather than hosting it. Read it at the original source: ## Similar posts on daily.dev - [Build an AI Scientist for Life Science Discovery with NVIDIA BioNeMo Agent Toolkit](https://daily.dev/posts/build-an-ai-scientist-for-life-science-discovery-with-nvidia-bionemo-agent-toolkit-plwbrgvwb) · NVIDIA Developer · 1 upvotes · 0 comments - [How to Predict Biomolecular Structures Using the OpenFold3 NIM](https://daily.dev/posts/how-to-predict-biomolecular-structures-using-the-openfold3-nim-ygqkqxkos) · NVIDIA Developer · 1 upvotes · 0 comments - [How Open Science Can Help Researchers Prepare for the Next Pandemic](https://daily.dev/posts/how-open-science-can-help-researchers-prepare-for-the-next-pandemic-j2nxjuah9) · NVIDIA · 0 upvotes · 0 comments - [Run NVIDIA BioNeMo NIM Microservices for Protein Structure Prediction in Claude Science](https://daily.dev/posts/run-nvidia-bionemo-nim-microservices-for-protein-structure-prediction-in-claude-science-hoekcihzj) · NVIDIA Developer · 1 upvotes · 0 comments - [High-Throughput Structure Prediction with BioNeMo Inference Runtime](https://daily.dev/posts/high-throughput-structure-prediction-with-bionemo-inference-runtime-pyeop3at5) · NVIDIA Developer · 1 upvotes · 0 comments --- Tags: [#nvidia](https://daily.dev/tags/nvidia) [View this post on daily.dev](https://daily.dev/posts/accelerating-end-to-end-co-folding-performance-with-nvidia-bionemo-agent-toolkit-fqlptrm61) ```json {"@context":"https://schema.org","@graph":[{"@type":"Organization","@id":"https://daily.dev/#organization","name":"daily.dev","url":"https://daily.dev","logo":{"@type":"ImageObject","url":"https://daily.dev/apple-touch-icon.png","width":180,"height":180},"sameAs":["https://twitter.com/dailydotdev","https://github.com/dailydotdev","https://www.linkedin.com/company/daily-dev-ltd"]},{"@type":"WebSite","@id":"https://daily.dev/#website","url":"https://daily.dev","name":"daily.dev","publisher":{"@id":"https://daily.dev/#organization"},"potentialAction":{"@type":"SearchAction","target":{"@type":"EntryPoint","urlTemplate":"https://daily.dev/search?q={search_term_string}"},"query-input":"required name=search_term_string"}}]} {"@context":"https://schema.org","@type":"TechArticle","headline":"Accelerating End-to-End Co-Folding Performance with NVIDIA BioNeMo Agent Toolkit","url":"https://daily.dev/posts/accelerating-end-to-end-co-folding-performance-with-nvidia-bionemo-agent-toolkit-fqlptrm61","mainEntityOfPage":{"@type":"WebPage","@id":"https://daily.dev/posts/accelerating-end-to-end-co-folding-performance-with-nvidia-bionemo-agent-toolkit-fqlptrm61"},"datePublished":"2026-07-10T13:03:33.549Z","dateModified":"2026-07-10T13:03:56.581Z","description":"NVIDIA's BioNeMo Agent Toolkit accelerates the end-to-end co-folding pipeline for biomolecular structure prediction. Key components include: MMseqs2-GPU for...","image":"https://media.daily.dev/image/upload/f_auto,q_auto/v1/posts/f94dff5c8b5ec0b7a27b56c7bb6115fc?_a=AQAEuop","thumbnailUrl":"https://media.daily.dev/image/upload/f_auto,q_auto/v1/posts/f94dff5c8b5ec0b7a27b56c7bb6115fc?_a=AQAEuop","isAccessibleForFree":true,"articleSection":"NVIDIA Developer","inLanguage":"en","publisher":{"@type":"Organization","name":"daily.dev","url":"https://daily.dev","logo":{"@type":"ImageObject","url":"https://daily.dev/apple-touch-icon.png","width":180,"height":180}},"author":{"@type":"Organization","name":"NVIDIA Developer","logo":"https://media.daily.dev/image/upload/t_logo,f_auto/v1/logos/86e45aab42ba48ce83103d01b1119910","url":"https://daily.dev/sources/nvidiadev"},"commentCount":0,"discussionUrl":"https://daily.dev/posts/accelerating-end-to-end-co-folding-performance-with-nvidia-bionemo-agent-toolkit-fqlptrm61","interactionStatistic":[{"@type":"InteractionCounter","interactionType":{"@type":"LikeAction"},"userInteractionCount":0},{"@type":"InteractionCounter","interactionType":{"@type":"CommentAction"},"userInteractionCount":0}],"keywords":"nvidia","timeRequired":"PT8M"} {"@context":"https://schema.org","@type":"BreadcrumbList","itemListElement":[{"@type":"ListItem","position":1,"name":"Home","item":"https://daily.dev"},{"@type":"ListItem","position":2,"name":"NVIDIA Developer","item":"https://daily.dev/sources/nvidiadev"},{"@type":"ListItem","position":3,"name":"Accelerating End-to-End Co-Folding Performance with NVIDIA BioNeMo Agent Toolkit"}]} ```