Conformation-Aware Structure Prediction of Antigen-Recognizing Immune Proteins
Fuente:
arXiv
Saved in:
| Main Authors: | Dreyer, Frédéric A., Ludwiczak, Jan, Martinkus, Karolis, Abanades, Brennan, Alberstein, Robert G., Kessel, Pan, Rao, Pranav, Lee, Jae Hyeon, Bonneau, Richard, Watkins, Andrew M., Seeger, Franziska |
|---|---|
| Format: | Preprint |
| Published: |
2025
|
| Subjects: | |
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Similar Items
AbDiffuser: Full-Atom Generation of in vitro Functioning Antibodies
by: Martinkus, Karolis, et al.
Published: (2023)
by: Martinkus, Karolis, et al.
Published: (2023)
Tokenizing Loops of Antibodies
by: Fang, Ada, et al.
Published: (2025)
by: Fang, Ada, et al.
Published: (2025)
Unified all-atom molecule generation with neural fields
by: Kirchmeyer, Matthieu, et al.
Published: (2025)
by: Kirchmeyer, Matthieu, et al.
Published: (2025)
Disentangling multispecific antibody function with graph neural networks
by: Southern, Joshua, et al.
Published: (2026)
by: Southern, Joshua, et al.
Published: (2026)
Pseudo-perplexity in One Fell Swoop for Protein Fitness Estimation
by: Kantroo, Pranav, et al.
Published: (2024)
by: Kantroo, Pranav, et al.
Published: (2024)
Assessing interaction recovery of predicted protein-ligand poses
by: Errington, David, et al.
Published: (2024)
by: Errington, David, et al.
Published: (2024)
Structure Language Models for Protein Conformation Generation
by: Lu, Jiarui, et al.
Published: (2024)
by: Lu, Jiarui, et al.
Published: (2024)
Aligning Protein Conformation Ensemble Generation with Physical Feedback
by: Lu, Jiarui, et al.
Published: (2025)
by: Lu, Jiarui, et al.
Published: (2025)
SCOP: A Sequence-Structure Contrast-Aware Framework for Protein Function Prediction
by: Ma, Runze, et al.
Published: (2024)
by: Ma, Runze, et al.
Published: (2024)
Differential Effects of Sequence-Local versus Nonlocal Charge Patterns on Phase Separation and Conformational Dimensions of Polyampholytes as Model Intrinsically Disordered Proteins
by: Pal, Tanmoy, et al.
Published: (2024)
by: Pal, Tanmoy, et al.
Published: (2024)
ABodyBuilder3: Improved and scalable antibody structure predictions
by: Kenlay, Henry, et al.
Published: (2024)
by: Kenlay, Henry, et al.
Published: (2024)
De novo antibody design with SE(3) diffusion
by: Cutting, Daniel, et al.
Published: (2024)
by: Cutting, Daniel, et al.
Published: (2024)
Protein Discovery with Discrete Walk-Jump Sampling
by: Frey, Nathan C., et al.
Published: (2023)
by: Frey, Nathan C., et al.
Published: (2023)
TEMPO: Temporal Multi-scale Autoregressive Generation of Protein Conformational Ensembles
by: Xu, Yaoyao, et al.
Published: (2025)
by: Xu, Yaoyao, et al.
Published: (2025)
Towards a Unified Framework for Determining Conformational Ensembles of Disordered Proteins
by: Ghafouri, Hamidreza, et al.
Published: (2025)
by: Ghafouri, Hamidreza, et al.
Published: (2025)
Characterizing the Conformational States of G Protein Coupled Receptors Generated with AlphaFold
by: Chib, Garima, et al.
Published: (2025)
by: Chib, Garima, et al.
Published: (2025)
Protein Conformation Generation via Force-Guided SE(3) Diffusion Models
by: Wang, Yan, et al.
Published: (2024)
by: Wang, Yan, et al.
Published: (2024)
Exploring AlphaFold 3 for CD47 Antibody-Antigen Binding Affinity: An Unexpected Discovery of Reverse docking
by: Xu, Yiyang, et al.
Published: (2025)
by: Xu, Yiyang, et al.
Published: (2025)
Iterative Annealing Mechanism for Protein and RNA Chaperones
by: Hyeon, Changbong, et al.
Published: (2025)
by: Hyeon, Changbong, et al.
Published: (2025)
Large scale paired antibody language models
by: Kenlay, Henry, et al.
Published: (2024)
by: Kenlay, Henry, et al.
Published: (2024)
Generative Modeling of Full-Atom Protein Conformations using Latent Diffusion on Graph Embeddings
by: Sengar, Aditya, et al.
Published: (2025)
by: Sengar, Aditya, et al.
Published: (2025)
MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding
by: Wu, Lirong, et al.
Published: (2024)
by: Wu, Lirong, et al.
Published: (2024)
Protein FID: Improved Evaluation of Protein Structure Generative Models
by: Faltings, Felix, et al.
Published: (2025)
by: Faltings, Felix, et al.
Published: (2025)
Fold-switching Proteins
by: Chakravarty, Devlina, et al.
Published: (2025)
by: Chakravarty, Devlina, et al.
Published: (2025)
Pharmacophore-based design by learning on voxel grids
by: Mahmood, Omar, et al.
Published: (2025)
by: Mahmood, Omar, et al.
Published: (2025)
Decoding How Proteins Fold
by: Vila, Jorge
Published: (2025)
by: Vila, Jorge
Published: (2025)
PLD-Tree: Persistent Laplacian Decision Tree for Protein-Protein Binding Free Energy Prediction
by: Xu, Xingjian, et al.
Published: (2024)
by: Xu, Xingjian, et al.
Published: (2024)
ABConformer: Physics-inspired Sliding Attention for Antibody-Antigen Interface Prediction
by: You, Zhang-Yu, et al.
Published: (2025)
by: You, Zhang-Yu, et al.
Published: (2025)
Molecular Communication-Based Quorum Sensing Disruption for Enhanced Immune Defense
by: Zulfiqar, Shees, et al.
Published: (2024)
by: Zulfiqar, Shees, et al.
Published: (2024)
Topological Enhancement of Protein Kinetic Stability
by: Especial, João NC, et al.
Published: (2026)
by: Especial, João NC, et al.
Published: (2026)
Protein Evolution as a Complex System
by: Gall, Barnabas, et al.
Published: (2024)
by: Gall, Barnabas, et al.
Published: (2024)
Toward the Explainability of Protein Language Models
by: Hunklinger, Andrea, et al.
Published: (2025)
by: Hunklinger, Andrea, et al.
Published: (2025)
Antigen-Specific Antibody Design via Direct Energy-based Preference Optimization
by: Zhou, Xiangxin, et al.
Published: (2024)
by: Zhou, Xiangxin, et al.
Published: (2024)
Implicitly and Differentiably Representing Protein Surfaces and Interfaces
by: Scott, Cory B., et al.
Published: (2025)
by: Scott, Cory B., et al.
Published: (2025)
Probing the Dark Energy in the Functional Protein Universe
by: Galpern, Ezequiel A., et al.
Published: (2025)
by: Galpern, Ezequiel A., et al.
Published: (2025)
A Comprehensive Review of Protein Language Models
by: Wang, Lei, et al.
Published: (2025)
by: Wang, Lei, et al.
Published: (2025)
Exploiting Hierarchical Interactions for Protein Surface Learning
by: Lin, Yiqun, et al.
Published: (2024)
by: Lin, Yiqun, et al.
Published: (2024)
Deep Learning-based QSAR Model for Therapeutic Strategies Targeting SmTGR Protein's Immune Modulating Role in Host-Parasite Interaction
by: Desai, Belaguppa Manjunath Ashwin, et al.
Published: (2025)
by: Desai, Belaguppa Manjunath Ashwin, et al.
Published: (2025)
Docking-Aware Attention: Dynamic Protein Representations through Molecular Context Integration
by: Sicherman, Amitay, et al.
Published: (2025)
by: Sicherman, Amitay, et al.
Published: (2025)
Fusing Neural and Physical: Augment Protein Conformation Sampling with Tractable Simulations
by: Lu, Jiarui, et al.
Published: (2024)
by: Lu, Jiarui, et al.
Published: (2024)
Similar Items
-
AbDiffuser: Full-Atom Generation of in vitro Functioning Antibodies
by: Martinkus, Karolis, et al.
Published: (2023) -
Tokenizing Loops of Antibodies
by: Fang, Ada, et al.
Published: (2025) -
Unified all-atom molecule generation with neural fields
by: Kirchmeyer, Matthieu, et al.
Published: (2025) -
Disentangling multispecific antibody function with graph neural networks
by: Southern, Joshua, et al.
Published: (2026) -
Pseudo-perplexity in One Fell Swoop for Protein Fitness Estimation
by: Kantroo, Pranav, et al.
Published: (2024)