ESMFold2

Predicts protein, DNA, RNA, and ligand complexes

Candido et al. 2026

ESMFold2 Binder Design

Design de novo protein binders against a target

Candido et al. 2026

ESM-C 6B

ESM-C 6B protein language model

Candido et al. 2026

PepMLM

Design linear peptide binders

Chen et al.

Profluent E1

Protein language model

Jain et al.

Antibody Evolution

Language models to recommend mutations for increased antibody binding affinity

Hie et al.

ZymCTRL

Conditionally generate artificial enzymes

Illanes-Vicioso et al.

EvoNB

Mutate nanobody sequences

Xiong et al.

AbGPT

Generate antibody sequences

Kuan et al.

HELM-GPT

Generate macrocyclic peptides

Xu et al.

CatPred

ESM-2 based kcat, Km, and Ki prediction

Boorla et al.

SaProt

Language models for protein property prediction

Su et al.

SynCodonLM

Codon language model

Heuschkel et al.

NetSolP

Solubility and usability based on protein language models

Thumuluri V et al.

TEMPRO

Nanobody melting temperature prediction

Alvarez et al.

SaProtΔG

Absolute protein stability (ΔG) prediction from structure

Cho et al.

ESM-IF ΔG

Absolute protein folding stability (ΔG) prediction from structure with ESM-IF

Cagiada et al.

PALM

Protein aggregation propensity prediction

Eschbach et al.

CANYA

Amyloid nucleation propensity prediction

Thompson et al.

PolyXpert

Antibody polyreactivity prediction

DELPHI

Antibody polyreactivity and monomer-purity prediction

Nguyen et al.

TemStaPro

Protein thermostability prediction

Pudžiuvelytė et al.

EvoProtGrad

Generate mutations with directed evolution

Emami et al.

Structural Evolution

Mutate protein complexes with structure-informed language model

Varun R. Shanker et al. et al.

ESMFold

Predict protein structure given a sequence

Lin et al.

SaProt Finetuning

SaProt finetuning

Su et al.

Asparagine Deamidation Prediction

Asparagine deamidation prediction, finetuned on your data

Ahmed et al.

Finetune Protein Language Model

Protein sequence property prediction finetuning

Schmirler et al.

PLM Crystallization Prediction

Sequence-based crystallization predictor. Mean-ensemble of LightGBM classifiers trained on ESM2 T30-150M and ESM2 T36-3B embeddings.

Mall et al.

BioReason-Pro

Predict protein function with a written reasoning trace

Fallahpour A et al.

DeepFRI

Predict protein function

Gligorijevic et al.

AbLang2

Antibody language model

Olsen et al.

AbMAP

Antibody language model

Singh et al.

AntiBERTy

Optimize antibody/nanobody sequence affinity

Ruffolo et al.

Seq2Symm

Predict protein homo-oligomer symmetry

Kshirsagar et al.

deepSTABp

Predict protein melting temperature

Jung et al.

ESM2 Embeddings

Generate ESM2 Embeddings

Lin et al.

Prot T5 XL Embeddings

Generate Prot T5 Embeddings

Elnaggar et al.

ESM2

Score point mutations or mask residues using ESM-2 language model

Lin et al.

AMPLIFY

Score using AMPLIFY language model

Fournier et al.

BALM Paired

Score point mutations using BALM-paired language model

Burbach et al.

ESM3

Generative protein language model. Fill in masked positions of a sequence, optionally conditioned on a structure, or predict structure from sequence.

Hayes et al.

ESM-Scan

Score point mutations using ESM1b language model

Lin et al.

ProGen2 Finetuning

Finetune generative protein language model

H. Hrbáň and D. Hoksza et al.

ProtRL Finetuning

Reinforcement-learning finetuning of a protein language model

Stocco et al.

ProtRL Steering

Steer a protein language model toward a family or a score as it writes new sequences

Garibbo et al.

SeqDesign Model Training

Train a SeqDesign model on your own protein family

Shin et al.

MAGE

De novo antibody generation from antigen sequence using language models

Wasdin P.T. et al.

LICHEN

Generate light chain sequences conditioned on heavy chain using machine learning

Capel H.L. et al.

DynamicsPLM Finetuning

Finetune a dynamics-aware protein language model on your data

Kalifa et al.

Dyna-1

Predict millisecond conformational exchange

Wayment-Steele et al.

ESMC Finetune

Finetune ESM-C on labelled sequence data (regression, classification, token-classification, or MLM)

Candido et al. 2026

ProFam

Protein family language model

Wells et al.