Protein structure and design

Query ClinicalTrials.gov API v2 for trial data. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills

Parse local DrugBank XML for drug info, interactions, targets, and properties.

jaechang-hits/SciAgent-Skills

Look up EMDB cryo-EM density maps and fitted atomic models via the entry REST API + EBI Search WS.

jaechang-hits/SciAgent-Skills

Protein language models (ESM3, ESM C) for sequence generation, structure prediction, inverse folding, and embeddings.

jaechang-hits/SciAgent-Skills

Query openFDA REST API for adverse events (FAERS), labeling, product info, recalls, enforcement.

jaechang-hits/SciAgent-Skills

Query IUPHAR/BPS Guide to Pharmacology (GtoPdb) for receptor-ligand interactions, target/ligand metadata, families, and approved drugs.

jaechang-hits/SciAgent-Skills

Query UniProt REST API: search by gene/protein name, fetch FASTA, map IDs (Ensembl, PDB, RefSeq), access Swiss-Prot annotations.

jaechang-hits/SciAgent-Skills

ESM2 protein language model for embeddings and sequence scoring.

NeverSight/learn-skills.dev

Query AlphaFold protein structure predictions by UniProt accession

wentorai/research-plugins

Search and retrieve 3D protein structures from the RCSB Protein Data Bank

wentorai/research-plugins

Compose auditable protein-design operations through the configured OpenAI4S protein-design MCP connector: target-conditioned RFdiffusion backbone generation, constrained ProteinMPNN sequence design…

PKU-YuanGroup/OpenAI4S

Use ESMFold model to predict 3D structure of the input protein sequence.

InternScience/scp

Given a protein sequence and its structure, employ ProSST model to predict mutation effects and obtain the top-k mutated sequences.

InternScience/scp

Comprehensive drug screening pipeline from molecular filtering through QED/ADMET criteria to protein-ligand docking, identifying promising drug candidates.

InternScience/scp

Search the protein information from the input gene name and downloads the optimal PDB or AlphaFold structures.

InternScience/scp

Retrieve protein sequences and functional information from UniProt database by protein name, enabling protein analysis and bioinformatics workflows.

InternScience/scp

Query ChEMBL (2M+ compounds, 19M+ bioactivity measurements, 13K+ targets) via the public REST/JSON API with plain requests — no SDK install required.

jaechang-hits/SciAgent-Skills

Query FDA drug labels (DailyMed) via REST API. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills

Query DDInter drug-drug interactions via REST API (1.7M+ interactions, 2,400+ drugs).

jaechang-hits/SciAgent-Skills

Query Open Targets GraphQL API for target-disease associations, evidence, drug links, safety.

jaechang-hits/SciAgent-Skills

Query RCSB PDB (200K+ structures) via the public REST + GraphQL APIs with plain requests (no SDK).

jaechang-hits/SciAgent-Skills

Cross-reference compound IDs across 20+ databases (ChEMBL, DrugBank, PubChem, ChEBI, PDB, SureChEMBL, HMDB, DrugCentral, BindingDB) via UniChem REST API.

jaechang-hits/SciAgent-Skills

Build, validate, convert, and troubleshoot AlphaFold 3 input JSON files before prediction runs.

VectorSpaceLab/AREX-Skill

Diffusion-based docking that predicts protein-ligand poses without a predefined site.

jaechang-hits/SciAgent-Skills

End-to-end protein design pipeline guide across preparation, generation, validation, and filtering.

BioTender-max/awesome-bio-agent-skills

Protein design quality control, filtering thresholds, and ranking guidance.

BioTender-max/awesome-bio-agent-skills

Proteina-Complexa flow-based protein backbone generation with fold-conditioned sampling guidance.

BioTender-max/awesome-bio-agent-skills

Chai-1 structure prediction for protein complexes and design validation.

BioTender-max/awesome-bio-agent-skills

A skill your agent uses when running AlphaFold2 predictions on custom protein sequences, validating designed sequences via self-consistency, predicting binder-target complexes, or interpreting AF2…

lamm-mit/scienceclaw

3D protein structure search via RCSB PDB. An agent skill from lamm-mit/scienceclaw.

lamm-mit/scienceclaw

ToolUniverse workflow — Protein Structure Retrieval. An agent skill from lamm-mit/scienceclaw.

lamm-mit/scienceclaw

ToolUniverse workflow — Protein Therapeutic Design. An agent skill from lamm-mit/scienceclaw.

lamm-mit/scienceclaw

Protein sequence, function, and annotation lookup. An agent skill from lamm-mit/scienceclaw.

lamm-mit/scienceclaw