Download data from Q-BioLiP


Note:
  • The redundant data in single-chain format like BioLiP can be downloaded here.
  • The list of small molecules that are commonly used in protein structure determination can be downloaded here.
  • All DNA structures can be downloaded here.
  • All RNA structures can be downloaded here.
  • The script to convert between mmCIF format and PDB format can be downloaded here.
  • The 100 structures to validate DNA/RNA pairing algorithm can be downloaded here.
  • The Redundant receptor structures contains the receptor from all interactions (i.e. biological relevant + irrelevant interactions) and the structures with ligands or proteins only.
  • The Non-redundant version is based on biological relevant interactions.

    • All data (before 2025-08-29) File Size Download link
    Redundant
    (i.e., biologically relevant +
    irrelevant interactions +
    structures with ligands/proteins only)     		Receptor structures 82 G / 70 G mmCIF format / PDB format
    Ligand structures 6.5 G / 5.6 G mmCIF format / PDB format
    Annotation 877 M link
    Non-redundant (nr-sequence)
    (i.e., biologically relevant interactions for all ligands,
    including small molecules,
    peptide, DNA/RNA, and metal ions)     		Receptor structures 8.2 G / 7.1 G mmCIF format / PDB format
    Ligand structures 1022 M / 875 M mmCIF format / PDB format
    Annotation 64 M link
    Non-redundant (nr-structure)
    (The same as nr-sequence above)     		Receptor structures 5.3 G / 4.6 G mmCIF format / PDB format
    Ligand structures 447 M / 381 M mmCIF format / PDB format
    Annotation 40 M link
    Ligand information
    (i.e., ID, Name, Synonyms, SMILES, etc)     		Ligand 27 M link

    Interaction-based data Redundant Non-redundant
    Protein–small molecules interaction Receptor, Ligand, Fasta, Annotation Receptor, Ligand, Fasta, Annotation
    Protein–metal ions interaction Receptor, Ligand, Fasta, Annotation Receptor, Ligand, Fasta, Annotation
    Protein–peptide interaction Receptor, Ligand, Fasta, Annotation Receptor, Ligand, Fasta, Annotation
    Protein–protein interaction Structure, Fasta, Annotation Structure, Fasta, Annotation
    Protein–DNA interaction Receptor, Ligand, Fasta, Annotation Receptor, Ligand, Fasta, Annotation
    Protein–RNA interaction Receptor, Ligand, Fasta, Annotation Receptor, Ligand, Fasta, Annotation
    RNA–small molecules interaction Receptor, Ligand, Fasta, Annotation Receptor, Ligand, Fasta, Annotation

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    Reference

  • Wei et al, Q-BioLiP: A Comprehensive Resource for Quaternary Structure-based Protein–ligand Interactions, Genomics, Proteomics & Bioinformatics, 22(1), qzae001, 2024. (PDF)