BindingDB Database of measured binding affinities, focusing chiefly on the interactions of protein considered to be drug-targets with small, drug-like molecules.

BindingMOAD Binding MOAD is a subset of the Protein Data Bank (PDB), containing every high-quality example of ligand-protein binding. The BindingMOAD.org website was closed down on July 1st

BMCD Biological Macromolecule Crystallization Database

BRENDA The Comprehensive Enzyme Information System

CAZy Carbohydrate-Active enZYmes

CCDC Cambridge Crystallographic Data Centre (small molecules)

Coronavirus Structural Task Force The Coronavirus Structural Task Force examines the structures from SARS and SARS-CoV-2 which are released to evaluate the quality and improve the structures where possible.

CoSSMos RNA Characterization of Secondary Structure Motifs (RNA CoSSMos) database. This tool allows the systematic searching of all catalogued three-dimensional nucleic acid PDB structures that contain secondary structure motifs such as mismatches, (a)symmetric internal loops, hairpin loops, and bulge loops.

Covid-19.bioreproducibility.org Validated models of CoV-2 proteins are available in a dedicated, publicly accessible web service

Crystallography Open Database (COD) Open-access collection of crystal structures of organic, inorganic, metal-organic compounds and minerals, excluding biopolymer

CXIDB Coherent X-ray Imaging Data Bank for data from Coherent X-ray Imaging (CXI) experiments

Database of Macromolecular Movements Describes the motions that occur in proteins and other macromolecules, particularly using movies

DNATCO Enables an in-depth analysis and validation of nucleic acid structures

EM DataBank The unified data resource for CryoEM

Entrez NCBI databases

ENZYME Enzyme Nomenclature

ExPASy Molecular Biology server

GenBank Nucleotide sequences

GeneCards Database on human genes, proteins and diseases

GlyCosmos A web portal aiming to integrate the glycosciences with the life sciences about genes, proteins, lipids, pathways and diseases.

GlyGen A data integration and dissemination resource for carbohydrate and glycoconjugate related data which provides computational and informatics resources and tools for glycosciences research.

GlyTouCan An international glycan structure repository with unique accession code for each unique glycan.

IEDB The Immune Epitope Database contains data related to antibody and T cell epitopes for humans, non-human primates, rodents, and other animal species.

IMGT International ImMunoGeneTics Database

KBase Enables users to analyze, share, and collaborate using data and tools designed to help build increasingly realistic models for biological function.

LS-SNP A web tool for genome-wide annotation of human SNPs. The current version, LS-SNP/PDB, provides information useful for identifying amino-acid changing SNPs (nsSNPs) that are most likely to have an impact on biological function.

MEROPS Peptidase Database

NAKB Nucleic Acid Knowledgebase

OCA A browser-database for structure/function

PDBLite Simple PDB search for students and educators

Pfam The Pfam database (hosted by InterPro) is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models.

Protein Design Archive An up-to-date resource striving to systematically capture all de novo protein designs. It offers relevant information at-a-glance, and is readily searchable and analyzable to gain deeper insights.

Proteopedia Collaborative 3D encyclopedia of proteins and other molecules

ProTherm Thermodynamic Database for Proteins and Mutants

SASBDB Curated repository for small angle scattering data and models.

UniProtKB A comprehensive, high-quality, and freely accessible resource of protein sequence and functional information.

XRDa Xtal Raw Data Archive for raw X-ray diffraction images corresponding to PDB entries

Zinc A free database of commercially-available compounds for virtual screening.