Data From External Resources Integrated Into RCSB PDB

Resource Home URL Type of Data
BindingDB http://www.bindingdb.org Binding affinities
Binding MOAD http://bindingmoad.org Binding affinities
BiGG http://bigg.ucsd.edu Reconstruction of metabolic pathways
BMRB http://www.bmrb.wisc.edu BMRB-to-PDB mappings
Catalytic Site Atlas http://www.ebi.ac.uk/thornton-srv/databases/CSA Active sites and catalytic residues in enzymes
CATH http://www.cathdb.info Protein structure classification
DrugBank http://www.drugbank.ca Drug and drug target data
PDBflex http://pdbflex.org/ Protein structure flexibility
ExPASy http://expasy.org Enzyme classification
Gencode http://www.gencodegenes.org Gene structure data
Gene Ontology http://www.geneontology.org Biological ontologies
HMMER3 http://hmmer.janelia.org Sequence similarity searches
Human Gene Nomenclature Committee http://www.genenames.org Human gene name nomenclature and genomic information
Immune Epitope Database http://www.iedb.org Antibody and T cell epitopes
LS-SNP http://ls-snp.icm.jhu.edu/ls-snp-pdb Single Nucleotide Polymorphisms
NDB http://ndbserver.rutgers.edu/ Experimentally-determined nucleic acids and complex assemblies
EMDB http://pdbe.org/emdb/ 3DEM density maps and associated metadata
mpstruc http://blanco.biomol.uci.edu/mpstruc/ Classification of transmembrane protein structures in PDB
NCBI Gene http://www.ncbi.nlm.nih.gov/gene Gene info, reference sequences, et al.
NCBI Taxonomy http://www.ncbi.nlm.nih.gov/taxonomy Organism Classification
OLDERADO http://www.ebi.ac.uk/pdbe-apps/nmr/olderado NMR domain composition and clustering
OPM http://opm.phar.umich.edu Orientation of transmembrane proteins
PDBbind-CN http://www.pdbbind-cn.org Binding affinities
Pfam http://pfam.sanger.ac.uk Protein families
PhospoSitePlus http://www.phosphosite.org Mammalian post-translational modifications
ProteinDiffraction.org http://proteindiffraction.org Diffraction images
Protein Model Portal http://www.proteinmodelportal.org Homology models
PubMed http://www.ncbi.nlm.nih.gov/pubmed Citation information
PubMedCentral http://www.ncbi.nlm.nih.gov/pmc Open access literature
Recon3D https://github.com/SBRG A 3-Dimensional View of Human Metabolism and Disease
RECOORD http://www.ebi.ac.uk/pdbe-apps/nmr/recoord/main.html NMR structure ensembles
RESID http://pir.georgetown.edu/resid/ Protein modifications
SBGrid http://sbgrid.org Structural Biology Data Grid / diffraction images
SCOP http://scop.mrc-lmb.cam.ac.uk/scop/index.html Protein structure classification
SIFTS http://www.ebi.ac.uk/pdbe/docs/sifts Structure, function, taxonomy, sequence
Store.Synchrotron Data Store https://store.synchrotron.org.au Diffraction images
Transporter Classification Database http://www.tcdb.org Classification of membrane transport proteins
UniProt http://www.uniprot.org Protein sequences and annotations
UCSC genome browser https://genome.ucsc.edu Human genome data