RCSB PDB: Search API Documentation

Attribute Operators Type Description
chem_comp.formula_weightnumberequals
greater
less
greater_or_equal
less_or_equal
range
exists
Formula mass of the chemical component.
chem_comp.namestringin
exact_match
contains_phrase
contains_words
exists
The full name of the component.
chem_comp.typestringin
exact_match
exists
For standard polymer components, the type of the monomer.
Note that monomers that will form polymers are of three types:
linking monomers, monomers with some type of N-terminal (or 5')
cap and monomers with some type of C-terminal (or 3') cap.
Allowed Values: D-beta-peptide, C-gamma linking, D-gamma-peptide, C-delta linking, D-peptide COOH carboxy terminus, D-peptide NH3 amino terminus, D-peptide linking, D-saccharide, D-saccharide, alpha linking, D-saccharide, beta linking, DNA OH 3 prime terminus, DNA OH 5 prime terminus, DNA linking, L-DNA linking, L-RNA linking, L-beta-peptide, C-gamma linking, L-gamma-peptide, C-delta linking, L-peptide COOH carboxy terminus, L-peptide NH3 amino terminus, L-peptide linking, L-saccharide, L-saccharide, alpha linking, L-saccharide, beta linking, RNA OH 3 prime terminus, RNA OH 5 prime terminus, RNA linking, non-polymer, other, peptide linking, peptide-like, saccharide
pdbx_reference_molecule.classstringin
exact_match
contains_phrase
contains_words
exists
Broadly defines the function of the entity.
Allowed Values: Antagonist, Anthelmintic, Antibiotic, Antibiotic, Anthelmintic, Antibiotic, Antimicrobial, Antibiotic, Antineoplastic, Anticancer, Anticoagulant, Anticoagulant, Antithrombotic, Antifungal, Antigen, Antiinflammatory, Antimicrobial, Antimicrobial, Antiparasitic, Antibiotic, Antimicrobial, Antiretroviral, Antimicrobial, Antitumor, Antineoplastic, Antiparasitic, Antiretroviral, Antithrombotic, Antitumor, Antiviral, CASPASE inhibitor, Chaperone binding, Drug delivery, Enzyme inhibitor, Glycan component, Growth factor, Immunosuppressant, Inducer, Inhibitor, Lantibiotic, Metabolism, Metal transport, Nutrient, Oxidation-reduction, Protein binding, Receptor, Substrate analog, Synthetic opioid, Thrombin inhibitor, Thrombin inhibitor, Trypsin inhibitor, Toxin, Transition state mimetic, Transport activator, Trypsin inhibitor, Unknown, Water retention
pdbx_reference_molecule.descriptionstringcontains_phrase
contains_words
exists
Description of this molecule.
pdbx_reference_molecule.namestringcontains_phrase
contains_words
exists
A name of the entity.
pdbx_reference_molecule.prd_idstringin
exact_match
exists
The value of _pdbx_reference_molecule.prd_id is the unique identifier
for the reference molecule in this family.

By convention this ID uniquely identifies the reference molecule in
in the PDB reference dictionary.

The ID has the template form PRD_dddddd (e.g. PRD_000001)
pdbx_reference_molecule.typestringin
exact_match
exists
Defines the structural classification of the entity.
Allowed Values: Amino acid, Aminoglycoside, Ansamycin, Anthracycline, Anthraquinone, Chalkophore, Chalkophore, Polypeptide, Chromophore, Cyclic depsipeptide, Cyclic lipopeptide, Cyclic peptide, Glycopeptide, Heterocyclic, Imino sugar, Keto acid, Lipoglycopeptide, Lipopeptide, Macrolide, Non-polymer, Nucleoside, Oligopeptide, Oligosaccharide, Peptaibol, Peptide-like, Polycyclic, Polypeptide, Polysaccharide, Quinolone, Siderophore, Thiolactone, Thiopeptide, Unknown
pdbx_reference_molecule_family.namestringcontains_phrase
contains_words
exists
The entity family name.
pdbx_reference_molecule_related_structures.db_codestringcontains_phrase
contains_words
exists
The database identifier code for the related structure reference.
pdbx_reference_molecule_synonyms.namestringcontains_phrase
contains_words
exists
A synonym name for the entity.
rcsb_chem_comp_annotation.annotation_idstringin
exact_match
exists
An identifier for the annotation.
rcsb_chem_comp_annotation.descriptionstringin
exact_match
contains_phrase
contains_words
exists
A description for the annotation.
rcsb_chem_comp_annotation.namestringin
exact_match
contains_phrase
contains_words
exists
A name for the annotation.
rcsb_chem_comp_annotation.typestringin
exact_match
exists
A type or category of the annotation.
Allowed Values: ATC, Carbohydrate Anomer, Carbohydrate Isomer, Carbohydrate Primary Carbonyl Group, Carbohydrate Ring, Generating Enzyme, Modification Type, PSI-MOD
rcsb_chem_comp_annotation.annotation_lineage.depthintegerequals
greater
less
greater_or_equal
less_or_equal
range
exists
Members of the annotation lineage as parent lineage depth (1-N)
rcsb_chem_comp_annotation.annotation_lineage.idstringin
exact_match
exists
Members of the annotation lineage as parent class identifiers.
rcsb_chem_comp_annotation.annotation_lineage.namestringin
exact_match
contains_phrase
contains_words
exists
Members of the annotation lineage as parent class names.
rcsb_chem_comp_container_identifiers.comp_idstringin
exact_match
exists
The chemical component identifier.
rcsb_chem_comp_container_identifiers.drugbank_idstringin
exact_match
exists
The DrugBank identifier corresponding to the chemical component.
rcsb_chem_comp_container_identifiers.prd_idstringin
exact_match
exists
The BIRD definition identifier.
rcsb_chem_comp_container_identifiers.rcsb_idstringin
exact_match
exists
A unique identifier for the chemical definition in this container.
rcsb_chem_comp_descriptor.InChIKeystringin
exact_match
exists
Standard IUPAC International Chemical Identifier (InChI) descriptor key
for the chemical component

InChI, the IUPAC International Chemical Identifier,
by Stephen R Heller, Alan McNaught, Igor Pletnev, Stephen Stein and Dmitrii Tchekhovskoi,
Journal of Cheminformatics, 2015, 7:23
rcsb_chem_comp_info.atom_count_chiralintegerequals
greater
less
greater_or_equal
less_or_equal
range
exists
Chemical component chiral atom count
rcsb_chem_comp_info.atom_count_heavyintegerequals
greater
less
greater_or_equal
less_or_equal
range
exists
Chemical component heavy atom count
rcsb_chem_comp_info.bond_countintegerequals
greater
less
greater_or_equal
less_or_equal
range
exists
Chemical component total bond count
rcsb_chem_comp_info.bond_count_aromaticintegerequals
greater
less
greater_or_equal
less_or_equal
range
exists
Chemical component aromatic bond count
rcsb_chem_comp_info.initial_deposition_datedateequals
greater
less
greater_or_equal
less_or_equal
range
exists
The date the chemical definition was first deposited in the PDB repository.
rcsb_chem_comp_info.initial_release_datedateequals
greater
less
greater_or_equal
less_or_equal
range
exists
The initial date the chemical definition was released in the PDB repository.
rcsb_chem_comp_related.resource_accession_codestringin
exact_match
exists
The resource identifier code for the related chemical reference.
rcsb_chem_comp_related.resource_namestringin
exact_match
exists
The resource name for the related chemical reference.
Allowed Values: CAS, CCDC/CSD, COD, ChEBI, ChEMBL, DrugBank, Pharos, PubChem, RESID
rcsb_chem_comp_synonyms.namestringcontains_phrase
contains_words
exists
The synonym of this particular chemical component.
rcsb_chem_comp_synonyms.provenance_sourcestringin
exact_match
exists
The provenance of this synonym.
Allowed Values: ACDLabs, Author, ChEBI, ChEMBL, DrugBank, GMML, Lexichem, OpenEye OEToolkits, OpenEye/Lexichem, PDB Reference Data, PDB Reference Data (Preferred), PDB-CARE, PubChem, RESID
rcsb_chem_comp_synonyms.typestringin
exact_match
exists
This data item contains the synonym type.
Allowed Values: Brand Name, Common Name, Condensed IUPAC Carbohydrate Symbol, IUPAC Carbohydrate Symbol, Preferred Common Name, Preferred Name, Preferred Synonym, SNFG Carbohydrate Symbol, Synonym, Systematic Name
rcsb_chem_comp_target.namestringcontains_phrase
contains_words
exists
The chemical component target name.
rcsb_idstringin
exact_match
exists
A unique identifier for the chemical definition in this container.
drugbank_container_identifiers.drugbank_idstringin
exact_match
exists
The DrugBank accession code
drugbank_info.affected_organismsstringcontains_phrase
contains_words
exists
The DrugBank drug affected organisms.
drugbank_info.atc_codesstringin
exact_match
exists
The Anatomical Therapeutic Chemical Classification System (ATC) codes.
drugbank_info.brand_namesstringcontains_phrase
contains_words
exists
DrugBank drug brand names.
drugbank_info.cas_numberstringin
exact_match
exists
The DrugBank assigned Chemical Abstracts Service identifier.
drugbank_info.descriptionstringcontains_phrase
contains_words
exists
The DrugBank drug description.
drugbank_info.drug_categoriesstringcontains_phrase
contains_words
exists
The DrugBank drug categories.
drugbank_info.drug_groupsstringin
exact_match
exists
The DrugBank drug groups determine their drug development status.
Allowed Values: approved, experimental, illicit, investigational, nutraceutical, vet_approved, withdrawn
drugbank_info.indicationstringcontains_phrase
contains_words
exists
The DrugBank drug indication.
drugbank_info.mechanism_of_actionstringcontains_phrase
contains_words
exists
The DrugBank drug mechanism of actions.
drugbank_info.namestringcontains_phrase
contains_words
exists
The DrugBank drug name.
drugbank_info.pharmacologystringcontains_phrase
contains_words
exists
The DrugBank drug pharmacology.
drugbank_info.synonymsstringcontains_phrase
contains_words
exists
DrugBank drug name synonyms.
drugbank_info.drug_products.approvedstringin
exact_match
exists
Indicates whether this drug has been approved by the regulating government.
Allowed Values: N, Y
drugbank_info.drug_products.countrystringin
exact_match
exists
The country where this commercially available drug has been approved.
Allowed Values: Canada, EU, US
drugbank_info.drug_products.ended_marketing_ondateequals
greater
less
greater_or_equal
less_or_equal
range
exists
The ending date for market approval.
drugbank_info.drug_products.started_marketing_ondateequals
greater
less
greater_or_equal
less_or_equal
range
exists
The starting date for market approval.
drugbank_target.interaction_typestringcontains_phrase
contains_words
exists
The type of target interaction.
drugbank_target.namestringcontains_phrase
contains_words
exists
The target name.
drugbank_target.organism_common_namestringcontains_phrase
contains_words
exists
The organism common name.
drugbank_target.target_actionsstringcontains_phrase
contains_words
exists
The actions of the target interaction.