HTTP and HTTPS Services

PDB entry files, chemical component files, and other data files are available for Display and/or Download via http and https. These URLs are useful with scripted downloads using utilities such as wget.

Options are available to view data in a web browser and to allow the web browser to perform a background download of the data without showing the data in a web browser and requiring a save page as action.

Differences

View: The HTTP/HTTPS response headers to the client are set with: Content-Type: text/plain
Download: The HTTP/HTTPS response headers to the client are set with: Content-Type: application/octet-stream and Content-Transfer-Encoding: binary.

Similarities


URLs for File Types



link

PDB Entry Files

PDB entry files are available in several file formats (PDB, PDBx/mmCIF, XML), compressed or uncompressed, and with an option to download a file containing only "header" information (e.g., summary data, no coordinates).

File format Action Storage Compression Example URL
PDB Download Compressed https://files.rcsb.org/download/4hhb.pdb.gz
PDB Download Uncompressed https://files.rcsb.org/download/4hhb.pdb
PDB View Uncompressed https://files.rcsb.org/view/4hhb.pdb
PDB (header only) View Uncompressed https://files.rcsb.org/header/4hhb.pdb
PDBx/mmCIF Download Compressed https://files.rcsb.org/download/4hhb.cif.gz
PDBx/mmCIF Download Uncompressed https://files.rcsb.org/download/4hhb.cif
PDBx/mmCIF View Uncompressed https://files.rcsb.org/view/4hhb.cif
PDBx/mmCIF (header only) View Uncompressed https://files.rcsb.org/header/4hhb.cif
XML Download Compressed https://files.rcsb.org/download/4hhb.xml.gz
XML Download Uncompressed https://files.rcsb.org/download/4hhb.xml
XML (header only) Download Compressed https://files.rcsb.org/download/4hhb-noatom.xml.gz
XML (header only) Download Uncompressed https://files.rcsb.org/download/4hhb-noatom.xml
XML (header only) View Uncompressed https://files.rcsb.org/view/4hhb-noatom.xml
Biological Assembly File in PDB View Uncompressed https://files.rcsb.org/view/1hh3.pdb1
Biological Assembly File in PDBx/mmCIF View Uncompressed https://files.rcsb.org/view/5a9z-assembly1.cif
Biological Assembly File in PDB Download Uncompressed https://files.rcsb.org/download/1hh3.pdb1
Biological Assembly File in PDBx/mmCIF Download Uncompressed https://files.rcsb.org/download/5a9z-assembly1.cif
Biological Assembly File in PDB Download Compressed https://files.rcsb.org/download/1hh3.pdb1.gz
Biological Assembly File in PDBx/mmCIF Download Compressed https://files.rcsb.org/download/5a9z-assembly1.cif.gz


link

Small Molecule Files

Small molecule files, including the ligands/chemical components maintained in the Chemical Component Dictionary and the Biologically Interesting Molecule Reference Dictionary (BIRD) are available in multiple formats.

Type Format Action Example URL
Definition CIF Download https://files.rcsb.org/ligands/download/HEM.cif
Definition XML Download https://files.rcsb.org/ligands/download/HEM.xml
Model coordinates SDF Download https://files.rcsb.org/ligands/download/HEM_model.sdf
Model coordinates PDB Download https://files.rcsb.org/ligands/download/HEM_model.pdb
Ideal coordinates SDF Download https://files.rcsb.org/ligands/download/HEM_ideal.sdf
Ideal coordinates PDB Download https://files.rcsb.org/ligands/download/HEM_ideal.pdb
Definition CIF View https://files.rcsb.org/ligands/view/HEM.cif
Definition XML View https://files.rcsb.org/ligands/view/HEM.xml
Model coordinates SDF View https://files.rcsb.org/ligands/view/HEM_model.sdf
Model coordinates PDB View https://files.rcsb.org/ligands/view/HEM_model.pdb
Ideal coordinates SDF View https://files.rcsb.org/ligands/view/HEM_ideal.sdf
Ideal coordinates PDB View https://files.rcsb.org/ligands/view/HEM_ideal.pdb
BIRD definition CIF Download https://files.rcsb.org/birds/download/PRD_000001.cif
BIRD atom representation CIF Download https://files.rcsb.org/birds/download/PRDCC_000001.cif
BIRD definition CIF View https://files.rcsb.org/birds/view/PRD_000001.cif
BIRD atom representation CIF View https://files.rcsb.org/birds/view/PRDCC_000001.cif


link

Experimental Data

Experimental data files include structure factors, NMR constraints, and chemical shifts.

File format Action Storage Compression Example URL
NMR Restraints Download Compressed https://files.rcsb.org/download/108d.mr.gz
NMR Restraints Download Uncompressed https://files.rcsb.org/download/108d.mr
NMR Restraints View Uncompressed https://files.rcsb.org/view/108d.mr
NMR Restraints v2 Download Compressed https://files.rcsb.org/download/108d_mr.str.gz
NMR Restraints v2 Download Uncompressed https://files.rcsb.org/download/108d_mr.str
NMR Restraints v2 View Uncompressed https://files.rcsb.org/view/108d_mr.str
Chemical Shifts Download Compressed https://files.rcsb.org/download/2n2z_cs.str.gz
Chemical Shifts Download Uncompressed https://files.rcsb.org/download/2n2z_cs.str
Chemical Shifts View Uncompressed https://files.rcsb.org/view/2n2z_cs.str
Structure Factors Download Compressed https://files.rcsb.org/download/1btn-sf.cif.gz
Structure Factors Download Uncompressed https://files.rcsb.org/download/1btn-sf.cif
Structure Factors View Uncompressed https://files.rcsb.org/view/1btn-sf.cif


link

Secondary Structure Files

A FASTA-formatted file ("ss.txt") with sequences and secondary structure information generated using DSSP is available:

http://www.rcsb.org/pdb/files/ss.txt
http://www.rcsb.org/pdb/files/ss.txt.gz (compressed)

A separate file, ss_dis.txt, includes notation of regions which have not been experimentally observed, in addition to the secondary structure:
http://www.rcsb.org/pdb/files/ss_dis.txt
http://www.rcsb.org/pdb/files/ss_dis.txt.gz (compressed)




link

SIFTS Files SIFTS

The "Structure integration with function, taxonomy and sequence (SIFTS) initiative" provides residue-level annotation from the IntEnz, GO, Pfam, InterPro, SCOP, CATH and PubMed resources. SIFTS files are available for download from the RCSB PDB website using the following syntax:

http://www.rcsb.org/pdb/files/4hhb.sifts.xml.gz
http://www.rcsb.org/pdb/files/4hhb.sifts.xml