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



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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


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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
Chemical Component Instance w/ Hydrogens SDF View https://files.rcsb.org/cci/view/1cdg_CA_A_691_H.sdf
Chemical Component Instance w/o Hydrogens SDF View https://files.rcsb.org/cci/view/1cdg_CA_A_691_NO_H.sdf
Chemical Component Instance w/ Hydrogens SDF Download https://files.rcsb.org/cci/download/1cdg_CA_A_691_H.sdf.gz
Chemical Component Instance w/o Hydrogens SDF Download https://files.rcsb.org/cci/download/1cdg_CA_A_691_NO_H.sdf.gz


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Experimental Data Files and 3DEM Maps

This table includes structure factors, NMR constraints, chemical shifts, electron density maps and map coefficient files.

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
Electron Density 2Fo-Fc Map (with fixed grid spacing at "high resolution/3) - DSN6 format Download Uncompressed https://edmaps.rcsb.org/maps/6dil_2fofc.dsn6
Electron Density Fo-Fc Map (with variable grid spacing from "high resolution/3" to "high resolution/2) - DSN6 format Download Uncompressed https://edmaps.rcsb.org/maps/6dil_fofc.dsn6
Electron Density Map Coefficients (MTZ format) Download Uncompressed http://edmaps.rcsb.org/coefficients/6dil.mtz


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Sequence Data

Sequence data in FASTA format (full sequence as in SEQRES records).

File type Action Storage Compression Example URL
FASTA sequences per PDB entry Download Uncompressed https://www.rcsb.org/pdb/download/downloadFastaFiles.do?structureIdList=4hhb&compressionType=uncompressed
FASTA sequence per chain Download Uncompressed https://www.rcsb.org/pdb/download/downloadFile.do?fileFormat=fastachain&compression=NO&structureId=4hhb&chainId=A

Additionally a FASTA file with all PDB full SEQRES sequences (per chain) can be downloaded here.



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Secondary Structure Files

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

https://cdn.rcsb.org/etl/kabschSander/ss.txt.gz (compressed)

A separate file, ss_dis.txt.gz, includes notation of regions which have not been experimentally observed, in addition to the secondary structure:
https://cdn.rcsb.org/etl/kabschSander/ss_dis.txt.gz (compressed)