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Files within the data site

efsite/data-web/${entryId}.mpbf.gz
pdb_versionedShared between all wwPDB members
data
entries
${id23}/pdb0000${pdbid}/
pdb_0000${pdbid}_xyz-ext-atom_v${version}.xml.gz
pdb_0000${pdbid}_xyz-no-atom_v${version}.xml.gz
pdb_0000${pdbid}_xyz_v${version}.cif.gz
pdb_0000${pdbid}_xyz_v${version}.xml.gz
removed
${id23}/pdb0000${pdbid}/
pdb_0000${pdbid}_xyz-ext-atom_v${version}.xml.gz
pdb_0000${pdbid}_xyz-no-atom_v${version}.xml.gz
pdb_0000${pdbid}_xyz_v${version}.cif.gz
pdb_0000${pdbid}_xyz_v${version}.xml.gz
views
all
coordinates
mmcif
${id23}/pdb0000${pdbid}/
pdb_0000${pdbid}_xyz_v${version}.cif.gz
pdbml
${id23}/pdb0000${pdbid}/
pdb_0000${pdbid}_xyz_v${version}.xml.gz
latest
coordinates
mmcif
${id23}/pdb0000${pdbid}/
pdb_0000${pdbid}_xyz.cif.gz
pdbml
${id23}/pdb0000${pdbid}/
pdb_0000${pdbid}_xyz.xml.gz
pdbjplusData generated by PDBj for wwPDB data
data
ccchem_comp data (Chemie)
mdl
${comp_id}.mdl.gz
mmcif
${comp_id}.cif.gz
mmjson
${comp_id}.json.gz
mmjson-plus
${comp_id}-plus.json.gz
rdf
${comp_id}.rdf.gz
svg
${comp_id}.svg.gz
xml
${comp_id}.xml.gz
ccmodel
mmcif
${model_id}.cif.gz
mmjson
${model_id}.json.gz
pdbPDB data
mmjson
${pdbid}.json.gz
mmjson-chain
${pdbid}_${asym_id}-chain.json.gz
mmjson-noatom
${pdbid}-noatom.json.gz
mmjson-plus
${pdbid}-plus.json.gz
rdf
${pdbid}.rdf.gz
prdBIRD data
mmcif
${prd_id}.cif.gz
mmcif-cc
${prd_id}-cc.cif.gz
mmjson
${prd_id}.json.gz
svg
${prd_id}.svg.gz
siftsSIFTS data
rdf
pdb_chain_cath_uniprot.ttl.gz
pdb_chain_enzyme.ttl.gz
pdb_chain_go.ttl.gz
pdb_chain_interpro.ttl.gz
pdb_chain_pfam.ttl.gz
pdb_chain_scop_uniprot.ttl.gz
pdb_chain_taxonomy.ttl.gz
pdb_chain_uniprot.ttl.gz
pdb_chain_uniprot_short.ttl.gz
pdb_pubmed.ttl.gz
uniprot_pdb.ttl.gz
dictionariesVarious dictionaries in various formats
edmap2EDMap map data
ccp4
${pdbid}_validation_${type}_map_coef.ccp4
mtz
${pdbid}_validation_${type}_map_coef.mtz
edmap.list
mine2
dumpPostgreSQL RDB dump files
rdb_docsRDB documentation files in json format
schemaRDB schema definitions in YAML format (used by mine2updater)
statisticsRDB statistics; lists per column the number of non-null elements
promode/data_web/${entryId}/The web-data for the secondary database Promode Elastic
pubShared between all wwPDB members
emdb
doc
obsoleted/${emdb_id}/headerObsolete entries header files
${emdb_id}-v19.xml
${emdb_id}-v30.xml
${emdb_id}.xml
status
archiveWeekly update history
latestLatest update history
structures/${emdb_id}/Current entries data files
header
${emdb_id}-v19.xml
${emdb_id}-v30.xml
${emdb_id}.xml
images/${emdb_id}.png
map/${emdb_id}.map.gz
${emdb_id}-v19.xml
validation_reports/${emdb_id}/
${emdb_id}_full_validation.pdf.gz
${emdb_id}_validation.pdf.gz
${emdb_id}_validation.xml.gz
pdb
compatible/pdb_bundle/${id23}/${pdbid}/${pdbid}-pdb-bundle.tar.gz
data
biounit
PDB
all/${pdbid}.pdb${buid}.gz
divided/${id23}/${pdbid}/${pdbid}.pdb${buid}.gz
coordinates
all/${pdbid}.pdb${buid}.gz
divided/${id23}/${pdbid}/${pdbid}.pdb${buid}.gz
mmCIF
all/${pdbid}-assembly${buid}.gz
divided/${id23}/${pdbid}/${pdbid}-assembly${buid}.gz
bird
family
prd
component-models/complete/
monomers/${comp_id}
statusList of weekly modified entries
structures
all
XML/${pdbid}.xml.gz
XML-extatom/${pdbid}-extatom.xml.gz
XML-noatom/${pdbid}-noatom.xml.gz
mmCIF/${pdbid}.cif.gz
nmr_chemical_shifts/${pdbid}_cs.str.gz
nmr_data
${pdbid}_nmr-data.nef.gz
${pdbid}_nmr-data.str.gz
nmr_restraints/${pdbid}.mr.gz
nmr_restraints_v2/${pdbid}_mr.str.gz
pdb/pdb${pdbid}.ent.gzPDB flatfile format
structure_factors/r${pdbid}.ent.gzmmCIF format
divided
XML/${id23}/${pdbid}.xml.gz
XML-extatom/${id23}/${pdbid}-extatom.xml.gz
XML-noatom/${id23}/${pdbid}-noatom.xml.gz
mmCIF/${id23}/${pdbid}.cif.gz
nmr_chemical_shifts/${id23}/${pdbid}_cs.str.gz
nmr_data
${id23}/${pdbid}_nmr-data.nef.gz
${id23}/${pdbid}_nmr-data.str.gz
nmr_restraints/${id23}/${pdbid}.mr.gz
nmr_restraints_v2/${id23}/${pdbid}_mr.str.gz
pdb/${id23}/pdb${pdbid}.ent.gzPDB flatfile format
structure_factors/${id23}/r${pdbid}.ent.gzmmCIF format
models
current/pdb/${id23}/pdb${pdbid}.ent.gz
index
obsolete/pdb/${id23}/pdb${pdbid}.ent.gz
obsolete
XML/${id23}/${pdbid}.xml.gz
mmCIF/${id23}/${pdbid}.cif.gz
nmr_chemical_shifts/${id23}/${pdbid}_cs.str.gz
nmr_data
${id23}/${pdbid}_nmr-data.nef.gz
${id23}/${pdbid}_nmr-data.str.gz
nmr_restraints/${id23}/${pdbid}.mr.gz
nmr_restraints_v2/${id23}/${pdbid}_mr.str.gz
pdb/${id23}/pdb${pdbid}.ent.gzPDB flatfile format
structure_factors/${id23}/r${pdbid}.ent.gzmmCIF format
derived_data
doc
software
validation_reports${id23}/${pdbid}
${pdbid}_full_validation.pdf.gz
${pdbid}_multipercentile_validation.png.gz
${pdbid}_multipercentile_validation.svg.gz
${pdbid}_validation.pdf.gz
${pdbid}_validation.xml.gz
${pdbid}_validation_2fo-fc_map_coef.cif.gz
${pdbid}_validation_fo-fc_map_coef.cif.gz

Explanation of the variables used in the above table:

${pdbid}PDBID of the entry
${comp_id}comp_id (cc) of the entry
${model_id}Model ID (ccmodel) of the entry
${prd_id}PRD ID of the entry
${emdb_id}EMDB ID of the entry
${id23}2nd and 3rd character of the PDBID
${buid}BU assembly ID
${entryId}Entry ID of the entry (efsite, promode)
${version}Version of the file

Created: 2019-12-25 (last edited: 2 weeks ago)2021-06-07
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PDB entries from 2021-06-09