Deposition of NMR data is possible via one of the following three deposition systems, which depends on size of biological macromolecule being studied and whether its coordinates are included.
| Deposition system |
Number of residues, Coordinates |
Archive site |
| SMSDep |
The entity is one of a polypeptide with 23 or fewer residues,
a polynucleotide with 3 or fewer residues,
a polysaccharide with 3 or fewer residues,
and a natural product.
Coordinates is required.
|
NMR data: BMRB
Coordinates: BMRB |
| OneDep |
The entity is larger than the SMSDep conditions above.
Coordinates is required. |
NMR data: BMRB
Coordinates: PDB |
| BMRBdep (BMRB Only) |
No limitation on the molecular assembly.
Coordinates should not be included. |
BMRB |
Small peptide less than 24 residues that have proven to be biologically important can be accepted by PDB (OneDep). Acceptance of the primary citation is also required to release the PDB entry. If conditions for the PDB acception are not certain, please contact PDBj bioculator before deposition.
What types of structure can be deposited to PDB?
Biomolecular polymers including polypeptides, polynucleotides, polysaccharides, and their complexes that meet the following criteria are accepted:
-
For polypeptide structures
- all gene products
- all naturally-occurring peptides that are non-ribosomal in origin
- all peptidic repeat units of larger polymers (such as fibrous and amyloid polymers)
- Non-biological synthetic peptides with at least 24 residues within a polymer chain
- Polynucleotide structures of four or more residues
- Polysaccharide structures of four or more residues
Crystal structures of peptides with fewer than 24 residues within any polymer chain that do not meet criteria 1, 2, or 3 can be deposited at Cambridge Crystallographic Data Centre (CCDC).
NMR structures of such molecules can be submitted to SMSDep system.
Smaller oligonucleotides (dinucleotides and trinucleotides) can be deposited at Nucleic Acid Database (NDB).
Molecules that do not conform to these guidelines but have been previously deposited in PDB will not be removed.
