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PDBsum Generate
File upload for PDBsum page generation
The form below allows you to upload your own PDB-format file and generate
a full set of PDBsum structural analyses for it. (For released PDB entries
the PDBsum pages will have already been generated - so please access these
via the PDBsum home page).
Enter details below:
- Your structure, and its PDBsum data, will be stored in a secure
area; access will be password protected.
When you submit your structure it will be assigned a new PDBsum
identifier of the form
xNNN, where x
is a letter and NNN is
a sequential number. It will then be placed in a queue for the
next PDBsum generation run. Currently, these occur every ten minutes.
- When the run is complete you will be e-mailed your structure's PDB
code and password, plus a direct link to its PDBsum pages. You can
then access it either via the direct link or through the PDBsum
home page.
- The files are usually stored for about 3 months before being deleted.
However, they are stored on a partition that is not backed up;
so, in principle, they could disappear at any time.
- Please note that the file needs to be in standard
PDB file format. Files are occasionally
submitted in a variety of bizarre formats which only
approximate the PDB format. These have, unsurprisingly, failed.
You can find documentation describing the PDB format on the wwPDB site
on the
File Formats page.
- Also, if you are submitting more
than one file at a time, please add standard header records
(eg HEADER, TITLE,
SOURCE, AUTHOR, etc) to the beginning of each file so that
you can subsequently identify which structure is which.
- A common question is: Why is the protein-protein
interaction page missing? Usually the reason is that all
chains in the submitted PDB file have the same chain
identifier (commonly 'A'). To fix this, change the chain
identifier of the second, and any subsequent chains, to 'B', 'C',
'D', etc and resubmit.
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