  The Protein Data Bank (PDB) contains more than 135 000 entries today. From
these, relatively few amyloid structures can be identified, since amyloids are
insoluble in water. Therefore, mostly solid state NMR-recorded amyloid
structures are deposited in the PDB. Based on the geometric analysis of these
deposited structures we have prepared an automatically updated webserver, which
generates the list of the deposited amyloid structures, and, additionally,
those globular protein entries, which have amyloid-like substructures of a
given size and characteristics. We have found that applying only the properly
chosen geometric conditions, it is possible to identify the deposited amyloid
structures, and a number of globular proteins with amyloid-like substructures.
We have analyzed these globular proteins and have found that many of them are
known to form amyloids more easily than many other globular proteins. Our
results relate to the method of (Stankovic, I. et al. (2017): Construction of
Amyloid PDB Files Database. Transactions on Internet Research. 13 (1): 47-51),
who have applied a hybrid textual-search and geometric approach for finding
amyloids in the PDB.
  If one intends to identify a subset of the PDB for some applications, the
identification algorithm needs to be re-run periodically, since in 2017, on
average, every day 30 new entries were deposited in the data bank. Our
webserver is updated regularly and automatically, and the identified amyloid-
and partial amyloid structures can be viewed or their list can be downloaded
from the site https://pitgroup.org/amyloid.
