Fix exception with unknown residues

peastman · Jan 6, 2025 · da6761c · da6761c
1 parent b31b57b
commit da6761c
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/pdbfixer/pdbfixer.py b/pdbfixer/pdbfixer.py
@@ -150,10 +150,10 @@ def fromReader(cls, reader: PdbxReader) -> 'CCDResidueDefinition':
 
         residueName = block.getObj('chem_comp').getValue("id")
 
-        descriptorsData = block.getObj("pdbx_chem_comp_descriptor")
-        typeCol = descriptorsData.getAttributeIndex("type")
-
         atomData = block.getObj('chem_comp_atom')
+        if atomData is None:
+            # The file doesn't contain any atoms, so report that no definition is available.
+            return None
         atomNameCol = atomData.getAttributeIndex('atom_id')
         symbolCol = atomData.getAttributeIndex('type_symbol')
         leavingCol = atomData.getAttributeIndex('pdbx_leaving_atom_flag')