Exported and documented ResidueHandle.is_protein

modules/conop/doc/connectivity.rst

@@ -60,9 +60,11 @@ The Processor base class
 
   .. attribute:: connect
 
-    Whether to connect atoms by bonds. Enabled by default. Turn this off if you
-    would like to speed up the loading process and do not require connectivity
-    information to be present in your structures.
+    Whether to connect atoms by bonds. Enabled by default. This also sets the
+    :attr:`~ost.mol.ResidueHandle.is_protein` property of residues when peptide
+    bonds are created. Turn this off if you would like to speed up the loading
+    process and do not require connectivity information to be present in your
+    structures.
 
     :type: :class:`bool`
 

modules/mol/base/doc/entity.rst

@@ -538,7 +538,14 @@ The Handle Classes
     Whether the residue is a ligand. When loading PDB structures, this property 
     is set based on the HET records. This also means, that this property will 
     most likely not be set properly for all except PDB files coming from 
-    pdb.org.
+    pdb.org. Also available as :meth:`IsLigand`, :meth:`SetIsLigand`.
+  
+  .. attribute:: is_protein
+  
+    Whether the residue is considered to be part of a protein. This is set when
+    loading a structure if the residue forms a feasible peptide bond to the
+    previous or next residue (see :meth:`~ost.conop.IsBondFeasible`). Also
+    available as :meth:`IsProtein`, :meth:`SetIsProtein`.
 
   .. attribute:: index
 
@@ -658,7 +665,7 @@ The Handle Classes
   .. attribute:: occupancy
   
     The atom's occupancy in the range 0 to 1. Read/write. Also available as 
-    meth:`GetOccupancy`, :meth:`SetOccupancy`.
+    :meth:`GetOccupancy`, :meth:`SetOccupancy`.
     :type: float
     
   .. attribute:: b_factor

modules/mol/base/doc/query.rst

@@ -195,9 +195,8 @@ This index is the same for views and handles.
 **peptide** (bool): Whether the residue is :meth:`peptide linking
 <ResidueHandle.IsPeptideLinking>`.
 
-**protein** (bool): Whether the residue is considered to be part of a protein.
-This is set when loading a structure if the residue forms a feasible peptide
-bond to the previous or next residue.
+**protein** (bool): Whether the residue is considered to be
+:attr:`part of a protein <ResidueHandle.is_protein>`.
 
 **rbfac** (float): average B (temperature) factor of residue
 

modules/mol/base/pymod/export_residue.cc

@@ -202,6 +202,10 @@ void export_Residue()
     .add_property("is_ligand", &ResidueBase::IsLigand, &ResidueBase::SetIsLigand)
     .def("IsLigand", &ResidueBase::IsLigand)
     .def("SetIsLigand", &ResidueBase::SetIsLigand)
+    .add_property("is_protein", &ResidueBase::IsProtein,
+                                &ResidueBase::SetIsProtein)
+    .def("IsProtein", &ResidueBase::IsProtein)
+    .def("SetIsProtein", &ResidueBase::SetIsProtein)
     .add_property("number",
                    make_function(&ResidueBase::GetNumber,
                                  return_value_policy<copy_const_reference>()))