Bond Pop-up Menu

The bond pop-up menu appears when you right-click on a bond within the molecule. It allows you to make a number of changes to the selected bond. It contains options for bond-specific activities that also can be accessed from the Bond Menu.

Menu Item

Submenu Items

Description

Type

Single

Changes the selected bond type to Single.

Double

Changes the selected bond type to Double.

Triple

Changes the selected bond type to Triple.

Aromatic

Changes the selected bond type to Aromatic.

Wedge bond types

Changes the selected bond to a Wedge bond type to represent a stereo bond: Single Up or Single Down.
These bond types are active only in 2D.

Query bond types

Changes the selected bond to a bond type to be used in a query:
Single Up or Down, Double Cis or Trans, Double C/T or Unspec, Single or Double, Single or Aromatic, Double or Aromatic, Any.

Coordinate

Changes the selected bond type to Coordinate.

Bold

Thickens the selected bond.

Hashed

Changes the selected bond hashed.

Topology

 

The following options can be set as bond property when the molecule is used as a query.

None

Removes defined bond topologies.

In Ring

The specified bond must be in a ring to score a hit.

In Chain

The specified bond must be in a chain to score a hit.

Reacting Center

 

The following bond property options can be set in case of drawing reaction search queries. See Reacting center bond for further query feature descriptions.

 

None

Removes added bond property.

Center

Specifies that the bond takes part in the reaction.

Make or Break

The assigned bond can form or disappear in the reaction.

Change

The assigned bond remains and can alter during the reaction.

Make and Change

The assigned bond can form, break,or change its type during the reaction.

Not Center

The assigned bond can not be the reaction center.

Stereo Search

Uses stereoconfiguration of specified double bond when the molecule is used as a query.

Arrange

Bring to Front

Brings the selected bond in front of the others.

Send to Back

Sends the selected bond to the back of the others.

Align

Horizontally

Orients the selected bond horizontally.

Vertically

Orients the bond vertically.

Group...

 

Creates a custom Substructure Group (S-group)

Add/Remove

Explicit Hydrogens

Add/Removes explicit H atoms, removes/add implicit H atoms.

Map Atoms

 

Data

Attaches data

Multi-Center

Adds a multi-center attachment point representing a group of atoms.

Position Variation Bond

Create a variable point of attachment to represent a connection point to a group of atoms.

Transformation

Drag selection

 

Rotate in 3D

Options for rotation

Format...

 

Formats color, thickness and length of the selected bond.

Add to My templates

 

Adds the bond to the Advanced Template Toolbar

Edit properties..

 

Adds bond properties.