Ketcher 3.7.0 September 19, 2025

What's Changed

New features

• #6552 – Create a monomer from a selected part of the structure
• #6785 – Support aliases from HELM
• #3253 – Introduce the arrow button on library cards for easy monomer/preset addition to canvas
• #7430 – Adjust sgroup hover rendering to remove overlapping parts
• #6150 – Add the star atom to the special nodes section of the extended table
• #7535 – Add api for switching between macromolecules and molecules modes
• #7660 – Migrate to Indigo v1.35.0 in-browser module

Bugfixes and improvements

• #7377 – Update the help document (3.6.)
• #7351 – Profiling and optimization for many monomers on molecules canvas
• #6270 – Add "About" (i) and "Help" (?) buttons to the main toolbar in macromolecules mode
• #7222 – Incorrect leaving group atoms for expanded monomers
• #7168 – Opening the 3D Templates section in Structure Library causes multiple errors in the DevTools console
• #7252 – Integrate with SonarQube
• #7273 – System loads micro-macro connected structure on snake canvas and created understandable bond
• #7283 – Context menu is wrong if clicked on top of sequence
• #7205 – Layout shift when changing mode from sequence to flex and back upon first macromolecules mode initialization
• #7245 – Missing tooltip for standalone input field in ruler control
• #7440 – Area selection doesn't work till bond/atom reposition
• #7381 – Create documentation for 'change' event subscription
• #7152 – Copy keyboard shortcut works wrong for text content
• #7423 – It is possible to drag monomer from library and drop it to sequence canvas
• #7512 – Library doesn't fit view port in Sequence mode in Popup mode
• #7513 – "Ghost image" doesn't positioned below mouse cursor if dragged from Library to canvas in popup mode
• #7531 – Arrow icon appears in Sequence mode, violating requirement for Snake and Flex modes only
• #7538 – Unable to add ambiguous monomers via arrow button - no preview and errors in console
• #7539 – No tooltip shown and invalid attachment allowed when adding a monomer without R1 to selected monomer with free R2
• #7548 – Tooltip not shown and addition allowed when multiple monomers with free R2 are selected
• #7551 – Monomer drag-n-drop from Library to the canvas doesn't work for peptides it they were clicked on Sequence canvas
• #7562 – Tooltip overlaps monomers when hovering over arrow button on monomer card
• #7575 – Monomer creation wizard opens despite selection being connected via non simple bond
• #7576 – Create monomer wizard is available for structures containing S-groups, R-groups, or extended table atoms
• #7577 – "Create a monomer" button becomes active for disconnected structures
• #7563 – Selection after chain/monomer addition (autochain improvement)
• #7580 – Zoom actions in Monomer Wizard throw errors in the console
• #7601 – Wizard allows editing atoms and bonds via right-click menu without showing an error
• #7604 – Name, Symbol, Natural analogue input fields are not highlighted when left empty and Submit is clicked in Monomer Wizard
• #7606 – Pasting text into Symbol or Name fields in Monomer Wizard triggers unrelated "Convert error"
• #7607 – Missing S-group name in KET after saving a monomer via the wizard
• #7609 – Symbol uniqueness validation is missing in Monomer Wizard (no error, no highlight)
• #7612 – Natural analogue is not cleared when monomer type changes
• #7614 – After creating a monomer via wizard, switching to macro mode shows two separate entities instead of one
• #7615 – Phantom structure remains on canvas after closing wizard and is visible in exported files
• #7620 – Creating a monomer from a partial benzene selection causes console errors and no hover highlight on created region
• #7624 – Created Sugars and Phosphates via wizard are not added to Macro library
• #7625 – No validation against existing monomers - newly created monomer with duplicate name overwrites the existing one in the library
• #7627 – Selection tools stop working after creating first monomer via wizard when many structures are on canvas
• #7629 – API does not implement library change subscription
• #7684 – Only selected atoms connected with bonds should be taken into account on monomer creation
• #7714 – System shouldn't allow to create monomer for selected structure that have any non-simple single bonds to non-selected parts of the structure
• #7692 – System shouldn't allow to create monomer for molecules with R-Groups attachment points
• #7691 – System shouldn't allow to create monomer for molecules with R-Groups
• #7725 – Hand tool and Area Selection Tool buttons close Monomer creation wizard if pressed
• #7722 – Connection preview does not follow cursor and AP to AP connection is not possible
• #6581 – Monomer placement offset from cursor when Ketcher runs in a popup with increased browser zoom

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Additional notes:

• Ketcher 3.7.0 has been built and tested with Indigo version 1.35 (standalone and remote).