diff --git a/packages/ketcher-core/src/application/editor/actions/atom.ts b/packages/ketcher-core/src/application/editor/actions/atom.ts
index 8c3310c1c3..c8f70ed374 100644
--- a/packages/ketcher-core/src/application/editor/actions/atom.ts
+++ b/packages/ketcher-core/src/application/editor/actions/atom.ts
@@ -14,7 +14,7 @@
  * limitations under the License.
  ***************************************************************************/
 
-import { Atom, Bond, RGroup } from 'domain/entities';
+import { Atom, Bond, RGroup, SGroupAttachmentPoint } from 'domain/entities';
 import {
   AtomAdd,
   AtomAttr,
@@ -38,6 +38,7 @@ import { fromBondStereoUpdate } from './bond';
 import { without } from 'lodash/fp';
 import ReStruct from 'application/render/restruct/restruct';
 import assert from 'assert';
+import { SGroupAttachmentPointRemove } from '../operations/sgroup/sgroupAttachmentPoints';
 
 export function fromAtomAddition(restruct, pos, atom) {
   atom = Object.assign({}, atom);
@@ -223,6 +224,22 @@ export function fromAtomMerge(restruct, srcId, dstId) {
 
   if (sgChanged) removeSgroupIfNeeded(action, restruct, [srcId]);
 
+  const sgroups = atomGetSGroups(restruct, srcId);
+  sgroups.forEach((sgroupId: number) => {
+    const sgroup = restruct.sgroups.get(sgroupId).item;
+    for (let i = 0; i < sgroup.attachmentPoints.length; ++i) {
+      if (sgroup.attachmentPoints[i].atomId === srcId) {
+        action.addOp(
+          new SGroupAttachmentPointRemove(
+            sgroupId,
+            new SGroupAttachmentPoint(srcId, undefined, undefined),
+          ),
+        );
+        return;
+      }
+    }
+  });
+
   action.addOp(new AtomDelete(srcId));
   const dstAtomNeighbors = restruct.molecule.atomGetNeighbors(dstId);
   const bond = restruct.molecule.bonds.get(
diff --git a/packages/ketcher-core/src/application/editor/actions/utils.ts b/packages/ketcher-core/src/application/editor/actions/utils.ts
index 37bc9147ed..1eed281e8c 100644
--- a/packages/ketcher-core/src/application/editor/actions/utils.ts
+++ b/packages/ketcher-core/src/application/editor/actions/utils.ts
@@ -38,8 +38,8 @@ export function atomGetDegree(restruct, aid) {
   return restruct.atoms.get(aid).a.neighbors.length;
 }
 
-export function atomGetSGroups(restruct, aid) {
-  return Array.from(restruct.atoms.get(aid).a.sgs);
+export function atomGetSGroups(restruct, atomId: number): number[] {
+  return Array.from(restruct.atoms.get(atomId).a.sgs);
 }
 
 export function atomGetPos(restruct, id) {