diff --git a/web/src/hooks/use-knowledge-request.ts b/web/src/hooks/use-knowledge-request.ts
index 8ecba3f6a0..99503df057 100644
--- a/web/src/hooks/use-knowledge-request.ts
+++ b/web/src/hooks/use-knowledge-request.ts
@@ -30,6 +30,7 @@ import {
 import i18n from '@/locales/config';
 import kbService, {
   clearWiki,
+  deleteArtifactsStructure,
   deleteKnowledgeGraph,
   getArtifactsAlteration,
   getArtifactGraph,
@@ -95,6 +96,7 @@ export const enum KnowledgeApiAction {
   RemoveKnowledgeGraph = 'removeKnowledgeGraph',
   ClearWiki = 'clearWiki',
   FetchDatasetStructure = 'fetchDatasetStructure',
+  DeleteDatasetStructure = 'deleteDatasetStructure',
   FetchArtifactAlteration = 'fetchArtifactAlteration',
   RunArtifactIndex = 'runArtifactIndex',
 }
@@ -833,6 +835,31 @@ export function useFetchDatasetStructureGraph(kind: string, keywords?: string) {
   return { data, loading };
 }
 
+export const useDeleteDatasetStructure = () => {
+  const knowledgeBaseId = useKnowledgeBaseId();
+  const queryClient = useQueryClient();
+
+  const {
+    data,
+    isPending: loading,
+    mutateAsync,
+  } = useMutation({
+    mutationKey: [KnowledgeApiAction.DeleteDatasetStructure],
+    mutationFn: async (kind: string) => {
+      const { data } = await deleteArtifactsStructure(knowledgeBaseId, kind);
+      if (data?.code === 0) {
+        message.success(i18n.t('message.deleted'));
+        queryClient.invalidateQueries({
+          queryKey: DatasetStructureKeys.all(knowledgeBaseId),
+        });
+      }
+      return data?.code;
+    },
+  });
+
+  return { data, loading, deleteDatasetStructure: mutateAsync };
+};
+
 export function useFetchKnowledgeMetadata(kbIds: string[] = []) {
   const { data, isFetching: loading } = useQuery<
     Record<string, Record<string, string[]>>
diff --git a/web/src/locales/en.ts b/web/src/locales/en.ts
index 1a9a40a054..e2030651d7 100644
--- a/web/src/locales/en.ts
+++ b/web/src/locales/en.ts
@@ -537,6 +537,7 @@ Example: A 1 KB message with 1024-dim embedding uses ~9 KB. The 5 MB default lim
       noStructureTimeline: 'No timeline yet',
       noStructureSessionEssence: 'No session essence yet',
       noStructureSessionGraph: 'No session graph yet',
+      deleteStructureConfirm: 'Are you sure you want to delete the {{name}}?',
       contents: 'Navigation',
       topics: 'Topics',
       concept: 'Concept',
diff --git a/web/src/locales/zh.ts b/web/src/locales/zh.ts
index 893ae64187..c047177394 100644
--- a/web/src/locales/zh.ts
+++ b/web/src/locales/zh.ts
@@ -482,6 +482,7 @@ export default {
       noStructureTimeline: '暂无时间线',
       noStructureSessionEssence: '暂无会话摘要',
       noStructureSessionGraph: '暂无会话图谱',
+      deleteStructureConfirm: '确定要删除{{name}}吗？',
       contents: '导航',
       topics: '主题',
       concept: '概念',
diff --git a/web/src/pages/dataset/compilation/constants.ts b/web/src/pages/dataset/compilation/constants.ts
index f059292c0e..7e8dba9d51 100644
--- a/web/src/pages/dataset/compilation/constants.ts
+++ b/web/src/pages/dataset/compilation/constants.ts
@@ -26,6 +26,12 @@ export const StructureKinds = [
 
 export type StructureKind = (typeof StructureKinds)[number];
 
+export const StructureKindLabelKeyMap: Record<StructureKind, string> = {
+  [ViewMode.Graph]: 'knowledgeDetails.structureGraph',
+  [ViewMode.MindMap]: 'knowledgeDetails.structureMindmap',
+  [ViewMode.Timeline]: 'knowledgeDetails.structureTimeline',
+};
+
 export type GenerableViewMode = Exclude<ViewMode, ViewMode.Tree>;
 
 export const ViewModeGenerateTypeMap: Record<GenerableViewMode, GenerateType> =
diff --git a/web/src/pages/dataset/compilation/dataset-structure-view.tsx b/web/src/pages/dataset/compilation/dataset-structure-view.tsx
index 870249ee31..0a1300b440 100644
--- a/web/src/pages/dataset/compilation/dataset-structure-view.tsx
+++ b/web/src/pages/dataset/compilation/dataset-structure-view.tsx
@@ -2,11 +2,14 @@ import {
   SelectWithSearch,
   SelectWithSearchFlagOptionType,
 } from '@/components/originui/select-with-search';
+import { ConfirmDeleteDialog } from '@/components/confirm-delete-dialog';
 import { getEntityDisplayName } from '@/components/structure-graph/adapters';
 import { RepresentationRenderer } from '@/components/structure-graph/representation-renderer';
+import { Button } from '@/components/ui/button';
 import { Card } from '@/components/ui/card';
 import {
   DatasetStructureKeys,
+  useDeleteDatasetStructure,
   useFetchDatasetStructureGraph,
   useFetchKnowledgeBaseConfiguration,
   useKnowledgeBaseId,
@@ -15,10 +18,16 @@ import { GenerateStatus } from '@/pages/dataset/dataset/generate-button/constant
 import { useTraceRunData } from '@/pages/dataset/dataset/generate-button/hook';
 import { useGenerateStatus } from '@/pages/dataset/dataset/generate-button/use-generate-status';
 import { useQueryClient } from '@tanstack/react-query';
+import { Trash2 } from 'lucide-react';
 import { useCallback, useEffect, useMemo, useState } from 'react';
 import { useTranslation } from 'react-i18next';
 
-import { StructureKind, ViewMode, ViewModeGenerateTypeMap } from './constants';
+import {
+  StructureKind,
+  StructureKindLabelKeyMap,
+  ViewMode,
+  ViewModeGenerateTypeMap,
+} from './constants';
 import CompilationEmptyState from './empty-state';
 import { CompilationLoadingCard } from './loading-card';
 
@@ -35,6 +44,8 @@ export function DatasetStructureView({ kind }: DatasetStructureViewProps) {
   const [selectedNodeId, setSelectedNodeId] = useState('');
   const { data, loading } = useFetchDatasetStructureGraph(kind, graphKeywords);
   const template = data?.templates?.[0];
+  const { deleteDatasetStructure, loading: deleting } =
+    useDeleteDatasetStructure();
 
   const { data: structureRunData } = useTraceRunData(
     ViewModeGenerateTypeMap[kind],
@@ -86,6 +97,14 @@ export function DatasetStructureView({ kind }: DatasetStructureViewProps) {
     setSelectedNodeId('');
   }, []);
 
+  const handleDeleteStructure = useCallback(async () => {
+    const code = await deleteDatasetStructure(kind);
+    if (code === 0) {
+      setGraphKeywords('');
+      setSelectedNodeId('');
+    }
+  }, [deleteDatasetStructure, kind]);
+
   const canGenerate = (knowledgeBase?.chunk_count ?? 0) > 0;
 
   if (loading && !data) {
@@ -104,8 +123,18 @@ export function DatasetStructureView({ kind }: DatasetStructureViewProps) {
 
   return (
     <Card className="flex-1 min-h-0 overflow-hidden flex border-border-button rounded-xl flex-col">
-      {kind === ViewMode.Graph && (
-        <div className="flex justify-end px-4 pt-4">
+      <div className="flex justify-between gap-4 px-4 pt-4">
+        <ConfirmDeleteDialog
+          title={t('knowledgeDetails.deleteStructureConfirm', {
+            name: t(StructureKindLabelKeyMap[kind]),
+          })}
+          onOk={handleDeleteStructure}
+        >
+          <Button variant="outline" size="sm" disabled={deleting}>
+            <Trash2 />
+          </Button>
+        </ConfirmDeleteDialog>
+        {kind === ViewMode.Graph && (
           <SelectWithSearch
             options={entityOptions}
             value={selectedEntityName || graphKeywords}
@@ -116,8 +145,8 @@ export function DatasetStructureView({ kind }: DatasetStructureViewProps) {
             onNoMatchEnter={handleNoMatchEnter}
             disableAutoSelectOnEnter
           />
-        </div>
-      )}
+        )}
+      </div>
       <RepresentationRenderer
         template={template}
         highlightNodeId={selectedEntityName || null}
diff --git a/web/src/services/knowledge-service.ts b/web/src/services/knowledge-service.ts
index fb426a7692..194af141b2 100644
--- a/web/src/services/knowledge-service.ts
+++ b/web/src/services/knowledge-service.ts
@@ -431,6 +431,9 @@ export const getArtifactsStructure = (
     params: keywords ? { kind, keywords } : { kind },
   });
 
+export const deleteArtifactsStructure = (datasetId: string, kind: string) =>
+  request.delete(api.artifactsStructure(datasetId), { params: { kind } });
+
 export const updateArtifactPage = (
   datasetId: string,
   pageType: string,