npm - boltz-api - Versions diffs - 0.35.2 → 0.36.0 - Mend

boltz-api 0.35.2 → 0.36.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (32) hide show

package/CHANGELOG.md +16 -0
package/package.json +1 -1
package/resources/predictions/structure-and-binding.d.mts +44 -156
package/resources/predictions/structure-and-binding.d.mts.map +1 -1
package/resources/predictions/structure-and-binding.d.ts +44 -156
package/resources/predictions/structure-and-binding.d.ts.map +1 -1
package/resources/protein/design.d.mts +76 -494
package/resources/protein/design.d.mts.map +1 -1
package/resources/protein/design.d.ts +76 -494
package/resources/protein/design.d.ts.map +1 -1
package/resources/protein/library-screen.d.mts +48 -312
package/resources/protein/library-screen.d.mts.map +1 -1
package/resources/protein/library-screen.d.ts +48 -312
package/resources/protein/library-screen.d.ts.map +1 -1
package/resources/small-molecule/design.d.mts +70 -75
package/resources/small-molecule/design.d.mts.map +1 -1
package/resources/small-molecule/design.d.ts +70 -75
package/resources/small-molecule/design.d.ts.map +1 -1
package/resources/small-molecule/library-screen.d.mts +70 -75
package/resources/small-molecule/library-screen.d.mts.map +1 -1
package/resources/small-molecule/library-screen.d.ts +70 -75
package/resources/small-molecule/library-screen.d.ts.map +1 -1
package/src/resources/predictions/structure-and-binding.ts +48 -204
package/src/resources/protein/design.ts +76 -656
package/src/resources/protein/library-screen.ts +48 -402
package/src/resources/small-molecule/design.ts +80 -90
package/src/resources/small-molecule/library-screen.ts +80 -90
package/src/version.ts +1 -1
package/version.d.mts +1 -1
package/version.d.ts +1 -1
package/version.js +1 -1
package/version.mjs +1 -1

package/resources/protein/design.d.ts CHANGED Viewed

@@ -423,10 +423,10 @@ export declare namespace DesignRetrieveResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<DesignedProteinEntityResponse.CcdModificationResponse | DesignedProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<DesignedProteinEntityResponse.Modification>;
             }
             namespace DesignedProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -438,17 +438,6 @@ export declare namespace DesignRetrieveResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             /**
              * A fixed protein entity whose sequence is not redesigned.
@@ -470,10 +459,10 @@ export declare namespace DesignRetrieveResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedProteinEntityResponse.CcdModificationResponse | FixedProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedProteinEntityResponse.Modification>;
             }
             namespace FixedProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -485,17 +474,6 @@ export declare namespace DesignRetrieveResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedRnaEntityResponse {
                 /**
@@ -514,10 +492,10 @@ export declare namespace DesignRetrieveResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedRnaEntityResponse.CcdModificationResponse | FixedRnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedRnaEntityResponse.Modification>;
             }
             namespace FixedRnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -529,17 +507,6 @@ export declare namespace DesignRetrieveResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedDnaEntityResponse {
                 /**
@@ -558,10 +525,10 @@ export declare namespace DesignRetrieveResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedDnaEntityResponse.CcdModificationResponse | FixedDnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedDnaEntityResponse.Modification>;
             }
             namespace FixedDnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -573,17 +540,6 @@ export declare namespace DesignRetrieveResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedLigandSmilesEntityResponse {
                 /**
@@ -876,10 +832,10 @@ export declare namespace DesignRetrieveResponse {
                  * Post-translational modifications. Optional; defaults to an empty list when
                  * omitted.
                  */
-                modifications?: Array<ProteinEntityResponse.CcdModificationResponse | ProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<ProteinEntityResponse.Modification>;
             }
             namespace ProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -891,17 +847,6 @@ export declare namespace DesignRetrieveResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface RnaEntityResponse {
                 /**
@@ -920,10 +865,10 @@ export declare namespace DesignRetrieveResponse {
                 /**
                  * Chemical modifications. Optional; defaults to an empty list when omitted.
                  */
-                modifications?: Array<RnaEntityResponse.CcdModificationResponse | RnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<RnaEntityResponse.Modification>;
             }
             namespace RnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -935,17 +880,6 @@ export declare namespace DesignRetrieveResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface DnaEntityResponse {
                 /**
@@ -964,10 +898,10 @@ export declare namespace DesignRetrieveResponse {
                 /**
                  * Chemical modifications. Optional; defaults to an empty list when omitted.
                  */
-                modifications?: Array<DnaEntityResponse.CcdModificationResponse | DnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<DnaEntityResponse.Modification>;
             }
             namespace DnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -979,17 +913,6 @@ export declare namespace DesignRetrieveResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface LigandCcdEntityResponse {
                 /**
@@ -1404,10 +1327,10 @@ export declare namespace DesignListResultsResponse {
          * Post-translational modifications. Optional; defaults to an empty list when
          * omitted.
          */
-        modifications?: Array<ProteinEntity.CcdModification | ProteinEntity.SmilesModification>;
+        modifications?: Array<ProteinEntity.Modification>;
     }
     namespace ProteinEntity {
-        interface CcdModification {
+        interface Modification {
             /**
              * 0-based index of the residue to modify
              */
@@ -1419,17 +1342,6 @@ export declare namespace DesignListResultsResponse {
              */
             value: string;
         }
-        interface SmilesModification {
-            /**
-             * 0-based index of the residue to modify
-             */
-            residue_index: number;
-            type: 'smiles';
-            /**
-             * SMILES string for the modification
-             */
-            value: string;
-        }
     }
     interface RnaEntity {
         /**
@@ -1448,10 +1360,10 @@ export declare namespace DesignListResultsResponse {
         /**
          * Chemical modifications. Optional; defaults to an empty list when omitted.
          */
-        modifications?: Array<RnaEntity.CcdModification | RnaEntity.SmilesModification>;
+        modifications?: Array<RnaEntity.Modification>;
     }
     namespace RnaEntity {
-        interface CcdModification {
+        interface Modification {
             /**
              * 0-based index of the residue to modify
              */
@@ -1463,17 +1375,6 @@ export declare namespace DesignListResultsResponse {
              */
             value: string;
         }
-        interface SmilesModification {
-            /**
-             * 0-based index of the residue to modify
-             */
-            residue_index: number;
-            type: 'smiles';
-            /**
-             * SMILES string for the modification
-             */
-            value: string;
-        }
     }
     interface DnaEntity {
         /**
@@ -1492,10 +1393,10 @@ export declare namespace DesignListResultsResponse {
         /**
          * Chemical modifications. Optional; defaults to an empty list when omitted.
          */
-        modifications?: Array<DnaEntity.CcdModification | DnaEntity.SmilesModification>;
+        modifications?: Array<DnaEntity.Modification>;
     }
     namespace DnaEntity {
-        interface CcdModification {
+        interface Modification {
             /**
              * 0-based index of the residue to modify
              */
@@ -1507,17 +1408,6 @@ export declare namespace DesignListResultsResponse {
              */
             value: string;
         }
-        interface SmilesModification {
-            /**
-             * 0-based index of the residue to modify
-             */
-            residue_index: number;
-            type: 'smiles';
-            /**
-             * SMILES string for the modification
-             */
-            value: string;
-        }
     }
     interface LigandCcdEntity {
         /**
@@ -1878,10 +1768,10 @@ export declare namespace DesignStartResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<DesignedProteinEntityResponse.CcdModificationResponse | DesignedProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<DesignedProteinEntityResponse.Modification>;
             }
             namespace DesignedProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -1893,17 +1783,6 @@ export declare namespace DesignStartResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             /**
              * A fixed protein entity whose sequence is not redesigned.
@@ -1925,10 +1804,10 @@ export declare namespace DesignStartResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedProteinEntityResponse.CcdModificationResponse | FixedProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedProteinEntityResponse.Modification>;
             }
             namespace FixedProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -1940,17 +1819,6 @@ export declare namespace DesignStartResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedRnaEntityResponse {
                 /**
@@ -1969,10 +1837,10 @@ export declare namespace DesignStartResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedRnaEntityResponse.CcdModificationResponse | FixedRnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedRnaEntityResponse.Modification>;
             }
             namespace FixedRnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -1984,17 +1852,6 @@ export declare namespace DesignStartResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedDnaEntityResponse {
                 /**
@@ -2013,10 +1870,10 @@ export declare namespace DesignStartResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedDnaEntityResponse.CcdModificationResponse | FixedDnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedDnaEntityResponse.Modification>;
             }
             namespace FixedDnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -2028,17 +1885,6 @@ export declare namespace DesignStartResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedLigandSmilesEntityResponse {
                 /**
@@ -2331,10 +2177,10 @@ export declare namespace DesignStartResponse {
                  * Post-translational modifications. Optional; defaults to an empty list when
                  * omitted.
                  */
-                modifications?: Array<ProteinEntityResponse.CcdModificationResponse | ProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<ProteinEntityResponse.Modification>;
             }
             namespace ProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -2346,17 +2192,6 @@ export declare namespace DesignStartResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface RnaEntityResponse {
                 /**
@@ -2375,10 +2210,10 @@ export declare namespace DesignStartResponse {
                 /**
                  * Chemical modifications. Optional; defaults to an empty list when omitted.
                  */
-                modifications?: Array<RnaEntityResponse.CcdModificationResponse | RnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<RnaEntityResponse.Modification>;
             }
             namespace RnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -2390,17 +2225,6 @@ export declare namespace DesignStartResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface DnaEntityResponse {
                 /**
@@ -2419,10 +2243,10 @@ export declare namespace DesignStartResponse {
                 /**
                  * Chemical modifications. Optional; defaults to an empty list when omitted.
                  */
-                modifications?: Array<DnaEntityResponse.CcdModificationResponse | DnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<DnaEntityResponse.Modification>;
             }
             namespace DnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -2434,17 +2258,6 @@ export declare namespace DesignStartResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface LigandCcdEntityResponse {
                 /**
@@ -2961,10 +2774,10 @@ export declare namespace DesignStopResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<DesignedProteinEntityResponse.CcdModificationResponse | DesignedProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<DesignedProteinEntityResponse.Modification>;
             }
             namespace DesignedProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -2976,17 +2789,6 @@ export declare namespace DesignStopResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             /**
              * A fixed protein entity whose sequence is not redesigned.
@@ -3008,10 +2810,10 @@ export declare namespace DesignStopResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedProteinEntityResponse.CcdModificationResponse | FixedProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedProteinEntityResponse.Modification>;
             }
             namespace FixedProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -3023,17 +2825,6 @@ export declare namespace DesignStopResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedRnaEntityResponse {
                 /**
@@ -3052,10 +2843,10 @@ export declare namespace DesignStopResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedRnaEntityResponse.CcdModificationResponse | FixedRnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedRnaEntityResponse.Modification>;
             }
             namespace FixedRnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -3067,17 +2858,6 @@ export declare namespace DesignStopResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedDnaEntityResponse {
                 /**
@@ -3096,10 +2876,10 @@ export declare namespace DesignStopResponse {
                 /**
                  * Optional polymer modifications. Defaults to [] when omitted.
                  */
-                modifications?: Array<FixedDnaEntityResponse.CcdModificationResponse | FixedDnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<FixedDnaEntityResponse.Modification>;
             }
             namespace FixedDnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -3111,17 +2891,6 @@ export declare namespace DesignStopResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface FixedLigandSmilesEntityResponse {
                 /**
@@ -3414,10 +3183,10 @@ export declare namespace DesignStopResponse {
                  * Post-translational modifications. Optional; defaults to an empty list when
                  * omitted.
                  */
-                modifications?: Array<ProteinEntityResponse.CcdModificationResponse | ProteinEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<ProteinEntityResponse.Modification>;
             }
             namespace ProteinEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -3429,17 +3198,6 @@ export declare namespace DesignStopResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface RnaEntityResponse {
                 /**
@@ -3458,10 +3216,10 @@ export declare namespace DesignStopResponse {
                 /**
                  * Chemical modifications. Optional; defaults to an empty list when omitted.
                  */
-                modifications?: Array<RnaEntityResponse.CcdModificationResponse | RnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<RnaEntityResponse.Modification>;
             }
             namespace RnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -3473,17 +3231,6 @@ export declare namespace DesignStopResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface DnaEntityResponse {
                 /**
@@ -3502,10 +3249,10 @@ export declare namespace DesignStopResponse {
                 /**
                  * Chemical modifications. Optional; defaults to an empty list when omitted.
                  */
-                modifications?: Array<DnaEntityResponse.CcdModificationResponse | DnaEntityResponse.SmilesModificationResponse>;
+                modifications?: Array<DnaEntityResponse.Modification>;
             }
             namespace DnaEntityResponse {
-                interface CcdModificationResponse {
+                interface Modification {
                     /**
                      * 0-based index of the residue to modify
                      */
@@ -3517,17 +3264,6 @@ export declare namespace DesignStopResponse {
                      */
                     value: string;
                 }
-                interface SmilesModificationResponse {
-                    /**
-                     * 0-based index of the residue to modify
-                     */
-                    residue_index: number;
-                    type: 'smiles';
-                    /**
-                     * SMILES string for the modification
-                     */
-                    value: string;
-                }
             }
             interface LigandCcdEntityResponse {
                 /**
@@ -4005,10 +3741,10 @@ export declare namespace DesignEstimateCostParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<DesignedProteinEntity.CcdModification | DesignedProteinEntity.SmilesModification>;
+            modifications?: Array<DesignedProteinEntity.Modification>;
         }
         namespace DesignedProteinEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -4020,17 +3756,6 @@ export declare namespace DesignEstimateCostParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         /**
          * A fixed protein entity whose sequence is not redesigned.
@@ -4052,10 +3777,10 @@ export declare namespace DesignEstimateCostParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<FixedProteinEntity.CcdModification | FixedProteinEntity.SmilesModification>;
+            modifications?: Array<FixedProteinEntity.Modification>;
         }
         namespace FixedProteinEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -4067,17 +3792,6 @@ export declare namespace DesignEstimateCostParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface FixedRnaEntity {
             /**
@@ -4096,10 +3810,10 @@ export declare namespace DesignEstimateCostParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<FixedRnaEntity.CcdModification | FixedRnaEntity.SmilesModification>;
+            modifications?: Array<FixedRnaEntity.Modification>;
         }
         namespace FixedRnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -4111,17 +3825,6 @@ export declare namespace DesignEstimateCostParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface FixedDnaEntity {
             /**
@@ -4140,10 +3843,10 @@ export declare namespace DesignEstimateCostParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<FixedDnaEntity.CcdModification | FixedDnaEntity.SmilesModification>;
+            modifications?: Array<FixedDnaEntity.Modification>;
         }
         namespace FixedDnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -4155,17 +3858,6 @@ export declare namespace DesignEstimateCostParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface FixedLigandSmilesEntity {
             /**
@@ -4467,10 +4159,10 @@ export declare namespace DesignEstimateCostParams {
              * Post-translational modifications. Optional; defaults to an empty list when
              * omitted.
              */
-            modifications?: Array<ProteinEntity.CcdModification | ProteinEntity.SmilesModification>;
+            modifications?: Array<ProteinEntity.Modification>;
         }
         namespace ProteinEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -4482,17 +4174,6 @@ export declare namespace DesignEstimateCostParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface RnaEntity {
             /**
@@ -4511,10 +4192,10 @@ export declare namespace DesignEstimateCostParams {
             /**
              * Chemical modifications. Optional; defaults to an empty list when omitted.
              */
-            modifications?: Array<RnaEntity.CcdModification | RnaEntity.SmilesModification>;
+            modifications?: Array<RnaEntity.Modification>;
         }
         namespace RnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -4526,17 +4207,6 @@ export declare namespace DesignEstimateCostParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface DnaEntity {
             /**
@@ -4555,10 +4225,10 @@ export declare namespace DesignEstimateCostParams {
             /**
              * Chemical modifications. Optional; defaults to an empty list when omitted.
              */
-            modifications?: Array<DnaEntity.CcdModification | DnaEntity.SmilesModification>;
+            modifications?: Array<DnaEntity.Modification>;
         }
         namespace DnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -4570,17 +4240,6 @@ export declare namespace DesignEstimateCostParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface LigandCcdEntity {
             /**
@@ -5035,10 +4694,10 @@ export declare namespace DesignStartParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<DesignedProteinEntity.CcdModification | DesignedProteinEntity.SmilesModification>;
+            modifications?: Array<DesignedProteinEntity.Modification>;
         }
         namespace DesignedProteinEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -5050,17 +4709,6 @@ export declare namespace DesignStartParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         /**
          * A fixed protein entity whose sequence is not redesigned.
@@ -5082,10 +4730,10 @@ export declare namespace DesignStartParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<FixedProteinEntity.CcdModification | FixedProteinEntity.SmilesModification>;
+            modifications?: Array<FixedProteinEntity.Modification>;
         }
         namespace FixedProteinEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -5097,17 +4745,6 @@ export declare namespace DesignStartParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface FixedRnaEntity {
             /**
@@ -5126,10 +4763,10 @@ export declare namespace DesignStartParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<FixedRnaEntity.CcdModification | FixedRnaEntity.SmilesModification>;
+            modifications?: Array<FixedRnaEntity.Modification>;
         }
         namespace FixedRnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -5141,17 +4778,6 @@ export declare namespace DesignStartParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface FixedDnaEntity {
             /**
@@ -5170,10 +4796,10 @@ export declare namespace DesignStartParams {
             /**
              * Optional polymer modifications. Defaults to [] when omitted.
              */
-            modifications?: Array<FixedDnaEntity.CcdModification | FixedDnaEntity.SmilesModification>;
+            modifications?: Array<FixedDnaEntity.Modification>;
         }
         namespace FixedDnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -5185,17 +4811,6 @@ export declare namespace DesignStartParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface FixedLigandSmilesEntity {
             /**
@@ -5497,10 +5112,10 @@ export declare namespace DesignStartParams {
              * Post-translational modifications. Optional; defaults to an empty list when
              * omitted.
              */
-            modifications?: Array<ProteinEntity.CcdModification | ProteinEntity.SmilesModification>;
+            modifications?: Array<ProteinEntity.Modification>;
         }
         namespace ProteinEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -5512,17 +5127,6 @@ export declare namespace DesignStartParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface RnaEntity {
             /**
@@ -5541,10 +5145,10 @@ export declare namespace DesignStartParams {
             /**
              * Chemical modifications. Optional; defaults to an empty list when omitted.
              */
-            modifications?: Array<RnaEntity.CcdModification | RnaEntity.SmilesModification>;
+            modifications?: Array<RnaEntity.Modification>;
         }
         namespace RnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -5556,17 +5160,6 @@ export declare namespace DesignStartParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface DnaEntity {
             /**
@@ -5585,10 +5178,10 @@ export declare namespace DesignStartParams {
             /**
              * Chemical modifications. Optional; defaults to an empty list when omitted.
              */
-            modifications?: Array<DnaEntity.CcdModification | DnaEntity.SmilesModification>;
+            modifications?: Array<DnaEntity.Modification>;
         }
         namespace DnaEntity {
-            interface CcdModification {
+            interface Modification {
                 /**
                  * 0-based index of the residue to modify
                  */
@@ -5600,17 +5193,6 @@ export declare namespace DesignStartParams {
                  */
                 value: string;
             }
-            interface SmilesModification {
-                /**
-                 * 0-based index of the residue to modify
-                 */
-                residue_index: number;
-                type: 'smiles';
-                /**
-                 * SMILES string for the modification
-                 */
-                value: string;
-            }
         }
         interface LigandCcdEntity {
             /**