chore: fix covalent linkages description

yusuf1759 · yusuf1759 · commit a90cb17971be · 2026-02-19T07:43:13.000-05:00
diff --git a/src/plinder/data/utils/annotations/ligand_utils.py b/src/plinder/data/utils/annotations/ligand_utils.py
@@ -738,7 +738,7 @@ class Ligand(DocBaseModel):
         default_factory=set[str],
         description="Ligand covalent linkages as described in https://mmcif.wwpdb.org/dictionaries/mmcif_pdbx_v50.dic/Categories/struct_conn.html "
         + "with _struct_conn.conn_type_id == 'covale', reported in format "
-        + "{auth_resid}:{resname}{assym_id}{seq_resid}{atom_name}__{auth_resid}:{resname}{assym_id}{seq_resid}{atom_name}",
+        + "{auth_resid}:{resname}:{assym_id}:{seq_resid}:{atom_name}__{auth_resid}:{resname}:{assym_id}:{seq_resid}:{atom_name}",
     )
     neighboring_residues: dict[str, list[int]] = Field(
         default_factory=dict,

Original file line number	Diff line number	Diff line change
`@@ -738,7 +738,7 @@ class Ligand(DocBaseModel):`
`738`	`738`	`default_factory=set[str],`
`739`	`739`	`description="Ligand covalent linkages as described in https://mmcif.wwpdb.org/dictionaries/mmcif_pdbx_v50.dic/Categories/struct_conn.html "`
`740`	`740`	`+ "with _struct_conn.conn_type_id == 'covale', reported in format "`
`741`		`- + "{auth_resid}:{resname}{assym_id}{seq_resid}{atom_name}__{auth_resid}:{resname}{assym_id}{seq_resid}{atom_name}",`
	`741`	`+ + "{auth_resid}:{resname}:{assym_id}:{seq_resid}:{atom_name}__{auth_resid}:{resname}:{assym_id}:{seq_resid}:{atom_name}",`
`742`	`742`	`)`
`743`	`743`	`neighboring_residues: dict[str, list[int]] = Field(`
`744`	`744`	`default_factory=dict,`