diff --git a/src/arctic3d/cli.py b/src/arctic3d/cli.py
index 7e3dfe2..8eb450c 100644
--- a/src/arctic3d/cli.py
+++ b/src/arctic3d/cli.py
@@ -111,14 +111,6 @@
     default="average",
 )
 
-argument_parser.add_argument(
-    "--numbering",
-    help="what to renumber while extracting the best pdb files",
-    type=str,
-    default="pdb",
-    choices=["pdb", "resi"],
-)
-
 
 def load_args(arguments):
     """
@@ -174,7 +166,6 @@ def main(
     ligand,
     linkage_strategy,
     threshold,
-    numbering,
     log_level="DEBUG",
 ):
     """Main function."""
@@ -266,7 +257,6 @@ def main(
                 pdb_to_use=pdb_to_use,
                 chain_to_use=chain_to_use,
                 pdb_data=pdb_data_path,
-                numbering=numbering,
             )
 
         if pdb_f is None:
diff --git a/tests/test_cli.py b/tests/test_cli.py
index 988d26e..5d0f747 100644
--- a/tests/test_cli.py
+++ b/tests/test_cli.py
@@ -23,7 +23,6 @@ def test_cli_empty():
         ligand=None,
         linkage_strategy=None,
         threshold=None,
-        numbering=None,
     )
     os.chdir(start_cwd)
     exp_dir = Path(f"arctic3d-{target_uniprot}")