2025-07-02 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin em_software _em_admin.last_update _em_software.name COORDINATE_REPLACEMENT AUTHOR Model completeness
We now only included segments of the substrate protein in the deposited models where the N-and C-terminal ends had a density above 4.5 RMSD in the final maps and the density between these termini did not drop below 3.5 RMSD. A final round of refinement improved the clash score.
STRUCTURE_SUMMARY atom_site em_software pdbx_poly_seq_scheme pdbx_struct_assembly_prop pdbx_struct_conn_angle pdbx_struct_sheet_hbond pdbx_unobs_or_zero_occ_residues pdbx_validate_close_contact pdbx_validate_main_chain_plane pdbx_validate_rmsd_angle pdbx_validate_rmsd_bond pdbx_validate_torsion struct_conf struct_conn struct_ref_seq struct_sheet struct_sheet_order struct_sheet_range _em_software.category _em_software.fitting_id _em_software.imaging_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_struct_assembly_prop.value _struct_ref_seq.db_align_beg _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end DATABASE_REFERENCES citation citation_author database_2 _citation.country _citation.journal_abbrev _citation.journal_id_ASTM _citation.journal_id_CSD _citation.journal_id_ISSN _citation.journal_volume _citation.page_first _citation.page_last _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _database_2.pdbx_DOI _database_2.pdbx_database_accession DATA_COLLECTION chem_comp_atom chem_comp_bond em_admin _em_admin.last_update STRUCTURE_SUMMARY em_admin em_software pdbx_entry_details _em_admin.last_update _em_software.name _pdbx_entry_details.has_protein_modification PDBe PDBe 2021-02-09 2021-04-07 2021-04-07 2025-07-02 P2a-state of wild type human mitochondrial LONP1 protease with bound substrate protein and in presence of ATPgS Mohammed I Schmitz KA human mitochondrial AAA+ protease, MOTOR PROTEIN Mohammed I Schmitz KA Schenck N Balasopoulos D Topitsch A Maier T Abrahams JP Catalytic cycling of human mitochondrial Lon protease. Structure UK 30 1254 1268.e7 2022 35870450 doi:10.1016/j.str.2022.06.006 0969-2126 2005 STRUE6 EMD-12317 other EM volume EMD-12316 other EM volume EMD-12315 other EM volume EMD-12313 other EM volume EMD-12308 other EM volume EMD-12307 other EM volume 7ngc FULLOVERLAP P2a-state of LonP1 hexameric complex in presence of ATPgS and bound substrate protein P2a-state of LonP1 hexameric complex in presence of ATPgS and bound substrate protein 0 2 Homo sapiens 0.6 Lon protease homolog, mitochondrial Homo sapiens 0.096288758 6 Escherichia coli BL21(DE3) LEVO HHHHHHGSMTIPDVFPHLPLIAITRNPVFPRFIKIIEVKNKKLVELLRRKVRLAQPYVGVFLKRDDSNESDVVESLDEIY HTGTFAQIHEMQDLGDKLRMIVMGHRRVHISRQLEVEPEEPEAENKHKPRRKSKRGKKEAEDELSARHPAELAMEPTPEL PAEVLMVEVENVVHEDFQVTEEVKALTAEIVKTIRDIIALNPLYRESVLQMMQAGQRVVDNPIYLSDMGAALTGAESHEL QDVLEETNIPKRLYKALSLLKKEFELSKLQQRLGREVEEKIKQTHRKYLLQEQLKIIKKELGLEKDDKDAIEEKFRERLK ELVVPKHVMDVVDEELSKLGLLDNHSSEFNVTRNYLDWLTSIPWGKYSNENLDLARAQAVLEEDHYGMEDVKKRILEFIA VSQLRGSTQGKILCFYGPPGVGKTSIARSIARALNREYFRFSVGGMTDVAEIKGHRRTYVGAMPGKIIQCLKKTKTENPL ILIDEVDKIGRGYQGDPSSALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVTDTIPEPLRDRMEMINVSGYVAQEK LAIAERYLVPQARALCGLDESKAKLSSDVLTLLIKQYCRESGVRNLQKQVEKVLRKSAYKIVSGEAESVEVTPENLQDFV GKPVFTVERMYDVTPPGVVMGLAWTAMGGSTLFVETSLRRPQDKDAKGDKDGSLEVTGQLGEVMKESARIAYTFARAFLM QHAPANDYLVTSHIHLHVPEGATPKDGPSAGCTIVTALLSLAMGRPVRQNLAMTGEVSLTGKILPVGGIKEKTIAAKRAG VTCIVLPAENKKDFYDLAAFITEGLEVHFVEHYREIFDIAFPDEQAEALAVER P36776 3.4.21.53 substrate protein Homo sapiens 0.004698783 1 Escherichia coli BL21(DE3) LEVO (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER 0.0005232469999999999 5 AGS MAGNESIUM ION 2.4305e-05 5 MG ADENOSINE-5'-DIPHOSPHATE 0.000427201 1 ADP singleParticle particle 0.6 7.6 ETHANE FEI TITAN KRIOS OTHER BRIGHT FIELD FIELD EMISSION GUN 300 GATAN K2 SUMMIT (4k x 4k) 68.0 1 PHASE FLIPPING AND AMPLITUDE CORRECTION
ab-initio
 7.5 FSC 0.143 CUT-OFF RELION cryoSPARC 26800 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_12312.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 423.19998 423.19998 423.19998 90.0 90.0 90.0 X Y Z -0.9593284 1.9250636 0.0037904673 0.06348396 1.058 1.058 1.058 0.26 AUTHOR FLEXIBLE FIT emd_12312_msk_3.map emd_12312_msk_2.map emd_12312_msk_1.map