data_6SHT # _entry.id 6SHT # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.325 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 6SHT WWPDB D_1292103384 EMDB EMD-10205 # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type EMDB . EMD-9865 'other EM volume' EMDB . EMD-9599 'other EM volume' EMDB . EMD-0144 'other EM volume' EMDB . EMD-20026 'other EM volume' EMDB . EMD-10101 'other EM volume' EMDB . EMD-9890 'other EM volume' EMDB . EMD-9914 'other EM volume' EMDB . EMD-4905 'other EM volume' EMDB . EMD-4213 'other EM volume' EMDB . EMD-0263 'other EM volume' EMDB . EMD-20027 'other EM volume' EMDB . EMD-3853 'other EM volume' EMDB . EMD-20228 'other EM volume' EMDB . EMD-4701 'other EM volume' EMDB . EMD-4698 'other EM volume' EMDB . EMD-20227 'other EM volume' EMDB . EMD-20155 'other EM volume' EMDB . EMD-6800 'other EM volume' EMDB . EMD-20229 'other EM volume' EMDB . EMD-20225 'other EM volume' EMDB . EMD-8428 'other EM volume' EMDB . EMD-6802 'other EM volume' PDB . 3WNW re-refinement EMDB 'Molecular structure of mouse apoferritin resolved at 2.7 Angstroms with the Glacios cryo-microscope' EMD-10205 'associated EM volume' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6SHT _pdbx_database_status.recvd_initial_deposition_date 2019-08-08 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Hamdi, F.' 1 ? 'Tueting, C.' 2 ? 'Semchonok, D.' 3 ? 'Kyrilis, F.' 4 ? 'Meister, A.' 5 ? 'Skalidis, I.' 6 ? 'Schmidt, L.' 7 ? 'Parthier, C.' 8 ? 'Stubbs, M.T.' 9 ? 'Kastritis, P.L.' 10 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Plos One' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1932-6203 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 15 _citation.language ? _citation.page_first e0232540 _citation.page_last e0232540 _citation.title '2.7 angstrom cryo-EM structure of vitrified M. musculus H-chain apoferritin from a compact 200 keV cryo-microscope.' _citation.year 2020 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1371/journal.pone.0232540 _citation.pdbx_database_id_PubMed 32374767 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Hamdi, F.' 1 0000-0002-2155-5000 primary 'Tuting, C.' 2 0000-0001-6209-4012 primary 'Semchonok, D.A.' 3 ? primary 'Visscher, K.M.' 4 ? primary 'Kyrilis, F.L.' 5 0000-0002-4040-6289 primary 'Meister, A.' 6 0000-0003-1668-4382 primary 'Skalidis, I.' 7 0000-0002-3077-9014 primary 'Schmidt, L.' 8 0000-0002-1445-8149 primary 'Parthier, C.' 9 0000-0001-7740-8117 primary 'Stubbs, M.T.' 10 0000-0003-1278-9013 primary 'Kastritis, P.L.' 11 0000-0002-1463-8422 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 6SHT _cell.details ? _cell.formula_units_Z ? _cell.length_a 1.00 _cell.length_a_esd ? _cell.length_b 1.00 _cell.length_b_esd ? _cell.length_c 1.00 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 1 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6SHT _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'Ferritin heavy chain' 21097.631 1 1.16.3.1 ? ? ? 2 non-polymer syn 'FE (III) ION' 55.845 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 4 water nat water 18.015 72 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Ferritin H subunit' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;MTTASPSQVRQNYHQDAEAAINRQINLELYASYVYLSMSCYFDRDDVALKNFAKYFLHQSHEEREHAEKLMKLQNQRGGR IFLQDIKKPDRDDWESGLNAMECALHLEKSVNQSLLELHKLATDKNDPHLCDFIETYYLSEQVKSIKELGDHVTNLRKMG APEAGMAEYLFDKHTLGHGDES ; _entity_poly.pdbx_seq_one_letter_code_can ;MTTASPSQVRQNYHQDAEAAINRQINLELYASYVYLSMSCYFDRDDVALKNFAKYFLHQSHEEREHAEKLMKLQNQRGGR IFLQDIKKPDRDDWESGLNAMECALHLEKSVNQSLLELHKLATDKNDPHLCDFIETYYLSEQVKSIKELGDHVTNLRKMG APEAGMAEYLFDKHTLGHGDES ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 THR n 1 3 THR n 1 4 ALA n 1 5 SER n 1 6 PRO n 1 7 SER n 1 8 GLN n 1 9 VAL n 1 10 ARG n 1 11 GLN n 1 12 ASN n 1 13 TYR n 1 14 HIS n 1 15 GLN n 1 16 ASP n 1 17 ALA n 1 18 GLU n 1 19 ALA n 1 20 ALA n 1 21 ILE n 1 22 ASN n 1 23 ARG n 1 24 GLN n 1 25 ILE n 1 26 ASN n 1 27 LEU n 1 28 GLU n 1 29 LEU n 1 30 TYR n 1 31 ALA n 1 32 SER n 1 33 TYR n 1 34 VAL n 1 35 TYR n 1 36 LEU n 1 37 SER n 1 38 MET n 1 39 SER n 1 40 CYS n 1 41 TYR n 1 42 PHE n 1 43 ASP n 1 44 ARG n 1 45 ASP n 1 46 ASP n 1 47 VAL n 1 48 ALA n 1 49 LEU n 1 50 LYS n 1 51 ASN n 1 52 PHE n 1 53 ALA n 1 54 LYS n 1 55 TYR n 1 56 PHE n 1 57 LEU n 1 58 HIS n 1 59 GLN n 1 60 SER n 1 61 HIS n 1 62 GLU n 1 63 GLU n 1 64 ARG n 1 65 GLU n 1 66 HIS n 1 67 ALA n 1 68 GLU n 1 69 LYS n 1 70 LEU n 1 71 MET n 1 72 LYS n 1 73 LEU n 1 74 GLN n 1 75 ASN n 1 76 GLN n 1 77 ARG n 1 78 GLY n 1 79 GLY n 1 80 ARG n 1 81 ILE n 1 82 PHE n 1 83 LEU n 1 84 GLN n 1 85 ASP n 1 86 ILE n 1 87 LYS n 1 88 LYS n 1 89 PRO n 1 90 ASP n 1 91 ARG n 1 92 ASP n 1 93 ASP n 1 94 TRP n 1 95 GLU n 1 96 SER n 1 97 GLY n 1 98 LEU n 1 99 ASN n 1 100 ALA n 1 101 MET n 1 102 GLU n 1 103 CYS n 1 104 ALA n 1 105 LEU n 1 106 HIS n 1 107 LEU n 1 108 GLU n 1 109 LYS n 1 110 SER n 1 111 VAL n 1 112 ASN n 1 113 GLN n 1 114 SER n 1 115 LEU n 1 116 LEU n 1 117 GLU n 1 118 LEU n 1 119 HIS n 1 120 LYS n 1 121 LEU n 1 122 ALA n 1 123 THR n 1 124 ASP n 1 125 LYS n 1 126 ASN n 1 127 ASP n 1 128 PRO n 1 129 HIS n 1 130 LEU n 1 131 CYS n 1 132 ASP n 1 133 PHE n 1 134 ILE n 1 135 GLU n 1 136 THR n 1 137 TYR n 1 138 TYR n 1 139 LEU n 1 140 SER n 1 141 GLU n 1 142 GLN n 1 143 VAL n 1 144 LYS n 1 145 SER n 1 146 ILE n 1 147 LYS n 1 148 GLU n 1 149 LEU n 1 150 GLY n 1 151 ASP n 1 152 HIS n 1 153 VAL n 1 154 THR n 1 155 ASN n 1 156 LEU n 1 157 ARG n 1 158 LYS n 1 159 MET n 1 160 GLY n 1 161 ALA n 1 162 PRO n 1 163 GLU n 1 164 ALA n 1 165 GLY n 1 166 MET n 1 167 ALA n 1 168 GLU n 1 169 TYR n 1 170 LEU n 1 171 PHE n 1 172 ASP n 1 173 LYS n 1 174 HIS n 1 175 THR n 1 176 LEU n 1 177 GLY n 1 178 HIS n 1 179 GLY n 1 180 ASP n 1 181 GLU n 1 182 SER n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 182 _entity_src_gen.gene_src_common_name 'House mouse' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'Fth1, Fth' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Mus musculus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 10090 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code FRIH_MOUSE _struct_ref.pdbx_db_accession P09528 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MTTASPSQVRQNYHQDAEAAINRQINLELYASYVYLSMSCYFDRDDVALKNFAKYFLHQSHEEREHAEKLMKLQNQRGGR IFLQDIKKPDRDDWESGLNAMECALHLEKSVNQSLLELHKLATDKNDPHLCDFIETYYLSEQVKSIKELGDHVTNLRKMG APEAGMAEYLFDKHTLGHGDES ; _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 6SHT _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 182 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P09528 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 182 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg -3 _struct_ref_seq.pdbx_auth_seq_align_end 178 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 FE non-polymer . 'FE (III) ION' ? 'Fe 3' 55.845 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 6SHT _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6SHT _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.730 _refine.ls_d_res_low 245.760 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 67527 _refine.ls_number_reflns_R_free 1731 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.95 _refine.ls_percent_reflns_R_free 2.56 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2510 _refine.ls_R_factor_R_free 0.2543 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2509 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 24.45 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id ? _refine.overall_SU_B ? _refine.overall_SU_ML 0.33 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.015 ? 1513 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 1.524 ? 2046 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 17.284 ? 591 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.064 ? 213 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.006 ? 270 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'ELECTRON MICROSCOPY' 2.7303 2.8107 . . 142 5389 100.00 . . . 0.4824 . 0.5011 . . . . . . . . . . 'ELECTRON MICROSCOPY' 2.8107 2.9014 . . 142 5381 100.00 . . . 0.3995 . 0.4004 . . . . . . . . . . 'ELECTRON MICROSCOPY' 2.9014 3.0051 . . 141 5408 100.00 . . . 0.3319 . 0.3241 . . . . . . . . . . 'ELECTRON MICROSCOPY' 3.0051 3.1254 . . 142 5391 100.00 . . . 0.2434 . 0.2469 . . . . . . . . . . 'ELECTRON MICROSCOPY' 3.1254 3.2677 . . 143 5411 100.00 . . . 0.1931 . 0.1996 . . . . . . . . . . 'ELECTRON MICROSCOPY' 3.2677 3.4400 . . 143 5436 100.00 . . . 0.1865 . 0.1718 . . . . . . . . . . 'ELECTRON MICROSCOPY' 3.4400 3.6555 . . 143 5440 100.00 . . . 0.1578 . 0.1426 . . . . . . . . . . 'ELECTRON MICROSCOPY' 3.6555 3.9378 . . 144 5449 100.00 . . . 0.1576 . 0.1361 . . . . . . . . . . 'ELECTRON MICROSCOPY' 3.9378 4.3341 . . 144 5492 100.00 . . . 0.1450 . 0.1485 . . . . . . . . . . 'ELECTRON MICROSCOPY' 4.3341 4.9613 . . 145 5520 100.00 . . . 0.1565 . 0.1570 . . . . . . . . . . 'ELECTRON MICROSCOPY' 4.9613 6.2509 . . 148 5600 100.00 . . . 0.1918 . 0.2392 . . . . . . . . . . 'ELECTRON MICROSCOPY' 6.2509 246.7615 . . 154 5879 100.00 . . . 0.3771 . 0.3505 . . . . . . . . . . # _struct.entry_id 6SHT _struct.title 'Molecular structure of mouse apoferritin resolved at 2.7 Angstroms with the Glacios cryo-microscope' _struct.pdbx_descriptor 'Ferritin heavy chain (E.C.1.16.3.1)' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 6SHT _struct_keywords.text 'Apoferritin, iron binding, iron storing, complex, METAL BINDING PROTEIN' _struct_keywords.pdbx_keywords 'METAL BINDING PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 HIS A 14 ? ARG A 44 ? HIS A 10 ARG A 40 1 ? 31 HELX_P HELX_P2 AA2 LEU A 49 ? ARG A 77 ? LEU A 45 ARG A 73 1 ? 29 HELX_P HELX_P3 AA3 SER A 96 ? ASP A 124 ? SER A 92 ASP A 120 1 ? 29 HELX_P HELX_P4 AA4 ASP A 127 ? TYR A 138 ? ASP A 123 TYR A 134 1 ? 12 HELX_P HELX_P5 AA5 TYR A 138 ? GLY A 160 ? TYR A 134 GLY A 156 1 ? 23 HELX_P HELX_P6 AA6 GLY A 165 ? THR A 175 ? GLY A 161 THR A 171 1 ? 11 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_conn.id metalc1 _struct_conn.conn_type_id metalc _struct_conn.pdbx_leaving_atom_flag ? _struct_conn.pdbx_PDB_id ? _struct_conn.ptnr1_label_asym_id C _struct_conn.ptnr1_label_comp_id MG _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_label_atom_id MG _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_comp_id HOH _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_label_atom_id O _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id MG _struct_conn.ptnr1_auth_seq_id 202 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HOH _struct_conn.ptnr2_auth_seq_id 308 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.details ? _struct_conn.pdbx_dist_value 2.803 _struct_conn.pdbx_value_order ? # _struct_conn_type.id metalc _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id ALA _struct_mon_prot_cis.label_seq_id 161 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id ALA _struct_mon_prot_cis.auth_seq_id 157 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 162 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 158 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle -1.10 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A FE 201 ? 1 'binding site for residue FE A 201' AC2 Software A MG 202 ? 4 'binding site for residue MG A 202' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 1 HIS A 174 ? HIS A 170 . ? 1_555 ? 2 AC2 4 GLU A 28 ? GLU A 24 . ? 1_555 ? 3 AC2 4 HIS A 66 ? HIS A 62 . ? 1_555 ? 4 AC2 4 GLU A 141 ? GLU A 137 . ? 1_555 ? 5 AC2 4 HOH D . ? HOH A 308 . ? 1_555 ? # _atom_sites.entry_id 6SHT _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C FE MG N O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 MET 1 -3 ? ? ? A . n A 1 2 THR 2 -2 ? ? ? A . n A 1 3 THR 3 -1 ? ? ? A . n A 1 4 ALA 4 0 ? ? ? A . n A 1 5 SER 5 1 1 SER SER A . n A 1 6 PRO 6 2 2 PRO PRO A . n A 1 7 SER 7 3 3 SER SER A . n A 1 8 GLN 8 4 4 GLN GLN A . n A 1 9 VAL 9 5 5 VAL VAL A . n A 1 10 ARG 10 6 6 ARG ARG A . n A 1 11 GLN 11 7 7 GLN GLN A . n A 1 12 ASN 12 8 8 ASN ASN A . n A 1 13 TYR 13 9 9 TYR TYR A . n A 1 14 HIS 14 10 10 HIS HIS A . n A 1 15 GLN 15 11 11 GLN GLN A . n A 1 16 ASP 16 12 12 ASP ASP A . n A 1 17 ALA 17 13 13 ALA ALA A . n A 1 18 GLU 18 14 14 GLU GLU A . n A 1 19 ALA 19 15 15 ALA ALA A . n A 1 20 ALA 20 16 16 ALA ALA A . n A 1 21 ILE 21 17 17 ILE ILE A . n A 1 22 ASN 22 18 18 ASN ASN A . n A 1 23 ARG 23 19 19 ARG ARG A . n A 1 24 GLN 24 20 20 GLN GLN A . n A 1 25 ILE 25 21 21 ILE ILE A . n A 1 26 ASN 26 22 22 ASN ASN A . n A 1 27 LEU 27 23 23 LEU LEU A . n A 1 28 GLU 28 24 24 GLU GLU A . n A 1 29 LEU 29 25 25 LEU LEU A . n A 1 30 TYR 30 26 26 TYR TYR A . n A 1 31 ALA 31 27 27 ALA ALA A . n A 1 32 SER 32 28 28 SER SER A . n A 1 33 TYR 33 29 29 TYR TYR A . n A 1 34 VAL 34 30 30 VAL VAL A . n A 1 35 TYR 35 31 31 TYR TYR A . n A 1 36 LEU 36 32 32 LEU LEU A . n A 1 37 SER 37 33 33 SER SER A . n A 1 38 MET 38 34 34 MET MET A . n A 1 39 SER 39 35 35 SER SER A . n A 1 40 CYS 40 36 36 CYS CYS A . n A 1 41 TYR 41 37 37 TYR TYR A . n A 1 42 PHE 42 38 38 PHE PHE A . n A 1 43 ASP 43 39 39 ASP ASP A . n A 1 44 ARG 44 40 40 ARG ARG A . n A 1 45 ASP 45 41 41 ASP ASP A . n A 1 46 ASP 46 42 42 ASP ASP A . n A 1 47 VAL 47 43 43 VAL VAL A . n A 1 48 ALA 48 44 44 ALA ALA A . n A 1 49 LEU 49 45 45 LEU LEU A . n A 1 50 LYS 50 46 46 LYS LYS A . n A 1 51 ASN 51 47 47 ASN ASN A . n A 1 52 PHE 52 48 48 PHE PHE A . n A 1 53 ALA 53 49 49 ALA ALA A . n A 1 54 LYS 54 50 50 LYS LYS A . n A 1 55 TYR 55 51 51 TYR TYR A . n A 1 56 PHE 56 52 52 PHE PHE A . n A 1 57 LEU 57 53 53 LEU LEU A . n A 1 58 HIS 58 54 54 HIS HIS A . n A 1 59 GLN 59 55 55 GLN GLN A . n A 1 60 SER 60 56 56 SER SER A . n A 1 61 HIS 61 57 57 HIS HIS A . n A 1 62 GLU 62 58 58 GLU GLU A . n A 1 63 GLU 63 59 59 GLU GLU A . n A 1 64 ARG 64 60 60 ARG ARG A . n A 1 65 GLU 65 61 61 GLU GLU A . n A 1 66 HIS 66 62 62 HIS HIS A . n A 1 67 ALA 67 63 63 ALA ALA A . n A 1 68 GLU 68 64 64 GLU GLU A . n A 1 69 LYS 69 65 65 LYS LYS A . n A 1 70 LEU 70 66 66 LEU LEU A . n A 1 71 MET 71 67 67 MET MET A . n A 1 72 LYS 72 68 68 LYS LYS A . n A 1 73 LEU 73 69 69 LEU LEU A . n A 1 74 GLN 74 70 70 GLN GLN A . n A 1 75 ASN 75 71 71 ASN ASN A . n A 1 76 GLN 76 72 72 GLN GLN A . n A 1 77 ARG 77 73 73 ARG ARG A . n A 1 78 GLY 78 74 74 GLY GLY A . n A 1 79 GLY 79 75 75 GLY GLY A . n A 1 80 ARG 80 76 76 ARG ARG A . n A 1 81 ILE 81 77 77 ILE ILE A . n A 1 82 PHE 82 78 78 PHE PHE A . n A 1 83 LEU 83 79 79 LEU LEU A . n A 1 84 GLN 84 80 80 GLN GLN A . n A 1 85 ASP 85 81 81 ASP ASP A . n A 1 86 ILE 86 82 82 ILE ILE A . n A 1 87 LYS 87 83 83 LYS LYS A . n A 1 88 LYS 88 84 84 LYS LYS A . n A 1 89 PRO 89 85 85 PRO PRO A . n A 1 90 ASP 90 86 86 ASP ASP A . n A 1 91 ARG 91 87 87 ARG ARG A . n A 1 92 ASP 92 88 88 ASP ASP A . n A 1 93 ASP 93 89 89 ASP ASP A . n A 1 94 TRP 94 90 90 TRP TRP A . n A 1 95 GLU 95 91 91 GLU GLU A . n A 1 96 SER 96 92 92 SER SER A . n A 1 97 GLY 97 93 93 GLY GLY A . n A 1 98 LEU 98 94 94 LEU LEU A . n A 1 99 ASN 99 95 95 ASN ASN A . n A 1 100 ALA 100 96 96 ALA ALA A . n A 1 101 MET 101 97 97 MET MET A . n A 1 102 GLU 102 98 98 GLU GLU A . n A 1 103 CYS 103 99 99 CYS CYS A . n A 1 104 ALA 104 100 100 ALA ALA A . n A 1 105 LEU 105 101 101 LEU LEU A . n A 1 106 HIS 106 102 102 HIS HIS A . n A 1 107 LEU 107 103 103 LEU LEU A . n A 1 108 GLU 108 104 104 GLU GLU A . n A 1 109 LYS 109 105 105 LYS LYS A . n A 1 110 SER 110 106 106 SER SER A . n A 1 111 VAL 111 107 107 VAL VAL A . n A 1 112 ASN 112 108 108 ASN ASN A . n A 1 113 GLN 113 109 109 GLN GLN A . n A 1 114 SER 114 110 110 SER SER A . n A 1 115 LEU 115 111 111 LEU LEU A . n A 1 116 LEU 116 112 112 LEU LEU A . n A 1 117 GLU 117 113 113 GLU GLU A . n A 1 118 LEU 118 114 114 LEU LEU A . n A 1 119 HIS 119 115 115 HIS HIS A . n A 1 120 LYS 120 116 116 LYS LYS A . n A 1 121 LEU 121 117 117 LEU LEU A . n A 1 122 ALA 122 118 118 ALA ALA A . n A 1 123 THR 123 119 119 THR THR A . n A 1 124 ASP 124 120 120 ASP ASP A . n A 1 125 LYS 125 121 121 LYS LYS A . n A 1 126 ASN 126 122 122 ASN ASN A . n A 1 127 ASP 127 123 123 ASP ASP A . n A 1 128 PRO 128 124 124 PRO PRO A . n A 1 129 HIS 129 125 125 HIS HIS A . n A 1 130 LEU 130 126 126 LEU LEU A . n A 1 131 CYS 131 127 127 CYS CYS A . n A 1 132 ASP 132 128 128 ASP ASP A . n A 1 133 PHE 133 129 129 PHE PHE A . n A 1 134 ILE 134 130 130 ILE ILE A . n A 1 135 GLU 135 131 131 GLU GLU A . n A 1 136 THR 136 132 132 THR THR A . n A 1 137 TYR 137 133 133 TYR TYR A . n A 1 138 TYR 138 134 134 TYR TYR A . n A 1 139 LEU 139 135 135 LEU LEU A . n A 1 140 SER 140 136 136 SER SER A . n A 1 141 GLU 141 137 137 GLU GLU A . n A 1 142 GLN 142 138 138 GLN GLN A . n A 1 143 VAL 143 139 139 VAL VAL A . n A 1 144 LYS 144 140 140 LYS LYS A . n A 1 145 SER 145 141 141 SER SER A . n A 1 146 ILE 146 142 142 ILE ILE A . n A 1 147 LYS 147 143 143 LYS LYS A . n A 1 148 GLU 148 144 144 GLU GLU A . n A 1 149 LEU 149 145 145 LEU LEU A . n A 1 150 GLY 150 146 146 GLY GLY A . n A 1 151 ASP 151 147 147 ASP ASP A . n A 1 152 HIS 152 148 148 HIS HIS A . n A 1 153 VAL 153 149 149 VAL VAL A . n A 1 154 THR 154 150 150 THR THR A . n A 1 155 ASN 155 151 151 ASN ASN A . n A 1 156 LEU 156 152 152 LEU LEU A . n A 1 157 ARG 157 153 153 ARG ARG A . n A 1 158 LYS 158 154 154 LYS LYS A . n A 1 159 MET 159 155 155 MET MET A . n A 1 160 GLY 160 156 156 GLY GLY A . n A 1 161 ALA 161 157 157 ALA ALA A . n A 1 162 PRO 162 158 158 PRO PRO A . n A 1 163 GLU 163 159 159 GLU GLU A . n A 1 164 ALA 164 160 160 ALA ALA A . n A 1 165 GLY 165 161 161 GLY GLY A . n A 1 166 MET 166 162 162 MET MET A . n A 1 167 ALA 167 163 163 ALA ALA A . n A 1 168 GLU 168 164 164 GLU GLU A . n A 1 169 TYR 169 165 165 TYR TYR A . n A 1 170 LEU 170 166 166 LEU LEU A . n A 1 171 PHE 171 167 167 PHE PHE A . n A 1 172 ASP 172 168 168 ASP ASP A . n A 1 173 LYS 173 169 169 LYS LYS A . n A 1 174 HIS 174 170 170 HIS HIS A . n A 1 175 THR 175 171 171 THR THR A . n A 1 176 LEU 176 172 172 LEU LEU A . n A 1 177 GLY 177 173 173 GLY GLY A . n A 1 178 HIS 178 174 174 HIS HIS A . n A 1 179 GLY 179 175 ? ? ? A . n A 1 180 ASP 180 176 ? ? ? A . n A 1 181 GLU 181 177 ? ? ? A . n A 1 182 SER 182 178 ? ? ? A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 FE 1 201 176 FE FE A . C 3 MG 1 202 177 MG MG A . D 4 HOH 1 301 230 HOH HOH A . D 4 HOH 2 302 188 HOH HOH A . D 4 HOH 3 303 216 HOH HOH A . D 4 HOH 4 304 245 HOH HOH A . D 4 HOH 5 305 212 HOH HOH A . D 4 HOH 6 306 227 HOH HOH A . D 4 HOH 7 307 190 HOH HOH A . D 4 HOH 8 308 244 HOH HOH A . D 4 HOH 9 309 240 HOH HOH A . D 4 HOH 10 310 241 HOH HOH A . D 4 HOH 11 311 231 HOH HOH A . D 4 HOH 12 312 179 HOH HOH A . D 4 HOH 13 313 185 HOH HOH A . D 4 HOH 14 314 224 HOH HOH A . D 4 HOH 15 315 247 HOH HOH A . D 4 HOH 16 316 248 HOH HOH A . D 4 HOH 17 317 232 HOH HOH A . D 4 HOH 18 318 186 HOH HOH A . D 4 HOH 19 319 184 HOH HOH A . D 4 HOH 20 320 222 HOH HOH A . D 4 HOH 21 321 235 HOH HOH A . D 4 HOH 22 322 243 HOH HOH A . D 4 HOH 23 323 181 HOH HOH A . D 4 HOH 24 324 199 HOH HOH A . D 4 HOH 25 325 228 HOH HOH A . D 4 HOH 26 326 180 HOH HOH A . D 4 HOH 27 327 182 HOH HOH A . D 4 HOH 28 328 223 HOH HOH A . D 4 HOH 29 329 233 HOH HOH A . D 4 HOH 30 330 192 HOH HOH A . D 4 HOH 31 331 217 HOH HOH A . D 4 HOH 32 332 187 HOH HOH A . D 4 HOH 33 333 183 HOH HOH A . D 4 HOH 34 334 246 HOH HOH A . D 4 HOH 35 335 200 HOH HOH A . D 4 HOH 36 336 225 HOH HOH A . D 4 HOH 37 337 213 HOH HOH A . D 4 HOH 38 338 205 HOH HOH A . D 4 HOH 39 339 237 HOH HOH A . D 4 HOH 40 340 194 HOH HOH A . D 4 HOH 41 341 249 HOH HOH A . D 4 HOH 42 342 202 HOH HOH A . D 4 HOH 43 343 210 HOH HOH A . D 4 HOH 44 344 215 HOH HOH A . D 4 HOH 45 345 226 HOH HOH A . D 4 HOH 46 346 242 HOH HOH A . D 4 HOH 47 347 238 HOH HOH A . D 4 HOH 48 348 214 HOH HOH A . D 4 HOH 49 349 189 HOH HOH A . D 4 HOH 50 350 191 HOH HOH A . D 4 HOH 51 351 198 HOH HOH A . D 4 HOH 52 352 236 HOH HOH A . D 4 HOH 53 353 219 HOH HOH A . D 4 HOH 54 354 203 HOH HOH A . D 4 HOH 55 355 208 HOH HOH A . D 4 HOH 56 356 196 HOH HOH A . D 4 HOH 57 357 195 HOH HOH A . D 4 HOH 58 358 221 HOH HOH A . D 4 HOH 59 359 229 HOH HOH A . D 4 HOH 60 360 193 HOH HOH A . D 4 HOH 61 361 218 HOH HOH A . D 4 HOH 62 362 201 HOH HOH A . D 4 HOH 63 363 204 HOH HOH A . D 4 HOH 64 364 239 HOH HOH A . D 4 HOH 65 365 211 HOH HOH A . D 4 HOH 66 366 197 HOH HOH A . D 4 HOH 67 367 209 HOH HOH A . D 4 HOH 68 368 178 HOH HOH A . D 4 HOH 69 369 206 HOH HOH A . D 4 HOH 70 370 207 HOH HOH A . D 4 HOH 71 371 234 HOH HOH A . D 4 HOH 72 372 220 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.method_details 'PISA v1.52 [20/10/2014]' _pdbx_struct_assembly.oligomeric_details 24-meric _pdbx_struct_assembly.oligomeric_count 24 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 93330 ? 1 MORE -682 ? 1 'SSA (A^2)' 153130 ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' ? ? 1.000 0.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 0.000 1.000 0.000 2 'point symmetry operation' ? ? -1.000 0.000 0.000 245.760 0.000 0.000 1.000 0.000 0.000 1.000 -0.000 0.000 3 'point symmetry operation' ? ? 0.000 -1.000 0.000 245.760 1.000 -0.000 0.000 0.000 0.000 0.000 1.000 0.000 4 'point symmetry operation' ? ? -0.000 0.000 -1.000 245.760 -1.000 0.000 0.000 245.760 0.000 1.000 -0.000 0.000 5 'point symmetry operation' ? ? -0.000 1.000 0.000 0.000 -1.000 0.000 0.000 245.760 0.000 0.000 1.000 0.000 6 'point symmetry operation' ? ? 0.000 0.000 1.000 0.000 1.000 0.000 -0.000 0.000 0.000 1.000 -0.000 0.000 7 'point symmetry operation' ? ? 0.000 1.000 -0.000 0.000 0.000 -0.000 1.000 0.000 1.000 -0.000 -0.000 0.000 8 'point symmetry operation' ? ? -0.000 0.000 1.000 0.000 -0.000 1.000 -0.000 0.000 -1.000 0.000 0.000 245.760 9 'point symmetry operation' ? ? -0.000 -1.000 0.000 245.760 -0.000 0.000 1.000 0.000 -1.000 0.000 0.000 245.760 10 'point symmetry operation' ? ? 0.000 0.000 -1.000 245.760 0.000 1.000 -0.000 0.000 1.000 -0.000 -0.000 0.000 11 'point symmetry operation' ? ? -1.000 0.000 0.000 245.760 0.000 -1.000 0.000 245.760 0.000 0.000 1.000 0.000 12 'point symmetry operation' ? ? 1.000 0.000 -0.000 0.000 0.000 0.000 -1.000 245.760 0.000 1.000 -0.000 0.000 13 'point symmetry operation' ? ? -0.000 -0.000 -1.000 245.760 -0.000 -1.000 0.000 245.760 -1.000 0.000 0.000 245.760 14 'point symmetry operation' ? ? 0.000 -1.000 -0.000 245.760 0.000 -0.000 -1.000 245.760 1.000 -0.000 -0.000 0.000 15 'point symmetry operation' ? ? -0.000 1.000 -0.000 0.000 -0.000 0.000 -1.000 245.760 -1.000 0.000 0.000 245.760 16 'point symmetry operation' ? ? 0.000 -0.000 1.000 0.000 0.000 -1.000 0.000 245.760 1.000 -0.000 -0.000 0.000 17 'point symmetry operation' ? ? -1.000 0.000 0.000 245.760 0.000 1.000 -0.000 0.000 0.000 0.000 -1.000 245.760 18 'point symmetry operation' ? ? 1.000 -0.000 0.000 0.000 0.000 -0.000 1.000 0.000 0.000 -1.000 0.000 245.760 19 'point symmetry operation' ? ? 0.000 1.000 -0.000 0.000 1.000 -0.000 -0.000 0.000 0.000 0.000 -1.000 245.760 20 'point symmetry operation' ? ? -0.000 -0.000 1.000 0.000 -1.000 0.000 0.000 245.760 0.000 -1.000 0.000 245.760 21 'point symmetry operation' ? ? -0.000 -1.000 0.000 245.760 -1.000 0.000 0.000 245.760 0.000 0.000 -1.000 245.760 22 'point symmetry operation' ? ? 0.000 -0.000 -1.000 245.760 1.000 -0.000 -0.000 0.000 0.000 -1.000 0.000 245.760 23 'point symmetry operation' ? ? 1.000 -0.000 -0.000 0.000 0.000 -1.000 0.000 245.760 0.000 0.000 -1.000 245.760 24 'point symmetry operation' ? ? -1.000 0.000 0.000 245.760 0.000 -0.000 -1.000 245.760 0.000 -1.000 0.000 245.760 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2020-05-13 2 'Structure model' 1 1 2020-05-27 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Data collection' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 2 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category em_imaging_optics # _software.citation_id ? _software.classification refinement _software.compiler_name ? _software.compiler_version ? _software.contact_author ? _software.contact_author_email ? _software.date ? _software.description ? _software.dependencies ? _software.hardware ? _software.language ? _software.location ? _software.mods ? _software.name PHENIX _software.os ? _software.os_version ? _software.type ? _software.version 1.9_1692 _software.pdbx_ordinal 1 # _pdbx_entry_details.entry_id 6SHT _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _em_3d_fitting.entry_id 6SHT _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_protocol OTHER _em_3d_fitting.ref_space RECIPROCAL _em_3d_fitting.target_criteria ? _em_3d_fitting.method ? # _em_3d_fitting_list.3d_fitting_id 1 _em_3d_fitting_list.id 1 _em_3d_fitting_list.details ? _em_3d_fitting_list.pdb_chain_id ? _em_3d_fitting_list.pdb_chain_residue_range ? _em_3d_fitting_list.pdb_entry_id 3WNW # _em_3d_reconstruction.entry_id 6SHT _em_3d_reconstruction.id 1 _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.details ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.num_class_averages 1 _em_3d_reconstruction.num_particles 95733 _em_3d_reconstruction.resolution 2.73 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.symmetry_type POINT _em_3d_reconstruction.method ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.magnification_calibration ? # _em_buffer.id 1 _em_buffer.details ? _em_buffer.pH 7.4 _em_buffer.specimen_id 1 _em_buffer.name ? # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.details ? _em_entity_assembly.name 'Mouse apoferritin' _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.entity_id_list 1 _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? # _em_imaging.id 1 _em_imaging.entry_id 6SHT _em_imaging.accelerating_voltage 200 _em_imaging.alignment_procedure 'COMA FREE' _em_imaging.c2_aperture_diameter 50.0 _em_imaging.calibrated_defocus_max 1600 _em_imaging.calibrated_defocus_min 800 _em_imaging.calibrated_magnification ? _em_imaging.cryogen NITROGEN _em_imaging.details 'microscope model is Thermofisher Glacios 200 kV' _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.microscope_model 'FEI TALOS ARCTICA' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs 2.7 _em_imaging.nominal_defocus_max 1600 _em_imaging.nominal_defocus_min 800 _em_imaging.nominal_magnification ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _em_imaging.residual_tilt ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.specimen_id 1 _em_imaging.citation_id ? _em_imaging.date ? _em_imaging.temperature ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.astigmatism ? _em_imaging.detector_distance ? _em_imaging.electron_beam_tilt_params ? _em_imaging.specimen_holder_type ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details ? _em_sample_support.grid_material COPPER _em_sample_support.grid_mesh_size 200 _em_sample_support.grid_type 'Quantifoil R1.2/1.3' _em_sample_support.method ? _em_sample_support.film_material ? # _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.chamber_temperature 277 _em_vitrification.cryogen_name ETHANE _em_vitrification.details ? _em_vitrification.humidity 95 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.entry_id 6SHT _em_vitrification.citation_id ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 6SHT _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.entity_assembly_id 1 # _em_single_particle_entity.entry_id 6SHT _em_single_particle_entity.id 1 _em_single_particle_entity.image_processing_id 1 _em_single_particle_entity.point_symmetry O # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 NH1 A ARG 76 ? ? O A HOH 301 ? ? 1.89 2 1 OD1 A ASP 123 ? ? O A HOH 302 ? ? 1.93 3 1 OH A TYR 31 ? ? OE1 A GLU 104 ? ? 2.02 4 1 NZ A LYS 50 ? A O A HOH 303 ? ? 2.08 5 1 NE2 A HIS 115 ? ? OE2 A GLU 131 ? ? 2.08 6 1 OE1 A GLU 137 ? B O A HOH 304 ? ? 2.13 7 1 NH1 A ARG 40 ? ? O A HOH 305 ? ? 2.14 8 1 O A ALA 160 ? ? O A HOH 306 ? ? 2.16 9 1 OD1 A ASP 147 ? ? O A HOH 307 ? ? 2.18 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CB _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ASP _pdbx_validate_rmsd_angle.auth_seq_id_1 168 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CG _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ASP _pdbx_validate_rmsd_angle.auth_seq_id_2 168 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 OD1 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ASP _pdbx_validate_rmsd_angle.auth_seq_id_3 168 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 111.98 _pdbx_validate_rmsd_angle.angle_target_value 118.30 _pdbx_validate_rmsd_angle.angle_deviation -6.32 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.90 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 VAL A 43 ? ? -129.21 -60.51 2 1 LEU A 45 ? ? -100.13 78.24 3 1 GLU A 91 ? ? 57.78 -81.07 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A MET -3 ? A MET 1 2 1 Y 1 A THR -2 ? A THR 2 3 1 Y 1 A THR -1 ? A THR 3 4 1 Y 1 A ALA 0 ? A ALA 4 5 1 Y 1 A GLY 175 ? A GLY 179 6 1 Y 1 A ASP 176 ? A ASP 180 7 1 Y 1 A GLU 177 ? A GLU 181 8 1 Y 1 A SER 178 ? A SER 182 # _em_ctf_correction.id 1 _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' _em_ctf_correction.details ? # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.units MEGADALTONS _em_entity_assembly_molwt.value 0.48 # _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.ncbi_tax_id 10090 _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organism 'Mus musculus' _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.ncbi_tax_id 562 _em_entity_assembly_recombinant.organism 'Escherichia coli' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.avg_electron_dose_per_image 28 _em_image_recording.average_exposure_time 30 _em_image_recording.details 'pixel size was 0.96 Angstroms' _em_image_recording.detector_mode COUNTING _em_image_recording.film_or_detector_model 'FEI FALCON III (4k x 4k)' _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged 1 _em_image_recording.num_real_images 300 # _em_particle_selection.id 1 _em_particle_selection.image_processing_id 1 _em_particle_selection.details ? _em_particle_selection.method ? _em_particle_selection.num_particles_selected 211177 _em_particle_selection.reference_model ? # loop_ _em_software.id _em_software.category _em_software.details _em_software.name _em_software.version _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id 1 'PARTICLE SELECTION' ? RELION 3.0.5 1 ? ? 2 'IMAGE ACQUISITION' ? EPU 2.1 ? ? 1 3 MASKING ? ? ? ? ? ? 4 'CTF CORRECTION' ? Gctf 1.0.6 1 ? ? 5 'LAYERLINE INDEXING' ? ? ? ? ? ? 6 'DIFFRACTION INDEXING' ? ? ? ? ? ? 7 'MODEL FITTING' ? 'UCSF Chimera' 1.13.1 ? 1 ? 8 OTHER ? ? ? ? ? ? 9 'MODEL REFINEMENT' ? PHENIX 1.9 ? 1 ? 10 'INITIAL EULER ASSIGNMENT' ? RELION 3.0.5 1 ? ? 11 'FINAL EULER ASSIGNMENT' ? RELION 3.0.5 1 ? ? 12 CLASSIFICATION ? RELION 3.0.5 1 ? ? 13 RECONSTRUCTION ? RELION 3.0.5 1 ? ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration 4.0 _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 FE ? ? FE ? ? 'SUBJECT OF INVESTIGATION' ? 2 MG ? ? MG ? ? 'SUBJECT OF INVESTIGATION' ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'FE (III) ION' FE 3 'MAGNESIUM ION' MG 4 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support microscopy _pdbx_struct_assembly_auth_evidence.details 'is well known from various biochemical and structural methods' #