data_8E01 # _entry.id 8E01 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.364 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 8E01 pdb_00008e01 10.2210/pdb8e01/pdb WWPDB D_1000267547 ? ? EMDB EMD-27812 ? ? # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Structure of engineered nano-cage fusion protein' _pdbx_database_related.db_id EMD-27812 _pdbx_database_related.content_type '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 8E01 _pdbx_database_status.recvd_initial_deposition_date 2022-08-08 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Moustafa, I.M.' 1 ? 'Hafenstein, S.L.' 2 ? # _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 Biorxiv _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2692-8205 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Intranasal SARS-CoV-2 RBD decorated nanoparticle vaccine enhances viral clearance in the Syrian hamster model.' _citation.year 2022 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1101/2022.10.27.514054 _citation.pdbx_database_id_PubMed 36324809 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Patel, D.R.' 1 ? primary 'Minns, A.M.' 2 ? primary 'Sims, D.G.' 3 ? primary 'Field, C.J.' 4 ? primary 'Kerr, A.E.' 5 ? primary 'Heinly, T.' 6 ? primary 'Luley, E.H.' 7 ? primary 'Rossi, R.M.' 8 ? primary 'Bator, C.' 9 ? primary 'Mostafa, I.M.' 10 ? primary 'Hafenstein, S.L.' 11 ? primary 'Lindner, S.E.' 12 0000-0003-1799-3726 primary 'Sutton, T.C.' 13 0000-0002-7880-4784 # _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 8E01 _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 ? _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 ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8E01 _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 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description '2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase' _entity.formula_weight 23915.986 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Engineered nano-cage fusion protein' # _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 ;MHHHHHHGGSGGSGGSGGSMKMEELFKKHKIVAVLRANSVEEAKKKALAVFLGGVHLIEITFTVPDADTVIKELSFLKEM GAIIGAGTVTSVEQCRKAVESGAEFIVSPHLDEEISQFCKEKGVFYMPGVMTPTELVKAMKLGHTILKLFPGEVVGPQFV KAMKGPFPNVKFVPTGGVNLDNVCEWFKAGVLAVGVGSALVKGTPVEVAEKAKAFVEKIRGCTE ; _entity_poly.pdbx_seq_one_letter_code_can ;MHHHHHHGGSGGSGGSGGSMKMEELFKKHKIVAVLRANSVEEAKKKALAVFLGGVHLIEITFTVPDADTVIKELSFLKEM GAIIGAGTVTSVEQCRKAVESGAEFIVSPHLDEEISQFCKEKGVFYMPGVMTPTELVKAMKLGHTILKLFPGEVVGPQFV KAMKGPFPNVKFVPTGGVNLDNVCEWFKAGVLAVGVGSALVKGTPVEVAEKAKAFVEKIRGCTE ; _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 HIS n 1 3 HIS n 1 4 HIS n 1 5 HIS n 1 6 HIS n 1 7 HIS n 1 8 GLY n 1 9 GLY n 1 10 SER n 1 11 GLY n 1 12 GLY n 1 13 SER n 1 14 GLY n 1 15 GLY n 1 16 SER n 1 17 GLY n 1 18 GLY n 1 19 SER n 1 20 MET n 1 21 LYS n 1 22 MET n 1 23 GLU n 1 24 GLU n 1 25 LEU n 1 26 PHE n 1 27 LYS n 1 28 LYS n 1 29 HIS n 1 30 LYS n 1 31 ILE n 1 32 VAL n 1 33 ALA n 1 34 VAL n 1 35 LEU n 1 36 ARG n 1 37 ALA n 1 38 ASN n 1 39 SER n 1 40 VAL n 1 41 GLU n 1 42 GLU n 1 43 ALA n 1 44 LYS n 1 45 LYS n 1 46 LYS n 1 47 ALA n 1 48 LEU n 1 49 ALA n 1 50 VAL n 1 51 PHE n 1 52 LEU n 1 53 GLY n 1 54 GLY n 1 55 VAL n 1 56 HIS n 1 57 LEU n 1 58 ILE n 1 59 GLU n 1 60 ILE n 1 61 THR n 1 62 PHE n 1 63 THR n 1 64 VAL n 1 65 PRO n 1 66 ASP n 1 67 ALA n 1 68 ASP n 1 69 THR n 1 70 VAL n 1 71 ILE n 1 72 LYS n 1 73 GLU n 1 74 LEU n 1 75 SER n 1 76 PHE n 1 77 LEU n 1 78 LYS n 1 79 GLU n 1 80 MET n 1 81 GLY n 1 82 ALA n 1 83 ILE n 1 84 ILE n 1 85 GLY n 1 86 ALA n 1 87 GLY n 1 88 THR n 1 89 VAL n 1 90 THR n 1 91 SER n 1 92 VAL n 1 93 GLU n 1 94 GLN n 1 95 CYS n 1 96 ARG n 1 97 LYS n 1 98 ALA n 1 99 VAL n 1 100 GLU n 1 101 SER n 1 102 GLY n 1 103 ALA n 1 104 GLU n 1 105 PHE n 1 106 ILE n 1 107 VAL n 1 108 SER n 1 109 PRO n 1 110 HIS n 1 111 LEU n 1 112 ASP n 1 113 GLU n 1 114 GLU n 1 115 ILE n 1 116 SER n 1 117 GLN n 1 118 PHE n 1 119 CYS n 1 120 LYS n 1 121 GLU n 1 122 LYS n 1 123 GLY n 1 124 VAL n 1 125 PHE n 1 126 TYR n 1 127 MET n 1 128 PRO n 1 129 GLY n 1 130 VAL n 1 131 MET n 1 132 THR n 1 133 PRO n 1 134 THR n 1 135 GLU n 1 136 LEU n 1 137 VAL n 1 138 LYS n 1 139 ALA n 1 140 MET n 1 141 LYS n 1 142 LEU n 1 143 GLY n 1 144 HIS n 1 145 THR n 1 146 ILE n 1 147 LEU n 1 148 LYS n 1 149 LEU n 1 150 PHE n 1 151 PRO n 1 152 GLY n 1 153 GLU n 1 154 VAL n 1 155 VAL n 1 156 GLY n 1 157 PRO n 1 158 GLN n 1 159 PHE n 1 160 VAL n 1 161 LYS n 1 162 ALA n 1 163 MET n 1 164 LYS n 1 165 GLY n 1 166 PRO n 1 167 PHE n 1 168 PRO n 1 169 ASN n 1 170 VAL n 1 171 LYS n 1 172 PHE n 1 173 VAL n 1 174 PRO n 1 175 THR n 1 176 GLY n 1 177 GLY n 1 178 VAL n 1 179 ASN n 1 180 LEU n 1 181 ASP n 1 182 ASN n 1 183 VAL n 1 184 CYS n 1 185 GLU n 1 186 TRP n 1 187 PHE n 1 188 LYS n 1 189 ALA n 1 190 GLY n 1 191 VAL n 1 192 LEU n 1 193 ALA n 1 194 VAL n 1 195 GLY n 1 196 VAL n 1 197 GLY n 1 198 SER n 1 199 ALA n 1 200 LEU n 1 201 VAL n 1 202 LYS n 1 203 GLY n 1 204 THR n 1 205 PRO n 1 206 VAL n 1 207 GLU n 1 208 VAL n 1 209 ALA n 1 210 GLU n 1 211 LYS n 1 212 ALA n 1 213 LYS n 1 214 ALA n 1 215 PHE n 1 216 VAL n 1 217 GLU n 1 218 LYS n 1 219 ILE n 1 220 ARG n 1 221 GLY n 1 222 CYS n 1 223 THR n 1 224 GLU 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 224 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene TM_0066 _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 'Thermotoga maritima' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 2336 _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 BL21(DE3)' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _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 'BL21(DE3)' _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 'pET29-based plasmid' _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pSL1013 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q9WXS1_THEMA _struct_ref.pdbx_db_accession Q9WXS1 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MKMEELFKKHKIVAVLRANSVEEAKEKALAVFEGGVHLIEITFTVPDADTVIKELSFLKEKGAIIGAGTVTSVEQCRKAV ESGAEFIVSPHLDEEISQFCKEKGVFYMPGVMTPTELVKAMKLGHTILKLFPGEVVGPQFVKAMKGPFPNVKFVPTGGVN LDNVCEWFKAGVLAVGVGSALVKGTPDEVREKAKAFVEKIRGCTE ; _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 8E01 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 20 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 224 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9WXS1 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 205 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 20 _struct_ref_seq.pdbx_auth_seq_align_end 224 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 8E01 MET A 1 ? UNP Q9WXS1 ? ? 'initiating methionine' 1 1 1 8E01 HIS A 2 ? UNP Q9WXS1 ? ? 'expression tag' 2 2 1 8E01 HIS A 3 ? UNP Q9WXS1 ? ? 'expression tag' 3 3 1 8E01 HIS A 4 ? UNP Q9WXS1 ? ? 'expression tag' 4 4 1 8E01 HIS A 5 ? UNP Q9WXS1 ? ? 'expression tag' 5 5 1 8E01 HIS A 6 ? UNP Q9WXS1 ? ? 'expression tag' 6 6 1 8E01 HIS A 7 ? UNP Q9WXS1 ? ? 'expression tag' 7 7 1 8E01 GLY A 8 ? UNP Q9WXS1 ? ? 'expression tag' 8 8 1 8E01 GLY A 9 ? UNP Q9WXS1 ? ? 'expression tag' 9 9 1 8E01 SER A 10 ? UNP Q9WXS1 ? ? 'expression tag' 10 10 1 8E01 GLY A 11 ? UNP Q9WXS1 ? ? 'expression tag' 11 11 1 8E01 GLY A 12 ? UNP Q9WXS1 ? ? 'expression tag' 12 12 1 8E01 SER A 13 ? UNP Q9WXS1 ? ? 'expression tag' 13 13 1 8E01 GLY A 14 ? UNP Q9WXS1 ? ? 'expression tag' 14 14 1 8E01 GLY A 15 ? UNP Q9WXS1 ? ? 'expression tag' 15 15 1 8E01 SER A 16 ? UNP Q9WXS1 ? ? 'expression tag' 16 16 1 8E01 GLY A 17 ? UNP Q9WXS1 ? ? 'expression tag' 17 17 1 8E01 GLY A 18 ? UNP Q9WXS1 ? ? 'expression tag' 18 18 1 8E01 SER A 19 ? UNP Q9WXS1 ? ? 'expression tag' 19 19 1 8E01 LYS A 45 ? UNP Q9WXS1 GLU 26 conflict 45 20 1 8E01 LEU A 52 ? UNP Q9WXS1 GLU 33 conflict 52 21 1 8E01 MET A 80 ? UNP Q9WXS1 LYS 61 conflict 80 22 1 8E01 VAL A 206 ? UNP Q9WXS1 ASP 187 conflict 206 23 1 8E01 ALA A 209 ? UNP Q9WXS1 ARG 190 conflict 209 24 # 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 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 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 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 8E01 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.entry_id 8E01 _refine.pdbx_diffrn_id ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high . _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # 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' ? 0.002 ? 92880 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.514 ? 125280 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 5.150 ? 12300 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.043 ? 14700 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.004 ? 15780 ? f_plane_restr ? ? # _struct.entry_id 8E01 _struct.title 'Structure of engineered nano-cage fusion protein' _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 8E01 _struct_keywords.text 'nano-cage, self-assembly, fusion protein, PROTEIN BINDING' _struct_keywords.pdbx_keywords 'PROTEIN BINDING' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # 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 GLU A 24 ? LYS A 30 ? GLU A 24 LYS A 30 1 ? 7 HELX_P HELX_P2 AA2 SER A 39 ? GLY A 53 ? SER A 39 GLY A 53 1 ? 15 HELX_P HELX_P3 AA3 ASP A 66 ? LEU A 74 ? ASP A 66 LEU A 74 1 ? 9 HELX_P HELX_P4 AA4 SER A 75 ? MET A 80 ? SER A 75 MET A 80 1 ? 6 HELX_P HELX_P5 AA5 SER A 91 ? SER A 101 ? SER A 91 SER A 101 1 ? 11 HELX_P HELX_P6 AA6 ASP A 112 ? GLY A 123 ? ASP A 112 GLY A 123 1 ? 12 HELX_P HELX_P7 AA7 THR A 132 ? GLY A 143 ? THR A 132 GLY A 143 1 ? 12 HELX_P HELX_P8 AA8 PRO A 157 ? LYS A 164 ? PRO A 157 LYS A 164 1 ? 8 HELX_P HELX_P9 AA9 ASN A 182 ? GLY A 190 ? ASN A 182 GLY A 190 1 ? 9 HELX_P HELX_P10 AB1 THR A 204 ? CYS A 222 ? THR A 204 CYS A 222 1 ? 19 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_conn.id disulf1 _struct_conn.conn_type_id disulf _struct_conn.pdbx_leaving_atom_flag ? _struct_conn.pdbx_PDB_id ? _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 184 _struct_conn.ptnr1_label_atom_id SG _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 A _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 222 _struct_conn.ptnr2_label_atom_id SG _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 CYS _struct_conn.ptnr1_auth_seq_id 184 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 222 _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 2.032 _struct_conn.pdbx_value_order ? _struct_conn.pdbx_role ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id PHE _struct_mon_prot_cis.label_seq_id 150 _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 PHE _struct_mon_prot_cis.auth_seq_id 150 _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_2 151 _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_2 151 _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 -3.91 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 2 ? AA3 ? 3 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? parallel AA1 2 3 ? parallel AA1 3 4 ? parallel AA2 1 2 ? parallel AA3 1 2 ? parallel AA3 2 3 ? parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 ILE A 83 ? GLY A 87 ? ILE A 83 GLY A 87 AA1 2 LEU A 57 ? THR A 61 ? LEU A 57 THR A 61 AA1 3 ILE A 31 ? LEU A 35 ? ILE A 31 LEU A 35 AA1 4 VAL A 194 ? VAL A 196 ? VAL A 194 VAL A 196 AA2 1 PHE A 105 ? VAL A 107 ? PHE A 105 VAL A 107 AA2 2 PHE A 125 ? MET A 127 ? PHE A 125 MET A 127 AA3 1 GLY A 129 ? VAL A 130 ? GLY A 129 VAL A 130 AA3 2 ILE A 146 ? LEU A 149 ? ILE A 146 LEU A 149 AA3 3 LYS A 171 ? VAL A 173 ? LYS A 171 VAL A 173 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 O GLY A 85 ? O GLY A 85 N ILE A 60 ? N ILE A 60 AA1 2 3 O GLU A 59 ? O GLU A 59 N ALA A 33 ? N ALA A 33 AA1 3 4 N VAL A 34 ? N VAL A 34 O VAL A 196 ? O VAL A 196 AA2 1 2 N ILE A 106 ? N ILE A 106 O MET A 127 ? O MET A 127 AA3 1 2 N VAL A 130 ? N VAL A 130 O LYS A 148 ? O LYS A 148 AA3 2 3 N LEU A 147 ? N LEU A 147 O VAL A 173 ? O VAL A 173 # _atom_sites.entry_id 8E01 _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _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 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C 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 1 ? ? ? A . n A 1 2 HIS 2 2 ? ? ? A . n A 1 3 HIS 3 3 ? ? ? A . n A 1 4 HIS 4 4 ? ? ? A . n A 1 5 HIS 5 5 ? ? ? A . n A 1 6 HIS 6 6 ? ? ? A . n A 1 7 HIS 7 7 ? ? ? A . n A 1 8 GLY 8 8 ? ? ? A . n A 1 9 GLY 9 9 ? ? ? A . n A 1 10 SER 10 10 ? ? ? A . n A 1 11 GLY 11 11 ? ? ? A . n A 1 12 GLY 12 12 ? ? ? A . n A 1 13 SER 13 13 ? ? ? A . n A 1 14 GLY 14 14 ? ? ? A . n A 1 15 GLY 15 15 ? ? ? A . n A 1 16 SER 16 16 ? ? ? A . n A 1 17 GLY 17 17 ? ? ? A . n A 1 18 GLY 18 18 ? ? ? A . n A 1 19 SER 19 19 ? ? ? A . n A 1 20 MET 20 20 ? ? ? A . n A 1 21 LYS 21 21 ? ? ? A . n A 1 22 MET 22 22 22 MET MET A . n A 1 23 GLU 23 23 23 GLU GLU A . n A 1 24 GLU 24 24 24 GLU GLU A . n A 1 25 LEU 25 25 25 LEU LEU A . n A 1 26 PHE 26 26 26 PHE PHE A . n A 1 27 LYS 27 27 27 LYS LYS A . n A 1 28 LYS 28 28 28 LYS LYS A . n A 1 29 HIS 29 29 29 HIS HIS A . n A 1 30 LYS 30 30 30 LYS LYS A . n A 1 31 ILE 31 31 31 ILE ILE A . n A 1 32 VAL 32 32 32 VAL VAL A . n A 1 33 ALA 33 33 33 ALA ALA A . n A 1 34 VAL 34 34 34 VAL VAL A . n A 1 35 LEU 35 35 35 LEU LEU A . n A 1 36 ARG 36 36 36 ARG ARG A . n A 1 37 ALA 37 37 37 ALA ALA A . n A 1 38 ASN 38 38 38 ASN ASN A . n A 1 39 SER 39 39 39 SER SER A . n A 1 40 VAL 40 40 40 VAL VAL A . n A 1 41 GLU 41 41 41 GLU GLU A . n A 1 42 GLU 42 42 42 GLU GLU A . n A 1 43 ALA 43 43 43 ALA ALA A . n A 1 44 LYS 44 44 44 LYS LYS A . n A 1 45 LYS 45 45 45 LYS LYS A . n A 1 46 LYS 46 46 46 LYS LYS A . n A 1 47 ALA 47 47 47 ALA ALA A . n A 1 48 LEU 48 48 48 LEU LEU A . n A 1 49 ALA 49 49 49 ALA ALA A . n A 1 50 VAL 50 50 50 VAL VAL A . n A 1 51 PHE 51 51 51 PHE PHE A . n A 1 52 LEU 52 52 52 LEU LEU A . n A 1 53 GLY 53 53 53 GLY GLY A . n A 1 54 GLY 54 54 54 GLY GLY A . n A 1 55 VAL 55 55 55 VAL VAL A . n A 1 56 HIS 56 56 56 HIS HIS A . n A 1 57 LEU 57 57 57 LEU LEU A . n A 1 58 ILE 58 58 58 ILE ILE A . n A 1 59 GLU 59 59 59 GLU GLU A . n A 1 60 ILE 60 60 60 ILE ILE A . n A 1 61 THR 61 61 61 THR THR A . n A 1 62 PHE 62 62 62 PHE PHE A . n A 1 63 THR 63 63 63 THR THR A . n A 1 64 VAL 64 64 64 VAL VAL A . n A 1 65 PRO 65 65 65 PRO PRO A . n A 1 66 ASP 66 66 66 ASP ASP A . n A 1 67 ALA 67 67 67 ALA ALA A . n A 1 68 ASP 68 68 68 ASP ASP A . n A 1 69 THR 69 69 69 THR THR A . n A 1 70 VAL 70 70 70 VAL VAL A . n A 1 71 ILE 71 71 71 ILE ILE A . n A 1 72 LYS 72 72 72 LYS LYS A . n A 1 73 GLU 73 73 73 GLU GLU A . n A 1 74 LEU 74 74 74 LEU LEU A . n A 1 75 SER 75 75 75 SER SER A . n A 1 76 PHE 76 76 76 PHE PHE A . n A 1 77 LEU 77 77 77 LEU LEU A . n A 1 78 LYS 78 78 78 LYS LYS A . n A 1 79 GLU 79 79 79 GLU GLU A . n A 1 80 MET 80 80 80 MET MET A . n A 1 81 GLY 81 81 81 GLY GLY A . n A 1 82 ALA 82 82 82 ALA ALA A . n A 1 83 ILE 83 83 83 ILE ILE A . n A 1 84 ILE 84 84 84 ILE ILE A . n A 1 85 GLY 85 85 85 GLY GLY A . n A 1 86 ALA 86 86 86 ALA ALA A . n A 1 87 GLY 87 87 87 GLY GLY A . n A 1 88 THR 88 88 88 THR THR A . n A 1 89 VAL 89 89 89 VAL VAL A . n A 1 90 THR 90 90 90 THR THR A . n A 1 91 SER 91 91 91 SER SER A . n A 1 92 VAL 92 92 92 VAL VAL A . n A 1 93 GLU 93 93 93 GLU GLU A . n A 1 94 GLN 94 94 94 GLN GLN A . n A 1 95 CYS 95 95 95 CYS CYS A . n A 1 96 ARG 96 96 96 ARG ARG A . n A 1 97 LYS 97 97 97 LYS LYS A . n A 1 98 ALA 98 98 98 ALA ALA A . n A 1 99 VAL 99 99 99 VAL VAL A . n A 1 100 GLU 100 100 100 GLU GLU A . n A 1 101 SER 101 101 101 SER SER A . n A 1 102 GLY 102 102 102 GLY GLY A . n A 1 103 ALA 103 103 103 ALA ALA A . n A 1 104 GLU 104 104 104 GLU GLU A . n A 1 105 PHE 105 105 105 PHE PHE A . n A 1 106 ILE 106 106 106 ILE ILE A . n A 1 107 VAL 107 107 107 VAL VAL A . n A 1 108 SER 108 108 108 SER SER A . n A 1 109 PRO 109 109 109 PRO PRO A . n A 1 110 HIS 110 110 110 HIS HIS A . n A 1 111 LEU 111 111 111 LEU LEU A . n A 1 112 ASP 112 112 112 ASP ASP A . n A 1 113 GLU 113 113 113 GLU GLU A . n A 1 114 GLU 114 114 114 GLU GLU A . n A 1 115 ILE 115 115 115 ILE ILE A . n A 1 116 SER 116 116 116 SER SER A . n A 1 117 GLN 117 117 117 GLN GLN A . n A 1 118 PHE 118 118 118 PHE PHE A . n A 1 119 CYS 119 119 119 CYS CYS A . n A 1 120 LYS 120 120 120 LYS LYS A . n A 1 121 GLU 121 121 121 GLU GLU A . n A 1 122 LYS 122 122 122 LYS LYS A . n A 1 123 GLY 123 123 123 GLY GLY A . n A 1 124 VAL 124 124 124 VAL VAL A . n A 1 125 PHE 125 125 125 PHE PHE A . n A 1 126 TYR 126 126 126 TYR TYR A . n A 1 127 MET 127 127 127 MET MET A . n A 1 128 PRO 128 128 128 PRO PRO A . n A 1 129 GLY 129 129 129 GLY GLY A . n A 1 130 VAL 130 130 130 VAL VAL A . n A 1 131 MET 131 131 131 MET MET A . n A 1 132 THR 132 132 132 THR THR A . n A 1 133 PRO 133 133 133 PRO PRO A . n A 1 134 THR 134 134 134 THR THR A . n A 1 135 GLU 135 135 135 GLU GLU A . n A 1 136 LEU 136 136 136 LEU LEU A . n A 1 137 VAL 137 137 137 VAL VAL A . n A 1 138 LYS 138 138 138 LYS LYS A . n A 1 139 ALA 139 139 139 ALA ALA A . n A 1 140 MET 140 140 140 MET MET A . n A 1 141 LYS 141 141 141 LYS LYS A . n A 1 142 LEU 142 142 142 LEU LEU A . n A 1 143 GLY 143 143 143 GLY GLY A . n A 1 144 HIS 144 144 144 HIS HIS A . n A 1 145 THR 145 145 145 THR THR A . n A 1 146 ILE 146 146 146 ILE ILE A . n A 1 147 LEU 147 147 147 LEU LEU A . n A 1 148 LYS 148 148 148 LYS LYS A . n A 1 149 LEU 149 149 149 LEU LEU A . n A 1 150 PHE 150 150 150 PHE PHE A . n A 1 151 PRO 151 151 151 PRO PRO A . n A 1 152 GLY 152 152 152 GLY GLY A . n A 1 153 GLU 153 153 153 GLU GLU A . n A 1 154 VAL 154 154 154 VAL VAL A . n A 1 155 VAL 155 155 155 VAL VAL A . n A 1 156 GLY 156 156 156 GLY GLY A . n A 1 157 PRO 157 157 157 PRO PRO A . n A 1 158 GLN 158 158 158 GLN GLN A . n A 1 159 PHE 159 159 159 PHE PHE A . n A 1 160 VAL 160 160 160 VAL VAL A . n A 1 161 LYS 161 161 161 LYS LYS A . n A 1 162 ALA 162 162 162 ALA ALA A . n A 1 163 MET 163 163 163 MET MET A . n A 1 164 LYS 164 164 164 LYS LYS A . n A 1 165 GLY 165 165 165 GLY GLY A . n A 1 166 PRO 166 166 166 PRO PRO A . n A 1 167 PHE 167 167 167 PHE PHE A . n A 1 168 PRO 168 168 168 PRO PRO A . n A 1 169 ASN 169 169 169 ASN ASN A . n A 1 170 VAL 170 170 170 VAL VAL A . n A 1 171 LYS 171 171 171 LYS LYS A . n A 1 172 PHE 172 172 172 PHE PHE A . n A 1 173 VAL 173 173 173 VAL VAL A . n A 1 174 PRO 174 174 174 PRO PRO A . n A 1 175 THR 175 175 175 THR THR A . n A 1 176 GLY 176 176 176 GLY GLY A . n A 1 177 GLY 177 177 177 GLY GLY A . n A 1 178 VAL 178 178 178 VAL VAL A . n A 1 179 ASN 179 179 179 ASN ASN A . n A 1 180 LEU 180 180 180 LEU LEU A . n A 1 181 ASP 181 181 181 ASP ASP A . n A 1 182 ASN 182 182 182 ASN ASN A . n A 1 183 VAL 183 183 183 VAL VAL A . n A 1 184 CYS 184 184 184 CYS CYS A . n A 1 185 GLU 185 185 185 GLU GLU A . n A 1 186 TRP 186 186 186 TRP TRP A . n A 1 187 PHE 187 187 187 PHE PHE A . n A 1 188 LYS 188 188 188 LYS LYS A . n A 1 189 ALA 189 189 189 ALA ALA A . n A 1 190 GLY 190 190 190 GLY GLY A . n A 1 191 VAL 191 191 191 VAL VAL A . n A 1 192 LEU 192 192 192 LEU LEU A . n A 1 193 ALA 193 193 193 ALA ALA A . n A 1 194 VAL 194 194 194 VAL VAL A . n A 1 195 GLY 195 195 195 GLY GLY A . n A 1 196 VAL 196 196 196 VAL VAL A . n A 1 197 GLY 197 197 197 GLY GLY A . n A 1 198 SER 198 198 198 SER SER A . n A 1 199 ALA 199 199 199 ALA ALA A . n A 1 200 LEU 200 200 200 LEU LEU A . n A 1 201 VAL 201 201 201 VAL VAL A . n A 1 202 LYS 202 202 202 LYS LYS A . n A 1 203 GLY 203 203 203 GLY GLY A . n A 1 204 THR 204 204 204 THR THR A . n A 1 205 PRO 205 205 205 PRO PRO A . n A 1 206 VAL 206 206 206 VAL VAL A . n A 1 207 GLU 207 207 207 GLU GLU A . n A 1 208 VAL 208 208 208 VAL VAL A . n A 1 209 ALA 209 209 209 ALA ALA A . n A 1 210 GLU 210 210 210 GLU GLU A . n A 1 211 LYS 211 211 211 LYS LYS A . n A 1 212 ALA 212 212 212 ALA ALA A . n A 1 213 LYS 213 213 213 LYS LYS A . n A 1 214 ALA 214 214 214 ALA ALA A . n A 1 215 PHE 215 215 215 PHE PHE A . n A 1 216 VAL 216 216 216 VAL VAL A . n A 1 217 GLU 217 217 217 GLU GLU A . n A 1 218 LYS 218 218 218 LYS LYS A . n A 1 219 ILE 219 219 219 ILE ILE A . n A 1 220 ARG 220 220 220 ARG ARG A . n A 1 221 GLY 221 221 221 GLY GLY A . n A 1 222 CYS 222 222 222 CYS CYS A . n A 1 223 THR 223 223 ? ? ? A . n A 1 224 GLU 224 224 ? ? ? A . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email suh12@psu.edu _pdbx_contact_author.name_first Susan _pdbx_contact_author.name_last Hafenstein _pdbx_contact_author.name_mi L _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-2609-4036 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 'complete icosahedral assembly' ? 60-meric 60 2 'icosahedral asymmetric unit' ? monomeric 1 3 'icosahedral pentamer' ? pentameric 5 4 'icosahedral 23 hexamer' ? hexameric 6 5 'icosahedral asymmetric unit, std point frame' ? monomeric 1 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 '(1-60)' A 2 1 A 3 '(1-5)' A 4 '(1,2,6,10,23,24)' A 5 P A # 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] P 'transform to point frame' ? ? 0.30901699 -0.80901699 0.50000000 0.54999 0.80901699 0.50000000 0.30901699 -0.55002 -0.50000000 0.30901699 0.80901699 0.54999 1 'identity operation' 1_555 x,y,z 1.00000000 0.00000000 0.00000000 0.00000 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 0.00000 2 'point symmetry operation' ? ? 0.30901699 -0.80901700 0.50000000 1.10000 0.80901699 0.50000000 0.30901699 -0.00002 -0.50000000 0.30901699 0.80901700 0.00000 3 'point symmetry operation' ? ? -0.80901700 -0.50000000 0.30901700 1.43994 0.50000000 -0.30901699 0.80901700 0.88990 -0.30901700 0.80901699 0.50000000 -0.54999 4 'point symmetry operation' ? ? -0.80901699 0.50000000 -0.30901700 0.55003 -0.50000000 -0.30901700 0.80901700 1.43992 0.30901699 0.80901700 0.50000000 -0.88992 5 'point symmetry operation' ? ? 0.30901700 0.80901699 -0.50000000 -0.33990 -0.80901699 0.50000000 0.30901700 0.88993 0.50000000 0.30901700 0.80901699 -0.55001 6 'point symmetry operation' ? ? -0.50000000 -0.30901699 -0.80901699 0.55004 -0.30901700 -0.80901699 0.50000001 1.43992 -0.80901700 0.49999999 0.30901699 -0.21006 7 'point symmetry operation' ? ? 0.00000000 0.00000000 -1.00000000 0.00003 -1.00000000 0.00000000 0.00000000 1.10002 0.00000000 1.00000000 0.00000000 -1.09999 8 'point symmetry operation' ? ? 0.50000000 -0.30901699 -0.80901699 0.00002 -0.30901699 0.80901700 -0.50000000 0.00001 0.80901700 0.50000000 0.30901699 -1.10000 9 'point symmetry operation' ? ? 0.30901699 -0.80901699 -0.50000000 0.55002 0.80901700 0.50000000 -0.30901699 -0.33992 0.50000000 -0.30901700 0.80901699 -0.21008 10 'point symmetry operation' ? ? -0.30901700 -0.80901699 -0.50000000 0.88995 0.80901699 -0.50000000 0.30901700 0.54999 -0.50000000 -0.30901700 0.80901699 0.33993 11 'point symmetry operation' ? ? 0.30901699 0.80901700 0.49999999 0.21008 0.80901699 -0.50000000 0.30901699 0.54999 0.50000001 0.30901700 -0.80901699 -1.43989 12 'point symmetry operation' ? ? 0.50000000 0.30901700 0.80901699 0.54999 -0.30901700 -0.80901700 0.50000000 1.43992 0.80901700 -0.50000000 -0.30901699 -0.88990 13 'point symmetry operation' ? ? 0.00000000 0.00000000 1.00000000 1.10000 -1.00000000 0.00000000 0.00000000 1.10002 0.00000000 -1.00000000 0.00000000 0.00002 14 'point symmetry operation' ? ? -0.50000000 0.30901699 0.80901700 1.10000 -0.30901699 0.80901699 -0.50000000 0.00001 -0.80901700 -0.50000000 -0.30901699 0.00004 15 'point symmetry operation' ? ? -0.30901700 0.80901699 0.50000000 0.55001 0.80901699 0.50000000 -0.30901700 -0.33992 -0.50000000 0.30901700 -0.80901699 -0.88988 16 'point symmetry operation' ? ? -0.80901699 -0.50000001 0.30901700 1.43994 -0.49999999 0.30901699 -0.80901700 0.21011 0.30901699 -0.80901699 -0.50000000 -0.54997 17 'point symmetry operation' ? ? -0.80901699 0.50000000 -0.30901699 0.55003 0.50000000 0.30901699 -0.80901700 -0.33991 -0.30901700 -0.80901699 -0.50000000 -0.21004 18 'point symmetry operation' ? ? 0.30901699 0.80901700 -0.50000000 -0.33990 0.80901699 -0.50000000 -0.30901700 0.21008 -0.50000000 -0.30901699 -0.80901699 -0.54996 19 'point symmetry operation' ? ? 1.00000000 0.00000000 0.00000000 0.00000 0.00000000 -1.00000000 0.00000000 1.10001 0.00000000 0.00000000 -1.00000000 -1.09996 20 'point symmetry operation' ? ? 0.30901700 -0.80901699 0.50000000 1.10000 -0.80901699 -0.50000000 -0.30901700 1.10003 0.50000000 -0.30901700 -0.80901699 -1.09997 21 'point symmetry operation' ? ? -0.30901700 -0.80901699 0.50000001 1.43993 0.80901700 -0.49999999 -0.30901699 0.21008 0.50000000 0.30901699 0.80901699 -0.55000 22 'point symmetry operation' ? ? -1.00000000 0.00000000 0.00000000 1.10003 0.00000000 -1.00000000 0.00000000 1.10001 0.00000000 0.00000000 1.00000000 0.00000 23 'point symmetry operation' ? ? -0.30901699 0.80901700 -0.50000000 0.00002 -0.80901700 -0.50000000 -0.30901699 1.10003 -0.50000000 0.30901699 0.80901699 0.00000 24 'point symmetry operation' ? ? 0.80901700 0.50000000 -0.30901699 -0.33991 -0.50000000 0.30901700 -0.80901699 0.21011 -0.30901699 0.80901699 0.50000000 -0.54999 25 'point symmetry operation' ? ? 0.80901699 -0.50000000 0.30901700 0.55000 0.50000000 0.30901700 -0.80901699 -0.33991 0.30901700 0.80901699 0.50000000 -0.88992 26 'point symmetry operation' ? ? 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 -1.00000000 0.00002 -1.00000000 0.00000000 0.00000000 0.00003 27 'point symmetry operation' ? ? 0.80901699 0.50000000 0.30901699 0.00000 0.50000000 -0.30901699 -0.80901700 0.00001 -0.30901699 0.80901700 -0.50000000 -1.09997 28 'point symmetry operation' ? ? 0.50000000 -0.30901699 0.80901700 0.88991 0.30901700 -0.80901699 -0.50000000 0.55001 0.80901700 0.50000000 -0.30901700 -1.43991 29 'point symmetry operation' ? ? -0.50000000 -0.30901700 0.80901700 1.43993 -0.30901699 -0.80901700 -0.50000000 0.88994 0.80901699 -0.50000000 0.30901700 -0.55000 30 'point symmetry operation' ? ? -0.80901699 0.50000000 0.30901700 0.88994 -0.50000000 -0.30901700 -0.80901699 0.55003 -0.30901700 -0.80901699 0.50000000 0.33994 31 'point symmetry operation' ? ? -0.49999999 0.30901699 -0.80901700 0.21012 -0.30901699 0.80901699 0.50000000 0.55000 0.80901699 0.50000001 -0.30901700 -1.43991 32 'point symmetry operation' ? ? 0.50000000 0.30901699 -0.80901700 -0.33990 0.30901700 0.80901699 0.50000000 0.21007 0.80901699 -0.50000000 0.30901699 -0.55000 33 'point symmetry operation' ? ? 0.80901699 -0.50000000 -0.30901700 0.21009 0.50000000 0.30901699 0.80901699 0.54998 -0.30901699 -0.80901700 0.50000000 0.33994 34 'point symmetry operation' ? ? 0.00000000 -1.00000000 0.00000000 1.10002 0.00000000 0.00000000 1.00000000 1.09999 -1.00000000 0.00000000 0.00000000 0.00003 35 'point symmetry operation' ? ? -0.80901699 -0.50000000 -0.30901700 1.10003 -0.50000000 0.30901700 0.80901699 1.10000 -0.30901700 0.80901699 -0.50000000 -1.09997 36 'point symmetry operation' ? ? 0.80901699 -0.50000000 0.30901699 0.55000 -0.50000001 -0.30901700 0.80901699 1.43992 -0.30901699 -0.80901700 -0.49999999 -0.21004 37 'point symmetry operation' ? ? -0.30901700 -0.80901700 0.50000000 1.43993 -0.80901700 0.50000000 0.30901699 0.88993 -0.50000000 -0.30901700 -0.80901699 -0.54996 38 'point symmetry operation' ? ? -1.00000000 0.00000000 0.00000000 1.10003 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 -1.00000000 -1.09996 39 'point symmetry operation' ? ? -0.30901699 0.80901699 -0.50000000 0.00002 0.80901700 0.50000000 0.30901699 -0.00002 0.50000000 -0.30901699 -0.80901700 -1.09997 40 'point symmetry operation' ? ? 0.80901699 0.50000000 -0.30901700 -0.33991 0.50000000 -0.30901700 0.80901699 0.88990 0.30901700 -0.80901699 -0.50000000 -0.54997 41 'point symmetry operation' ? ? -0.30901699 0.80901699 0.50000000 0.55000 -0.80901699 -0.50000001 0.30901700 1.43993 0.49999999 -0.30901699 0.80901700 -0.21008 42 'point symmetry operation' ? ? 0.30901700 0.80901699 0.50000000 0.21008 -0.80901699 0.50000000 -0.30901699 0.55002 -0.50000000 -0.30901699 0.80901700 0.33993 43 'point symmetry operation' ? ? 0.50000000 0.30901699 0.80901699 0.54999 0.30901699 0.80901700 -0.50000000 -0.33991 -0.80901699 0.50000000 0.30901700 -0.21006 44 'point symmetry operation' ? ? 0.00000000 0.00000000 1.00000000 1.10000 1.00000000 0.00000000 0.00000000 0.00000 0.00000000 1.00000000 0.00000000 -1.09999 45 'point symmetry operation' ? ? -0.50000000 0.30901700 0.80901699 1.10000 0.30901700 -0.80901699 0.50000000 1.09999 0.80901699 0.50000000 0.30901700 -1.10000 46 'point symmetry operation' ? ? -0.50000001 -0.30901700 0.80901699 1.43993 0.30901699 0.80901700 0.49999999 0.21007 -0.80901699 0.50000000 -0.30901699 -0.54997 47 'point symmetry operation' ? ? -0.80901700 0.50000000 0.30901699 0.88994 0.50000000 0.30901700 0.80901699 0.54998 0.30901700 0.80901700 -0.50000000 -1.43990 48 'point symmetry operation' ? ? 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 1.09999 1.00000000 0.00000000 0.00000000 -1.10000 49 'point symmetry operation' ? ? 0.80901700 0.50000000 0.30901699 0.00000 -0.50000000 0.30901699 0.80901700 1.10000 0.30901699 -0.80901699 0.50000000 0.00000 50 'point symmetry operation' ? ? 0.50000000 -0.30901700 0.80901699 0.88991 -0.30901700 0.80901699 0.50000000 0.55000 -0.80901699 -0.50000000 0.30901700 0.33995 51 'point symmetry operation' ? ? 0.80901700 -0.49999999 -0.30901699 0.21009 -0.50000000 -0.30901699 -0.80901699 0.55003 0.30901700 0.80901699 -0.50000001 -1.43990 52 'point symmetry operation' ? ? 0.00000000 -1.00000000 0.00000000 1.10002 0.00000000 0.00000000 -1.00000000 0.00002 1.00000000 0.00000000 0.00000000 -1.10000 53 'point symmetry operation' ? ? -0.80901700 -0.50000000 -0.30901699 1.10003 0.50000000 -0.30901699 -0.80901699 0.00001 0.30901699 -0.80901700 0.50000000 0.00000 54 'point symmetry operation' ? ? -0.50000000 0.30901700 -0.80901699 0.21012 0.30901699 -0.80901699 -0.50000000 0.55001 -0.80901700 -0.50000000 0.30901699 0.33995 55 'point symmetry operation' ? ? 0.50000000 0.30901700 -0.80901699 -0.33990 -0.30901700 -0.80901699 -0.50000000 0.88994 -0.80901699 0.50000000 -0.30901700 -0.54997 56 'point symmetry operation' ? ? 0.00000000 0.00000000 -1.00000000 0.00003 1.00000000 0.00000000 0.00000000 0.00000 0.00000000 -1.00000000 0.00000000 0.00002 57 'point symmetry operation' ? ? 0.50000000 -0.30901699 -0.80901700 0.00002 0.30901699 -0.80901700 0.50000000 1.10000 -0.80901699 -0.50000000 -0.30901699 0.00004 58 'point symmetry operation' ? ? 0.30901700 -0.80901699 -0.50000000 0.55002 -0.80901700 -0.50000000 0.30901700 1.43993 -0.50000000 0.30901699 -0.80901700 -0.88988 59 'point symmetry operation' ? ? -0.30901699 -0.80901700 -0.50000000 0.88995 -0.80901699 0.50000000 -0.30901700 0.55002 0.50000000 0.30901700 -0.80901700 -1.43989 60 'point symmetry operation' ? ? -0.50000000 -0.30901700 -0.80901699 0.55004 0.30901700 0.80901699 -0.50000000 -0.33991 0.80901699 -0.50000000 -0.30901700 -0.88990 # _pdbx_point_symmetry.entry_id 8E01 _pdbx_point_symmetry.Schoenflies_symbol I # 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 2022-11-16 2 'Structure model' 1 1 2022-12-28 # _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 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.title' 2 2 'Structure model' '_citation_author.name' # _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 1.20.1-4487_4487: _software.pdbx_ordinal 1 # _em_3d_fitting.entry_id 8E01 _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value 69.1 _em_3d_fitting.ref_protocol 'RIGID BODY FIT' _em_3d_fitting.ref_space REAL _em_3d_fitting.target_criteria 'Correlation coefficient' _em_3d_fitting.method ? # _em_3d_reconstruction.entry_id 8E01 _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 ? _em_3d_reconstruction.num_particles 63430 _em_3d_reconstruction.resolution 3.4 _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 'Tris, 100 mM NaCl, 1 mM DTT' _em_buffer.pH 8.1 _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 Nano-cage _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_image_scans.entry_id 8E01 _em_image_scans.id 1 _em_image_scans.dimension_height 4096 _em_image_scans.dimension_width 4096 _em_image_scans.frames_per_image ? _em_image_scans.image_recording_id 1 _em_image_scans.sampling_size ? _em_image_scans.scanner_model ? _em_image_scans.used_frames_per_image ? _em_image_scans.citation_id ? _em_image_scans.number_digital_images ? _em_image_scans.od_range ? _em_image_scans.quant_bit_size ? _em_image_scans.details ? # _em_imaging.id 1 _em_imaging.entry_id 8E01 _em_imaging.accelerating_voltage 300 _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.calibrated_defocus_max ? _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_magnification ? _em_imaging.cryogen NITROGEN _em_imaging.details ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.illumination_mode 'SPOT SCAN' _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs 0.05 _em_imaging.nominal_defocus_max 3000 _em_imaging.nominal_defocus_min 1200 _em_imaging.nominal_magnification 59000 _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum 100 _em_imaging.residual_tilt ? _em_imaging.specimen_holder_model ? _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 GOLD _em_sample_support.grid_mesh_size 400 _em_sample_support.grid_type 'Quantifoil R2/1' _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 8E01 _em_vitrification.citation_id ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 8E01 _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 8E01 _em_single_particle_entity.id 1 _em_single_particle_entity.image_processing_id 1 _em_single_particle_entity.point_symmetry I # 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 1 ? A MET 1 2 1 Y 1 A HIS 2 ? A HIS 2 3 1 Y 1 A HIS 3 ? A HIS 3 4 1 Y 1 A HIS 4 ? A HIS 4 5 1 Y 1 A HIS 5 ? A HIS 5 6 1 Y 1 A HIS 6 ? A HIS 6 7 1 Y 1 A HIS 7 ? A HIS 7 8 1 Y 1 A GLY 8 ? A GLY 8 9 1 Y 1 A GLY 9 ? A GLY 9 10 1 Y 1 A SER 10 ? A SER 10 11 1 Y 1 A GLY 11 ? A GLY 11 12 1 Y 1 A GLY 12 ? A GLY 12 13 1 Y 1 A SER 13 ? A SER 13 14 1 Y 1 A GLY 14 ? A GLY 14 15 1 Y 1 A GLY 15 ? A GLY 15 16 1 Y 1 A SER 16 ? A SER 16 17 1 Y 1 A GLY 17 ? A GLY 17 18 1 Y 1 A GLY 18 ? A GLY 18 19 1 Y 1 A SER 19 ? A SER 19 20 1 Y 1 A MET 20 ? A MET 20 21 1 Y 1 A LYS 21 ? A LYS 21 22 1 Y 1 A THR 223 ? A THR 223 23 1 Y 1 A GLU 224 ? A GLU 224 # _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 1.3 # _em_entity_assembly_naturalsource.id 1 _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 2336 _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organism 'Thermotoga maritima' _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.id 1 _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.ncbi_tax_id 469008 _em_entity_assembly_recombinant.organism 'Escherichia coli BL21(DE3)' _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 44.85 _em_image_recording.average_exposure_time 69.8 _em_image_recording.details ? _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 1220 _em_image_recording.avg_electron_dose_per_subtomogram ? # _em_imaging_optics.id 1 _em_imaging_optics.imaging_id 1 _em_imaging_optics.chr_aberration_corrector ? _em_imaging_optics.energyfilter_lower ? _em_imaging_optics.energyfilter_name ? _em_imaging_optics.energyfilter_upper ? _em_imaging_optics.energyfilter_slit_width ? _em_imaging_optics.phase_plate ? _em_imaging_optics.sph_aberration_corrector 'Microscope was modified with a Cs corrector.' _em_imaging_optics.details ? # _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 129297 _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' ? cryoSPARC 3.3.2 1 ? ? 2 'IMAGE ACQUISITION' 'Thermo Ficher specialized software' EPU ? ? ? 1 3 MASKING ? ? ? ? ? ? 4 'CTF CORRECTION' ? cryoSPARC 3.3.2 1 ? ? 5 'LAYERLINE INDEXING' ? ? ? ? ? ? 6 'DIFFRACTION INDEXING' ? ? ? ? ? ? 7 'MODEL FITTING' ? 'UCSF ChimeraX' 1.3 ? 1 ? 8 OTHER ? ? ? ? ? ? 9 'INITIAL EULER ASSIGNMENT' ? cryoSPARC 3.3.2 1 ? ? 10 'FINAL EULER ASSIGNMENT' ? cryoSPARC 3.3.2 1 ? ? 11 CLASSIFICATION ? cryoSPARC 3.3.2 1 ? ? 12 RECONSTRUCTION ? cryoSPARC 3.3.2 1 ? ? 13 'MODEL REFINEMENT' ? PHENIX 1.20.1-4487-4487 ? 1 ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration ? _em_specimen.details 'Purified nano-cage protein at 0.1 mg/mL' _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number R01GM125907 _pdbx_audit_support.ordinal 1 # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #