data_7TPK # _entry.id 7TPK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.398 _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 7TPK pdb_00007tpk 10.2210/pdb7tpk/pdb WWPDB D_1000262714 ? ? EMDB EMD-26058 ? ? # 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 2023-02-08 2 'Structure model' 2 0 2024-10-02 3 'Structure model' 2 1 2024-11-06 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 2 'Structure model' author 'Coordinate replacement' 'Model completeness' ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' Advisory 2 2 'Structure model' 'Atomic model' 3 2 'Structure model' 'Author supporting evidence' 4 2 'Structure model' 'Data collection' 5 2 'Structure model' 'Derived calculations' 6 2 'Structure model' 'Structure summary' 7 3 'Structure model' 'Data collection' 8 3 'Structure model' 'Structure summary' # 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' atom_site 2 2 'Structure model' chem_comp_atom 3 2 'Structure model' chem_comp_bond 4 2 'Structure model' em_admin 5 2 'Structure model' em_software 6 2 'Structure model' pdbx_contact_author 7 2 'Structure model' pdbx_entity_instance_feature 8 2 'Structure model' pdbx_entry_details 9 2 'Structure model' pdbx_struct_sheet_hbond 10 2 'Structure model' pdbx_unobs_or_zero_occ_atoms 11 2 'Structure model' pdbx_validate_close_contact 12 2 'Structure model' pdbx_validate_planes 13 2 'Structure model' pdbx_validate_rmsd_angle 14 2 'Structure model' pdbx_validate_torsion 15 2 'Structure model' struct_conf 16 2 'Structure model' struct_conn 17 2 'Structure model' struct_sheet_range 18 3 'Structure model' em_admin 19 3 'Structure model' pdbx_entry_details 20 3 'Structure model' pdbx_modification_feature # 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' '_em_admin.last_update' 2 2 'Structure model' '_pdbx_entry_details.has_ligand_of_interest' 3 2 'Structure model' '_pdbx_struct_sheet_hbond.range_1_auth_comp_id' 4 2 'Structure model' '_pdbx_struct_sheet_hbond.range_1_auth_seq_id' 5 2 'Structure model' '_pdbx_struct_sheet_hbond.range_1_label_comp_id' 6 2 'Structure model' '_pdbx_struct_sheet_hbond.range_1_label_seq_id' 7 2 'Structure model' '_pdbx_struct_sheet_hbond.range_2_auth_comp_id' 8 2 'Structure model' '_pdbx_struct_sheet_hbond.range_2_auth_seq_id' 9 2 'Structure model' '_pdbx_struct_sheet_hbond.range_2_label_comp_id' 10 2 'Structure model' '_pdbx_struct_sheet_hbond.range_2_label_seq_id' 11 2 'Structure model' '_struct_conn.pdbx_dist_value' 12 2 'Structure model' '_struct_sheet_range.beg_auth_comp_id' 13 2 'Structure model' '_struct_sheet_range.beg_auth_seq_id' 14 2 'Structure model' '_struct_sheet_range.beg_label_comp_id' 15 2 'Structure model' '_struct_sheet_range.beg_label_seq_id' 16 2 'Structure model' '_struct_sheet_range.end_auth_comp_id' 17 2 'Structure model' '_struct_sheet_range.end_auth_seq_id' 18 2 'Structure model' '_struct_sheet_range.end_label_comp_id' 19 2 'Structure model' '_struct_sheet_range.end_label_seq_id' 20 3 'Structure model' '_em_admin.last_update' 21 3 'Structure model' '_pdbx_entry_details.has_protein_modification' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7TPK _pdbx_database_status.recvd_initial_deposition_date 2022-01-25 _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 # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'SARS-CoV-2 E406W mutant RBD - Local Refinement' _pdbx_database_related.db_id EMD-26058 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 2 _pdbx_contact_author.email dveesler@uw.edu _pdbx_contact_author.name_first David _pdbx_contact_author.name_last Veesler _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-6019-8675 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Addetia, A.' 1 ? 'Veesler, D.' 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 ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'SARS-CoV-2 E406W mutant RBD - Local Refinement' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Addetia, A.' 1 ? primary 'Veesler, D.' 2 ? # 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 'Spike protein S1' 21833.477 1 ? E406W 'Receptor-binding domain' ? 2 non-polymer syn 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 1 ? ? ? ? # _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 ;TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDWVRQIAP GQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPL QSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCG ; _entity_poly.pdbx_seq_one_letter_code_can ;TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDWVRQIAP GQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPL QSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCG ; _entity_poly.pdbx_strand_id E _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name 2-acetamido-2-deoxy-beta-D-glucopyranose _pdbx_entity_nonpoly.comp_id NAG # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 THR n 1 2 ASN n 1 3 LEU n 1 4 CYS n 1 5 PRO n 1 6 PHE n 1 7 GLY n 1 8 GLU n 1 9 VAL n 1 10 PHE n 1 11 ASN n 1 12 ALA n 1 13 THR n 1 14 ARG n 1 15 PHE n 1 16 ALA n 1 17 SER n 1 18 VAL n 1 19 TYR n 1 20 ALA n 1 21 TRP n 1 22 ASN n 1 23 ARG n 1 24 LYS n 1 25 ARG n 1 26 ILE n 1 27 SER n 1 28 ASN n 1 29 CYS n 1 30 VAL n 1 31 ALA n 1 32 ASP n 1 33 TYR n 1 34 SER n 1 35 VAL n 1 36 LEU n 1 37 TYR n 1 38 ASN n 1 39 SER n 1 40 ALA n 1 41 SER n 1 42 PHE n 1 43 SER n 1 44 THR n 1 45 PHE n 1 46 LYS n 1 47 CYS n 1 48 TYR n 1 49 GLY n 1 50 VAL n 1 51 SER n 1 52 PRO n 1 53 THR n 1 54 LYS n 1 55 LEU n 1 56 ASN n 1 57 ASP n 1 58 LEU n 1 59 CYS n 1 60 PHE n 1 61 THR n 1 62 ASN n 1 63 VAL n 1 64 TYR n 1 65 ALA n 1 66 ASP n 1 67 SER n 1 68 PHE n 1 69 VAL n 1 70 ILE n 1 71 ARG n 1 72 GLY n 1 73 ASP n 1 74 TRP n 1 75 VAL n 1 76 ARG n 1 77 GLN n 1 78 ILE n 1 79 ALA n 1 80 PRO n 1 81 GLY n 1 82 GLN n 1 83 THR n 1 84 GLY n 1 85 LYS n 1 86 ILE n 1 87 ALA n 1 88 ASP n 1 89 TYR n 1 90 ASN n 1 91 TYR n 1 92 LYS n 1 93 LEU n 1 94 PRO n 1 95 ASP n 1 96 ASP n 1 97 PHE n 1 98 THR n 1 99 GLY n 1 100 CYS n 1 101 VAL n 1 102 ILE n 1 103 ALA n 1 104 TRP n 1 105 ASN n 1 106 SER n 1 107 ASN n 1 108 ASN n 1 109 LEU n 1 110 ASP n 1 111 SER n 1 112 LYS n 1 113 VAL n 1 114 GLY n 1 115 GLY n 1 116 ASN n 1 117 TYR n 1 118 ASN n 1 119 TYR n 1 120 LEU n 1 121 TYR n 1 122 ARG n 1 123 LEU n 1 124 PHE n 1 125 ARG n 1 126 LYS n 1 127 SER n 1 128 ASN n 1 129 LEU n 1 130 LYS n 1 131 PRO n 1 132 PHE n 1 133 GLU n 1 134 ARG n 1 135 ASP n 1 136 ILE n 1 137 SER n 1 138 THR n 1 139 GLU n 1 140 ILE n 1 141 TYR n 1 142 GLN n 1 143 ALA n 1 144 GLY n 1 145 SER n 1 146 THR n 1 147 PRO n 1 148 CYS n 1 149 ASN n 1 150 GLY n 1 151 VAL n 1 152 GLU n 1 153 GLY n 1 154 PHE n 1 155 ASN n 1 156 CYS n 1 157 TYR n 1 158 PHE n 1 159 PRO n 1 160 LEU n 1 161 GLN n 1 162 SER n 1 163 TYR n 1 164 GLY n 1 165 PHE n 1 166 GLN n 1 167 PRO n 1 168 THR n 1 169 ASN n 1 170 GLY n 1 171 VAL n 1 172 GLY n 1 173 TYR n 1 174 GLN n 1 175 PRO n 1 176 TYR n 1 177 ARG n 1 178 VAL n 1 179 VAL n 1 180 VAL n 1 181 LEU n 1 182 SER n 1 183 PHE n 1 184 GLU n 1 185 LEU n 1 186 LEU n 1 187 HIS n 1 188 ALA n 1 189 PRO n 1 190 ALA n 1 191 THR n 1 192 VAL n 1 193 CYS n 1 194 GLY 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 194 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'S, 2' _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 'Severe acute respiratory syndrome coronavirus 2' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 2697049 _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 'Homo sapiens' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 9606 _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 ? # 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 NAG 'D-saccharide, beta linking' . 2-acetamido-2-deoxy-beta-D-glucopyranose ;N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE ; 'C8 H15 N O6' 221.208 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 # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier NAG 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DGlcpNAcb NAG 'COMMON NAME' GMML 1.0 N-acetyl-b-D-glucopyranosamine NAG 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-GlcpNAc NAG 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 GlcNAc # 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 THR 1 333 333 THR THR E . n A 1 2 ASN 2 334 334 ASN ASN E . n A 1 3 LEU 3 335 335 LEU LEU E . n A 1 4 CYS 4 336 336 CYS CYS E . n A 1 5 PRO 5 337 337 PRO PRO E . n A 1 6 PHE 6 338 338 PHE PHE E . n A 1 7 GLY 7 339 339 GLY GLY E . n A 1 8 GLU 8 340 340 GLU GLU E . n A 1 9 VAL 9 341 341 VAL VAL E . n A 1 10 PHE 10 342 342 PHE PHE E . n A 1 11 ASN 11 343 343 ASN ASN E . n A 1 12 ALA 12 344 344 ALA ALA E . n A 1 13 THR 13 345 345 THR THR E . n A 1 14 ARG 14 346 346 ARG ARG E . n A 1 15 PHE 15 347 347 PHE PHE E . n A 1 16 ALA 16 348 348 ALA ALA E . n A 1 17 SER 17 349 349 SER SER E . n A 1 18 VAL 18 350 350 VAL VAL E . n A 1 19 TYR 19 351 351 TYR TYR E . n A 1 20 ALA 20 352 352 ALA ALA E . n A 1 21 TRP 21 353 353 TRP TRP E . n A 1 22 ASN 22 354 354 ASN ASN E . n A 1 23 ARG 23 355 355 ARG ARG E . n A 1 24 LYS 24 356 356 LYS LYS E . n A 1 25 ARG 25 357 357 ARG ARG E . n A 1 26 ILE 26 358 358 ILE ILE E . n A 1 27 SER 27 359 359 SER SER E . n A 1 28 ASN 28 360 360 ASN ASN E . n A 1 29 CYS 29 361 361 CYS CYS E . n A 1 30 VAL 30 362 362 VAL VAL E . n A 1 31 ALA 31 363 363 ALA ALA E . n A 1 32 ASP 32 364 364 ASP ASP E . n A 1 33 TYR 33 365 365 TYR TYR E . n A 1 34 SER 34 366 366 SER SER E . n A 1 35 VAL 35 367 367 VAL VAL E . n A 1 36 LEU 36 368 368 LEU LEU E . n A 1 37 TYR 37 369 369 TYR TYR E . n A 1 38 ASN 38 370 370 ASN ASN E . n A 1 39 SER 39 371 371 SER SER E . n A 1 40 ALA 40 372 372 ALA ALA E . n A 1 41 SER 41 373 373 SER SER E . n A 1 42 PHE 42 374 374 PHE PHE E . n A 1 43 SER 43 375 375 SER SER E . n A 1 44 THR 44 376 376 THR THR E . n A 1 45 PHE 45 377 377 PHE PHE E . n A 1 46 LYS 46 378 378 LYS LYS E . n A 1 47 CYS 47 379 379 CYS CYS E . n A 1 48 TYR 48 380 380 TYR TYR E . n A 1 49 GLY 49 381 381 GLY GLY E . n A 1 50 VAL 50 382 382 VAL VAL E . n A 1 51 SER 51 383 383 SER SER E . n A 1 52 PRO 52 384 384 PRO PRO E . n A 1 53 THR 53 385 385 THR THR E . n A 1 54 LYS 54 386 386 LYS LYS E . n A 1 55 LEU 55 387 387 LEU LEU E . n A 1 56 ASN 56 388 388 ASN ASN E . n A 1 57 ASP 57 389 389 ASP ASP E . n A 1 58 LEU 58 390 390 LEU LEU E . n A 1 59 CYS 59 391 391 CYS CYS E . n A 1 60 PHE 60 392 392 PHE PHE E . n A 1 61 THR 61 393 393 THR THR E . n A 1 62 ASN 62 394 394 ASN ASN E . n A 1 63 VAL 63 395 395 VAL VAL E . n A 1 64 TYR 64 396 396 TYR TYR E . n A 1 65 ALA 65 397 397 ALA ALA E . n A 1 66 ASP 66 398 398 ASP ASP E . n A 1 67 SER 67 399 399 SER SER E . n A 1 68 PHE 68 400 400 PHE PHE E . n A 1 69 VAL 69 401 401 VAL VAL E . n A 1 70 ILE 70 402 402 ILE ILE E . n A 1 71 ARG 71 403 403 ARG ARG E . n A 1 72 GLY 72 404 404 GLY GLY E . n A 1 73 ASP 73 405 405 ASP ASP E . n A 1 74 TRP 74 406 406 TRP TRP E . n A 1 75 VAL 75 407 407 VAL VAL E . n A 1 76 ARG 76 408 408 ARG ARG E . n A 1 77 GLN 77 409 409 GLN GLN E . n A 1 78 ILE 78 410 410 ILE ILE E . n A 1 79 ALA 79 411 411 ALA ALA E . n A 1 80 PRO 80 412 412 PRO PRO E . n A 1 81 GLY 81 413 413 GLY GLY E . n A 1 82 GLN 82 414 414 GLN GLN E . n A 1 83 THR 83 415 415 THR THR E . n A 1 84 GLY 84 416 416 GLY GLY E . n A 1 85 LYS 85 417 417 LYS LYS E . n A 1 86 ILE 86 418 418 ILE ILE E . n A 1 87 ALA 87 419 419 ALA ALA E . n A 1 88 ASP 88 420 420 ASP ASP E . n A 1 89 TYR 89 421 421 TYR TYR E . n A 1 90 ASN 90 422 422 ASN ASN E . n A 1 91 TYR 91 423 423 TYR TYR E . n A 1 92 LYS 92 424 424 LYS LYS E . n A 1 93 LEU 93 425 425 LEU LEU E . n A 1 94 PRO 94 426 426 PRO PRO E . n A 1 95 ASP 95 427 427 ASP ASP E . n A 1 96 ASP 96 428 428 ASP ASP E . n A 1 97 PHE 97 429 429 PHE PHE E . n A 1 98 THR 98 430 430 THR THR E . n A 1 99 GLY 99 431 431 GLY GLY E . n A 1 100 CYS 100 432 432 CYS CYS E . n A 1 101 VAL 101 433 433 VAL VAL E . n A 1 102 ILE 102 434 434 ILE ILE E . n A 1 103 ALA 103 435 435 ALA ALA E . n A 1 104 TRP 104 436 436 TRP TRP E . n A 1 105 ASN 105 437 437 ASN ASN E . n A 1 106 SER 106 438 438 SER SER E . n A 1 107 ASN 107 439 439 ASN ASN E . n A 1 108 ASN 108 440 440 ASN ASN E . n A 1 109 LEU 109 441 441 LEU LEU E . n A 1 110 ASP 110 442 442 ASP ASP E . n A 1 111 SER 111 443 443 SER SER E . n A 1 112 LYS 112 444 444 LYS LYS E . n A 1 113 VAL 113 445 445 VAL VAL E . n A 1 114 GLY 114 446 446 GLY GLY E . n A 1 115 GLY 115 447 447 GLY GLY E . n A 1 116 ASN 116 448 448 ASN ASN E . n A 1 117 TYR 117 449 449 TYR TYR E . n A 1 118 ASN 118 450 450 ASN ASN E . n A 1 119 TYR 119 451 451 TYR TYR E . n A 1 120 LEU 120 452 452 LEU LEU E . n A 1 121 TYR 121 453 453 TYR TYR E . n A 1 122 ARG 122 454 454 ARG ARG E . n A 1 123 LEU 123 455 455 LEU LEU E . n A 1 124 PHE 124 456 456 PHE PHE E . n A 1 125 ARG 125 457 457 ARG ARG E . n A 1 126 LYS 126 458 458 LYS LYS E . n A 1 127 SER 127 459 459 SER SER E . n A 1 128 ASN 128 460 460 ASN ASN E . n A 1 129 LEU 129 461 461 LEU LEU E . n A 1 130 LYS 130 462 462 LYS LYS E . n A 1 131 PRO 131 463 463 PRO PRO E . n A 1 132 PHE 132 464 464 PHE PHE E . n A 1 133 GLU 133 465 465 GLU GLU E . n A 1 134 ARG 134 466 466 ARG ARG E . n A 1 135 ASP 135 467 467 ASP ASP E . n A 1 136 ILE 136 468 468 ILE ILE E . n A 1 137 SER 137 469 469 SER SER E . n A 1 138 THR 138 470 470 THR THR E . n A 1 139 GLU 139 471 471 GLU GLU E . n A 1 140 ILE 140 472 472 ILE ILE E . n A 1 141 TYR 141 473 473 TYR TYR E . n A 1 142 GLN 142 474 474 GLN GLN E . n A 1 143 ALA 143 475 475 ALA ALA E . n A 1 144 GLY 144 476 476 GLY GLY E . n A 1 145 SER 145 477 477 SER SER E . n A 1 146 THR 146 478 478 THR THR E . n A 1 147 PRO 147 479 479 PRO PRO E . n A 1 148 CYS 148 480 480 CYS CYS E . n A 1 149 ASN 149 481 481 ASN ASN E . n A 1 150 GLY 150 482 482 GLY GLY E . n A 1 151 VAL 151 483 483 VAL VAL E . n A 1 152 GLU 152 484 484 GLU GLU E . n A 1 153 GLY 153 485 485 GLY GLY E . n A 1 154 PHE 154 486 486 PHE PHE E . n A 1 155 ASN 155 487 487 ASN ASN E . n A 1 156 CYS 156 488 488 CYS CYS E . n A 1 157 TYR 157 489 489 TYR TYR E . n A 1 158 PHE 158 490 490 PHE PHE E . n A 1 159 PRO 159 491 491 PRO PRO E . n A 1 160 LEU 160 492 492 LEU LEU E . n A 1 161 GLN 161 493 493 GLN GLN E . n A 1 162 SER 162 494 494 SER SER E . n A 1 163 TYR 163 495 495 TYR TYR E . n A 1 164 GLY 164 496 496 GLY GLY E . n A 1 165 PHE 165 497 497 PHE PHE E . n A 1 166 GLN 166 498 498 GLN GLN E . n A 1 167 PRO 167 499 499 PRO PRO E . n A 1 168 THR 168 500 500 THR THR E . n A 1 169 ASN 169 501 501 ASN ASN E . n A 1 170 GLY 170 502 502 GLY GLY E . n A 1 171 VAL 171 503 503 VAL VAL E . n A 1 172 GLY 172 504 504 GLY GLY E . n A 1 173 TYR 173 505 505 TYR TYR E . n A 1 174 GLN 174 506 506 GLN GLN E . n A 1 175 PRO 175 507 507 PRO PRO E . n A 1 176 TYR 176 508 508 TYR TYR E . n A 1 177 ARG 177 509 509 ARG ARG E . n A 1 178 VAL 178 510 510 VAL VAL E . n A 1 179 VAL 179 511 511 VAL VAL E . n A 1 180 VAL 180 512 512 VAL VAL E . n A 1 181 LEU 181 513 513 LEU LEU E . n A 1 182 SER 182 514 514 SER SER E . n A 1 183 PHE 183 515 515 PHE PHE E . n A 1 184 GLU 184 516 516 GLU GLU E . n A 1 185 LEU 185 517 517 LEU LEU E . n A 1 186 LEU 186 518 518 LEU LEU E . n A 1 187 HIS 187 519 519 HIS HIS E . n A 1 188 ALA 188 520 520 ALA ALA E . n A 1 189 PRO 189 521 521 PRO PRO E . n A 1 190 ALA 190 522 522 ALA ALA E . n A 1 191 THR 191 523 523 THR THR E . n A 1 192 VAL 192 524 524 VAL VAL E . n A 1 193 CYS 193 525 525 CYS CYS E . n A 1 194 GLY 194 526 526 GLY GLY E . n # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id NAG _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 601 _pdbx_nonpoly_scheme.auth_seq_num 601 _pdbx_nonpoly_scheme.pdb_mon_id NAG _pdbx_nonpoly_scheme.auth_mon_id NAG _pdbx_nonpoly_scheme.pdb_strand_id E _pdbx_nonpoly_scheme.pdb_ins_code . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 E GLU 340 ? CG ? A GLU 8 CG 2 1 Y 1 E GLU 340 ? CD ? A GLU 8 CD 3 1 Y 1 E GLU 340 ? OE1 ? A GLU 8 OE1 4 1 Y 1 E GLU 340 ? OE2 ? A GLU 8 OE2 5 1 Y 1 E SER 359 ? OG ? A SER 27 OG 6 1 Y 1 E SER 366 ? OG ? A SER 34 OG 7 1 Y 1 E SER 373 ? OG ? A SER 41 OG 8 1 Y 1 E SER 375 ? OG ? A SER 43 OG 9 1 Y 1 E THR 376 ? OG1 ? A THR 44 OG1 10 1 Y 1 E THR 376 ? CG2 ? A THR 44 CG2 11 1 Y 1 E LYS 378 ? CG ? A LYS 46 CG 12 1 Y 1 E LYS 378 ? CD ? A LYS 46 CD 13 1 Y 1 E LYS 378 ? CE ? A LYS 46 CE 14 1 Y 1 E LYS 378 ? NZ ? A LYS 46 NZ 15 1 Y 1 E SER 383 ? OG ? A SER 51 OG 16 1 Y 1 E THR 385 ? OG1 ? A THR 53 OG1 17 1 Y 1 E THR 385 ? CG2 ? A THR 53 CG2 18 1 Y 1 E THR 393 ? OG1 ? A THR 61 OG1 19 1 Y 1 E THR 393 ? CG2 ? A THR 61 CG2 20 1 Y 1 E ASN 394 ? CG ? A ASN 62 CG 21 1 Y 1 E ASN 394 ? OD1 ? A ASN 62 OD1 22 1 Y 1 E ASN 394 ? ND2 ? A ASN 62 ND2 23 1 Y 1 E THR 415 ? OG1 ? A THR 83 OG1 24 1 Y 1 E THR 415 ? CG2 ? A THR 83 CG2 25 1 Y 1 E ASP 420 ? CG ? A ASP 88 CG 26 1 Y 1 E ASP 420 ? OD1 ? A ASP 88 OD1 27 1 Y 1 E ASP 420 ? OD2 ? A ASP 88 OD2 28 1 Y 1 E ASP 427 ? CG ? A ASP 95 CG 29 1 Y 1 E ASP 427 ? OD1 ? A ASP 95 OD1 30 1 Y 1 E ASP 427 ? OD2 ? A ASP 95 OD2 31 1 Y 1 E ASP 428 ? CG ? A ASP 96 CG 32 1 Y 1 E ASP 428 ? OD1 ? A ASP 96 OD1 33 1 Y 1 E ASP 428 ? OD2 ? A ASP 96 OD2 34 1 Y 1 E SER 438 ? OG ? A SER 106 OG 35 1 Y 1 E ASN 439 ? CG ? A ASN 107 CG 36 1 Y 1 E ASN 439 ? OD1 ? A ASN 107 OD1 37 1 Y 1 E ASN 439 ? ND2 ? A ASN 107 ND2 38 1 Y 1 E ASN 440 ? CG ? A ASN 108 CG 39 1 Y 1 E ASN 440 ? OD1 ? A ASN 108 OD1 40 1 Y 1 E ASN 440 ? ND2 ? A ASN 108 ND2 41 1 Y 1 E LEU 441 ? CG ? A LEU 109 CG 42 1 Y 1 E LEU 441 ? CD1 ? A LEU 109 CD1 43 1 Y 1 E LEU 441 ? CD2 ? A LEU 109 CD2 44 1 Y 1 E ASP 442 ? CG ? A ASP 110 CG 45 1 Y 1 E ASP 442 ? OD1 ? A ASP 110 OD1 46 1 Y 1 E ASP 442 ? OD2 ? A ASP 110 OD2 47 1 Y 1 E SER 443 ? OG ? A SER 111 OG 48 1 Y 1 E LYS 444 ? CG ? A LYS 112 CG 49 1 Y 1 E LYS 444 ? CD ? A LYS 112 CD 50 1 Y 1 E LYS 444 ? CE ? A LYS 112 CE 51 1 Y 1 E LYS 444 ? NZ ? A LYS 112 NZ 52 1 Y 1 E VAL 445 ? CG1 ? A VAL 113 CG1 53 1 Y 1 E VAL 445 ? CG2 ? A VAL 113 CG2 54 1 Y 1 E ASN 448 ? CG ? A ASN 116 CG 55 1 Y 1 E ASN 448 ? OD1 ? A ASN 116 OD1 56 1 Y 1 E ASN 448 ? ND2 ? A ASN 116 ND2 57 1 Y 1 E ASN 450 ? CG ? A ASN 118 CG 58 1 Y 1 E ASN 450 ? OD1 ? A ASN 118 OD1 59 1 Y 1 E ASN 450 ? ND2 ? A ASN 118 ND2 60 1 Y 1 E SER 459 ? OG ? A SER 127 OG 61 1 Y 1 E SER 469 ? OG ? A SER 137 OG 62 1 Y 1 E SER 477 ? OG ? A SER 145 OG 63 1 Y 1 E THR 478 ? OG1 ? A THR 146 OG1 64 1 Y 1 E THR 478 ? CG2 ? A THR 146 CG2 65 1 Y 1 E ASN 481 ? CG ? A ASN 149 CG 66 1 Y 1 E ASN 481 ? OD1 ? A ASN 149 OD1 67 1 Y 1 E ASN 481 ? ND2 ? A ASN 149 ND2 68 1 Y 1 E VAL 483 ? CG1 ? A VAL 151 CG1 69 1 Y 1 E VAL 483 ? CG2 ? A VAL 151 CG2 70 1 Y 1 E PHE 486 ? CG ? A PHE 154 CG 71 1 Y 1 E PHE 486 ? CD1 ? A PHE 154 CD1 72 1 Y 1 E PHE 486 ? CD2 ? A PHE 154 CD2 73 1 Y 1 E PHE 486 ? CE1 ? A PHE 154 CE1 74 1 Y 1 E PHE 486 ? CE2 ? A PHE 154 CE2 75 1 Y 1 E PHE 486 ? CZ ? A PHE 154 CZ 76 1 Y 1 E ASN 487 ? CG ? A ASN 155 CG 77 1 Y 1 E ASN 487 ? OD1 ? A ASN 155 OD1 78 1 Y 1 E ASN 487 ? ND2 ? A ASN 155 ND2 79 1 Y 1 E SER 494 ? OG ? A SER 162 OG 80 1 Y 1 E GLN 498 ? CG ? A GLN 166 CG 81 1 Y 1 E GLN 498 ? CD ? A GLN 166 CD 82 1 Y 1 E GLN 498 ? OE1 ? A GLN 166 OE1 83 1 Y 1 E GLN 498 ? NE2 ? A GLN 166 NE2 84 1 Y 1 E THR 500 ? OG1 ? A THR 168 OG1 85 1 Y 1 E THR 500 ? CG2 ? A THR 168 CG2 86 1 Y 1 E ASN 501 ? CG ? A ASN 169 CG 87 1 Y 1 E ASN 501 ? OD1 ? A ASN 169 OD1 88 1 Y 1 E ASN 501 ? ND2 ? A ASN 169 ND2 89 1 Y 1 E VAL 503 ? CG1 ? A VAL 171 CG1 90 1 Y 1 E VAL 503 ? CG2 ? A VAL 171 CG2 91 1 Y 1 E GLN 506 ? CG ? A GLN 174 CG 92 1 Y 1 E GLN 506 ? CD ? A GLN 174 CD 93 1 Y 1 E GLN 506 ? OE1 ? A GLN 174 OE1 94 1 Y 1 E GLN 506 ? NE2 ? A GLN 174 NE2 95 1 Y 1 E SER 514 ? OG ? A SER 182 OG 96 1 Y 1 E GLU 516 ? CG ? A GLU 184 CG 97 1 Y 1 E GLU 516 ? CD ? A GLU 184 CD 98 1 Y 1 E GLU 516 ? OE1 ? A GLU 184 OE1 99 1 Y 1 E GLU 516 ? OE2 ? A GLU 184 OE2 100 1 Y 1 E LEU 518 ? CG ? A LEU 186 CG 101 1 Y 1 E LEU 518 ? CD1 ? A LEU 186 CD1 102 1 Y 1 E LEU 518 ? CD2 ? A LEU 186 CD2 103 1 Y 1 E HIS 519 ? CG ? A HIS 187 CG 104 1 Y 1 E HIS 519 ? ND1 ? A HIS 187 ND1 105 1 Y 1 E HIS 519 ? CD2 ? A HIS 187 CD2 106 1 Y 1 E HIS 519 ? CE1 ? A HIS 187 CE1 107 1 Y 1 E HIS 519 ? NE2 ? A HIS 187 NE2 108 1 Y 1 E THR 523 ? OG1 ? A THR 191 OG1 109 1 Y 1 E THR 523 ? CG2 ? A THR 191 CG2 # _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 7TPK _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 7TPK _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 ? # _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 7TPK _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _struct.entry_id 7TPK _struct.title 'SARS-CoV-2 E406W mutant RBD - Local Refinement' _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 7TPK _struct_keywords.text 'viral entry protein, viral glycoprotein, VIRAL PROTEIN' _struct_keywords.pdbx_keywords 'VIRAL 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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code SPIKE_SARS2 _struct_ref.pdbx_db_accession P0DTC2 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAP GQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPL QSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCG ; _struct_ref.pdbx_align_begin 333 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 7TPK _struct_ref_seq.pdbx_strand_id E _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 194 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P0DTC2 _struct_ref_seq.db_align_beg 333 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 526 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 333 _struct_ref_seq.pdbx_auth_seq_align_end 526 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 7TPK _struct_ref_seq_dif.mon_id TRP _struct_ref_seq_dif.pdbx_pdb_strand_id E _struct_ref_seq_dif.seq_num 74 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code P0DTC2 _struct_ref_seq_dif.db_mon_id GLU _struct_ref_seq_dif.pdbx_seq_db_seq_num 406 _struct_ref_seq_dif.details 'engineered mutation' _struct_ref_seq_dif.pdbx_auth_seq_num 406 _struct_ref_seq_dif.pdbx_ordinal 1 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _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 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation ? _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # 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 PRO A 5 ? ASN A 11 ? PRO E 337 ASN E 343 1 ? 7 HELX_P HELX_P2 AA2 TYR A 33 ? ASN A 38 ? TYR E 365 ASN E 370 1 ? 6 HELX_P HELX_P3 AA3 SER A 51 ? ASP A 57 ? SER E 383 ASP E 389 5 ? 7 HELX_P HELX_P4 AA4 TRP A 74 ? ILE A 78 ? TRP E 406 ILE E 410 5 ? 5 HELX_P HELX_P5 AA5 GLY A 84 ? ASN A 90 ? GLY E 416 ASN E 422 1 ? 7 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _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 _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _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 _struct_conn.pdbx_value_order _struct_conn.pdbx_role disulf1 disulf ? ? A CYS 4 SG ? ? ? 1_555 A CYS 29 SG ? ? E CYS 336 E CYS 361 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf2 disulf ? ? A CYS 47 SG ? ? ? 1_555 A CYS 100 SG ? ? E CYS 379 E CYS 432 1_555 ? ? ? ? ? ? ? 2.038 ? ? disulf3 disulf ? ? A CYS 59 SG ? ? ? 1_555 A CYS 193 SG ? ? E CYS 391 E CYS 525 1_555 ? ? ? ? ? ? ? 2.043 ? ? disulf4 disulf ? ? A CYS 148 SG ? ? ? 1_555 A CYS 156 SG ? ? E CYS 480 E CYS 488 1_555 ? ? ? ? ? ? ? 2.029 ? ? covale1 covale one ? A ASN 11 ND2 ? ? ? 1_555 B NAG . C1 ? ? E ASN 343 E NAG 601 1_555 ? ? ? ? ? ? ? 1.454 ? N-Glycosylation # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # loop_ _pdbx_modification_feature.ordinal _pdbx_modification_feature.label_comp_id _pdbx_modification_feature.label_asym_id _pdbx_modification_feature.label_seq_id _pdbx_modification_feature.label_alt_id _pdbx_modification_feature.modified_residue_label_comp_id _pdbx_modification_feature.modified_residue_label_asym_id _pdbx_modification_feature.modified_residue_label_seq_id _pdbx_modification_feature.modified_residue_label_alt_id _pdbx_modification_feature.auth_comp_id _pdbx_modification_feature.auth_asym_id _pdbx_modification_feature.auth_seq_id _pdbx_modification_feature.PDB_ins_code _pdbx_modification_feature.symmetry _pdbx_modification_feature.modified_residue_auth_comp_id _pdbx_modification_feature.modified_residue_auth_asym_id _pdbx_modification_feature.modified_residue_auth_seq_id _pdbx_modification_feature.modified_residue_PDB_ins_code _pdbx_modification_feature.modified_residue_symmetry _pdbx_modification_feature.comp_id_linking_atom _pdbx_modification_feature.modified_residue_id_linking_atom _pdbx_modification_feature.modified_residue_id _pdbx_modification_feature.ref_pcm_id _pdbx_modification_feature.ref_comp_id _pdbx_modification_feature.type _pdbx_modification_feature.category 1 NAG B . ? ASN A 11 ? NAG E 601 ? 1_555 ASN E 343 ? 1_555 C1 ND2 ASN 1 NAG N-Glycosylation Carbohydrate 2 CYS A 4 ? CYS A 29 ? CYS E 336 ? 1_555 CYS E 361 ? 1_555 SG SG . . . None 'Disulfide bridge' 3 CYS A 47 ? CYS A 100 ? CYS E 379 ? 1_555 CYS E 432 ? 1_555 SG SG . . . None 'Disulfide bridge' 4 CYS A 59 ? CYS A 193 ? CYS E 391 ? 1_555 CYS E 525 ? 1_555 SG SG . . . None 'Disulfide bridge' 5 CYS A 148 ? CYS A 156 ? CYS E 480 ? 1_555 CYS E 488 ? 1_555 SG SG . . . None 'Disulfide bridge' # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 5 ? AA2 ? 3 ? AA3 ? 2 ? AA4 ? 2 ? # 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 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA1 4 5 ? anti-parallel AA2 1 2 ? parallel AA2 2 3 ? anti-parallel AA3 1 2 ? anti-parallel AA4 1 2 ? anti-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 ASN A 22 ? ILE A 26 ? ASN E 354 ILE E 358 AA1 2 VAL A 63 ? ARG A 71 ? VAL E 395 ARG E 403 AA1 3 PRO A 175 ? PHE A 183 ? PRO E 507 PHE E 515 AA1 4 GLY A 99 ? ASN A 105 ? GLY E 431 ASN E 437 AA1 5 THR A 44 ? TYR A 48 ? THR E 376 TYR E 380 AA2 1 CYS A 29 ? VAL A 30 ? CYS E 361 VAL E 362 AA2 2 VAL A 192 ? CYS A 193 ? VAL E 524 CYS E 525 AA2 3 CYS A 59 ? PHE A 60 ? CYS E 391 PHE E 392 AA3 1 LEU A 120 ? ARG A 122 ? LEU E 452 ARG E 454 AA3 2 LEU A 160 ? SER A 162 ? LEU E 492 SER E 494 AA4 1 TYR A 141 ? GLN A 142 ? TYR E 473 GLN E 474 AA4 2 CYS A 156 ? TYR A 157 ? CYS E 488 TYR E 489 # 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 N ILE A 26 ? N ILE E 358 O VAL A 63 ? O VAL E 395 AA1 2 3 N ILE A 70 ? N ILE E 402 O TYR A 176 ? O TYR E 508 AA1 3 4 O LEU A 181 ? O LEU E 513 N CYS A 100 ? N CYS E 432 AA1 4 5 O GLY A 99 ? O GLY E 431 N TYR A 48 ? N TYR E 380 AA2 1 2 N CYS A 29 ? N CYS E 361 O CYS A 193 ? O CYS E 525 AA2 2 3 O VAL A 192 ? O VAL E 524 N PHE A 60 ? N PHE E 392 AA3 1 2 N TYR A 121 ? N TYR E 453 O GLN A 161 ? O GLN E 493 AA4 1 2 N TYR A 141 ? N TYR E 473 O TYR A 157 ? O TYR E 489 # _pdbx_entry_details.entry_id 7TPK _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest N _pdbx_entry_details.has_protein_modification Y # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 NE E ARG 346 ? ? CZ E ARG 346 ? ? NH2 E ARG 346 ? ? 123.55 120.30 3.25 0.50 N 2 1 NE E ARG 403 ? ? CZ E ARG 403 ? ? NH2 E ARG 403 ? ? 123.58 120.30 3.28 0.50 N 3 1 NE E ARG 408 ? ? CZ E ARG 408 ? ? NH2 E ARG 408 ? ? 123.38 120.30 3.08 0.50 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 PRO E 337 ? ? -75.91 44.00 2 1 PHE E 464 ? ? 55.33 16.02 3 1 ALA E 475 ? ? -142.06 42.73 4 1 THR E 478 ? ? 66.67 146.21 5 1 VAL E 503 ? ? -158.26 -61.90 # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 PHE E 377 ? ? 0.070 'SIDE CHAIN' 2 1 TYR E 495 ? ? 0.092 'SIDE CHAIN' # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 7TPK _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space ? _em_3d_fitting.ref_protocol ? # _em_3d_reconstruction.entry_id 7TPK _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 3.4 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.num_particles 113154 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type POINT # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details ? _em_buffer.pH 8 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'Receptor binding domain of the SARS-CoV-2 spike protein' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 7TPK _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_min 0 _em_imaging.nominal_defocus_max 2600 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification ? _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.specimen_id 1 _em_imaging.cryogen ? # _em_vitrification.entry_id 7TPK _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity ? _em_vitrification.temp ? _em_vitrification.chamber_temperature ? _em_vitrification.instrument ? _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 7TPK _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 GLN N N N N 88 GLN CA C N S 89 GLN C C N N 90 GLN O O N N 91 GLN CB C N N 92 GLN CG C N N 93 GLN CD C N N 94 GLN OE1 O N N 95 GLN NE2 N N N 96 GLN OXT O N N 97 GLN H H N N 98 GLN H2 H N N 99 GLN HA H N N 100 GLN HB2 H N N 101 GLN HB3 H N N 102 GLN HG2 H N N 103 GLN HG3 H N N 104 GLN HE21 H N N 105 GLN HE22 H N N 106 GLN HXT H N N 107 GLU N N N N 108 GLU CA C N S 109 GLU C C N N 110 GLU O O N N 111 GLU CB C N N 112 GLU CG C N N 113 GLU CD C N N 114 GLU OE1 O N N 115 GLU OE2 O N N 116 GLU OXT O N N 117 GLU H H N N 118 GLU H2 H N N 119 GLU HA H N N 120 GLU HB2 H N N 121 GLU HB3 H N N 122 GLU HG2 H N N 123 GLU HG3 H N N 124 GLU HE2 H N N 125 GLU HXT H N N 126 GLY N N N N 127 GLY CA C N N 128 GLY C C N N 129 GLY O O N N 130 GLY OXT O N N 131 GLY H H N N 132 GLY H2 H N N 133 GLY HA2 H N N 134 GLY HA3 H N N 135 GLY HXT H N N 136 HIS N N N N 137 HIS CA C N S 138 HIS C C N N 139 HIS O O N N 140 HIS CB C N N 141 HIS CG C Y N 142 HIS ND1 N Y N 143 HIS CD2 C Y N 144 HIS CE1 C Y N 145 HIS NE2 N Y N 146 HIS OXT O N N 147 HIS H H N N 148 HIS H2 H N N 149 HIS HA H N N 150 HIS HB2 H N N 151 HIS HB3 H N N 152 HIS HD1 H N N 153 HIS HD2 H N N 154 HIS HE1 H N N 155 HIS HE2 H N N 156 HIS HXT H N N 157 ILE N N N N 158 ILE CA C N S 159 ILE C C N N 160 ILE O O N N 161 ILE CB C N S 162 ILE CG1 C N N 163 ILE CG2 C N N 164 ILE CD1 C N N 165 ILE OXT O N N 166 ILE H H N N 167 ILE H2 H N N 168 ILE HA H N N 169 ILE HB H N N 170 ILE HG12 H N N 171 ILE HG13 H N N 172 ILE HG21 H N N 173 ILE HG22 H N N 174 ILE HG23 H N N 175 ILE HD11 H N N 176 ILE HD12 H N N 177 ILE HD13 H N N 178 ILE HXT H N N 179 LEU N N N N 180 LEU CA C N S 181 LEU C C N N 182 LEU O O N N 183 LEU CB C N N 184 LEU CG C N N 185 LEU CD1 C N N 186 LEU CD2 C N N 187 LEU OXT O N N 188 LEU H H N N 189 LEU H2 H N N 190 LEU HA H N N 191 LEU HB2 H N N 192 LEU HB3 H N N 193 LEU HG H N N 194 LEU HD11 H N N 195 LEU HD12 H N N 196 LEU HD13 H N N 197 LEU HD21 H N N 198 LEU HD22 H N N 199 LEU HD23 H N N 200 LEU HXT H N N 201 LYS N N N N 202 LYS CA C N S 203 LYS C C N N 204 LYS O O N N 205 LYS CB C N N 206 LYS CG C N N 207 LYS CD C N N 208 LYS CE C N N 209 LYS NZ N N N 210 LYS OXT O N N 211 LYS H H N N 212 LYS H2 H N N 213 LYS HA H N N 214 LYS HB2 H N N 215 LYS HB3 H N N 216 LYS HG2 H N N 217 LYS HG3 H N N 218 LYS HD2 H N N 219 LYS HD3 H N N 220 LYS HE2 H N N 221 LYS HE3 H N N 222 LYS HZ1 H N N 223 LYS HZ2 H N N 224 LYS HZ3 H N N 225 LYS HXT H N N 226 NAG C1 C N R 227 NAG C2 C N R 228 NAG C3 C N R 229 NAG C4 C N S 230 NAG C5 C N R 231 NAG C6 C N N 232 NAG C7 C N N 233 NAG C8 C N N 234 NAG N2 N N N 235 NAG O1 O N N 236 NAG O3 O N N 237 NAG O4 O N N 238 NAG O5 O N N 239 NAG O6 O N N 240 NAG O7 O N N 241 NAG H1 H N N 242 NAG H2 H N N 243 NAG H3 H N N 244 NAG H4 H N N 245 NAG H5 H N N 246 NAG H61 H N N 247 NAG H62 H N N 248 NAG H81 H N N 249 NAG H82 H N N 250 NAG H83 H N N 251 NAG HN2 H N N 252 NAG HO1 H N N 253 NAG HO3 H N N 254 NAG HO4 H N N 255 NAG HO6 H N N 256 PHE N N N N 257 PHE CA C N S 258 PHE C C N N 259 PHE O O N N 260 PHE CB C N N 261 PHE CG C Y N 262 PHE CD1 C Y N 263 PHE CD2 C Y N 264 PHE CE1 C Y N 265 PHE CE2 C Y N 266 PHE CZ C Y N 267 PHE OXT O N N 268 PHE H H N N 269 PHE H2 H N N 270 PHE HA H N N 271 PHE HB2 H N N 272 PHE HB3 H N N 273 PHE HD1 H N N 274 PHE HD2 H N N 275 PHE HE1 H N N 276 PHE HE2 H N N 277 PHE HZ H N N 278 PHE HXT H N N 279 PRO N N N N 280 PRO CA C N S 281 PRO C C N N 282 PRO O O N N 283 PRO CB C N N 284 PRO CG C N N 285 PRO CD C N N 286 PRO OXT O N N 287 PRO H H N N 288 PRO HA H N N 289 PRO HB2 H N N 290 PRO HB3 H N N 291 PRO HG2 H N N 292 PRO HG3 H N N 293 PRO HD2 H N N 294 PRO HD3 H N N 295 PRO HXT H N N 296 SER N N N N 297 SER CA C N S 298 SER C C N N 299 SER O O N N 300 SER CB C N N 301 SER OG O N N 302 SER OXT O N N 303 SER H H N N 304 SER H2 H N N 305 SER HA H N N 306 SER HB2 H N N 307 SER HB3 H N N 308 SER HG H N N 309 SER HXT H N N 310 THR N N N N 311 THR CA C N S 312 THR C C N N 313 THR O O N N 314 THR CB C N R 315 THR OG1 O N N 316 THR CG2 C N N 317 THR OXT O N N 318 THR H H N N 319 THR H2 H N N 320 THR HA H N N 321 THR HB H N N 322 THR HG1 H N N 323 THR HG21 H N N 324 THR HG22 H N N 325 THR HG23 H N N 326 THR HXT H N N 327 TRP N N N N 328 TRP CA C N S 329 TRP C C N N 330 TRP O O N N 331 TRP CB C N N 332 TRP CG C Y N 333 TRP CD1 C Y N 334 TRP CD2 C Y N 335 TRP NE1 N Y N 336 TRP CE2 C Y N 337 TRP CE3 C Y N 338 TRP CZ2 C Y N 339 TRP CZ3 C Y N 340 TRP CH2 C Y N 341 TRP OXT O N N 342 TRP H H N N 343 TRP H2 H N N 344 TRP HA H N N 345 TRP HB2 H N N 346 TRP HB3 H N N 347 TRP HD1 H N N 348 TRP HE1 H N N 349 TRP HE3 H N N 350 TRP HZ2 H N N 351 TRP HZ3 H N N 352 TRP HH2 H N N 353 TRP HXT H N N 354 TYR N N N N 355 TYR CA C N S 356 TYR C C N N 357 TYR O O N N 358 TYR CB C N N 359 TYR CG C Y N 360 TYR CD1 C Y N 361 TYR CD2 C Y N 362 TYR CE1 C Y N 363 TYR CE2 C Y N 364 TYR CZ C Y N 365 TYR OH O N N 366 TYR OXT O N N 367 TYR H H N N 368 TYR H2 H N N 369 TYR HA H N N 370 TYR HB2 H N N 371 TYR HB3 H N N 372 TYR HD1 H N N 373 TYR HD2 H N N 374 TYR HE1 H N N 375 TYR HE2 H N N 376 TYR HH H N N 377 TYR HXT H N N 378 VAL N N N N 379 VAL CA C N S 380 VAL C C N N 381 VAL O O N N 382 VAL CB C N N 383 VAL CG1 C N N 384 VAL CG2 C N N 385 VAL OXT O N N 386 VAL H H N N 387 VAL H2 H N N 388 VAL HA H N N 389 VAL HB H N N 390 VAL HG11 H N N 391 VAL HG12 H N N 392 VAL HG13 H N N 393 VAL HG21 H N N 394 VAL HG22 H N N 395 VAL HG23 H N N 396 VAL HXT H N N 397 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 CYS N CA sing N N 70 CYS N H sing N N 71 CYS N H2 sing N N 72 CYS CA C sing N N 73 CYS CA CB sing N N 74 CYS CA HA sing N N 75 CYS C O doub N N 76 CYS C OXT sing N N 77 CYS CB SG sing N N 78 CYS CB HB2 sing N N 79 CYS CB HB3 sing N N 80 CYS SG HG sing N N 81 CYS OXT HXT sing N N 82 GLN N CA sing N N 83 GLN N H sing N N 84 GLN N H2 sing N N 85 GLN CA C sing N N 86 GLN CA CB sing N N 87 GLN CA HA sing N N 88 GLN C O doub N N 89 GLN C OXT sing N N 90 GLN CB CG sing N N 91 GLN CB HB2 sing N N 92 GLN CB HB3 sing N N 93 GLN CG CD sing N N 94 GLN CG HG2 sing N N 95 GLN CG HG3 sing N N 96 GLN CD OE1 doub N N 97 GLN CD NE2 sing N N 98 GLN NE2 HE21 sing N N 99 GLN NE2 HE22 sing N N 100 GLN OXT HXT sing N N 101 GLU N CA sing N N 102 GLU N H sing N N 103 GLU N H2 sing N N 104 GLU CA C sing N N 105 GLU CA CB sing N N 106 GLU CA HA sing N N 107 GLU C O doub N N 108 GLU C OXT sing N N 109 GLU CB CG sing N N 110 GLU CB HB2 sing N N 111 GLU CB HB3 sing N N 112 GLU CG CD sing N N 113 GLU CG HG2 sing N N 114 GLU CG HG3 sing N N 115 GLU CD OE1 doub N N 116 GLU CD OE2 sing N N 117 GLU OE2 HE2 sing N N 118 GLU OXT HXT sing N N 119 GLY N CA sing N N 120 GLY N H sing N N 121 GLY N H2 sing N N 122 GLY CA C sing N N 123 GLY CA HA2 sing N N 124 GLY CA HA3 sing N N 125 GLY C O doub N N 126 GLY C OXT sing N N 127 GLY OXT HXT sing N N 128 HIS N CA sing N N 129 HIS N H sing N N 130 HIS N H2 sing N N 131 HIS CA C sing N N 132 HIS CA CB sing N N 133 HIS CA HA sing N N 134 HIS C O doub N N 135 HIS C OXT sing N N 136 HIS CB CG sing N N 137 HIS CB HB2 sing N N 138 HIS CB HB3 sing N N 139 HIS CG ND1 sing Y N 140 HIS CG CD2 doub Y N 141 HIS ND1 CE1 doub Y N 142 HIS ND1 HD1 sing N N 143 HIS CD2 NE2 sing Y N 144 HIS CD2 HD2 sing N N 145 HIS CE1 NE2 sing Y N 146 HIS CE1 HE1 sing N N 147 HIS NE2 HE2 sing N N 148 HIS OXT HXT sing N N 149 ILE N CA sing N N 150 ILE N H sing N N 151 ILE N H2 sing N N 152 ILE CA C sing N N 153 ILE CA CB sing N N 154 ILE CA HA sing N N 155 ILE C O doub N N 156 ILE C OXT sing N N 157 ILE CB CG1 sing N N 158 ILE CB CG2 sing N N 159 ILE CB HB sing N N 160 ILE CG1 CD1 sing N N 161 ILE CG1 HG12 sing N N 162 ILE CG1 HG13 sing N N 163 ILE CG2 HG21 sing N N 164 ILE CG2 HG22 sing N N 165 ILE CG2 HG23 sing N N 166 ILE CD1 HD11 sing N N 167 ILE CD1 HD12 sing N N 168 ILE CD1 HD13 sing N N 169 ILE OXT HXT sing N N 170 LEU N CA sing N N 171 LEU N H sing N N 172 LEU N H2 sing N N 173 LEU CA C sing N N 174 LEU CA CB sing N N 175 LEU CA HA sing N N 176 LEU C O doub N N 177 LEU C OXT sing N N 178 LEU CB CG sing N N 179 LEU CB HB2 sing N N 180 LEU CB HB3 sing N N 181 LEU CG CD1 sing N N 182 LEU CG CD2 sing N N 183 LEU CG HG sing N N 184 LEU CD1 HD11 sing N N 185 LEU CD1 HD12 sing N N 186 LEU CD1 HD13 sing N N 187 LEU CD2 HD21 sing N N 188 LEU CD2 HD22 sing N N 189 LEU CD2 HD23 sing N N 190 LEU OXT HXT sing N N 191 LYS N CA sing N N 192 LYS N H sing N N 193 LYS N H2 sing N N 194 LYS CA C sing N N 195 LYS CA CB sing N N 196 LYS CA HA sing N N 197 LYS C O doub N N 198 LYS C OXT sing N N 199 LYS CB CG sing N N 200 LYS CB HB2 sing N N 201 LYS CB HB3 sing N N 202 LYS CG CD sing N N 203 LYS CG HG2 sing N N 204 LYS CG HG3 sing N N 205 LYS CD CE sing N N 206 LYS CD HD2 sing N N 207 LYS CD HD3 sing N N 208 LYS CE NZ sing N N 209 LYS CE HE2 sing N N 210 LYS CE HE3 sing N N 211 LYS NZ HZ1 sing N N 212 LYS NZ HZ2 sing N N 213 LYS NZ HZ3 sing N N 214 LYS OXT HXT sing N N 215 NAG C1 C2 sing N N 216 NAG C1 O1 sing N N 217 NAG C1 O5 sing N N 218 NAG C1 H1 sing N N 219 NAG C2 C3 sing N N 220 NAG C2 N2 sing N N 221 NAG C2 H2 sing N N 222 NAG C3 C4 sing N N 223 NAG C3 O3 sing N N 224 NAG C3 H3 sing N N 225 NAG C4 C5 sing N N 226 NAG C4 O4 sing N N 227 NAG C4 H4 sing N N 228 NAG C5 C6 sing N N 229 NAG C5 O5 sing N N 230 NAG C5 H5 sing N N 231 NAG C6 O6 sing N N 232 NAG C6 H61 sing N N 233 NAG C6 H62 sing N N 234 NAG C7 C8 sing N N 235 NAG C7 N2 sing N N 236 NAG C7 O7 doub N N 237 NAG C8 H81 sing N N 238 NAG C8 H82 sing N N 239 NAG C8 H83 sing N N 240 NAG N2 HN2 sing N N 241 NAG O1 HO1 sing N N 242 NAG O3 HO3 sing N N 243 NAG O4 HO4 sing N N 244 NAG O6 HO6 sing N N 245 PHE N CA sing N N 246 PHE N H sing N N 247 PHE N H2 sing N N 248 PHE CA C sing N N 249 PHE CA CB sing N N 250 PHE CA HA sing N N 251 PHE C O doub N N 252 PHE C OXT sing N N 253 PHE CB CG sing N N 254 PHE CB HB2 sing N N 255 PHE CB HB3 sing N N 256 PHE CG CD1 doub Y N 257 PHE CG CD2 sing Y N 258 PHE CD1 CE1 sing Y N 259 PHE CD1 HD1 sing N N 260 PHE CD2 CE2 doub Y N 261 PHE CD2 HD2 sing N N 262 PHE CE1 CZ doub Y N 263 PHE CE1 HE1 sing N N 264 PHE CE2 CZ sing Y N 265 PHE CE2 HE2 sing N N 266 PHE CZ HZ sing N N 267 PHE OXT HXT sing N N 268 PRO N CA sing N N 269 PRO N CD sing N N 270 PRO N H sing N N 271 PRO CA C sing N N 272 PRO CA CB sing N N 273 PRO CA HA sing N N 274 PRO C O doub N N 275 PRO C OXT sing N N 276 PRO CB CG sing N N 277 PRO CB HB2 sing N N 278 PRO CB HB3 sing N N 279 PRO CG CD sing N N 280 PRO CG HG2 sing N N 281 PRO CG HG3 sing N N 282 PRO CD HD2 sing N N 283 PRO CD HD3 sing N N 284 PRO OXT HXT sing N N 285 SER N CA sing N N 286 SER N H sing N N 287 SER N H2 sing N N 288 SER CA C sing N N 289 SER CA CB sing N N 290 SER CA HA sing N N 291 SER C O doub N N 292 SER C OXT sing N N 293 SER CB OG sing N N 294 SER CB HB2 sing N N 295 SER CB HB3 sing N N 296 SER OG HG sing N N 297 SER OXT HXT sing N N 298 THR N CA sing N N 299 THR N H sing N N 300 THR N H2 sing N N 301 THR CA C sing N N 302 THR CA CB sing N N 303 THR CA HA sing N N 304 THR C O doub N N 305 THR C OXT sing N N 306 THR CB OG1 sing N N 307 THR CB CG2 sing N N 308 THR CB HB sing N N 309 THR OG1 HG1 sing N N 310 THR CG2 HG21 sing N N 311 THR CG2 HG22 sing N N 312 THR CG2 HG23 sing N N 313 THR OXT HXT sing N N 314 TRP N CA sing N N 315 TRP N H sing N N 316 TRP N H2 sing N N 317 TRP CA C sing N N 318 TRP CA CB sing N N 319 TRP CA HA sing N N 320 TRP C O doub N N 321 TRP C OXT sing N N 322 TRP CB CG sing N N 323 TRP CB HB2 sing N N 324 TRP CB HB3 sing N N 325 TRP CG CD1 doub Y N 326 TRP CG CD2 sing Y N 327 TRP CD1 NE1 sing Y N 328 TRP CD1 HD1 sing N N 329 TRP CD2 CE2 doub Y N 330 TRP CD2 CE3 sing Y N 331 TRP NE1 CE2 sing Y N 332 TRP NE1 HE1 sing N N 333 TRP CE2 CZ2 sing Y N 334 TRP CE3 CZ3 doub Y N 335 TRP CE3 HE3 sing N N 336 TRP CZ2 CH2 doub Y N 337 TRP CZ2 HZ2 sing N N 338 TRP CZ3 CH2 sing Y N 339 TRP CZ3 HZ3 sing N N 340 TRP CH2 HH2 sing N N 341 TRP OXT HXT sing N N 342 TYR N CA sing N N 343 TYR N H sing N N 344 TYR N H2 sing N N 345 TYR CA C sing N N 346 TYR CA CB sing N N 347 TYR CA HA sing N N 348 TYR C O doub N N 349 TYR C OXT sing N N 350 TYR CB CG sing N N 351 TYR CB HB2 sing N N 352 TYR CB HB3 sing N N 353 TYR CG CD1 doub Y N 354 TYR CG CD2 sing Y N 355 TYR CD1 CE1 sing Y N 356 TYR CD1 HD1 sing N N 357 TYR CD2 CE2 doub Y N 358 TYR CD2 HD2 sing N N 359 TYR CE1 CZ doub Y N 360 TYR CE1 HE1 sing N N 361 TYR CE2 CZ sing Y N 362 TYR CE2 HE2 sing N N 363 TYR CZ OH sing N N 364 TYR OH HH sing N N 365 TYR OXT HXT sing N N 366 VAL N CA sing N N 367 VAL N H sing N N 368 VAL N H2 sing N N 369 VAL CA C sing N N 370 VAL CA CB sing N N 371 VAL CA HA sing N N 372 VAL C O doub N N 373 VAL C OXT sing N N 374 VAL CB CG1 sing N N 375 VAL CB CG2 sing N N 376 VAL CB HB sing N N 377 VAL CG1 HG11 sing N N 378 VAL CG1 HG12 sing N N 379 VAL CG1 HG13 sing N N 380 VAL CG2 HG21 sing N N 381 VAL CG2 HG22 sing N N 382 VAL CG2 HG23 sing N N 383 VAL OXT HXT sing N N 384 # _em_admin.current_status REL _em_admin.deposition_date 2022-01-25 _em_admin.deposition_site RCSB _em_admin.entry_id 7TPK _em_admin.last_update 2024-11-06 _em_admin.map_release_date 2023-02-08 _em_admin.title 'SARS-CoV-2 E406W mutant RBD - Local Refinement' # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' # _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.ncbi_tax_id 2697049 _em_entity_assembly_naturalsource.organism 'Severe acute respiratory syndrome coronavirus 2' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 9606 _em_entity_assembly_recombinant.organism 'Homo sapiens' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time ? _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 63 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'GATAN K3 (6k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # _em_particle_selection.details ? _em_particle_selection.id 1 _em_particle_selection.image_processing_id 1 _em_particle_selection.method ? _em_particle_selection.num_particles_selected 1281585 _em_particle_selection.reference_model ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version 'SYMMETRY DETERMINATION' ? 1 1 1 1 ? ? 'IMAGE ACQUISITION' ? 2 ? ? 1 ? ? MASKING ? 3 ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? ? ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? 'MODEL FITTING' ? 7 ? ? ? ? ? 'MODEL REFINEMENT' ? 8 ? ? ? ? ? OTHER ? 9 ? ? ? ? ? 'INITIAL EULER ASSIGNMENT' ? 10 1 ? ? ? ? 'FINAL EULER ASSIGNMENT' ? 11 1 ? ? ? ? CLASSIFICATION ? 12 1 ? ? ? ? RECONSTRUCTION ? 13 1 ? ? ? ? 'PARTICLE SELECTION' ? 14 1 1 1 ? ? 'VOLUME SELECTION' ? 15 1 1 1 ? ? 'SERIES ALIGNMENT' ? 16 1 1 1 ? ? 'MOLECULAR REPLACEMENT' ? 17 1 1 1 ? ? 'LATTICE DISTORTION CORRECTION' ? 18 1 1 1 ? ? 'CRYSTALLOGRAPHY MERGING' ? 19 1 1 1 ? ? # _em_specimen.concentration ? _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _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 ? _pdbx_audit_support.ordinal 1 # _atom_sites.entry_id 7TPK _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_