data_8DTK # _entry.id 8DTK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 8DTK pdb_00008dtk 10.2210/pdb8dtk/pdb WWPDB D_1000267346 ? ? EMDB EMD-27703 ? ? # 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 2023-08-02 2 'Structure model' 1 1 2024-02-28 # _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 ? # 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' 'Data collection' 2 2 'Structure model' 'Database references' 3 2 'Structure model' 'Refinement description' # 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' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' citation 4 2 'Structure model' citation_author 5 2 'Structure model' em_3d_fitting_list # 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.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_CSD' 4 2 'Structure model' '_citation.journal_id_ISSN' 5 2 'Structure model' '_citation.pdbx_database_id_DOI' 6 2 'Structure model' '_citation.pdbx_database_id_PubMed' 7 2 'Structure model' '_citation.title' 8 2 'Structure model' '_citation.year' 9 2 'Structure model' '_em_3d_fitting_list.accession_code' 10 2 'Structure model' '_em_3d_fitting_list.initial_refinement_model_id' 11 2 'Structure model' '_em_3d_fitting_list.source_name' 12 2 'Structure model' '_em_3d_fitting_list.type' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8DTK _pdbx_database_status.recvd_initial_deposition_date 2022-07-25 _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 'Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interace' _pdbx_database_related.db_id EMD-27703 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 3 _pdbx_contact_author.email priyamvada.acharya@duke.edu _pdbx_contact_author.name_first Priyamvada _pdbx_contact_author.name_last Acharya _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-0089-277X # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'May, A.J.' 1 0000-0003-2262-9750 'Manne, K.' 2 0000-0002-7218-4852 'Acharya, P.' 3 0000-0002-0089-277X # _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 'Broadly neutralizing antibody induction by non-stabilized SARS-CoV-2 Spike mRNA vaccination in nonhuman primates.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1101/2023.12.18.572191 _citation.pdbx_database_id_PubMed 38187726 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Malewana, R.D.' 1 0000-0003-4207-4318 primary 'Stalls, V.' 2 ? primary 'May, A.' 3 ? primary 'Lu, X.' 4 ? primary 'Martinez, D.R.' 5 ? primary 'Schafer, A.' 6 ? primary 'Li, D.' 7 ? primary 'Barr, M.' 8 ? primary 'Sutherland, L.L.' 9 ? primary 'Lee, E.' 10 ? primary 'Parks, R.' 11 ? primary 'Beck, W.E.' 12 ? primary 'Newman, A.' 13 ? primary 'Bock, K.W.' 14 ? primary 'Minai, M.' 15 ? primary 'Nagata, B.M.' 16 ? primary 'DeMarco, C.T.' 17 ? primary 'Denny, T.N.' 18 ? primary 'Oguin 3rd, T.H.' 19 ? primary 'Rountree, W.' 20 ? primary 'Wang, Y.' 21 ? primary 'Mansouri, K.' 22 ? primary 'Edwards, R.J.' 23 ? primary 'Sempowski, G.D.' 24 ? primary 'Eaton, A.' 25 ? primary 'Muramatsu, H.' 26 ? primary 'Henderson, R.' 27 ? primary 'Tam, Y.' 28 ? primary 'Barbosa, C.' 29 ? primary 'Tang, J.' 30 ? primary 'Cain, D.W.' 31 ? primary 'Santra, S.' 32 ? primary 'Moore, I.N.' 33 ? primary 'Andersen, H.' 34 ? primary 'Lewis, M.G.' 35 ? primary 'Golding, H.' 36 ? primary 'Seder, R.' 37 ? primary 'Khurana, S.' 38 ? primary 'Montefiori, D.C.' 39 ? primary 'Pardi, N.' 40 ? primary 'Weissman, D.' 41 ? primary 'Baric, R.S.' 42 ? primary 'Acharya, P.' 43 ? primary 'Haynes, B.F.' 44 ? primary 'Saunders, K.O.' 45 0000-0001-7399-7954 # 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' 22758.518 1 ? ? ? ? 2 polymer man 'DH1047 Fab Light Chain' 12638.008 1 ? ? ? ? 3 polymer man 'DH1047 Fab Heavy Chain' 14615.087 1 ? ? ? ? 4 non-polymer syn 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 2 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;PNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQ IAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCY FPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTN ; ;PNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQ IAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCY FPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTN ; A ? 2 'polypeptide(L)' no no ;DIVMTQSPDSLAVSLGERATINCRSSQSVLYSSNNENYLAWYQQKPGQPPKLLIYWASTRESGIPDRFSGSGSGTDFTLT ISRLQAEDVAVYYCQQYYSLPRTFGQGTKVEIK ; ;DIVMTQSPDSLAVSLGERATINCRSSQSVLYSSNNENYLAWYQQKPGQPPKLLIYWASTRESGIPDRFSGSGSGTDFTLT ISRLQAEDVAVYYCQQYYSLPRTFGQGTKVEIK ; B ? 3 'polypeptide(L)' no no ;QVQLVQSGAEVKKPGASVQVSCQASANTFTNHYIHWVRQAPGQGLEWMGIIYPTGGNTIYAQGFQGRVTMTRDTSLNTIY LELSSLRSEDTAVYYCARDVRVDDSWSGYDLLSGGTYFDYWGQGTLVTVSSAS ; ;QVQLVQSGAEVKKPGASVQVSCQASANTFTNHYIHWVRQAPGQGLEWMGIIYPTGGNTIYAQGFQGRVTMTRDTSLNTIY LELSSLRSEDTAVYYCARDVRVDDSWSGYDLLSGGTYFDYWGQGTLVTVSSAS ; C ? # _pdbx_entity_nonpoly.entity_id 4 _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 PRO n 1 2 ASN n 1 3 ILE n 1 4 THR n 1 5 ASN n 1 6 LEU n 1 7 CYS n 1 8 PRO n 1 9 PHE n 1 10 GLY n 1 11 GLU n 1 12 VAL n 1 13 PHE n 1 14 ASN n 1 15 ALA n 1 16 THR n 1 17 ARG n 1 18 PHE n 1 19 ALA n 1 20 SER n 1 21 VAL n 1 22 TYR n 1 23 ALA n 1 24 TRP n 1 25 ASN n 1 26 ARG n 1 27 LYS n 1 28 ARG n 1 29 ILE n 1 30 SER n 1 31 ASN n 1 32 CYS n 1 33 VAL n 1 34 ALA n 1 35 ASP n 1 36 TYR n 1 37 SER n 1 38 VAL n 1 39 LEU n 1 40 TYR n 1 41 ASN n 1 42 SER n 1 43 ALA n 1 44 SER n 1 45 PHE n 1 46 SER n 1 47 THR n 1 48 PHE n 1 49 LYS n 1 50 CYS n 1 51 TYR n 1 52 GLY n 1 53 VAL n 1 54 SER n 1 55 PRO n 1 56 THR n 1 57 LYS n 1 58 LEU n 1 59 ASN n 1 60 ASP n 1 61 LEU n 1 62 CYS n 1 63 PHE n 1 64 THR n 1 65 ASN n 1 66 VAL n 1 67 TYR n 1 68 ALA n 1 69 ASP n 1 70 SER n 1 71 PHE n 1 72 VAL n 1 73 ILE n 1 74 ARG n 1 75 GLY n 1 76 ASP n 1 77 GLU n 1 78 VAL n 1 79 ARG n 1 80 GLN n 1 81 ILE n 1 82 ALA n 1 83 PRO n 1 84 GLY n 1 85 GLN n 1 86 THR n 1 87 GLY n 1 88 LYS n 1 89 ILE n 1 90 ALA n 1 91 ASP n 1 92 TYR n 1 93 ASN n 1 94 TYR n 1 95 LYS n 1 96 LEU n 1 97 PRO n 1 98 ASP n 1 99 ASP n 1 100 PHE n 1 101 THR n 1 102 GLY n 1 103 CYS n 1 104 VAL n 1 105 ILE n 1 106 ALA n 1 107 TRP n 1 108 ASN n 1 109 SER n 1 110 ASN n 1 111 ASN n 1 112 LEU n 1 113 ASP n 1 114 SER n 1 115 LYS n 1 116 VAL n 1 117 GLY n 1 118 GLY n 1 119 ASN n 1 120 TYR n 1 121 ASN n 1 122 TYR n 1 123 LEU n 1 124 TYR n 1 125 ARG n 1 126 LEU n 1 127 PHE n 1 128 ARG n 1 129 LYS n 1 130 SER n 1 131 ASN n 1 132 LEU n 1 133 LYS n 1 134 PRO n 1 135 PHE n 1 136 GLU n 1 137 ARG n 1 138 ASP n 1 139 ILE n 1 140 SER n 1 141 THR n 1 142 GLU n 1 143 ILE n 1 144 TYR n 1 145 GLN n 1 146 ALA n 1 147 GLY n 1 148 SER n 1 149 THR n 1 150 PRO n 1 151 CYS n 1 152 ASN n 1 153 GLY n 1 154 VAL n 1 155 GLU n 1 156 GLY n 1 157 PHE n 1 158 ASN n 1 159 CYS n 1 160 TYR n 1 161 PHE n 1 162 PRO n 1 163 LEU n 1 164 GLN n 1 165 SER n 1 166 TYR n 1 167 GLY n 1 168 PHE n 1 169 GLN n 1 170 PRO n 1 171 THR n 1 172 ASN n 1 173 GLY n 1 174 VAL n 1 175 GLY n 1 176 TYR n 1 177 GLN n 1 178 PRO n 1 179 TYR n 1 180 ARG n 1 181 VAL n 1 182 VAL n 1 183 VAL n 1 184 LEU n 1 185 SER n 1 186 PHE n 1 187 GLU n 1 188 LEU n 1 189 LEU n 1 190 HIS n 1 191 ALA n 1 192 PRO n 1 193 ALA n 1 194 THR n 1 195 VAL n 1 196 CYS n 1 197 GLY n 1 198 PRO n 1 199 LYS n 1 200 LYS n 1 201 SER n 1 202 THR n 1 203 ASN n 2 1 ASP n 2 2 ILE n 2 3 VAL n 2 4 MET n 2 5 THR n 2 6 GLN n 2 7 SER n 2 8 PRO n 2 9 ASP n 2 10 SER n 2 11 LEU n 2 12 ALA n 2 13 VAL n 2 14 SER n 2 15 LEU n 2 16 GLY n 2 17 GLU n 2 18 ARG n 2 19 ALA n 2 20 THR n 2 21 ILE n 2 22 ASN n 2 23 CYS n 2 24 ARG n 2 25 SER n 2 26 SER n 2 27 GLN n 2 28 SER n 2 29 VAL n 2 30 LEU n 2 31 TYR n 2 32 SER n 2 33 SER n 2 34 ASN n 2 35 ASN n 2 36 GLU n 2 37 ASN n 2 38 TYR n 2 39 LEU n 2 40 ALA n 2 41 TRP n 2 42 TYR n 2 43 GLN n 2 44 GLN n 2 45 LYS n 2 46 PRO n 2 47 GLY n 2 48 GLN n 2 49 PRO n 2 50 PRO n 2 51 LYS n 2 52 LEU n 2 53 LEU n 2 54 ILE n 2 55 TYR n 2 56 TRP n 2 57 ALA n 2 58 SER n 2 59 THR n 2 60 ARG n 2 61 GLU n 2 62 SER n 2 63 GLY n 2 64 ILE n 2 65 PRO n 2 66 ASP n 2 67 ARG n 2 68 PHE n 2 69 SER n 2 70 GLY n 2 71 SER n 2 72 GLY n 2 73 SER n 2 74 GLY n 2 75 THR n 2 76 ASP n 2 77 PHE n 2 78 THR n 2 79 LEU n 2 80 THR n 2 81 ILE n 2 82 SER n 2 83 ARG n 2 84 LEU n 2 85 GLN n 2 86 ALA n 2 87 GLU n 2 88 ASP n 2 89 VAL n 2 90 ALA n 2 91 VAL n 2 92 TYR n 2 93 TYR n 2 94 CYS n 2 95 GLN n 2 96 GLN n 2 97 TYR n 2 98 TYR n 2 99 SER n 2 100 LEU n 2 101 PRO n 2 102 ARG n 2 103 THR n 2 104 PHE n 2 105 GLY n 2 106 GLN n 2 107 GLY n 2 108 THR n 2 109 LYS n 2 110 VAL n 2 111 GLU n 2 112 ILE n 2 113 LYS n 3 1 GLN n 3 2 VAL n 3 3 GLN n 3 4 LEU n 3 5 VAL n 3 6 GLN n 3 7 SER n 3 8 GLY n 3 9 ALA n 3 10 GLU n 3 11 VAL n 3 12 LYS n 3 13 LYS n 3 14 PRO n 3 15 GLY n 3 16 ALA n 3 17 SER n 3 18 VAL n 3 19 GLN n 3 20 VAL n 3 21 SER n 3 22 CYS n 3 23 GLN n 3 24 ALA n 3 25 SER n 3 26 ALA n 3 27 ASN n 3 28 THR n 3 29 PHE n 3 30 THR n 3 31 ASN n 3 32 HIS n 3 33 TYR n 3 34 ILE n 3 35 HIS n 3 36 TRP n 3 37 VAL n 3 38 ARG n 3 39 GLN n 3 40 ALA n 3 41 PRO n 3 42 GLY n 3 43 GLN n 3 44 GLY n 3 45 LEU n 3 46 GLU n 3 47 TRP n 3 48 MET n 3 49 GLY n 3 50 ILE n 3 51 ILE n 3 52 TYR n 3 53 PRO n 3 54 THR n 3 55 GLY n 3 56 GLY n 3 57 ASN n 3 58 THR n 3 59 ILE n 3 60 TYR n 3 61 ALA n 3 62 GLN n 3 63 GLY n 3 64 PHE n 3 65 GLN n 3 66 GLY n 3 67 ARG n 3 68 VAL n 3 69 THR n 3 70 MET n 3 71 THR n 3 72 ARG n 3 73 ASP n 3 74 THR n 3 75 SER n 3 76 LEU n 3 77 ASN n 3 78 THR n 3 79 ILE n 3 80 TYR n 3 81 LEU n 3 82 GLU n 3 83 LEU n 3 84 SER n 3 85 SER n 3 86 LEU n 3 87 ARG n 3 88 SER n 3 89 GLU n 3 90 ASP n 3 91 THR n 3 92 ALA n 3 93 VAL n 3 94 TYR n 3 95 TYR n 3 96 CYS n 3 97 ALA n 3 98 ARG n 3 99 ASP n 3 100 VAL n 3 101 ARG n 3 102 VAL n 3 103 ASP n 3 104 ASP n 3 105 SER n 3 106 TRP n 3 107 SER n 3 108 GLY n 3 109 TYR n 3 110 ASP n 3 111 LEU n 3 112 LEU n 3 113 SER n 3 114 GLY n 3 115 GLY n 3 116 THR n 3 117 TYR n 3 118 PHE n 3 119 ASP n 3 120 TYR n 3 121 TRP n 3 122 GLY n 3 123 GLN n 3 124 GLY n 3 125 THR n 3 126 LEU n 3 127 VAL n 3 128 THR n 3 129 VAL n 3 130 SER n 3 131 SER n 3 132 ALA n 3 133 SER n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _entity_src_gen.pdbx_seq_type _entity_src_gen.pdbx_beg_seq_num _entity_src_gen.pdbx_end_seq_num _entity_src_gen.gene_src_common_name _entity_src_gen.gene_src_genus _entity_src_gen.pdbx_gene_src_gene _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 _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _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 _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _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 1 1 sample 'Biological sequence' 1 203 ? ? 'S, 2' ? ? ? ? ? ? 'Severe acute respiratory syndrome coronavirus 2' 2697049 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample 'Biological sequence' 1 113 ? ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 3 1 sample 'Biological sequence' 1 133 ? ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? # 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 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 PRO 1 330 330 PRO PRO A . n A 1 2 ASN 2 331 331 ASN ASN A . n A 1 3 ILE 3 332 332 ILE ILE A . n A 1 4 THR 4 333 333 THR THR A . n A 1 5 ASN 5 334 334 ASN ASN A . n A 1 6 LEU 6 335 335 LEU LEU A . n A 1 7 CYS 7 336 336 CYS CYS A . n A 1 8 PRO 8 337 337 PRO PRO A . n A 1 9 PHE 9 338 338 PHE PHE A . n A 1 10 GLY 10 339 339 GLY GLY A . n A 1 11 GLU 11 340 340 GLU GLU A . n A 1 12 VAL 12 341 341 VAL VAL A . n A 1 13 PHE 13 342 342 PHE PHE A . n A 1 14 ASN 14 343 343 ASN ASN A . n A 1 15 ALA 15 344 344 ALA ALA A . n A 1 16 THR 16 345 345 THR THR A . n A 1 17 ARG 17 346 346 ARG ARG A . n A 1 18 PHE 18 347 347 PHE PHE A . n A 1 19 ALA 19 348 348 ALA ALA A . n A 1 20 SER 20 349 349 SER SER A . n A 1 21 VAL 21 350 350 VAL VAL A . n A 1 22 TYR 22 351 351 TYR TYR A . n A 1 23 ALA 23 352 352 ALA ALA A . n A 1 24 TRP 24 353 353 TRP TRP A . n A 1 25 ASN 25 354 354 ASN ASN A . n A 1 26 ARG 26 355 355 ARG ARG A . n A 1 27 LYS 27 356 356 LYS LYS A . n A 1 28 ARG 28 357 357 ARG ARG A . n A 1 29 ILE 29 358 358 ILE ILE A . n A 1 30 SER 30 359 359 SER SER A . n A 1 31 ASN 31 360 360 ASN ASN A . n A 1 32 CYS 32 361 361 CYS CYS A . n A 1 33 VAL 33 362 362 VAL VAL A . n A 1 34 ALA 34 363 363 ALA ALA A . n A 1 35 ASP 35 364 364 ASP ASP A . n A 1 36 TYR 36 365 365 TYR TYR A . n A 1 37 SER 37 366 366 SER SER A . n A 1 38 VAL 38 367 367 VAL VAL A . n A 1 39 LEU 39 368 368 LEU LEU A . n A 1 40 TYR 40 369 369 TYR TYR A . n A 1 41 ASN 41 370 370 ASN ASN A . n A 1 42 SER 42 371 371 SER SER A . n A 1 43 ALA 43 372 372 ALA ALA A . n A 1 44 SER 44 373 373 SER SER A . n A 1 45 PHE 45 374 374 PHE PHE A . n A 1 46 SER 46 375 375 SER SER A . n A 1 47 THR 47 376 376 THR THR A . n A 1 48 PHE 48 377 377 PHE PHE A . n A 1 49 LYS 49 378 378 LYS LYS A . n A 1 50 CYS 50 379 379 CYS CYS A . n A 1 51 TYR 51 380 380 TYR TYR A . n A 1 52 GLY 52 381 381 GLY GLY A . n A 1 53 VAL 53 382 382 VAL VAL A . n A 1 54 SER 54 383 383 SER SER A . n A 1 55 PRO 55 384 384 PRO PRO A . n A 1 56 THR 56 385 385 THR THR A . n A 1 57 LYS 57 386 386 LYS LYS A . n A 1 58 LEU 58 387 387 LEU LEU A . n A 1 59 ASN 59 388 388 ASN ASN A . n A 1 60 ASP 60 389 389 ASP ASP A . n A 1 61 LEU 61 390 390 LEU LEU A . n A 1 62 CYS 62 391 391 CYS CYS A . n A 1 63 PHE 63 392 392 PHE PHE A . n A 1 64 THR 64 393 393 THR THR A . n A 1 65 ASN 65 394 394 ASN ASN A . n A 1 66 VAL 66 395 395 VAL VAL A . n A 1 67 TYR 67 396 396 TYR TYR A . n A 1 68 ALA 68 397 397 ALA ALA A . n A 1 69 ASP 69 398 398 ASP ASP A . n A 1 70 SER 70 399 399 SER SER A . n A 1 71 PHE 71 400 400 PHE PHE A . n A 1 72 VAL 72 401 401 VAL VAL A . n A 1 73 ILE 73 402 402 ILE ILE A . n A 1 74 ARG 74 403 403 ARG ARG A . n A 1 75 GLY 75 404 404 GLY GLY A . n A 1 76 ASP 76 405 405 ASP ASP A . n A 1 77 GLU 77 406 406 GLU GLU A . n A 1 78 VAL 78 407 407 VAL VAL A . n A 1 79 ARG 79 408 408 ARG ARG A . n A 1 80 GLN 80 409 409 GLN GLN A . n A 1 81 ILE 81 410 410 ILE ILE A . n A 1 82 ALA 82 411 411 ALA ALA A . n A 1 83 PRO 83 412 412 PRO PRO A . n A 1 84 GLY 84 413 413 GLY GLY A . n A 1 85 GLN 85 414 414 GLN GLN A . n A 1 86 THR 86 415 415 THR THR A . n A 1 87 GLY 87 416 416 GLY GLY A . n A 1 88 LYS 88 417 417 LYS LYS A . n A 1 89 ILE 89 418 418 ILE ILE A . n A 1 90 ALA 90 419 419 ALA ALA A . n A 1 91 ASP 91 420 420 ASP ASP A . n A 1 92 TYR 92 421 421 TYR TYR A . n A 1 93 ASN 93 422 422 ASN ASN A . n A 1 94 TYR 94 423 423 TYR TYR A . n A 1 95 LYS 95 424 424 LYS LYS A . n A 1 96 LEU 96 425 425 LEU LEU A . n A 1 97 PRO 97 426 426 PRO PRO A . n A 1 98 ASP 98 427 427 ASP ASP A . n A 1 99 ASP 99 428 428 ASP ASP A . n A 1 100 PHE 100 429 429 PHE PHE A . n A 1 101 THR 101 430 430 THR THR A . n A 1 102 GLY 102 431 431 GLY GLY A . n A 1 103 CYS 103 432 432 CYS CYS A . n A 1 104 VAL 104 433 433 VAL VAL A . n A 1 105 ILE 105 434 434 ILE ILE A . n A 1 106 ALA 106 435 435 ALA ALA A . n A 1 107 TRP 107 436 436 TRP TRP A . n A 1 108 ASN 108 437 437 ASN ASN A . n A 1 109 SER 109 438 438 SER SER A . n A 1 110 ASN 110 439 439 ASN ASN A . n A 1 111 ASN 111 440 440 ASN ASN A . n A 1 112 LEU 112 441 441 LEU LEU A . n A 1 113 ASP 113 442 442 ASP ASP A . n A 1 114 SER 114 443 443 SER SER A . n A 1 115 LYS 115 444 444 LYS LYS A . n A 1 116 VAL 116 445 445 VAL VAL A . n A 1 117 GLY 117 446 446 GLY GLY A . n A 1 118 GLY 118 447 447 GLY GLY A . n A 1 119 ASN 119 448 448 ASN ASN A . n A 1 120 TYR 120 449 449 TYR TYR A . n A 1 121 ASN 121 450 450 ASN ASN A . n A 1 122 TYR 122 451 451 TYR TYR A . n A 1 123 LEU 123 452 452 LEU LEU A . n A 1 124 TYR 124 453 453 TYR TYR A . n A 1 125 ARG 125 454 454 ARG ARG A . n A 1 126 LEU 126 455 455 LEU LEU A . n A 1 127 PHE 127 456 456 PHE PHE A . n A 1 128 ARG 128 457 457 ARG ARG A . n A 1 129 LYS 129 458 458 LYS LYS A . n A 1 130 SER 130 459 459 SER SER A . n A 1 131 ASN 131 460 460 ASN ASN A . n A 1 132 LEU 132 461 461 LEU LEU A . n A 1 133 LYS 133 462 462 LYS LYS A . n A 1 134 PRO 134 463 463 PRO PRO A . n A 1 135 PHE 135 464 464 PHE PHE A . n A 1 136 GLU 136 465 465 GLU GLU A . n A 1 137 ARG 137 466 466 ARG ARG A . n A 1 138 ASP 138 467 467 ASP ASP A . n A 1 139 ILE 139 468 468 ILE ILE A . n A 1 140 SER 140 469 469 SER SER A . n A 1 141 THR 141 470 470 THR THR A . n A 1 142 GLU 142 471 471 GLU GLU A . n A 1 143 ILE 143 472 472 ILE ILE A . n A 1 144 TYR 144 473 473 TYR TYR A . n A 1 145 GLN 145 474 474 GLN GLN A . n A 1 146 ALA 146 475 475 ALA ALA A . n A 1 147 GLY 147 476 476 GLY GLY A . n A 1 148 SER 148 477 477 SER SER A . n A 1 149 THR 149 478 478 THR THR A . n A 1 150 PRO 150 479 479 PRO PRO A . n A 1 151 CYS 151 480 480 CYS CYS A . n A 1 152 ASN 152 481 481 ASN ASN A . n A 1 153 GLY 153 482 482 GLY GLY A . n A 1 154 VAL 154 483 483 VAL VAL A . n A 1 155 GLU 155 484 484 GLU GLU A . n A 1 156 GLY 156 485 485 GLY GLY A . n A 1 157 PHE 157 486 486 PHE PHE A . n A 1 158 ASN 158 487 487 ASN ASN A . n A 1 159 CYS 159 488 488 CYS CYS A . n A 1 160 TYR 160 489 489 TYR TYR A . n A 1 161 PHE 161 490 490 PHE PHE A . n A 1 162 PRO 162 491 491 PRO PRO A . n A 1 163 LEU 163 492 492 LEU LEU A . n A 1 164 GLN 164 493 493 GLN GLN A . n A 1 165 SER 165 494 494 SER SER A . n A 1 166 TYR 166 495 495 TYR TYR A . n A 1 167 GLY 167 496 496 GLY GLY A . n A 1 168 PHE 168 497 497 PHE PHE A . n A 1 169 GLN 169 498 498 GLN GLN A . n A 1 170 PRO 170 499 499 PRO PRO A . n A 1 171 THR 171 500 500 THR THR A . n A 1 172 ASN 172 501 501 ASN ASN A . n A 1 173 GLY 173 502 502 GLY GLY A . n A 1 174 VAL 174 503 503 VAL VAL A . n A 1 175 GLY 175 504 504 GLY GLY A . n A 1 176 TYR 176 505 505 TYR TYR A . n A 1 177 GLN 177 506 506 GLN GLN A . n A 1 178 PRO 178 507 507 PRO PRO A . n A 1 179 TYR 179 508 508 TYR TYR A . n A 1 180 ARG 180 509 509 ARG ARG A . n A 1 181 VAL 181 510 510 VAL VAL A . n A 1 182 VAL 182 511 511 VAL VAL A . n A 1 183 VAL 183 512 512 VAL VAL A . n A 1 184 LEU 184 513 513 LEU LEU A . n A 1 185 SER 185 514 514 SER SER A . n A 1 186 PHE 186 515 515 PHE PHE A . n A 1 187 GLU 187 516 516 GLU GLU A . n A 1 188 LEU 188 517 517 LEU LEU A . n A 1 189 LEU 189 518 518 LEU LEU A . n A 1 190 HIS 190 519 519 HIS HIS A . n A 1 191 ALA 191 520 520 ALA ALA A . n A 1 192 PRO 192 521 521 PRO PRO A . n A 1 193 ALA 193 522 522 ALA ALA A . n A 1 194 THR 194 523 523 THR THR A . n A 1 195 VAL 195 524 524 VAL VAL A . n A 1 196 CYS 196 525 525 CYS CYS A . n A 1 197 GLY 197 526 526 GLY GLY A . n A 1 198 PRO 198 527 527 PRO PRO A . n A 1 199 LYS 199 528 528 LYS LYS A . n A 1 200 LYS 200 529 529 LYS LYS A . n A 1 201 SER 201 530 530 SER SER A . n A 1 202 THR 202 531 531 THR THR A . n A 1 203 ASN 203 532 532 ASN ASN A . n B 2 1 ASP 1 1 1 ASP ASP B . n B 2 2 ILE 2 2 2 ILE ILE B . n B 2 3 VAL 3 3 3 VAL VAL B . n B 2 4 MET 4 4 4 MET MET B . n B 2 5 THR 5 5 5 THR THR B . n B 2 6 GLN 6 6 6 GLN GLN B . n B 2 7 SER 7 7 7 SER SER B . n B 2 8 PRO 8 8 8 PRO PRO B . n B 2 9 ASP 9 9 9 ASP ASP B . n B 2 10 SER 10 10 10 SER SER B . n B 2 11 LEU 11 11 11 LEU LEU B . n B 2 12 ALA 12 12 12 ALA ALA B . n B 2 13 VAL 13 13 13 VAL VAL B . n B 2 14 SER 14 14 14 SER SER B . n B 2 15 LEU 15 15 15 LEU LEU B . n B 2 16 GLY 16 16 16 GLY GLY B . n B 2 17 GLU 17 17 17 GLU GLU B . n B 2 18 ARG 18 18 18 ARG ARG B . n B 2 19 ALA 19 19 19 ALA ALA B . n B 2 20 THR 20 20 20 THR THR B . n B 2 21 ILE 21 21 21 ILE ILE B . n B 2 22 ASN 22 22 22 ASN ASN B . n B 2 23 CYS 23 23 23 CYS CYS B . n B 2 24 ARG 24 24 24 ARG ARG B . n B 2 25 SER 25 25 25 SER SER B . n B 2 26 SER 26 26 26 SER SER B . n B 2 27 GLN 27 27 27 GLN GLN B . n B 2 28 SER 28 27 27 SER SER B A n B 2 29 VAL 29 27 27 VAL VAL B B n B 2 30 LEU 30 27 27 LEU LEU B C n B 2 31 TYR 31 27 27 TYR TYR B D n B 2 32 SER 32 27 27 SER SER B E n B 2 33 SER 33 27 27 SER SER B F n B 2 34 ASN 34 28 28 ASN ASN B . n B 2 35 ASN 35 29 29 ASN ASN B . n B 2 36 GLU 36 30 30 GLU GLU B . n B 2 37 ASN 37 31 31 ASN ASN B . n B 2 38 TYR 38 32 32 TYR TYR B . n B 2 39 LEU 39 33 33 LEU LEU B . n B 2 40 ALA 40 34 34 ALA ALA B . n B 2 41 TRP 41 35 35 TRP TRP B . n B 2 42 TYR 42 36 36 TYR TYR B . n B 2 43 GLN 43 37 37 GLN GLN B . n B 2 44 GLN 44 38 38 GLN GLN B . n B 2 45 LYS 45 39 39 LYS LYS B . n B 2 46 PRO 46 40 40 PRO PRO B . n B 2 47 GLY 47 41 41 GLY GLY B . n B 2 48 GLN 48 42 42 GLN GLN B . n B 2 49 PRO 49 43 43 PRO PRO B . n B 2 50 PRO 50 44 44 PRO PRO B . n B 2 51 LYS 51 45 45 LYS LYS B . n B 2 52 LEU 52 46 46 LEU LEU B . n B 2 53 LEU 53 47 47 LEU LEU B . n B 2 54 ILE 54 48 48 ILE ILE B . n B 2 55 TYR 55 49 49 TYR TYR B . n B 2 56 TRP 56 50 50 TRP TRP B . n B 2 57 ALA 57 51 51 ALA ALA B . n B 2 58 SER 58 52 52 SER SER B . n B 2 59 THR 59 53 53 THR THR B . n B 2 60 ARG 60 54 54 ARG ARG B . n B 2 61 GLU 61 55 55 GLU GLU B . n B 2 62 SER 62 56 56 SER SER B . n B 2 63 GLY 63 57 57 GLY GLY B . n B 2 64 ILE 64 58 58 ILE ILE B . n B 2 65 PRO 65 59 59 PRO PRO B . n B 2 66 ASP 66 60 60 ASP ASP B . n B 2 67 ARG 67 61 61 ARG ARG B . n B 2 68 PHE 68 62 62 PHE PHE B . n B 2 69 SER 69 63 63 SER SER B . n B 2 70 GLY 70 64 64 GLY GLY B . n B 2 71 SER 71 65 65 SER SER B . n B 2 72 GLY 72 66 66 GLY GLY B . n B 2 73 SER 73 67 67 SER SER B . n B 2 74 GLY 74 68 68 GLY GLY B . n B 2 75 THR 75 69 69 THR THR B . n B 2 76 ASP 76 70 70 ASP ASP B . n B 2 77 PHE 77 71 71 PHE PHE B . n B 2 78 THR 78 72 72 THR THR B . n B 2 79 LEU 79 73 73 LEU LEU B . n B 2 80 THR 80 74 74 THR THR B . n B 2 81 ILE 81 75 75 ILE ILE B . n B 2 82 SER 82 76 76 SER SER B . n B 2 83 ARG 83 77 77 ARG ARG B . n B 2 84 LEU 84 78 78 LEU LEU B . n B 2 85 GLN 85 79 79 GLN GLN B . n B 2 86 ALA 86 80 80 ALA ALA B . n B 2 87 GLU 87 81 81 GLU GLU B . n B 2 88 ASP 88 82 82 ASP ASP B . n B 2 89 VAL 89 83 83 VAL VAL B . n B 2 90 ALA 90 84 84 ALA ALA B . n B 2 91 VAL 91 85 85 VAL VAL B . n B 2 92 TYR 92 86 86 TYR TYR B . n B 2 93 TYR 93 87 87 TYR TYR B . n B 2 94 CYS 94 88 88 CYS CYS B . n B 2 95 GLN 95 89 89 GLN GLN B . n B 2 96 GLN 96 90 90 GLN GLN B . n B 2 97 TYR 97 91 91 TYR TYR B . n B 2 98 TYR 98 92 92 TYR TYR B . n B 2 99 SER 99 93 93 SER SER B . n B 2 100 LEU 100 94 94 LEU LEU B . n B 2 101 PRO 101 95 95 PRO PRO B . n B 2 102 ARG 102 96 96 ARG ARG B . n B 2 103 THR 103 97 97 THR THR B . n B 2 104 PHE 104 98 98 PHE PHE B . n B 2 105 GLY 105 99 99 GLY GLY B . n B 2 106 GLN 106 100 100 GLN GLN B . n B 2 107 GLY 107 101 101 GLY GLY B . n B 2 108 THR 108 102 102 THR THR B . n B 2 109 LYS 109 103 103 LYS LYS B . n B 2 110 VAL 110 104 104 VAL VAL B . n B 2 111 GLU 111 105 105 GLU GLU B . n B 2 112 ILE 112 106 106 ILE ILE B . n B 2 113 LYS 113 107 107 LYS LYS B . n C 3 1 GLN 1 1 1 GLN GLN C . n C 3 2 VAL 2 2 2 VAL VAL C . n C 3 3 GLN 3 3 3 GLN GLN C . n C 3 4 LEU 4 4 4 LEU LEU C . n C 3 5 VAL 5 5 5 VAL VAL C . n C 3 6 GLN 6 6 6 GLN GLN C . n C 3 7 SER 7 7 7 SER SER C . n C 3 8 GLY 8 8 8 GLY GLY C . n C 3 9 ALA 9 9 9 ALA ALA C . n C 3 10 GLU 10 10 10 GLU GLU C . n C 3 11 VAL 11 11 11 VAL VAL C . n C 3 12 LYS 12 12 12 LYS LYS C . n C 3 13 LYS 13 13 13 LYS LYS C . n C 3 14 PRO 14 14 14 PRO PRO C . n C 3 15 GLY 15 15 15 GLY GLY C . n C 3 16 ALA 16 16 16 ALA ALA C . n C 3 17 SER 17 17 17 SER SER C . n C 3 18 VAL 18 18 18 VAL VAL C . n C 3 19 GLN 19 19 19 GLN GLN C . n C 3 20 VAL 20 20 20 VAL VAL C . n C 3 21 SER 21 21 21 SER SER C . n C 3 22 CYS 22 22 22 CYS CYS C . n C 3 23 GLN 23 23 23 GLN GLN C . n C 3 24 ALA 24 24 24 ALA ALA C . n C 3 25 SER 25 25 25 SER SER C . n C 3 26 ALA 26 26 26 ALA ALA C . n C 3 27 ASN 27 27 27 ASN ASN C . n C 3 28 THR 28 28 28 THR THR C . n C 3 29 PHE 29 29 29 PHE PHE C . n C 3 30 THR 30 30 30 THR THR C . n C 3 31 ASN 31 31 31 ASN ASN C . n C 3 32 HIS 32 32 32 HIS HIS C . n C 3 33 TYR 33 33 33 TYR TYR C . n C 3 34 ILE 34 34 34 ILE ILE C . n C 3 35 HIS 35 35 35 HIS HIS C . n C 3 36 TRP 36 36 36 TRP TRP C . n C 3 37 VAL 37 37 37 VAL VAL C . n C 3 38 ARG 38 38 38 ARG ARG C . n C 3 39 GLN 39 39 39 GLN GLN C . n C 3 40 ALA 40 40 40 ALA ALA C . n C 3 41 PRO 41 41 41 PRO PRO C . n C 3 42 GLY 42 42 42 GLY GLY C . n C 3 43 GLN 43 43 43 GLN GLN C . n C 3 44 GLY 44 44 44 GLY GLY C . n C 3 45 LEU 45 45 45 LEU LEU C . n C 3 46 GLU 46 46 46 GLU GLU C . n C 3 47 TRP 47 47 47 TRP TRP C . n C 3 48 MET 48 48 48 MET MET C . n C 3 49 GLY 49 49 49 GLY GLY C . n C 3 50 ILE 50 50 50 ILE ILE C . n C 3 51 ILE 51 51 51 ILE ILE C . n C 3 52 TYR 52 52 52 TYR TYR C . n C 3 53 PRO 53 52 52 PRO PRO C A n C 3 54 THR 54 53 53 THR THR C . n C 3 55 GLY 55 54 54 GLY GLY C . n C 3 56 GLY 56 55 55 GLY GLY C . n C 3 57 ASN 57 56 56 ASN ASN C . n C 3 58 THR 58 57 57 THR THR C . n C 3 59 ILE 59 58 58 ILE ILE C . n C 3 60 TYR 60 59 59 TYR TYR C . n C 3 61 ALA 61 60 60 ALA ALA C . n C 3 62 GLN 62 61 61 GLN GLN C . n C 3 63 GLY 63 62 62 GLY GLY C . n C 3 64 PHE 64 63 63 PHE PHE C . n C 3 65 GLN 65 64 64 GLN GLN C . n C 3 66 GLY 66 65 65 GLY GLY C . n C 3 67 ARG 67 66 66 ARG ARG C . n C 3 68 VAL 68 67 67 VAL VAL C . n C 3 69 THR 69 68 68 THR THR C . n C 3 70 MET 70 69 69 MET MET C . n C 3 71 THR 71 70 70 THR THR C . n C 3 72 ARG 72 71 71 ARG ARG C . n C 3 73 ASP 73 72 72 ASP ASP C . n C 3 74 THR 74 73 73 THR THR C . n C 3 75 SER 75 74 74 SER SER C . n C 3 76 LEU 76 75 75 LEU LEU C . n C 3 77 ASN 77 76 76 ASN ASN C . n C 3 78 THR 78 77 77 THR THR C . n C 3 79 ILE 79 78 78 ILE ILE C . n C 3 80 TYR 80 79 79 TYR TYR C . n C 3 81 LEU 81 80 80 LEU LEU C . n C 3 82 GLU 82 81 81 GLU GLU C . n C 3 83 LEU 83 82 82 LEU LEU C . n C 3 84 SER 84 82 82 SER SER C A n C 3 85 SER 85 82 82 SER SER C B n C 3 86 LEU 86 82 82 LEU LEU C C n C 3 87 ARG 87 83 83 ARG ARG C . n C 3 88 SER 88 84 84 SER SER C . n C 3 89 GLU 89 85 85 GLU GLU C . n C 3 90 ASP 90 86 86 ASP ASP C . n C 3 91 THR 91 87 87 THR THR C . n C 3 92 ALA 92 88 88 ALA ALA C . n C 3 93 VAL 93 89 89 VAL VAL C . n C 3 94 TYR 94 90 90 TYR TYR C . n C 3 95 TYR 95 91 91 TYR TYR C . n C 3 96 CYS 96 92 92 CYS CYS C . n C 3 97 ALA 97 93 93 ALA ALA C . n C 3 98 ARG 98 94 94 ARG ARG C . n C 3 99 ASP 99 95 95 ASP ASP C . n C 3 100 VAL 100 96 96 VAL VAL C . n C 3 101 ARG 101 97 97 ARG ARG C . n C 3 102 VAL 102 98 98 VAL VAL C . n C 3 103 ASP 103 99 99 ASP ASP C . n C 3 104 ASP 104 100 100 ASP ASP C . n C 3 105 SER 105 100 100 SER SER C A n C 3 106 TRP 106 100 100 TRP TRP C B n C 3 107 SER 107 100 100 SER SER C C n C 3 108 GLY 108 100 100 GLY GLY C D n C 3 109 TYR 109 100 100 TYR TYR C E n C 3 110 ASP 110 100 100 ASP ASP C F n C 3 111 LEU 111 100 100 LEU LEU C G n C 3 112 LEU 112 100 100 LEU LEU C H n C 3 113 SER 113 100 100 SER SER C I n C 3 114 GLY 114 100 100 GLY GLY C J n C 3 115 GLY 115 100 100 GLY GLY C K n C 3 116 THR 116 100 100 THR THR C L n C 3 117 TYR 117 100 100 TYR TYR C M n C 3 118 PHE 118 100 100 PHE PHE C N n C 3 119 ASP 119 101 101 ASP ASP C . n C 3 120 TYR 120 102 102 TYR TYR C . n C 3 121 TRP 121 103 103 TRP TRP C . n C 3 122 GLY 122 104 104 GLY GLY C . n C 3 123 GLN 123 105 105 GLN GLN C . n C 3 124 GLY 124 106 106 GLY GLY C . n C 3 125 THR 125 107 107 THR THR C . n C 3 126 LEU 126 108 108 LEU LEU C . n C 3 127 VAL 127 109 109 VAL VAL C . n C 3 128 THR 128 110 110 THR THR C . n C 3 129 VAL 129 111 111 VAL VAL C . n C 3 130 SER 130 112 112 SER SER C . n C 3 131 SER 131 113 113 SER SER C . n C 3 132 ALA 132 114 114 ALA ALA C . n C 3 133 SER 133 115 115 SER SER C . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code D 4 NAG 1 601 1 NAG NAG A . E 4 NAG 1 602 601 NAG NAG A . # _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: _software.pdbx_ordinal 1 # _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 8DTK _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 8DTK _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 8DTK _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _struct.entry_id 8DTK _struct.title 'Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interace' _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 8DTK _struct_keywords.text 'RBD, Fab, Viral Protein, Viral Protein-Immune System Complex' _struct_keywords.pdbx_keywords 'Viral Protein/Immune System' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 4 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 UNP SPIKE_SARS2 P0DTC2 ? 1 ;PNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQ IAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCY FPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTN ; 330 2 PDB 8DTK 8DTK ? 2 ? 1 3 PDB 8DTK 8DTK ? 3 ? 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 8DTK A 1 ? 203 ? P0DTC2 330 ? 532 ? 330 532 2 2 8DTK B 1 ? 113 ? 8DTK 1 ? 107 ? 1 107 3 3 8DTK C 1 ? 133 ? 8DTK 1 ? 115 ? 1 115 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'surface plasmon resonance' _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 8 ? ASN A 14 ? PRO A 337 ASN A 343 1 ? 7 HELX_P HELX_P2 AA2 SER A 20 ? TRP A 24 ? SER A 349 TRP A 353 5 ? 5 HELX_P HELX_P3 AA3 TYR A 36 ? ASN A 41 ? TYR A 365 ASN A 370 1 ? 6 HELX_P HELX_P4 AA4 PRO A 55 ? LEU A 61 ? PRO A 384 LEU A 390 5 ? 7 HELX_P HELX_P5 AA5 ASP A 76 ? ILE A 81 ? ASP A 405 ILE A 410 5 ? 6 HELX_P HELX_P6 AA6 GLY A 87 ? ASN A 93 ? GLY A 416 ASN A 422 1 ? 7 HELX_P HELX_P7 AA7 GLY A 173 ? TYR A 176 ? GLY A 502 TYR A 505 5 ? 4 HELX_P HELX_P8 AA8 GLN C 62 ? GLN C 65 ? GLN C 61 GLN C 64 5 ? 4 HELX_P HELX_P9 AA9 ARG C 87 ? THR C 91 ? ARG C 83 THR C 87 5 ? 5 # _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 7 SG ? ? ? 1_555 A CYS 32 SG ? ? A CYS 336 A CYS 361 1_555 ? ? ? ? ? ? ? 2.028 ? ? disulf2 disulf ? ? A CYS 50 SG ? ? ? 1_555 A CYS 103 SG ? ? A CYS 379 A CYS 432 1_555 ? ? ? ? ? ? ? 2.034 ? ? disulf3 disulf ? ? A CYS 62 SG ? ? ? 1_555 A CYS 196 SG ? ? A CYS 391 A CYS 525 1_555 ? ? ? ? ? ? ? 2.040 ? ? disulf4 disulf ? ? A CYS 151 SG ? ? ? 1_555 A CYS 159 SG ? ? A CYS 480 A CYS 488 1_555 ? ? ? ? ? ? ? 2.032 ? ? disulf5 disulf ? ? B CYS 23 SG ? ? ? 1_555 B CYS 94 SG ? ? B CYS 23 B CYS 88 1_555 ? ? ? ? ? ? ? 2.036 ? ? disulf6 disulf ? ? C CYS 22 SG ? ? ? 1_555 C CYS 96 SG ? ? C CYS 22 C CYS 92 1_555 ? ? ? ? ? ? ? 2.033 ? ? covale1 covale one ? A ASN 2 ND2 ? ? ? 1_555 D NAG . C1 ? ? A ASN 331 A NAG 601 1_555 ? ? ? ? ? ? ? 1.439 ? N-Glycosylation covale2 covale one ? A ASN 14 ND2 ? ? ? 1_555 E NAG . C1 ? ? A ASN 343 A NAG 602 1_555 ? ? ? ? ? ? ? 1.438 ? N-Glycosylation # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id LEU _struct_mon_prot_cis.label_seq_id 100 _struct_mon_prot_cis.label_asym_id B _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id LEU _struct_mon_prot_cis.auth_seq_id 94 _struct_mon_prot_cis.auth_asym_id B _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 101 _struct_mon_prot_cis.pdbx_label_asym_id_2 B _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 95 _struct_mon_prot_cis.pdbx_auth_asym_id_2 B _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 1.95 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 5 ? AA2 ? 3 ? AA3 ? 2 ? AA4 ? 2 ? AA5 ? 4 ? AA6 ? 5 ? AA7 ? 3 ? AA8 ? 6 ? AA9 ? 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 ? anti-parallel AA2 2 3 ? anti-parallel AA3 1 2 ? anti-parallel AA4 1 2 ? anti-parallel AA5 1 2 ? anti-parallel AA5 2 3 ? anti-parallel AA5 3 4 ? anti-parallel AA6 1 2 ? parallel AA6 2 3 ? anti-parallel AA6 3 4 ? anti-parallel AA6 4 5 ? anti-parallel AA7 1 2 ? anti-parallel AA7 2 3 ? anti-parallel AA8 1 2 ? parallel AA8 2 3 ? anti-parallel AA8 3 4 ? anti-parallel AA8 4 5 ? anti-parallel AA8 5 6 ? anti-parallel AA9 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 25 ? ILE A 29 ? ASN A 354 ILE A 358 AA1 2 ASN A 65 ? ARG A 74 ? ASN A 394 ARG A 403 AA1 3 PRO A 178 ? VAL A 182 ? PRO A 507 VAL A 511 AA1 4 ILE A 105 ? ASN A 108 ? ILE A 434 ASN A 437 AA1 5 PHE A 45 ? THR A 47 ? PHE A 374 THR A 376 AA2 1 ASN A 25 ? ILE A 29 ? ASN A 354 ILE A 358 AA2 2 ASN A 65 ? ARG A 74 ? ASN A 394 ARG A 403 AA2 3 SER A 185 ? GLU A 187 ? SER A 514 GLU A 516 AA3 1 LEU A 123 ? ARG A 125 ? LEU A 452 ARG A 454 AA3 2 LEU A 163 ? SER A 165 ? LEU A 492 SER A 494 AA4 1 TYR A 144 ? GLN A 145 ? TYR A 473 GLN A 474 AA4 2 CYS A 159 ? TYR A 160 ? CYS A 488 TYR A 489 AA5 1 MET B 4 ? THR B 5 ? MET B 4 THR B 5 AA5 2 ALA B 19 ? SER B 25 ? ALA B 19 SER B 25 AA5 3 ASP B 76 ? ILE B 81 ? ASP B 70 ILE B 75 AA5 4 PHE B 68 ? SER B 73 ? PHE B 62 SER B 67 AA6 1 SER B 10 ? VAL B 13 ? SER B 10 VAL B 13 AA6 2 THR B 108 ? ILE B 112 ? THR B 102 ILE B 106 AA6 3 VAL B 91 ? GLN B 95 ? VAL B 85 GLN B 89 AA6 4 ALA B 40 ? GLN B 44 ? ALA B 34 GLN B 38 AA6 5 LYS B 51 ? ILE B 54 ? LYS B 45 ILE B 48 AA7 1 LEU C 4 ? GLN C 6 ? LEU C 4 GLN C 6 AA7 2 SER C 21 ? ALA C 24 ? SER C 21 ALA C 24 AA7 3 ILE C 79 ? TYR C 80 ? ILE C 78 TYR C 79 AA8 1 GLU C 10 ? LYS C 12 ? GLU C 10 LYS C 12 AA8 2 LEU C 126 ? VAL C 129 ? LEU C 108 VAL C 111 AA8 3 ALA C 92 ? TYR C 95 ? ALA C 88 TYR C 91 AA8 4 ILE C 34 ? GLN C 39 ? ILE C 34 GLN C 39 AA8 5 LEU C 45 ? ILE C 51 ? LEU C 45 ILE C 51 AA8 6 THR C 58 ? TYR C 60 ? THR C 57 TYR C 59 AA9 1 SER C 17 ? VAL C 18 ? SER C 17 VAL C 18 AA9 2 LEU C 83 ? SER C 84 A LEU C 82 SER C 82 # 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 29 ? N ILE A 358 O VAL A 66 ? O VAL A 395 AA1 2 3 N ILE A 73 ? N ILE A 402 O TYR A 179 ? O TYR A 508 AA1 3 4 O VAL A 182 ? O VAL A 511 N ILE A 105 ? N ILE A 434 AA1 4 5 O ALA A 106 ? O ALA A 435 N THR A 47 ? N THR A 376 AA2 1 2 N ILE A 29 ? N ILE A 358 O VAL A 66 ? O VAL A 395 AA2 2 3 N TYR A 67 ? N TYR A 396 O SER A 185 ? O SER A 514 AA3 1 2 N TYR A 124 ? N TYR A 453 O GLN A 164 ? O GLN A 493 AA4 1 2 N TYR A 144 ? N TYR A 473 O TYR A 160 ? O TYR A 489 AA5 1 2 N THR B 5 ? N THR B 5 O ARG B 24 ? O ARG B 24 AA5 2 3 N CYS B 23 ? N CYS B 23 O PHE B 77 ? O PHE B 71 AA5 3 4 O THR B 80 ? O THR B 74 N SER B 69 ? N SER B 63 AA6 1 2 N VAL B 13 ? N VAL B 13 O GLU B 111 ? O GLU B 105 AA6 2 3 O THR B 108 ? O THR B 102 N TYR B 92 ? N TYR B 86 AA6 3 4 O TYR B 93 ? O TYR B 87 N TYR B 42 ? N TYR B 36 AA6 4 5 N TRP B 41 ? N TRP B 35 O LEU B 53 ? O LEU B 47 AA7 1 2 N VAL C 5 ? N VAL C 5 O GLN C 23 ? O GLN C 23 AA7 2 3 N CYS C 22 ? N CYS C 22 O ILE C 79 ? O ILE C 78 AA8 1 2 N LYS C 12 ? N LYS C 12 O THR C 128 ? O THR C 110 AA8 2 3 O VAL C 127 ? O VAL C 109 N ALA C 92 ? N ALA C 88 AA8 3 4 O TYR C 95 ? O TYR C 91 N VAL C 37 ? N VAL C 37 AA8 4 5 N ARG C 38 ? N ARG C 38 O GLU C 46 ? O GLU C 46 AA8 5 6 N ILE C 50 ? N ILE C 50 O ILE C 59 ? O ILE C 58 AA9 1 2 N VAL C 18 ? N VAL C 18 O LEU C 83 ? O LEU C 82 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A ASN 439 ? ? OG A SER 443 ? ? 2.10 2 1 O B TYR 49 ? ? OH B TYR 91 ? ? 2.12 3 1 OD1 C ASP 86 ? ? OH C TYR 90 ? ? 2.12 4 1 O C VAL 96 ? ? OG1 C THR 100 L ? 2.14 5 1 OG B SER 63 ? ? OG1 B THR 74 ? ? 2.19 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CB _pdbx_validate_rmsd_angle.auth_asym_id_1 C _pdbx_validate_rmsd_angle.auth_comp_id_1 LEU _pdbx_validate_rmsd_angle.auth_seq_id_1 4 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CG _pdbx_validate_rmsd_angle.auth_asym_id_2 C _pdbx_validate_rmsd_angle.auth_comp_id_2 LEU _pdbx_validate_rmsd_angle.auth_seq_id_2 4 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 CD2 _pdbx_validate_rmsd_angle.auth_asym_id_3 C _pdbx_validate_rmsd_angle.auth_comp_id_3 LEU _pdbx_validate_rmsd_angle.auth_seq_id_3 4 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 121.70 _pdbx_validate_rmsd_angle.angle_target_value 111.00 _pdbx_validate_rmsd_angle.angle_deviation 10.70 _pdbx_validate_rmsd_angle.angle_standard_deviation 1.70 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ASN A 331 ? ? -170.30 -179.18 2 1 PRO A 337 ? ? -82.88 47.85 3 1 ASP A 389 ? ? -142.00 17.96 4 1 TRP B 50 ? ? -79.46 -164.76 5 1 PRO B 95 ? ? -95.34 37.96 6 1 GLU C 81 ? ? -141.06 42.76 7 1 THR C 100 L ? 64.65 -131.47 # _pdbx_entry_details.entry_id 8DTK _pdbx_entry_details.has_ligand_of_interest N _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _em_3d_fitting.entry_id 8DTK _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_protocol ? _em_3d_fitting.ref_space ? _em_3d_fitting.target_criteria ? _em_3d_fitting.method ? # loop_ _em_3d_fitting_list.3d_fitting_id _em_3d_fitting_list.id _em_3d_fitting_list.details _em_3d_fitting_list.pdb_chain_id _em_3d_fitting_list.pdb_chain_residue_range _em_3d_fitting_list.pdb_entry_id _em_3d_fitting_list.initial_refinement_model_id _em_3d_fitting_list.chain_id _em_3d_fitting_list.chain_residue_range _em_3d_fitting_list.source_name _em_3d_fitting_list.type _em_3d_fitting_list.accession_code 1 1 ? ? ? 7LD1 1 ? ? PDB 'experimental model' 7LD1 1 2 ? ? ? 7EAM 2 ? ? PDB 'experimental model' 7EAM # _em_3d_reconstruction.entry_id 8DTK _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 398238 _em_3d_reconstruction.resolution 3.77 _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_3d_reconstruction.citation_id ? _em_3d_reconstruction.euler_angles_details ? # _em_buffer.id 1 _em_buffer.details ? _em_buffer.pH 8 _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 'RBD directed antibody DH1047 in complex with SARS-CoV-2 Spike' _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.entity_id_list '1, 2, 3' _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? # _em_imaging.id 1 _em_imaging.entry_id 8DTK _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 ? _em_imaging.details ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.microscope_model 'TFS KRIOS' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_max 3000 _em_imaging.nominal_defocus_min 500 _em_imaging.nominal_magnification ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _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_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.chamber_temperature ? _em_vitrification.cryogen_name ETHANE _em_vitrification.details ? _em_vitrification.humidity ? _em_vitrification.instrument ? _em_vitrification.entry_id 8DTK _em_vitrification.citation_id ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 8DTK _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.reconstruction_method 'SINGLE 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 MET N N N N 227 MET CA C N S 228 MET C C N N 229 MET O O N N 230 MET CB C N N 231 MET CG C N N 232 MET SD S N N 233 MET CE C N N 234 MET OXT O N N 235 MET H H N N 236 MET H2 H N N 237 MET HA H N N 238 MET HB2 H N N 239 MET HB3 H N N 240 MET HG2 H N N 241 MET HG3 H N N 242 MET HE1 H N N 243 MET HE2 H N N 244 MET HE3 H N N 245 MET HXT H N N 246 NAG C1 C N R 247 NAG C2 C N R 248 NAG C3 C N R 249 NAG C4 C N S 250 NAG C5 C N R 251 NAG C6 C N N 252 NAG C7 C N N 253 NAG C8 C N N 254 NAG N2 N N N 255 NAG O1 O N N 256 NAG O3 O N N 257 NAG O4 O N N 258 NAG O5 O N N 259 NAG O6 O N N 260 NAG O7 O N N 261 NAG H1 H N N 262 NAG H2 H N N 263 NAG H3 H N N 264 NAG H4 H N N 265 NAG H5 H N N 266 NAG H61 H N N 267 NAG H62 H N N 268 NAG H81 H N N 269 NAG H82 H N N 270 NAG H83 H N N 271 NAG HN2 H N N 272 NAG HO1 H N N 273 NAG HO3 H N N 274 NAG HO4 H N N 275 NAG HO6 H N N 276 PHE N N N N 277 PHE CA C N S 278 PHE C C N N 279 PHE O O N N 280 PHE CB C N N 281 PHE CG C Y N 282 PHE CD1 C Y N 283 PHE CD2 C Y N 284 PHE CE1 C Y N 285 PHE CE2 C Y N 286 PHE CZ C Y N 287 PHE OXT O N N 288 PHE H H N N 289 PHE H2 H N N 290 PHE HA H N N 291 PHE HB2 H N N 292 PHE HB3 H N N 293 PHE HD1 H N N 294 PHE HD2 H N N 295 PHE HE1 H N N 296 PHE HE2 H N N 297 PHE HZ H N N 298 PHE HXT H N N 299 PRO N N N N 300 PRO CA C N S 301 PRO C C N N 302 PRO O O N N 303 PRO CB C N N 304 PRO CG C N N 305 PRO CD C N N 306 PRO OXT O N N 307 PRO H H N N 308 PRO HA H N N 309 PRO HB2 H N N 310 PRO HB3 H N N 311 PRO HG2 H N N 312 PRO HG3 H N N 313 PRO HD2 H N N 314 PRO HD3 H N N 315 PRO HXT H N N 316 SER N N N N 317 SER CA C N S 318 SER C C N N 319 SER O O N N 320 SER CB C N N 321 SER OG O N N 322 SER OXT O N N 323 SER H H N N 324 SER H2 H N N 325 SER HA H N N 326 SER HB2 H N N 327 SER HB3 H N N 328 SER HG H N N 329 SER HXT H N N 330 THR N N N N 331 THR CA C N S 332 THR C C N N 333 THR O O N N 334 THR CB C N R 335 THR OG1 O N N 336 THR CG2 C N N 337 THR OXT O N N 338 THR H H N N 339 THR H2 H N N 340 THR HA H N N 341 THR HB H N N 342 THR HG1 H N N 343 THR HG21 H N N 344 THR HG22 H N N 345 THR HG23 H N N 346 THR HXT H N N 347 TRP N N N N 348 TRP CA C N S 349 TRP C C N N 350 TRP O O N N 351 TRP CB C N N 352 TRP CG C Y N 353 TRP CD1 C Y N 354 TRP CD2 C Y N 355 TRP NE1 N Y N 356 TRP CE2 C Y N 357 TRP CE3 C Y N 358 TRP CZ2 C Y N 359 TRP CZ3 C Y N 360 TRP CH2 C Y N 361 TRP OXT O N N 362 TRP H H N N 363 TRP H2 H N N 364 TRP HA H N N 365 TRP HB2 H N N 366 TRP HB3 H N N 367 TRP HD1 H N N 368 TRP HE1 H N N 369 TRP HE3 H N N 370 TRP HZ2 H N N 371 TRP HZ3 H N N 372 TRP HH2 H N N 373 TRP HXT H N N 374 TYR N N N N 375 TYR CA C N S 376 TYR C C N N 377 TYR O O N N 378 TYR CB C N N 379 TYR CG C Y N 380 TYR CD1 C Y N 381 TYR CD2 C Y N 382 TYR CE1 C Y N 383 TYR CE2 C Y N 384 TYR CZ C Y N 385 TYR OH O N N 386 TYR OXT O N N 387 TYR H H N N 388 TYR H2 H N N 389 TYR HA H N N 390 TYR HB2 H N N 391 TYR HB3 H N N 392 TYR HD1 H N N 393 TYR HD2 H N N 394 TYR HE1 H N N 395 TYR HE2 H N N 396 TYR HH H N N 397 TYR HXT H N N 398 VAL N N N N 399 VAL CA C N S 400 VAL C C N N 401 VAL O O N N 402 VAL CB C N N 403 VAL CG1 C N N 404 VAL CG2 C N N 405 VAL OXT O N N 406 VAL H H N N 407 VAL H2 H N N 408 VAL HA H N N 409 VAL HB H N N 410 VAL HG11 H N N 411 VAL HG12 H N N 412 VAL HG13 H N N 413 VAL HG21 H N N 414 VAL HG22 H N N 415 VAL HG23 H N N 416 VAL HXT H N N 417 # 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 MET N CA sing N N 216 MET N H sing N N 217 MET N H2 sing N N 218 MET CA C sing N N 219 MET CA CB sing N N 220 MET CA HA sing N N 221 MET C O doub N N 222 MET C OXT sing N N 223 MET CB CG sing N N 224 MET CB HB2 sing N N 225 MET CB HB3 sing N N 226 MET CG SD sing N N 227 MET CG HG2 sing N N 228 MET CG HG3 sing N N 229 MET SD CE sing N N 230 MET CE HE1 sing N N 231 MET CE HE2 sing N N 232 MET CE HE3 sing N N 233 MET OXT HXT sing N N 234 NAG C1 C2 sing N N 235 NAG C1 O1 sing N N 236 NAG C1 O5 sing N N 237 NAG C1 H1 sing N N 238 NAG C2 C3 sing N N 239 NAG C2 N2 sing N N 240 NAG C2 H2 sing N N 241 NAG C3 C4 sing N N 242 NAG C3 O3 sing N N 243 NAG C3 H3 sing N N 244 NAG C4 C5 sing N N 245 NAG C4 O4 sing N N 246 NAG C4 H4 sing N N 247 NAG C5 C6 sing N N 248 NAG C5 O5 sing N N 249 NAG C5 H5 sing N N 250 NAG C6 O6 sing N N 251 NAG C6 H61 sing N N 252 NAG C6 H62 sing N N 253 NAG C7 C8 sing N N 254 NAG C7 N2 sing N N 255 NAG C7 O7 doub N N 256 NAG C8 H81 sing N N 257 NAG C8 H82 sing N N 258 NAG C8 H83 sing N N 259 NAG N2 HN2 sing N N 260 NAG O1 HO1 sing N N 261 NAG O3 HO3 sing N N 262 NAG O4 HO4 sing N N 263 NAG O6 HO6 sing N N 264 PHE N CA sing N N 265 PHE N H sing N N 266 PHE N H2 sing N N 267 PHE CA C sing N N 268 PHE CA CB sing N N 269 PHE CA HA sing N N 270 PHE C O doub N N 271 PHE C OXT sing N N 272 PHE CB CG sing N N 273 PHE CB HB2 sing N N 274 PHE CB HB3 sing N N 275 PHE CG CD1 doub Y N 276 PHE CG CD2 sing Y N 277 PHE CD1 CE1 sing Y N 278 PHE CD1 HD1 sing N N 279 PHE CD2 CE2 doub Y N 280 PHE CD2 HD2 sing N N 281 PHE CE1 CZ doub Y N 282 PHE CE1 HE1 sing N N 283 PHE CE2 CZ sing Y N 284 PHE CE2 HE2 sing N N 285 PHE CZ HZ sing N N 286 PHE OXT HXT sing N N 287 PRO N CA sing N N 288 PRO N CD sing N N 289 PRO N H sing N N 290 PRO CA C sing N N 291 PRO CA CB sing N N 292 PRO CA HA sing N N 293 PRO C O doub N N 294 PRO C OXT sing N N 295 PRO CB CG sing N N 296 PRO CB HB2 sing N N 297 PRO CB HB3 sing N N 298 PRO CG CD sing N N 299 PRO CG HG2 sing N N 300 PRO CG HG3 sing N N 301 PRO CD HD2 sing N N 302 PRO CD HD3 sing N N 303 PRO OXT HXT sing N N 304 SER N CA sing N N 305 SER N H sing N N 306 SER N H2 sing N N 307 SER CA C sing N N 308 SER CA CB sing N N 309 SER CA HA sing N N 310 SER C O doub N N 311 SER C OXT sing N N 312 SER CB OG sing N N 313 SER CB HB2 sing N N 314 SER CB HB3 sing N N 315 SER OG HG sing N N 316 SER OXT HXT sing N N 317 THR N CA sing N N 318 THR N H sing N N 319 THR N H2 sing N N 320 THR CA C sing N N 321 THR CA CB sing N N 322 THR CA HA sing N N 323 THR C O doub N N 324 THR C OXT sing N N 325 THR CB OG1 sing N N 326 THR CB CG2 sing N N 327 THR CB HB sing N N 328 THR OG1 HG1 sing N N 329 THR CG2 HG21 sing N N 330 THR CG2 HG22 sing N N 331 THR CG2 HG23 sing N N 332 THR OXT HXT sing N N 333 TRP N CA sing N N 334 TRP N H sing N N 335 TRP N H2 sing N N 336 TRP CA C sing N N 337 TRP CA CB sing N N 338 TRP CA HA sing N N 339 TRP C O doub N N 340 TRP C OXT sing N N 341 TRP CB CG sing N N 342 TRP CB HB2 sing N N 343 TRP CB HB3 sing N N 344 TRP CG CD1 doub Y N 345 TRP CG CD2 sing Y N 346 TRP CD1 NE1 sing Y N 347 TRP CD1 HD1 sing N N 348 TRP CD2 CE2 doub Y N 349 TRP CD2 CE3 sing Y N 350 TRP NE1 CE2 sing Y N 351 TRP NE1 HE1 sing N N 352 TRP CE2 CZ2 sing Y N 353 TRP CE3 CZ3 doub Y N 354 TRP CE3 HE3 sing N N 355 TRP CZ2 CH2 doub Y N 356 TRP CZ2 HZ2 sing N N 357 TRP CZ3 CH2 sing Y N 358 TRP CZ3 HZ3 sing N N 359 TRP CH2 HH2 sing N N 360 TRP OXT HXT sing N N 361 TYR N CA sing N N 362 TYR N H sing N N 363 TYR N H2 sing N N 364 TYR CA C sing N N 365 TYR CA CB sing N N 366 TYR CA HA sing N N 367 TYR C O doub N N 368 TYR C OXT sing N N 369 TYR CB CG sing N N 370 TYR CB HB2 sing N N 371 TYR CB HB3 sing N N 372 TYR CG CD1 doub Y N 373 TYR CG CD2 sing Y N 374 TYR CD1 CE1 sing Y N 375 TYR CD1 HD1 sing N N 376 TYR CD2 CE2 doub Y N 377 TYR CD2 HD2 sing N N 378 TYR CE1 CZ doub Y N 379 TYR CE1 HE1 sing N N 380 TYR CE2 CZ sing Y N 381 TYR CE2 HE2 sing N N 382 TYR CZ OH sing N N 383 TYR OH HH sing N N 384 TYR OXT HXT sing N N 385 VAL N CA sing N N 386 VAL N H sing N N 387 VAL N H2 sing N N 388 VAL CA C sing N N 389 VAL CA CB sing N N 390 VAL CA HA sing N N 391 VAL C O doub N N 392 VAL C OXT sing N N 393 VAL CB CG1 sing N N 394 VAL CB CG2 sing N N 395 VAL CB HB sing N N 396 VAL CG1 HG11 sing N N 397 VAL CG1 HG12 sing N N 398 VAL CG1 HG13 sing N N 399 VAL CG2 HG21 sing N N 400 VAL CG2 HG22 sing N N 401 VAL CG2 HG23 sing N N 402 VAL OXT HXT sing N N 403 # _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_naturalsource.id 2 _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.ncbi_tax_id 2697049 _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organism 'Severe acute respiratory syndrome coronavirus 2' _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.ncbi_tax_id 9606 _em_entity_assembly_recombinant.organism 'Homo sapiens' _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 66.77 _em_image_recording.average_exposure_time ? _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'GATAN K3 (6k x 4k)' _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? _em_image_recording.avg_electron_dose_per_subtomogram ? # 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' ? ? ? 1 ? ? 2 'IMAGE ACQUISITION' ? ? ? ? ? 1 3 MASKING ? ? ? ? ? ? 4 'CTF CORRECTION' ? ? ? 1 ? ? 5 'LAYERLINE INDEXING' ? ? ? ? ? ? 6 'DIFFRACTION INDEXING' ? ? ? ? ? ? 7 'MODEL FITTING' ? ? ? ? 1 ? 8 OTHER ? ? ? ? ? ? 9 'INITIAL EULER ASSIGNMENT' ? ? ? 1 ? ? 10 'FINAL EULER ASSIGNMENT' ? ? ? 1 ? ? 11 CLASSIFICATION ? ? ? 1 ? ? 12 RECONSTRUCTION ? ? ? 1 ? ? 13 'MODEL REFINEMENT' ? ? ? ? 1 ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration ? _em_specimen.details ? _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 Allergy and Infectious Diseases (NIH/NIAID)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # loop_ _pdbx_initial_refinement_model.id _pdbx_initial_refinement_model.type _pdbx_initial_refinement_model.source_name _pdbx_initial_refinement_model.accession_code 1 'experimental model' PDB 7LD1 2 'experimental model' PDB 7EAM # _atom_sites.entry_id 8DTK _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 H N O S # loop_