data_8HC8 # _entry.id 8HC8 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.397 _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 8HC8 pdb_00008hc8 10.2210/pdb8hc8/pdb WWPDB D_1300033117 ? ? EMDB EMD-34655 ? ? # 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 2023-01-25 2 'Structure model' 1 1 2023-05-03 3 'Structure model' 1 2 2024-10-16 # _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' 'Database references' 2 3 'Structure model' 'Data collection' 3 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' citation 2 2 'Structure model' citation_author 3 3 'Structure model' chem_comp_atom 4 3 'Structure model' chem_comp_bond 5 3 'Structure model' em_admin 6 3 'Structure model' pdbx_entry_details 7 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' '_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.journal_volume' 6 2 'Structure model' '_citation.page_first' 7 2 'Structure model' '_citation.page_last' 8 2 'Structure model' '_citation.pdbx_database_id_DOI' 9 2 'Structure model' '_citation.pdbx_database_id_PubMed' 10 2 'Structure model' '_citation.title' 11 2 'Structure model' '_citation.year' 12 2 'Structure model' '_citation_author.identifier_ORCID' 13 3 'Structure model' '_em_admin.last_update' 14 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 8HC8 _pdbx_database_status.recvd_initial_deposition_date 2022-11-01 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _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 Omicron BA.1 Spike trimer in complex with YB13-292 Fab, focused refinement of Fab region' _pdbx_database_related.db_id EMD-34655 _pdbx_database_related.content_type 'associated EM volume' # loop_ _pdbx_contact_author.id _pdbx_contact_author.email _pdbx_contact_author.name_first _pdbx_contact_author.name_last _pdbx_contact_author.name_mi _pdbx_contact_author.role _pdbx_contact_author.identifier_ORCID 4 he_jun@gibh.ac.cn Jun He ? 'principal investigator/group leader' 0000-0003-0270-9729 5 xiong_xiaoli@gibh.ac.cn Xiaoli Xiong ? 'principal investigator/group leader' 0000-0002-4632-9122 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Liu, B.' 1 ? 'Gao, X.' 2 0000-0002-0602-4690 'Chen, Q.' 3 ? 'Li, Z.' 4 ? 'Su, M.' 5 ? 'He, J.' 6 0000-0003-0270-9729 'Xiong, X.' 7 0000-0002-4632-9122 # _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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nat Commun' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2041-1723 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 14 _citation.language ? _citation.page_first 1058 _citation.page_last 1058 _citation.title 'Somatically hypermutated antibodies isolated from SARS-CoV-2 Delta infected patients cross-neutralize heterologous variants.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41467-023-36761-0 _citation.pdbx_database_id_PubMed 36828833 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yu, H.' 1 0000-0002-1757-1411 primary 'Liu, B.' 2 ? primary 'Zhang, Y.' 3 ? primary 'Gao, X.' 4 0000-0002-0602-4690 primary 'Wang, Q.' 5 ? primary 'Xiang, H.' 6 ? primary 'Peng, X.' 7 ? primary 'Xie, C.' 8 ? primary 'Wang, Y.' 9 ? primary 'Hu, P.' 10 ? primary 'Shi, J.' 11 0000-0003-3019-3272 primary 'Shi, Q.' 12 ? primary 'Zheng, P.' 13 ? primary 'Feng, C.' 14 ? primary 'Tang, G.' 15 ? primary 'Liu, X.' 16 ? primary 'Guo, L.' 17 ? primary 'Lin, X.' 18 ? primary 'Li, J.' 19 ? primary 'Liu, C.' 20 0000-0003-2258-0897 primary 'Huang, Y.' 21 ? primary 'Yang, N.' 22 ? primary 'Chen, Q.' 23 ? primary 'Li, Z.' 24 ? primary 'Su, M.' 25 ? primary 'Yan, Q.' 26 ? primary 'Pei, R.' 27 ? primary 'Chen, X.' 28 0000-0002-4052-8155 primary 'Liu, L.' 29 0000-0002-5828-5542 primary 'Hu, F.' 30 ? primary 'Liang, D.' 31 ? primary 'Ke, B.' 32 ? primary 'Ke, C.' 33 ? primary 'Li, F.' 34 0000-0003-3169-6349 primary 'He, J.' 35 0000-0003-0270-9729 primary 'Wang, M.' 36 0000-0003-4249-6254 primary 'Chen, L.' 37 0000-0003-1485-1626 primary 'Xiong, X.' 38 0000-0002-4632-9122 primary 'Tang, X.' 39 0000-0002-5067-659X # 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' 21332.070 1 ? ? ? ? 2 polymer man 'Heavy chain of YB13-292 Fab' 25283.396 1 ? ? ? ? 3 polymer man 'Light chain of YB13-292 Fab' 23976.648 1 ? ? ? ? 4 non-polymer syn 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 1 ? ? ? ? # 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 ;ITNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIA PGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFP LRSYSFRPTYGVGHQPYRVVVLSFEL ; ;ITNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIA PGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFP LRSYSFRPTYGVGHQPYRVVVLSFEL ; C ? 2 'polypeptide(L)' no no ;EVQLVESGGGLVKPGGSLRLSCAASGFSFITYNMNWVRQAPGKGLEWVSSISSNILSSTSYIYYADSVKGRFTISRDDAA NSLFLQMNSLRVEDTAQYYCARTRSRSVRNCTSATCPVDAFDLWGQGTMVIVSSASTKGPSVFPLAPSSKSTSGGTAALG CLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCD ; ;EVQLVESGGGLVKPGGSLRLSCAASGFSFITYNMNWVRQAPGKGLEWVSSISSNILSSTSYIYYADSVKGRFTISRDDAA NSLFLQMNSLRVEDTAQYYCARTRSRSVRNCTSATCPVDAFDLWGQGTMVIVSSASTKGPSVFPLAPSSKSTSGGTAALG CLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCD ; H ? 3 'polypeptide(L)' no no ;DIVLTQSPLSLPVTPGEPASISCRSSQSLLRSNGYNYLDWYLQKPGQSPHLLIYLGSNRASGVPDRFSGSGSGTDFTLKI SRVEAEDVGVYYCMQALQTPYTFGQGTNLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQ SGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC ; ;DIVLTQSPLSLPVTPGEPASISCRSSQSLLRSNGYNYLDWYLQKPGQSPHLLIYLGSNRASGVPDRFSGSGSGTDFTLKI SRVEAEDVGVYYCMQALQTPYTFGQGTNLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQ SGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC ; L ? # _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 ILE n 1 2 THR n 1 3 ASN n 1 4 LEU n 1 5 CYS n 1 6 PRO n 1 7 PHE n 1 8 ASP n 1 9 GLU n 1 10 VAL n 1 11 PHE n 1 12 ASN n 1 13 ALA n 1 14 THR n 1 15 ARG n 1 16 PHE n 1 17 ALA n 1 18 SER n 1 19 VAL n 1 20 TYR n 1 21 ALA n 1 22 TRP n 1 23 ASN n 1 24 ARG n 1 25 LYS n 1 26 ARG n 1 27 ILE n 1 28 SER n 1 29 ASN n 1 30 CYS n 1 31 VAL n 1 32 ALA n 1 33 ASP n 1 34 TYR n 1 35 SER n 1 36 VAL n 1 37 LEU n 1 38 TYR n 1 39 ASN n 1 40 LEU n 1 41 ALA n 1 42 PRO n 1 43 PHE n 1 44 PHE n 1 45 THR n 1 46 PHE n 1 47 LYS n 1 48 CYS n 1 49 TYR n 1 50 GLY n 1 51 VAL n 1 52 SER n 1 53 PRO n 1 54 THR n 1 55 LYS n 1 56 LEU n 1 57 ASN n 1 58 ASP n 1 59 LEU n 1 60 CYS n 1 61 PHE n 1 62 THR n 1 63 ASN n 1 64 VAL n 1 65 TYR n 1 66 ALA n 1 67 ASP n 1 68 SER n 1 69 PHE n 1 70 VAL n 1 71 ILE n 1 72 ARG n 1 73 GLY n 1 74 ASP n 1 75 GLU n 1 76 VAL n 1 77 ARG n 1 78 GLN n 1 79 ILE n 1 80 ALA n 1 81 PRO n 1 82 GLY n 1 83 GLN n 1 84 THR n 1 85 GLY n 1 86 ASN n 1 87 ILE n 1 88 ALA n 1 89 ASP n 1 90 TYR n 1 91 ASN n 1 92 TYR n 1 93 LYS n 1 94 LEU n 1 95 PRO n 1 96 ASP n 1 97 ASP n 1 98 PHE n 1 99 THR n 1 100 GLY n 1 101 CYS n 1 102 VAL n 1 103 ILE n 1 104 ALA n 1 105 TRP n 1 106 ASN n 1 107 SER n 1 108 ASN n 1 109 LYS n 1 110 LEU n 1 111 ASP n 1 112 SER n 1 113 LYS n 1 114 VAL n 1 115 SER n 1 116 GLY n 1 117 ASN n 1 118 TYR n 1 119 ASN n 1 120 TYR n 1 121 LEU n 1 122 TYR n 1 123 ARG n 1 124 LEU n 1 125 PHE n 1 126 ARG n 1 127 LYS n 1 128 SER n 1 129 ASN n 1 130 LEU n 1 131 LYS n 1 132 PRO n 1 133 PHE n 1 134 GLU n 1 135 ARG n 1 136 ASP n 1 137 ILE n 1 138 SER n 1 139 THR n 1 140 GLU n 1 141 ILE n 1 142 TYR n 1 143 GLN n 1 144 ALA n 1 145 GLY n 1 146 ASN n 1 147 LYS n 1 148 PRO n 1 149 CYS n 1 150 ASN n 1 151 GLY n 1 152 VAL n 1 153 ALA n 1 154 GLY n 1 155 PHE n 1 156 ASN n 1 157 CYS n 1 158 TYR n 1 159 PHE n 1 160 PRO n 1 161 LEU n 1 162 ARG n 1 163 SER n 1 164 TYR n 1 165 SER n 1 166 PHE n 1 167 ARG n 1 168 PRO n 1 169 THR n 1 170 TYR n 1 171 GLY n 1 172 VAL n 1 173 GLY n 1 174 HIS n 1 175 GLN n 1 176 PRO n 1 177 TYR n 1 178 ARG n 1 179 VAL n 1 180 VAL n 1 181 VAL n 1 182 LEU n 1 183 SER n 1 184 PHE n 1 185 GLU n 1 186 LEU n 2 1 GLU n 2 2 VAL n 2 3 GLN n 2 4 LEU n 2 5 VAL n 2 6 GLU n 2 7 SER n 2 8 GLY n 2 9 GLY n 2 10 GLY n 2 11 LEU n 2 12 VAL n 2 13 LYS n 2 14 PRO n 2 15 GLY n 2 16 GLY n 2 17 SER n 2 18 LEU n 2 19 ARG n 2 20 LEU n 2 21 SER n 2 22 CYS n 2 23 ALA n 2 24 ALA n 2 25 SER n 2 26 GLY n 2 27 PHE n 2 28 SER n 2 29 PHE n 2 30 ILE n 2 31 THR n 2 32 TYR n 2 33 ASN n 2 34 MET n 2 35 ASN n 2 36 TRP n 2 37 VAL n 2 38 ARG n 2 39 GLN n 2 40 ALA n 2 41 PRO n 2 42 GLY n 2 43 LYS n 2 44 GLY n 2 45 LEU n 2 46 GLU n 2 47 TRP n 2 48 VAL n 2 49 SER n 2 50 SER n 2 51 ILE n 2 52 SER n 2 53 SER n 2 54 ASN n 2 55 ILE n 2 56 LEU n 2 57 SER n 2 58 SER n 2 59 THR n 2 60 SER n 2 61 TYR n 2 62 ILE n 2 63 TYR n 2 64 TYR n 2 65 ALA n 2 66 ASP n 2 67 SER n 2 68 VAL n 2 69 LYS n 2 70 GLY n 2 71 ARG n 2 72 PHE n 2 73 THR n 2 74 ILE n 2 75 SER n 2 76 ARG n 2 77 ASP n 2 78 ASP n 2 79 ALA n 2 80 ALA n 2 81 ASN n 2 82 SER n 2 83 LEU n 2 84 PHE n 2 85 LEU n 2 86 GLN n 2 87 MET n 2 88 ASN n 2 89 SER n 2 90 LEU n 2 91 ARG n 2 92 VAL n 2 93 GLU n 2 94 ASP n 2 95 THR n 2 96 ALA n 2 97 GLN n 2 98 TYR n 2 99 TYR n 2 100 CYS n 2 101 ALA n 2 102 ARG n 2 103 THR n 2 104 ARG n 2 105 SER n 2 106 ARG n 2 107 SER n 2 108 VAL n 2 109 ARG n 2 110 ASN n 2 111 CYS n 2 112 THR n 2 113 SER n 2 114 ALA n 2 115 THR n 2 116 CYS n 2 117 PRO n 2 118 VAL n 2 119 ASP n 2 120 ALA n 2 121 PHE n 2 122 ASP n 2 123 LEU n 2 124 TRP n 2 125 GLY n 2 126 GLN n 2 127 GLY n 2 128 THR n 2 129 MET n 2 130 VAL n 2 131 ILE n 2 132 VAL n 2 133 SER n 2 134 SER n 2 135 ALA n 2 136 SER n 2 137 THR n 2 138 LYS n 2 139 GLY n 2 140 PRO n 2 141 SER n 2 142 VAL n 2 143 PHE n 2 144 PRO n 2 145 LEU n 2 146 ALA n 2 147 PRO n 2 148 SER n 2 149 SER n 2 150 LYS n 2 151 SER n 2 152 THR n 2 153 SER n 2 154 GLY n 2 155 GLY n 2 156 THR n 2 157 ALA n 2 158 ALA n 2 159 LEU n 2 160 GLY n 2 161 CYS n 2 162 LEU n 2 163 VAL n 2 164 LYS n 2 165 ASP n 2 166 TYR n 2 167 PHE n 2 168 PRO n 2 169 GLU n 2 170 PRO n 2 171 VAL n 2 172 THR n 2 173 VAL n 2 174 SER n 2 175 TRP n 2 176 ASN n 2 177 SER n 2 178 GLY n 2 179 ALA n 2 180 LEU n 2 181 THR n 2 182 SER n 2 183 GLY n 2 184 VAL n 2 185 HIS n 2 186 THR n 2 187 PHE n 2 188 PRO n 2 189 ALA n 2 190 VAL n 2 191 LEU n 2 192 GLN n 2 193 SER n 2 194 SER n 2 195 GLY n 2 196 LEU n 2 197 TYR n 2 198 SER n 2 199 LEU n 2 200 SER n 2 201 SER n 2 202 VAL n 2 203 VAL n 2 204 THR n 2 205 VAL n 2 206 PRO n 2 207 SER n 2 208 SER n 2 209 SER n 2 210 LEU n 2 211 GLY n 2 212 THR n 2 213 GLN n 2 214 THR n 2 215 TYR n 2 216 ILE n 2 217 CYS n 2 218 ASN n 2 219 VAL n 2 220 ASN n 2 221 HIS n 2 222 LYS n 2 223 PRO n 2 224 SER n 2 225 ASN n 2 226 THR n 2 227 LYS n 2 228 VAL n 2 229 ASP n 2 230 LYS n 2 231 LYS n 2 232 VAL n 2 233 GLU n 2 234 PRO n 2 235 LYS n 2 236 SER n 2 237 CYS n 2 238 ASP n 3 1 ASP n 3 2 ILE n 3 3 VAL n 3 4 LEU n 3 5 THR n 3 6 GLN n 3 7 SER n 3 8 PRO n 3 9 LEU n 3 10 SER n 3 11 LEU n 3 12 PRO n 3 13 VAL n 3 14 THR n 3 15 PRO n 3 16 GLY n 3 17 GLU n 3 18 PRO n 3 19 ALA n 3 20 SER n 3 21 ILE n 3 22 SER n 3 23 CYS n 3 24 ARG n 3 25 SER n 3 26 SER n 3 27 GLN n 3 28 SER n 3 29 LEU n 3 30 LEU n 3 31 ARG n 3 32 SER n 3 33 ASN n 3 34 GLY n 3 35 TYR n 3 36 ASN n 3 37 TYR n 3 38 LEU n 3 39 ASP n 3 40 TRP n 3 41 TYR n 3 42 LEU n 3 43 GLN n 3 44 LYS n 3 45 PRO n 3 46 GLY n 3 47 GLN n 3 48 SER n 3 49 PRO n 3 50 HIS n 3 51 LEU n 3 52 LEU n 3 53 ILE n 3 54 TYR n 3 55 LEU n 3 56 GLY n 3 57 SER n 3 58 ASN n 3 59 ARG n 3 60 ALA n 3 61 SER n 3 62 GLY n 3 63 VAL n 3 64 PRO n 3 65 ASP n 3 66 ARG n 3 67 PHE n 3 68 SER n 3 69 GLY n 3 70 SER n 3 71 GLY n 3 72 SER n 3 73 GLY n 3 74 THR n 3 75 ASP n 3 76 PHE n 3 77 THR n 3 78 LEU n 3 79 LYS n 3 80 ILE n 3 81 SER n 3 82 ARG n 3 83 VAL n 3 84 GLU n 3 85 ALA n 3 86 GLU n 3 87 ASP n 3 88 VAL n 3 89 GLY n 3 90 VAL n 3 91 TYR n 3 92 TYR n 3 93 CYS n 3 94 MET n 3 95 GLN n 3 96 ALA n 3 97 LEU n 3 98 GLN n 3 99 THR n 3 100 PRO n 3 101 TYR n 3 102 THR n 3 103 PHE n 3 104 GLY n 3 105 GLN n 3 106 GLY n 3 107 THR n 3 108 ASN n 3 109 LEU n 3 110 GLU n 3 111 ILE n 3 112 LYS n 3 113 ARG n 3 114 THR n 3 115 VAL n 3 116 ALA n 3 117 ALA n 3 118 PRO n 3 119 SER n 3 120 VAL n 3 121 PHE n 3 122 ILE n 3 123 PHE n 3 124 PRO n 3 125 PRO n 3 126 SER n 3 127 ASP n 3 128 GLU n 3 129 GLN n 3 130 LEU n 3 131 LYS n 3 132 SER n 3 133 GLY n 3 134 THR n 3 135 ALA n 3 136 SER n 3 137 VAL n 3 138 VAL n 3 139 CYS n 3 140 LEU n 3 141 LEU n 3 142 ASN n 3 143 ASN n 3 144 PHE n 3 145 TYR n 3 146 PRO n 3 147 ARG n 3 148 GLU n 3 149 ALA n 3 150 LYS n 3 151 VAL n 3 152 GLN n 3 153 TRP n 3 154 LYS n 3 155 VAL n 3 156 ASP n 3 157 ASN n 3 158 ALA n 3 159 LEU n 3 160 GLN n 3 161 SER n 3 162 GLY n 3 163 ASN n 3 164 SER n 3 165 GLN n 3 166 GLU n 3 167 SER n 3 168 VAL n 3 169 THR n 3 170 GLU n 3 171 GLN n 3 172 ASP n 3 173 SER n 3 174 LYS n 3 175 ASP n 3 176 SER n 3 177 THR n 3 178 TYR n 3 179 SER n 3 180 LEU n 3 181 SER n 3 182 SER n 3 183 THR n 3 184 LEU n 3 185 THR n 3 186 LEU n 3 187 SER n 3 188 LYS n 3 189 ALA n 3 190 ASP n 3 191 TYR n 3 192 GLU n 3 193 LYS n 3 194 HIS n 3 195 LYS n 3 196 VAL n 3 197 TYR n 3 198 ALA n 3 199 CYS n 3 200 GLU n 3 201 VAL n 3 202 THR n 3 203 HIS n 3 204 GLN n 3 205 GLY n 3 206 LEU n 3 207 SER n 3 208 SER n 3 209 PRO n 3 210 VAL n 3 211 THR n 3 212 LYS n 3 213 SER n 3 214 PHE n 3 215 ASN n 3 216 ARG n 3 217 GLY n 3 218 GLU n 3 219 CYS 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' 1 186 '2019-nCoV, SARS-CoV-2' ? 'S, 2' ? ? ? ? ? ? 'Severe acute respiratory syndrome coronavirus 2' 2697049 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? HEK293 ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample 'Biological sequence' 1 238 ? ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? HEK293 ? ? ? ? ? ? ? ? ? ? ? ? 3 1 sample 'Biological sequence' 1 219 ? ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? HEK293 ? ? ? ? ? ? ? ? ? ? ? ? # 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 ILE 1 332 332 ILE ILE C . n A 1 2 THR 2 333 333 THR THR C . n A 1 3 ASN 3 334 334 ASN ASN C . n A 1 4 LEU 4 335 335 LEU LEU C . n A 1 5 CYS 5 336 336 CYS CYS C . n A 1 6 PRO 6 337 337 PRO PRO C . n A 1 7 PHE 7 338 338 PHE PHE C . n A 1 8 ASP 8 339 339 ASP ASP C . n A 1 9 GLU 9 340 340 GLU GLU C . n A 1 10 VAL 10 341 341 VAL VAL C . n A 1 11 PHE 11 342 342 PHE PHE C . n A 1 12 ASN 12 343 343 ASN ASN C . n A 1 13 ALA 13 344 344 ALA ALA C . n A 1 14 THR 14 345 345 THR THR C . n A 1 15 ARG 15 346 346 ARG ARG C . n A 1 16 PHE 16 347 347 PHE PHE C . n A 1 17 ALA 17 348 348 ALA ALA C . n A 1 18 SER 18 349 349 SER SER C . n A 1 19 VAL 19 350 350 VAL VAL C . n A 1 20 TYR 20 351 351 TYR TYR C . n A 1 21 ALA 21 352 352 ALA ALA C . n A 1 22 TRP 22 353 353 TRP TRP C . n A 1 23 ASN 23 354 354 ASN ASN C . n A 1 24 ARG 24 355 355 ARG ARG C . n A 1 25 LYS 25 356 356 LYS LYS C . n A 1 26 ARG 26 357 357 ARG ARG C . n A 1 27 ILE 27 358 358 ILE ILE C . n A 1 28 SER 28 359 359 SER SER C . n A 1 29 ASN 29 360 360 ASN ASN C . n A 1 30 CYS 30 361 361 CYS CYS C . n A 1 31 VAL 31 362 362 VAL VAL C . n A 1 32 ALA 32 363 363 ALA ALA C . n A 1 33 ASP 33 364 364 ASP ASP C . n A 1 34 TYR 34 365 365 TYR TYR C . n A 1 35 SER 35 366 366 SER SER C . n A 1 36 VAL 36 367 367 VAL VAL C . n A 1 37 LEU 37 368 368 LEU LEU C . n A 1 38 TYR 38 369 369 TYR TYR C . n A 1 39 ASN 39 370 370 ASN ASN C . n A 1 40 LEU 40 371 371 LEU LEU C . n A 1 41 ALA 41 372 372 ALA ALA C . n A 1 42 PRO 42 373 373 PRO PRO C . n A 1 43 PHE 43 374 374 PHE PHE C . n A 1 44 PHE 44 375 375 PHE PHE C . n A 1 45 THR 45 376 376 THR THR C . n A 1 46 PHE 46 377 377 PHE PHE C . n A 1 47 LYS 47 378 378 LYS LYS C . n A 1 48 CYS 48 379 379 CYS CYS C . n A 1 49 TYR 49 380 380 TYR TYR C . n A 1 50 GLY 50 381 381 GLY GLY C . n A 1 51 VAL 51 382 382 VAL VAL C . n A 1 52 SER 52 383 383 SER SER C . n A 1 53 PRO 53 384 384 PRO PRO C . n A 1 54 THR 54 385 385 THR THR C . n A 1 55 LYS 55 386 386 LYS LYS C . n A 1 56 LEU 56 387 387 LEU LEU C . n A 1 57 ASN 57 388 388 ASN ASN C . n A 1 58 ASP 58 389 389 ASP ASP C . n A 1 59 LEU 59 390 390 LEU LEU C . n A 1 60 CYS 60 391 391 CYS CYS C . n A 1 61 PHE 61 392 392 PHE PHE C . n A 1 62 THR 62 393 393 THR THR C . n A 1 63 ASN 63 394 394 ASN ASN C . n A 1 64 VAL 64 395 395 VAL VAL C . n A 1 65 TYR 65 396 396 TYR TYR C . n A 1 66 ALA 66 397 397 ALA ALA C . n A 1 67 ASP 67 398 398 ASP ASP C . n A 1 68 SER 68 399 399 SER SER C . n A 1 69 PHE 69 400 400 PHE PHE C . n A 1 70 VAL 70 401 401 VAL VAL C . n A 1 71 ILE 71 402 402 ILE ILE C . n A 1 72 ARG 72 403 403 ARG ARG C . n A 1 73 GLY 73 404 404 GLY GLY C . n A 1 74 ASP 74 405 405 ASP ASP C . n A 1 75 GLU 75 406 406 GLU GLU C . n A 1 76 VAL 76 407 407 VAL VAL C . n A 1 77 ARG 77 408 408 ARG ARG C . n A 1 78 GLN 78 409 409 GLN GLN C . n A 1 79 ILE 79 410 410 ILE ILE C . n A 1 80 ALA 80 411 411 ALA ALA C . n A 1 81 PRO 81 412 412 PRO PRO C . n A 1 82 GLY 82 413 413 GLY GLY C . n A 1 83 GLN 83 414 414 GLN GLN C . n A 1 84 THR 84 415 415 THR THR C . n A 1 85 GLY 85 416 416 GLY GLY C . n A 1 86 ASN 86 417 417 ASN ASN C . n A 1 87 ILE 87 418 418 ILE ILE C . n A 1 88 ALA 88 419 419 ALA ALA C . n A 1 89 ASP 89 420 420 ASP ASP C . n A 1 90 TYR 90 421 421 TYR TYR C . n A 1 91 ASN 91 422 422 ASN ASN C . n A 1 92 TYR 92 423 423 TYR TYR C . n A 1 93 LYS 93 424 424 LYS LYS C . n A 1 94 LEU 94 425 425 LEU LEU C . n A 1 95 PRO 95 426 426 PRO PRO C . n A 1 96 ASP 96 427 427 ASP ASP C . n A 1 97 ASP 97 428 428 ASP ASP C . n A 1 98 PHE 98 429 429 PHE PHE C . n A 1 99 THR 99 430 430 THR THR C . n A 1 100 GLY 100 431 431 GLY GLY C . n A 1 101 CYS 101 432 432 CYS CYS C . n A 1 102 VAL 102 433 433 VAL VAL C . n A 1 103 ILE 103 434 434 ILE ILE C . n A 1 104 ALA 104 435 435 ALA ALA C . n A 1 105 TRP 105 436 436 TRP TRP C . n A 1 106 ASN 106 437 437 ASN ASN C . n A 1 107 SER 107 438 438 SER SER C . n A 1 108 ASN 108 439 439 ASN ASN C . n A 1 109 LYS 109 440 440 LYS LYS C . n A 1 110 LEU 110 441 441 LEU LEU C . n A 1 111 ASP 111 442 442 ASP ASP C . n A 1 112 SER 112 443 443 SER SER C . n A 1 113 LYS 113 444 444 LYS LYS C . n A 1 114 VAL 114 445 445 VAL VAL C . n A 1 115 SER 115 446 446 SER SER C . n A 1 116 GLY 116 447 447 GLY GLY C . n A 1 117 ASN 117 448 448 ASN ASN C . n A 1 118 TYR 118 449 449 TYR TYR C . n A 1 119 ASN 119 450 450 ASN ASN C . n A 1 120 TYR 120 451 451 TYR TYR C . n A 1 121 LEU 121 452 452 LEU LEU C . n A 1 122 TYR 122 453 453 TYR TYR C . n A 1 123 ARG 123 454 454 ARG ARG C . n A 1 124 LEU 124 455 455 LEU LEU C . n A 1 125 PHE 125 456 456 PHE PHE C . n A 1 126 ARG 126 457 457 ARG ARG C . n A 1 127 LYS 127 458 458 LYS LYS C . n A 1 128 SER 128 459 459 SER SER C . n A 1 129 ASN 129 460 460 ASN ASN C . n A 1 130 LEU 130 461 461 LEU LEU C . n A 1 131 LYS 131 462 462 LYS LYS C . n A 1 132 PRO 132 463 463 PRO PRO C . n A 1 133 PHE 133 464 464 PHE PHE C . n A 1 134 GLU 134 465 465 GLU GLU C . n A 1 135 ARG 135 466 466 ARG ARG C . n A 1 136 ASP 136 467 467 ASP ASP C . n A 1 137 ILE 137 468 468 ILE ILE C . n A 1 138 SER 138 469 469 SER SER C . n A 1 139 THR 139 470 470 THR THR C . n A 1 140 GLU 140 471 471 GLU GLU C . n A 1 141 ILE 141 472 472 ILE ILE C . n A 1 142 TYR 142 473 473 TYR TYR C . n A 1 143 GLN 143 474 474 GLN GLN C . n A 1 144 ALA 144 475 475 ALA ALA C . n A 1 145 GLY 145 476 476 GLY GLY C . n A 1 146 ASN 146 477 477 ASN ASN C . n A 1 147 LYS 147 478 478 LYS LYS C . n A 1 148 PRO 148 479 479 PRO PRO C . n A 1 149 CYS 149 480 480 CYS CYS C . n A 1 150 ASN 150 481 481 ASN ASN C . n A 1 151 GLY 151 482 482 GLY GLY C . n A 1 152 VAL 152 483 483 VAL VAL C . n A 1 153 ALA 153 484 484 ALA ALA C . n A 1 154 GLY 154 485 485 GLY GLY C . n A 1 155 PHE 155 486 486 PHE PHE C . n A 1 156 ASN 156 487 487 ASN ASN C . n A 1 157 CYS 157 488 488 CYS CYS C . n A 1 158 TYR 158 489 489 TYR TYR C . n A 1 159 PHE 159 490 490 PHE PHE C . n A 1 160 PRO 160 491 491 PRO PRO C . n A 1 161 LEU 161 492 492 LEU LEU C . n A 1 162 ARG 162 493 493 ARG ARG C . n A 1 163 SER 163 494 494 SER SER C . n A 1 164 TYR 164 495 495 TYR TYR C . n A 1 165 SER 165 496 496 SER SER C . n A 1 166 PHE 166 497 497 PHE PHE C . n A 1 167 ARG 167 498 498 ARG ARG C . n A 1 168 PRO 168 499 499 PRO PRO C . n A 1 169 THR 169 500 500 THR THR C . n A 1 170 TYR 170 501 501 TYR TYR C . n A 1 171 GLY 171 502 502 GLY GLY C . n A 1 172 VAL 172 503 503 VAL VAL C . n A 1 173 GLY 173 504 504 GLY GLY C . n A 1 174 HIS 174 505 505 HIS HIS C . n A 1 175 GLN 175 506 506 GLN GLN C . n A 1 176 PRO 176 507 507 PRO PRO C . n A 1 177 TYR 177 508 508 TYR TYR C . n A 1 178 ARG 178 509 509 ARG ARG C . n A 1 179 VAL 179 510 510 VAL VAL C . n A 1 180 VAL 180 511 511 VAL VAL C . n A 1 181 VAL 181 512 512 VAL VAL C . n A 1 182 LEU 182 513 513 LEU LEU C . n A 1 183 SER 183 514 514 SER SER C . n A 1 184 PHE 184 515 515 PHE PHE C . n A 1 185 GLU 185 516 516 GLU GLU C . n A 1 186 LEU 186 517 517 LEU LEU C . n B 2 1 GLU 1 1 ? ? ? H . n B 2 2 VAL 2 2 2 VAL VAL H . n B 2 3 GLN 3 3 3 GLN GLN H . n B 2 4 LEU 4 4 4 LEU LEU H . n B 2 5 VAL 5 5 5 VAL VAL H . n B 2 6 GLU 6 6 6 GLU GLU H . n B 2 7 SER 7 7 7 SER SER H . n B 2 8 GLY 8 8 8 GLY GLY H . n B 2 9 GLY 9 9 9 GLY GLY H . n B 2 10 GLY 10 10 10 GLY GLY H . n B 2 11 LEU 11 11 11 LEU LEU H . n B 2 12 VAL 12 12 12 VAL VAL H . n B 2 13 LYS 13 13 13 LYS LYS H . n B 2 14 PRO 14 14 14 PRO PRO H . n B 2 15 GLY 15 15 15 GLY GLY H . n B 2 16 GLY 16 16 16 GLY GLY H . n B 2 17 SER 17 17 17 SER SER H . n B 2 18 LEU 18 18 18 LEU LEU H . n B 2 19 ARG 19 19 19 ARG ARG H . n B 2 20 LEU 20 20 20 LEU LEU H . n B 2 21 SER 21 21 21 SER SER H . n B 2 22 CYS 22 22 22 CYS CYS H . n B 2 23 ALA 23 23 23 ALA ALA H . n B 2 24 ALA 24 24 24 ALA ALA H . n B 2 25 SER 25 25 25 SER SER H . n B 2 26 GLY 26 26 26 GLY GLY H . n B 2 27 PHE 27 27 27 PHE PHE H . n B 2 28 SER 28 28 28 SER SER H . n B 2 29 PHE 29 29 29 PHE PHE H . n B 2 30 ILE 30 30 30 ILE ILE H . n B 2 31 THR 31 31 31 THR THR H . n B 2 32 TYR 32 32 32 TYR TYR H . n B 2 33 ASN 33 33 33 ASN ASN H . n B 2 34 MET 34 34 34 MET MET H . n B 2 35 ASN 35 35 35 ASN ASN H . n B 2 36 TRP 36 36 36 TRP TRP H . n B 2 37 VAL 37 37 37 VAL VAL H . n B 2 38 ARG 38 38 38 ARG ARG H . n B 2 39 GLN 39 39 39 GLN GLN H . n B 2 40 ALA 40 40 40 ALA ALA H . n B 2 41 PRO 41 41 41 PRO PRO H . n B 2 42 GLY 42 42 42 GLY GLY H . n B 2 43 LYS 43 43 43 LYS LYS H . n B 2 44 GLY 44 44 44 GLY GLY H . n B 2 45 LEU 45 45 45 LEU LEU H . n B 2 46 GLU 46 46 46 GLU GLU H . n B 2 47 TRP 47 47 47 TRP TRP H . n B 2 48 VAL 48 48 48 VAL VAL H . n B 2 49 SER 49 49 49 SER SER H . n B 2 50 SER 50 50 50 SER SER H . n B 2 51 ILE 51 51 51 ILE ILE H . n B 2 52 SER 52 52 52 SER SER H . n B 2 53 SER 53 53 53 SER SER H . n B 2 54 ASN 54 54 54 ASN ASN H . n B 2 55 ILE 55 55 55 ILE ILE H . n B 2 56 LEU 56 56 56 LEU LEU H . n B 2 57 SER 57 57 57 SER SER H . n B 2 58 SER 58 58 58 SER SER H . n B 2 59 THR 59 59 59 THR THR H . n B 2 60 SER 60 60 60 SER SER H . n B 2 61 TYR 61 61 61 TYR TYR H . n B 2 62 ILE 62 62 62 ILE ILE H . n B 2 63 TYR 63 63 63 TYR TYR H . n B 2 64 TYR 64 64 64 TYR TYR H . n B 2 65 ALA 65 65 65 ALA ALA H . n B 2 66 ASP 66 66 66 ASP ASP H . n B 2 67 SER 67 67 67 SER SER H . n B 2 68 VAL 68 68 68 VAL VAL H . n B 2 69 LYS 69 69 69 LYS LYS H . n B 2 70 GLY 70 70 70 GLY GLY H . n B 2 71 ARG 71 71 71 ARG ARG H . n B 2 72 PHE 72 72 72 PHE PHE H . n B 2 73 THR 73 73 73 THR THR H . n B 2 74 ILE 74 74 74 ILE ILE H . n B 2 75 SER 75 75 75 SER SER H . n B 2 76 ARG 76 76 76 ARG ARG H . n B 2 77 ASP 77 77 77 ASP ASP H . n B 2 78 ASP 78 78 78 ASP ASP H . n B 2 79 ALA 79 79 79 ALA ALA H . n B 2 80 ALA 80 80 80 ALA ALA H . n B 2 81 ASN 81 81 81 ASN ASN H . n B 2 82 SER 82 82 82 SER SER H . n B 2 83 LEU 83 83 83 LEU LEU H . n B 2 84 PHE 84 84 84 PHE PHE H . n B 2 85 LEU 85 85 85 LEU LEU H . n B 2 86 GLN 86 86 86 GLN GLN H . n B 2 87 MET 87 87 87 MET MET H . n B 2 88 ASN 88 88 88 ASN ASN H . n B 2 89 SER 89 89 89 SER SER H . n B 2 90 LEU 90 90 90 LEU LEU H . n B 2 91 ARG 91 91 91 ARG ARG H . n B 2 92 VAL 92 92 92 VAL VAL H . n B 2 93 GLU 93 93 93 GLU GLU H . n B 2 94 ASP 94 94 94 ASP ASP H . n B 2 95 THR 95 95 95 THR THR H . n B 2 96 ALA 96 96 96 ALA ALA H . n B 2 97 GLN 97 97 97 GLN GLN H . n B 2 98 TYR 98 98 98 TYR TYR H . n B 2 99 TYR 99 99 99 TYR TYR H . n B 2 100 CYS 100 100 100 CYS CYS H . n B 2 101 ALA 101 101 101 ALA ALA H . n B 2 102 ARG 102 102 102 ARG ARG H . n B 2 103 THR 103 103 103 THR THR H . n B 2 104 ARG 104 104 104 ARG ARG H . n B 2 105 SER 105 105 105 SER SER H . n B 2 106 ARG 106 106 106 ARG ARG H . n B 2 107 SER 107 107 107 SER SER H . n B 2 108 VAL 108 108 108 VAL VAL H . n B 2 109 ARG 109 109 109 ARG ARG H . n B 2 110 ASN 110 110 110 ASN ASN H . n B 2 111 CYS 111 111 111 CYS CYS H . n B 2 112 THR 112 112 112 THR THR H . n B 2 113 SER 113 113 113 SER SER H . n B 2 114 ALA 114 114 114 ALA ALA H . n B 2 115 THR 115 115 115 THR THR H . n B 2 116 CYS 116 116 116 CYS CYS H . n B 2 117 PRO 117 117 117 PRO PRO H . n B 2 118 VAL 118 118 118 VAL VAL H . n B 2 119 ASP 119 119 119 ASP ASP H . n B 2 120 ALA 120 120 120 ALA ALA H . n B 2 121 PHE 121 121 121 PHE PHE H . n B 2 122 ASP 122 122 122 ASP ASP H . n B 2 123 LEU 123 123 123 LEU LEU H . n B 2 124 TRP 124 124 124 TRP TRP H . n B 2 125 GLY 125 125 125 GLY GLY H . n B 2 126 GLN 126 126 126 GLN GLN H . n B 2 127 GLY 127 127 127 GLY GLY H . n B 2 128 THR 128 128 128 THR THR H . n B 2 129 MET 129 129 129 MET MET H . n B 2 130 VAL 130 130 130 VAL VAL H . n B 2 131 ILE 131 131 131 ILE ILE H . n B 2 132 VAL 132 132 132 VAL VAL H . n B 2 133 SER 133 133 133 SER SER H . n B 2 134 SER 134 134 134 SER SER H . n B 2 135 ALA 135 135 135 ALA ALA H . n B 2 136 SER 136 136 136 SER SER H . n B 2 137 THR 137 137 137 THR THR H . n B 2 138 LYS 138 138 138 LYS LYS H . n B 2 139 GLY 139 139 139 GLY GLY H . n B 2 140 PRO 140 140 140 PRO PRO H . n B 2 141 SER 141 141 141 SER SER H . n B 2 142 VAL 142 142 142 VAL VAL H . n B 2 143 PHE 143 143 143 PHE PHE H . n B 2 144 PRO 144 144 144 PRO PRO H . n B 2 145 LEU 145 145 145 LEU LEU H . n B 2 146 ALA 146 146 146 ALA ALA H . n B 2 147 PRO 147 147 147 PRO PRO H . n B 2 148 SER 148 148 148 SER SER H . n B 2 149 SER 149 149 149 SER SER H . n B 2 150 LYS 150 150 150 LYS LYS H . n B 2 151 SER 151 151 151 SER SER H . n B 2 152 THR 152 152 152 THR THR H . n B 2 153 SER 153 153 153 SER SER H . n B 2 154 GLY 154 154 154 GLY GLY H . n B 2 155 GLY 155 155 155 GLY GLY H . n B 2 156 THR 156 156 156 THR THR H . n B 2 157 ALA 157 157 157 ALA ALA H . n B 2 158 ALA 158 158 158 ALA ALA H . n B 2 159 LEU 159 159 159 LEU LEU H . n B 2 160 GLY 160 160 160 GLY GLY H . n B 2 161 CYS 161 161 161 CYS CYS H . n B 2 162 LEU 162 162 162 LEU LEU H . n B 2 163 VAL 163 163 163 VAL VAL H . n B 2 164 LYS 164 164 164 LYS LYS H . n B 2 165 ASP 165 165 165 ASP ASP H . n B 2 166 TYR 166 166 166 TYR TYR H . n B 2 167 PHE 167 167 167 PHE PHE H . n B 2 168 PRO 168 168 168 PRO PRO H . n B 2 169 GLU 169 169 169 GLU GLU H . n B 2 170 PRO 170 170 170 PRO PRO H . n B 2 171 VAL 171 171 171 VAL VAL H . n B 2 172 THR 172 172 172 THR THR H . n B 2 173 VAL 173 173 173 VAL VAL H . n B 2 174 SER 174 174 174 SER SER H . n B 2 175 TRP 175 175 175 TRP TRP H . n B 2 176 ASN 176 176 176 ASN ASN H . n B 2 177 SER 177 177 177 SER SER H . n B 2 178 GLY 178 178 178 GLY GLY H . n B 2 179 ALA 179 179 179 ALA ALA H . n B 2 180 LEU 180 180 180 LEU LEU H . n B 2 181 THR 181 181 181 THR THR H . n B 2 182 SER 182 182 182 SER SER H . n B 2 183 GLY 183 183 183 GLY GLY H . n B 2 184 VAL 184 184 184 VAL VAL H . n B 2 185 HIS 185 185 185 HIS HIS H . n B 2 186 THR 186 186 186 THR THR H . n B 2 187 PHE 187 187 187 PHE PHE H . n B 2 188 PRO 188 188 188 PRO PRO H . n B 2 189 ALA 189 189 189 ALA ALA H . n B 2 190 VAL 190 190 190 VAL VAL H . n B 2 191 LEU 191 191 191 LEU LEU H . n B 2 192 GLN 192 192 192 GLN GLN H . n B 2 193 SER 193 193 193 SER SER H . n B 2 194 SER 194 194 194 SER SER H . n B 2 195 GLY 195 195 195 GLY GLY H . n B 2 196 LEU 196 196 196 LEU LEU H . n B 2 197 TYR 197 197 197 TYR TYR H . n B 2 198 SER 198 198 198 SER SER H . n B 2 199 LEU 199 199 199 LEU LEU H . n B 2 200 SER 200 200 200 SER SER H . n B 2 201 SER 201 201 201 SER SER H . n B 2 202 VAL 202 202 202 VAL VAL H . n B 2 203 VAL 203 203 203 VAL VAL H . n B 2 204 THR 204 204 204 THR THR H . n B 2 205 VAL 205 205 205 VAL VAL H . n B 2 206 PRO 206 206 206 PRO PRO H . n B 2 207 SER 207 207 207 SER SER H . n B 2 208 SER 208 208 208 SER SER H . n B 2 209 SER 209 209 209 SER SER H . n B 2 210 LEU 210 210 210 LEU LEU H . n B 2 211 GLY 211 211 211 GLY GLY H . n B 2 212 THR 212 212 212 THR THR H . n B 2 213 GLN 213 213 213 GLN GLN H . n B 2 214 THR 214 214 214 THR THR H . n B 2 215 TYR 215 215 215 TYR TYR H . n B 2 216 ILE 216 216 216 ILE ILE H . n B 2 217 CYS 217 217 217 CYS CYS H . n B 2 218 ASN 218 218 218 ASN ASN H . n B 2 219 VAL 219 219 219 VAL VAL H . n B 2 220 ASN 220 220 220 ASN ASN H . n B 2 221 HIS 221 221 221 HIS HIS H . n B 2 222 LYS 222 222 222 LYS LYS H . n B 2 223 PRO 223 223 223 PRO PRO H . n B 2 224 SER 224 224 224 SER SER H . n B 2 225 ASN 225 225 225 ASN ASN H . n B 2 226 THR 226 226 226 THR THR H . n B 2 227 LYS 227 227 227 LYS LYS H . n B 2 228 VAL 228 228 228 VAL VAL H . n B 2 229 ASP 229 229 229 ASP ASP H . n B 2 230 LYS 230 230 230 LYS LYS H . n B 2 231 LYS 231 231 231 LYS LYS H . n B 2 232 VAL 232 232 232 VAL VAL H . n B 2 233 GLU 233 233 233 GLU GLU H . n B 2 234 PRO 234 234 234 PRO PRO H . n B 2 235 LYS 235 235 ? ? ? H . n B 2 236 SER 236 236 ? ? ? H . n B 2 237 CYS 237 237 ? ? ? H . n B 2 238 ASP 238 238 ? ? ? H . n C 3 1 ASP 1 1 1 ASP ASP L . n C 3 2 ILE 2 2 2 ILE ILE L . n C 3 3 VAL 3 3 3 VAL VAL L . n C 3 4 LEU 4 4 4 LEU LEU L . n C 3 5 THR 5 5 5 THR THR L . n C 3 6 GLN 6 6 6 GLN GLN L . n C 3 7 SER 7 7 7 SER SER L . n C 3 8 PRO 8 8 8 PRO PRO L . n C 3 9 LEU 9 9 9 LEU LEU L . n C 3 10 SER 10 10 10 SER SER L . n C 3 11 LEU 11 11 11 LEU LEU L . n C 3 12 PRO 12 12 12 PRO PRO L . n C 3 13 VAL 13 13 13 VAL VAL L . n C 3 14 THR 14 14 14 THR THR L . n C 3 15 PRO 15 15 15 PRO PRO L . n C 3 16 GLY 16 16 16 GLY GLY L . n C 3 17 GLU 17 17 17 GLU GLU L . n C 3 18 PRO 18 18 18 PRO PRO L . n C 3 19 ALA 19 19 19 ALA ALA L . n C 3 20 SER 20 20 20 SER SER L . n C 3 21 ILE 21 21 21 ILE ILE L . n C 3 22 SER 22 22 22 SER SER L . n C 3 23 CYS 23 23 23 CYS CYS L . n C 3 24 ARG 24 24 24 ARG ARG L . n C 3 25 SER 25 25 25 SER SER L . n C 3 26 SER 26 26 26 SER SER L . n C 3 27 GLN 27 27 27 GLN GLN L . n C 3 28 SER 28 28 28 SER SER L . n C 3 29 LEU 29 29 29 LEU LEU L . n C 3 30 LEU 30 30 30 LEU LEU L . n C 3 31 ARG 31 31 31 ARG ARG L . n C 3 32 SER 32 32 32 SER SER L . n C 3 33 ASN 33 33 33 ASN ASN L . n C 3 34 GLY 34 34 34 GLY GLY L . n C 3 35 TYR 35 35 35 TYR TYR L . n C 3 36 ASN 36 36 36 ASN ASN L . n C 3 37 TYR 37 37 37 TYR TYR L . n C 3 38 LEU 38 38 38 LEU LEU L . n C 3 39 ASP 39 39 39 ASP ASP L . n C 3 40 TRP 40 40 40 TRP TRP L . n C 3 41 TYR 41 41 41 TYR TYR L . n C 3 42 LEU 42 42 42 LEU LEU L . n C 3 43 GLN 43 43 43 GLN GLN L . n C 3 44 LYS 44 44 44 LYS LYS L . n C 3 45 PRO 45 45 45 PRO PRO L . n C 3 46 GLY 46 46 46 GLY GLY L . n C 3 47 GLN 47 47 47 GLN GLN L . n C 3 48 SER 48 48 48 SER SER L . n C 3 49 PRO 49 49 49 PRO PRO L . n C 3 50 HIS 50 50 50 HIS HIS L . n C 3 51 LEU 51 51 51 LEU LEU L . n C 3 52 LEU 52 52 52 LEU LEU L . n C 3 53 ILE 53 53 53 ILE ILE L . n C 3 54 TYR 54 54 54 TYR TYR L . n C 3 55 LEU 55 55 55 LEU LEU L . n C 3 56 GLY 56 56 56 GLY GLY L . n C 3 57 SER 57 57 57 SER SER L . n C 3 58 ASN 58 58 58 ASN ASN L . n C 3 59 ARG 59 59 59 ARG ARG L . n C 3 60 ALA 60 60 60 ALA ALA L . n C 3 61 SER 61 61 61 SER SER L . n C 3 62 GLY 62 62 62 GLY GLY L . n C 3 63 VAL 63 63 63 VAL VAL L . n C 3 64 PRO 64 64 64 PRO PRO L . n C 3 65 ASP 65 65 65 ASP ASP L . n C 3 66 ARG 66 66 66 ARG ARG L . n C 3 67 PHE 67 67 67 PHE PHE L . n C 3 68 SER 68 68 68 SER SER L . n C 3 69 GLY 69 69 69 GLY GLY L . n C 3 70 SER 70 70 70 SER SER L . n C 3 71 GLY 71 71 71 GLY GLY L . n C 3 72 SER 72 72 72 SER SER L . n C 3 73 GLY 73 73 73 GLY GLY L . n C 3 74 THR 74 74 74 THR THR L . n C 3 75 ASP 75 75 75 ASP ASP L . n C 3 76 PHE 76 76 76 PHE PHE L . n C 3 77 THR 77 77 77 THR THR L . n C 3 78 LEU 78 78 78 LEU LEU L . n C 3 79 LYS 79 79 ? ? ? L . n C 3 80 ILE 80 80 ? ? ? L . n C 3 81 SER 81 81 ? ? ? L . n C 3 82 ARG 82 82 ? ? ? L . n C 3 83 VAL 83 83 ? ? ? L . n C 3 84 GLU 84 84 ? ? ? L . n C 3 85 ALA 85 85 ? ? ? L . n C 3 86 GLU 86 86 ? ? ? L . n C 3 87 ASP 87 87 ? ? ? L . n C 3 88 VAL 88 88 ? ? ? L . n C 3 89 GLY 89 89 89 GLY GLY L . n C 3 90 VAL 90 90 90 VAL VAL L . n C 3 91 TYR 91 91 91 TYR TYR L . n C 3 92 TYR 92 92 92 TYR TYR L . n C 3 93 CYS 93 93 93 CYS CYS L . n C 3 94 MET 94 94 94 MET MET L . n C 3 95 GLN 95 95 95 GLN GLN L . n C 3 96 ALA 96 96 96 ALA ALA L . n C 3 97 LEU 97 97 97 LEU LEU L . n C 3 98 GLN 98 98 98 GLN GLN L . n C 3 99 THR 99 99 99 THR THR L . n C 3 100 PRO 100 100 100 PRO PRO L . n C 3 101 TYR 101 101 101 TYR TYR L . n C 3 102 THR 102 102 102 THR THR L . n C 3 103 PHE 103 103 103 PHE PHE L . n C 3 104 GLY 104 104 104 GLY GLY L . n C 3 105 GLN 105 105 105 GLN GLN L . n C 3 106 GLY 106 106 106 GLY GLY L . n C 3 107 THR 107 107 107 THR THR L . n C 3 108 ASN 108 108 108 ASN ASN L . n C 3 109 LEU 109 109 109 LEU LEU L . n C 3 110 GLU 110 110 110 GLU GLU L . n C 3 111 ILE 111 111 111 ILE ILE L . n C 3 112 LYS 112 112 112 LYS LYS L . n C 3 113 ARG 113 113 113 ARG ARG L . n C 3 114 THR 114 114 114 THR THR L . n C 3 115 VAL 115 115 115 VAL VAL L . n C 3 116 ALA 116 116 116 ALA ALA L . n C 3 117 ALA 117 117 117 ALA ALA L . n C 3 118 PRO 118 118 118 PRO PRO L . n C 3 119 SER 119 119 119 SER SER L . n C 3 120 VAL 120 120 120 VAL VAL L . n C 3 121 PHE 121 121 121 PHE PHE L . n C 3 122 ILE 122 122 122 ILE ILE L . n C 3 123 PHE 123 123 123 PHE PHE L . n C 3 124 PRO 124 124 124 PRO PRO L . n C 3 125 PRO 125 125 125 PRO PRO L . n C 3 126 SER 126 126 126 SER SER L . n C 3 127 ASP 127 127 127 ASP ASP L . n C 3 128 GLU 128 128 128 GLU GLU L . n C 3 129 GLN 129 129 129 GLN GLN L . n C 3 130 LEU 130 130 130 LEU LEU L . n C 3 131 LYS 131 131 131 LYS LYS L . n C 3 132 SER 132 132 132 SER SER L . n C 3 133 GLY 133 133 133 GLY GLY L . n C 3 134 THR 134 134 134 THR THR L . n C 3 135 ALA 135 135 135 ALA ALA L . n C 3 136 SER 136 136 136 SER SER L . n C 3 137 VAL 137 137 137 VAL VAL L . n C 3 138 VAL 138 138 138 VAL VAL L . n C 3 139 CYS 139 139 139 CYS CYS L . n C 3 140 LEU 140 140 140 LEU LEU L . n C 3 141 LEU 141 141 141 LEU LEU L . n C 3 142 ASN 142 142 142 ASN ASN L . n C 3 143 ASN 143 143 143 ASN ASN L . n C 3 144 PHE 144 144 144 PHE PHE L . n C 3 145 TYR 145 145 145 TYR TYR L . n C 3 146 PRO 146 146 146 PRO PRO L . n C 3 147 ARG 147 147 147 ARG ARG L . n C 3 148 GLU 148 148 148 GLU GLU L . n C 3 149 ALA 149 149 149 ALA ALA L . n C 3 150 LYS 150 150 150 LYS LYS L . n C 3 151 VAL 151 151 151 VAL VAL L . n C 3 152 GLN 152 152 152 GLN GLN L . n C 3 153 TRP 153 153 153 TRP TRP L . n C 3 154 LYS 154 154 154 LYS LYS L . n C 3 155 VAL 155 155 155 VAL VAL L . n C 3 156 ASP 156 156 156 ASP ASP L . n C 3 157 ASN 157 157 157 ASN ASN L . n C 3 158 ALA 158 158 158 ALA ALA L . n C 3 159 LEU 159 159 159 LEU LEU L . n C 3 160 GLN 160 160 160 GLN GLN L . n C 3 161 SER 161 161 161 SER SER L . n C 3 162 GLY 162 162 162 GLY GLY L . n C 3 163 ASN 163 163 163 ASN ASN L . n C 3 164 SER 164 164 164 SER SER L . n C 3 165 GLN 165 165 165 GLN GLN L . n C 3 166 GLU 166 166 166 GLU GLU L . n C 3 167 SER 167 167 167 SER SER L . n C 3 168 VAL 168 168 168 VAL VAL L . n C 3 169 THR 169 169 169 THR THR L . n C 3 170 GLU 170 170 170 GLU GLU L . n C 3 171 GLN 171 171 171 GLN GLN L . n C 3 172 ASP 172 172 172 ASP ASP L . n C 3 173 SER 173 173 173 SER SER L . n C 3 174 LYS 174 174 174 LYS LYS L . n C 3 175 ASP 175 175 175 ASP ASP L . n C 3 176 SER 176 176 176 SER SER L . n C 3 177 THR 177 177 177 THR THR L . n C 3 178 TYR 178 178 178 TYR TYR L . n C 3 179 SER 179 179 179 SER SER L . n C 3 180 LEU 180 180 180 LEU LEU L . n C 3 181 SER 181 181 181 SER SER L . n C 3 182 SER 182 182 182 SER SER L . n C 3 183 THR 183 183 183 THR THR L . n C 3 184 LEU 184 184 184 LEU LEU L . n C 3 185 THR 185 185 185 THR THR L . n C 3 186 LEU 186 186 186 LEU LEU L . n C 3 187 SER 187 187 187 SER SER L . n C 3 188 LYS 188 188 188 LYS LYS L . n C 3 189 ALA 189 189 189 ALA ALA L . n C 3 190 ASP 190 190 190 ASP ASP L . n C 3 191 TYR 191 191 191 TYR TYR L . n C 3 192 GLU 192 192 192 GLU GLU L . n C 3 193 LYS 193 193 193 LYS LYS L . n C 3 194 HIS 194 194 194 HIS HIS L . n C 3 195 LYS 195 195 195 LYS LYS L . n C 3 196 VAL 196 196 196 VAL VAL L . n C 3 197 TYR 197 197 197 TYR TYR L . n C 3 198 ALA 198 198 198 ALA ALA L . n C 3 199 CYS 199 199 199 CYS CYS L . n C 3 200 GLU 200 200 200 GLU GLU L . n C 3 201 VAL 201 201 201 VAL VAL L . n C 3 202 THR 202 202 202 THR THR L . n C 3 203 HIS 203 203 203 HIS HIS L . n C 3 204 GLN 204 204 204 GLN GLN L . n C 3 205 GLY 205 205 205 GLY GLY L . n C 3 206 LEU 206 206 206 LEU LEU L . n C 3 207 SER 207 207 207 SER SER L . n C 3 208 SER 208 208 208 SER SER L . n C 3 209 PRO 209 209 209 PRO PRO L . n C 3 210 VAL 210 210 210 VAL VAL L . n C 3 211 THR 211 211 211 THR THR L . n C 3 212 LYS 212 212 212 LYS LYS L . n C 3 213 SER 213 213 213 SER SER L . n C 3 214 PHE 214 214 214 PHE PHE L . n C 3 215 ASN 215 215 215 ASN ASN L . n C 3 216 ARG 216 216 216 ARG ARG L . n C 3 217 GLY 217 217 217 GLY GLY L . n C 3 218 GLU 218 218 218 GLU GLU L . n C 3 219 CYS 219 219 219 CYS CYS L . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id NAG _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id NAG _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # _pdbx_nonpoly_scheme.asym_id D _pdbx_nonpoly_scheme.entity_id 4 _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 C _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 L GLU 110 ? CG ? C GLU 110 CG 2 1 Y 1 L GLU 110 ? CD ? C GLU 110 CD 3 1 Y 1 L GLU 110 ? OE1 ? C GLU 110 OE1 4 1 Y 1 L GLU 110 ? OE2 ? C GLU 110 OE2 5 1 Y 1 L LYS 112 ? CG ? C LYS 112 CG 6 1 Y 1 L LYS 112 ? CD ? C LYS 112 CD 7 1 Y 1 L LYS 112 ? CE ? C LYS 112 CE 8 1 Y 1 L LYS 112 ? NZ ? C LYS 112 NZ 9 1 Y 1 L ARG 147 ? CG ? C ARG 147 CG 10 1 Y 1 L ARG 147 ? CD ? C ARG 147 CD 11 1 Y 1 L ARG 147 ? NE ? C ARG 147 NE 12 1 Y 1 L ARG 147 ? CZ ? C ARG 147 CZ 13 1 Y 1 L ARG 147 ? NH1 ? C ARG 147 NH1 14 1 Y 1 L ARG 147 ? NH2 ? C ARG 147 NH2 15 1 Y 1 L LYS 150 ? CG ? C LYS 150 CG 16 1 Y 1 L LYS 150 ? CD ? C LYS 150 CD 17 1 Y 1 L LYS 150 ? CE ? C LYS 150 CE 18 1 Y 1 L LYS 150 ? NZ ? C LYS 150 NZ 19 1 Y 1 L LYS 174 ? CG ? C LYS 174 CG 20 1 Y 1 L LYS 174 ? CD ? C LYS 174 CD 21 1 Y 1 L LYS 174 ? CE ? C LYS 174 CE 22 1 Y 1 L LYS 174 ? NZ ? C LYS 174 NZ 23 1 Y 1 L LYS 188 ? CG ? C LYS 188 CG 24 1 Y 1 L LYS 188 ? CD ? C LYS 188 CD 25 1 Y 1 L LYS 188 ? CE ? C LYS 188 CE 26 1 Y 1 L LYS 188 ? NZ ? C LYS 188 NZ 27 1 Y 1 L LYS 195 ? CG ? C LYS 195 CG 28 1 Y 1 L LYS 195 ? CD ? C LYS 195 CD 29 1 Y 1 L LYS 195 ? CE ? C LYS 195 CE 30 1 Y 1 L LYS 195 ? NZ ? C LYS 195 NZ # _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 # _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 8HC8 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.entry_id 8HC8 _refine.pdbx_diffrn_id ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high . _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.003 ? 4952 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.704 ? 6745 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 4.420 ? 696 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.046 ? 754 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.007 ? 871 ? f_plane_restr ? ? # _struct.entry_id 8HC8 _struct.title 'SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with YB13-292 Fab, focused refinement of Fab region' _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 8HC8 _struct_keywords.text 'Spike protein, RBD, antibody, 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 ? # 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 ;ITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIA PGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFP LQSYGFQPTNGVGYQPYRVVVLSFEL ; 332 2 PDB 8HC8 8HC8 ? 2 ? 1 3 PDB 8HC8 8HC8 ? 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 8HC8 C 1 ? 186 ? P0DTC2 332 ? 517 ? 332 517 2 2 8HC8 H 1 ? 238 ? 8HC8 1 ? 238 ? 1 238 3 3 8HC8 L 1 ? 219 ? 8HC8 1 ? 219 ? 1 219 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 8HC8 ASP C 8 ? UNP P0DTC2 GLY 339 variant 339 1 1 8HC8 LEU C 40 ? UNP P0DTC2 SER 371 variant 371 2 1 8HC8 PRO C 42 ? UNP P0DTC2 SER 373 variant 373 3 1 8HC8 PHE C 44 ? UNP P0DTC2 SER 375 variant 375 4 1 8HC8 ASN C 86 ? UNP P0DTC2 LYS 417 variant 417 5 1 8HC8 LYS C 109 ? UNP P0DTC2 ASN 440 variant 440 6 1 8HC8 SER C 115 ? UNP P0DTC2 GLY 446 variant 446 7 1 8HC8 ASN C 146 ? UNP P0DTC2 SER 477 variant 477 8 1 8HC8 LYS C 147 ? UNP P0DTC2 THR 478 variant 478 9 1 8HC8 ALA C 153 ? UNP P0DTC2 GLU 484 variant 484 10 1 8HC8 ARG C 162 ? UNP P0DTC2 GLN 493 variant 493 11 1 8HC8 SER C 165 ? UNP P0DTC2 GLY 496 variant 496 12 1 8HC8 ARG C 167 ? UNP P0DTC2 GLN 498 variant 498 13 1 8HC8 TYR C 170 ? UNP P0DTC2 ASN 501 variant 501 14 1 8HC8 HIS C 174 ? UNP P0DTC2 TYR 505 variant 505 15 # _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 # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? # _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 TYR A 34 ? ASN A 39 ? TYR C 365 ASN C 370 5 ? 6 HELX_P HELX_P2 AA2 GLU A 75 ? ILE A 79 ? GLU C 406 ILE C 410 5 ? 5 HELX_P HELX_P3 AA3 GLY A 85 ? ASN A 91 ? GLY C 416 ASN C 422 1 ? 7 HELX_P HELX_P4 AA4 GLY A 171 ? GLN A 175 ? GLY C 502 GLN C 506 5 ? 5 HELX_P HELX_P5 AA5 ASP B 78 ? ALA B 80 ? ASP H 78 ALA H 80 5 ? 3 HELX_P HELX_P6 AA6 SER B 177 ? ALA B 179 ? SER H 177 ALA H 179 5 ? 3 HELX_P HELX_P7 AA7 SER B 208 ? LEU B 210 ? SER H 208 LEU H 210 5 ? 3 HELX_P HELX_P8 AA8 SER C 126 ? LYS C 131 ? SER L 126 LYS L 131 1 ? 6 HELX_P HELX_P9 AA9 LYS C 188 ? LYS C 193 ? LYS L 188 LYS L 193 1 ? 6 # _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 5 SG ? ? ? 1_555 A CYS 30 SG ? ? C CYS 336 C CYS 361 1_555 ? ? ? ? ? ? ? 2.032 ? ? disulf2 disulf ? ? A CYS 48 SG ? ? ? 1_555 A CYS 101 SG ? ? C CYS 379 C CYS 432 1_555 ? ? ? ? ? ? ? 2.036 ? ? disulf3 disulf ? ? A CYS 149 SG ? ? ? 1_555 A CYS 157 SG ? ? C CYS 480 C CYS 488 1_555 ? ? ? ? ? ? ? 2.032 ? ? disulf4 disulf ? ? B CYS 22 SG ? ? ? 1_555 B CYS 100 SG ? ? H CYS 22 H CYS 100 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf5 disulf ? ? B CYS 111 SG ? ? ? 1_555 B CYS 116 SG ? ? H CYS 111 H CYS 116 1_555 ? ? ? ? ? ? ? 2.031 ? ? disulf6 disulf ? ? B CYS 161 SG ? ? ? 1_555 B CYS 217 SG ? ? H CYS 161 H CYS 217 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf7 disulf ? ? C CYS 23 SG ? ? ? 1_555 C CYS 93 SG ? ? L CYS 23 L CYS 93 1_555 ? ? ? ? ? ? ? 2.032 ? ? disulf8 disulf ? ? C CYS 139 SG ? ? ? 1_555 C CYS 199 SG ? ? L CYS 139 L CYS 199 1_555 ? ? ? ? ? ? ? 2.040 ? ? covale1 covale one ? A ASN 12 ND2 ? ? ? 1_555 D NAG . C1 ? ? C ASN 343 C NAG 601 1_555 ? ? ? ? ? ? ? 1.441 ? 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 D . ? ASN A 12 ? NAG C 601 ? 1_555 ASN C 343 ? 1_555 C1 ND2 ASN 1 NAG N-Glycosylation Carbohydrate 2 CYS A 5 ? CYS A 30 ? CYS C 336 ? 1_555 CYS C 361 ? 1_555 SG SG . . . None 'Disulfide bridge' 3 CYS A 48 ? CYS A 101 ? CYS C 379 ? 1_555 CYS C 432 ? 1_555 SG SG . . . None 'Disulfide bridge' 4 CYS A 149 ? CYS A 157 ? CYS C 480 ? 1_555 CYS C 488 ? 1_555 SG SG . . . None 'Disulfide bridge' 5 CYS B 22 ? CYS B 100 ? CYS H 22 ? 1_555 CYS H 100 ? 1_555 SG SG . . . None 'Disulfide bridge' 6 CYS B 111 ? CYS B 116 ? CYS H 111 ? 1_555 CYS H 116 ? 1_555 SG SG . . . None 'Disulfide bridge' 7 CYS B 161 ? CYS B 217 ? CYS H 161 ? 1_555 CYS H 217 ? 1_555 SG SG . . . None 'Disulfide bridge' 8 CYS C 23 ? CYS C 93 ? CYS L 23 ? 1_555 CYS L 93 ? 1_555 SG SG . . . None 'Disulfide bridge' 9 CYS C 139 ? CYS C 199 ? CYS L 139 ? 1_555 CYS L 199 ? 1_555 SG SG . . . None 'Disulfide bridge' # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id PHE _struct_mon_prot_cis.label_seq_id 167 _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 PHE _struct_mon_prot_cis.auth_seq_id 167 _struct_mon_prot_cis.auth_asym_id H _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 168 _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_2 168 _struct_mon_prot_cis.pdbx_auth_asym_id_2 H _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 3.39 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 2 ? AA3 ? 2 ? AA4 ? 4 ? AA5 ? 6 ? AA6 ? 4 ? AA7 ? 4 ? AA8 ? 4 ? AA9 ? 3 ? AB1 ? 4 ? AB2 ? 2 ? AB3 ? 3 ? AB4 ? 4 ? AB5 ? 3 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA2 1 2 ? anti-parallel AA3 1 2 ? anti-parallel AA4 1 2 ? anti-parallel AA4 2 3 ? anti-parallel AA4 3 4 ? anti-parallel AA5 1 2 ? parallel AA5 2 3 ? anti-parallel AA5 3 4 ? anti-parallel AA5 4 5 ? anti-parallel AA5 5 6 ? anti-parallel AA6 1 2 ? parallel AA6 2 3 ? anti-parallel AA6 3 4 ? anti-parallel AA7 1 2 ? anti-parallel AA7 2 3 ? anti-parallel AA7 3 4 ? anti-parallel AA8 1 2 ? anti-parallel AA8 2 3 ? anti-parallel AA8 3 4 ? anti-parallel AA9 1 2 ? anti-parallel AA9 2 3 ? anti-parallel AB1 1 2 ? anti-parallel AB1 2 3 ? anti-parallel AB1 3 4 ? anti-parallel AB2 1 2 ? parallel AB3 1 2 ? anti-parallel AB3 2 3 ? anti-parallel AB4 1 2 ? anti-parallel AB4 2 3 ? anti-parallel AB4 3 4 ? anti-parallel AB5 1 2 ? anti-parallel AB5 2 3 ? 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 LYS A 25 ? ILE A 27 ? LYS C 356 ILE C 358 AA1 2 VAL A 64 ? ILE A 71 ? VAL C 395 ILE C 402 AA1 3 TYR A 177 ? PHE A 184 ? TYR C 508 PHE C 515 AA1 4 GLY A 100 ? ASN A 106 ? GLY C 431 ASN C 437 AA2 1 LEU A 121 ? ARG A 123 ? LEU C 452 ARG C 454 AA2 2 LEU A 161 ? SER A 163 ? LEU C 492 SER C 494 AA3 1 TYR A 142 ? GLN A 143 ? TYR C 473 GLN C 474 AA3 2 CYS A 157 ? TYR A 158 ? CYS C 488 TYR C 489 AA4 1 LEU B 4 ? SER B 7 ? LEU H 4 SER H 7 AA4 2 LEU B 20 ? ALA B 24 ? LEU H 20 ALA H 24 AA4 3 SER B 82 ? GLN B 86 ? SER H 82 GLN H 86 AA4 4 THR B 73 ? ASP B 77 ? THR H 73 ASP H 77 AA5 1 LEU B 11 ? VAL B 12 ? LEU H 11 VAL H 12 AA5 2 THR B 128 ? VAL B 132 ? THR H 128 VAL H 132 AA5 3 ALA B 96 ? ARG B 102 ? ALA H 96 ARG H 102 AA5 4 MET B 34 ? GLN B 39 ? MET H 34 GLN H 39 AA5 5 LEU B 45 ? ILE B 51 ? LEU H 45 ILE H 51 AA5 6 ILE B 62 ? TYR B 64 ? ILE H 62 TYR H 64 AA6 1 LEU B 11 ? VAL B 12 ? LEU H 11 VAL H 12 AA6 2 THR B 128 ? VAL B 132 ? THR H 128 VAL H 132 AA6 3 ALA B 96 ? ARG B 102 ? ALA H 96 ARG H 102 AA6 4 LEU B 123 ? TRP B 124 ? LEU H 123 TRP H 124 AA7 1 SER B 141 ? PRO B 144 ? SER H 141 PRO H 144 AA7 2 THR B 156 ? TYR B 166 ? THR H 156 TYR H 166 AA7 3 TYR B 197 ? PRO B 206 ? TYR H 197 PRO H 206 AA7 4 VAL B 184 ? THR B 186 ? VAL H 184 THR H 186 AA8 1 SER B 141 ? PRO B 144 ? SER H 141 PRO H 144 AA8 2 THR B 156 ? TYR B 166 ? THR H 156 TYR H 166 AA8 3 TYR B 197 ? PRO B 206 ? TYR H 197 PRO H 206 AA8 4 VAL B 190 ? LEU B 191 ? VAL H 190 LEU H 191 AA9 1 THR B 172 ? TRP B 175 ? THR H 172 TRP H 175 AA9 2 ILE B 216 ? HIS B 221 ? ILE H 216 HIS H 221 AA9 3 THR B 226 ? LYS B 231 ? THR H 226 LYS H 231 AB1 1 THR C 5 ? GLN C 6 ? THR L 5 GLN L 6 AB1 2 SER C 22 ? ARG C 24 ? SER L 22 ARG L 24 AB1 3 ASP C 75 ? THR C 77 ? ASP L 75 THR L 77 AB1 4 SER C 70 ? SER C 72 ? SER L 70 SER L 72 AB2 1 PRO C 12 ? VAL C 13 ? PRO L 12 VAL L 13 AB2 2 GLU C 110 ? ILE C 111 ? GLU L 110 ILE L 111 AB3 1 HIS C 50 ? ILE C 53 ? HIS L 50 ILE L 53 AB3 2 TRP C 40 ? GLN C 43 ? TRP L 40 GLN L 43 AB3 3 VAL C 90 ? CYS C 93 ? VAL L 90 CYS L 93 AB4 1 PHE C 121 ? PHE C 123 ? PHE L 121 PHE L 123 AB4 2 THR C 134 ? ASN C 142 ? THR L 134 ASN L 142 AB4 3 SER C 179 ? SER C 187 ? SER L 179 SER L 187 AB4 4 SER C 164 ? VAL C 168 ? SER L 164 VAL L 168 AB5 1 GLN C 152 ? VAL C 155 ? GLN L 152 VAL L 155 AB5 2 VAL C 196 ? VAL C 201 ? VAL L 196 VAL L 201 AB5 3 VAL C 210 ? ASN C 215 ? VAL L 210 ASN L 215 # 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 LYS A 25 ? N LYS C 356 O ALA A 66 ? O ALA C 397 AA1 2 3 N ILE A 71 ? N ILE C 402 O TYR A 177 ? O TYR C 508 AA1 3 4 O VAL A 180 ? O VAL C 511 N ILE A 103 ? N ILE C 434 AA2 1 2 N TYR A 122 ? N TYR C 453 O ARG A 162 ? O ARG C 493 AA3 1 2 N TYR A 142 ? N TYR C 473 O TYR A 158 ? O TYR C 489 AA4 1 2 N VAL B 5 ? N VAL H 5 O ALA B 23 ? O ALA H 23 AA4 2 3 N CYS B 22 ? N CYS H 22 O LEU B 83 ? O LEU H 83 AA4 3 4 O SER B 82 ? O SER H 82 N ASP B 77 ? N ASP H 77 AA5 1 2 N VAL B 12 ? N VAL H 12 O ILE B 131 ? O ILE H 131 AA5 2 3 O THR B 128 ? O THR H 128 N TYR B 98 ? N TYR H 98 AA5 3 4 O TYR B 99 ? O TYR H 99 N VAL B 37 ? N VAL H 37 AA5 4 5 N ARG B 38 ? N ARG H 38 O GLU B 46 ? O GLU H 46 AA5 5 6 N SER B 50 ? N SER H 50 O TYR B 63 ? O TYR H 63 AA6 1 2 N VAL B 12 ? N VAL H 12 O ILE B 131 ? O ILE H 131 AA6 2 3 O THR B 128 ? O THR H 128 N TYR B 98 ? N TYR H 98 AA6 3 4 N ARG B 102 ? N ARG H 102 O LEU B 123 ? O LEU H 123 AA7 1 2 N PHE B 143 ? N PHE H 143 O LEU B 162 ? O LEU H 162 AA7 2 3 N CYS B 161 ? N CYS H 161 O SER B 201 ? O SER H 201 AA7 3 4 O VAL B 202 ? O VAL H 202 N HIS B 185 ? N HIS H 185 AA8 1 2 N PHE B 143 ? N PHE H 143 O LEU B 162 ? O LEU H 162 AA8 2 3 N CYS B 161 ? N CYS H 161 O SER B 201 ? O SER H 201 AA8 3 4 O SER B 198 ? O SER H 198 N VAL B 190 ? N VAL H 190 AA9 1 2 N THR B 172 ? N THR H 172 O ASN B 220 ? O ASN H 220 AA9 2 3 N CYS B 217 ? N CYS H 217 O LYS B 230 ? O LYS H 230 AB1 1 2 N THR C 5 ? N THR L 5 O ARG C 24 ? O ARG L 24 AB1 2 3 N CYS C 23 ? N CYS L 23 O PHE C 76 ? O PHE L 76 AB1 3 4 O THR C 77 ? O THR L 77 N SER C 70 ? N SER L 70 AB2 1 2 N VAL C 13 ? N VAL L 13 O GLU C 110 ? O GLU L 110 AB3 1 2 O ILE C 53 ? O ILE L 53 N TRP C 40 ? N TRP L 40 AB3 2 3 N TYR C 41 ? N TYR L 41 O TYR C 92 ? O TYR L 92 AB4 1 2 N PHE C 121 ? N PHE L 121 O LEU C 140 ? O LEU L 140 AB4 2 3 N ALA C 135 ? N ALA L 135 O LEU C 186 ? O LEU L 186 AB4 3 4 O THR C 183 ? O THR L 183 N GLN C 165 ? N GLN L 165 AB5 1 2 N LYS C 154 ? N LYS L 154 O ALA C 198 ? O ALA L 198 AB5 2 3 N TYR C 197 ? N TYR L 197 O PHE C 214 ? O PHE L 214 # _pdbx_entry_details.entry_id 8HC8 _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_protein_modification Y # 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 LYS C 378 ? ? 39.74 52.40 2 1 LYS C 386 ? ? -92.90 52.93 3 1 ASP C 442 ? ? -92.11 52.72 4 1 SER H 153 ? ? 63.98 168.37 5 1 ARG L 31 ? ? 58.85 -126.74 6 1 ASN L 143 ? ? 43.09 77.49 7 1 PRO L 146 ? ? -66.27 -174.83 8 1 ARG L 147 ? ? 63.61 63.68 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 8HC8 _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 8HC8 _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm 'FOURIER SPACE' _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 3.95 _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 210698 _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 8.0 # loop_ _em_entity_assembly.id _em_entity_assembly.parent_id _em_entity_assembly.source _em_entity_assembly.type _em_entity_assembly.name _em_entity_assembly.details _em_entity_assembly.synonym _em_entity_assembly.oligomeric_details _em_entity_assembly.entity_id_list 1 0 RECOMBINANT COMPLEX 'SARS-CoV-2 Omicron BA.1 spike trimer with in complex with YB13-292 Fab, focused refinement of Fab region' ? ? ? '1, 2, 3' 2 1 RECOMBINANT COMPLEX 'SARS-CoV-2 Omicron BA.1 spike protein' ? ? ? 1 3 1 RECOMBINANT COMPLEX 'YB13-292 Fab' ? ? ? 2,3 # _em_imaging.entry_id 8HC8 _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'FEI TALOS ARCTICA' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 200 _em_imaging.illumination_mode OTHER _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_min 800 _em_imaging.nominal_defocus_max 2500 _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_sample_support.id 1 _em_sample_support.film_material ? _em_sample_support.method ? _em_sample_support.grid_material COPPER _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'Quantifoil R1.2/1.3' _em_sample_support.details ? _em_sample_support.specimen_id 1 _em_sample_support.citation_id ? # _em_vitrification.entry_id 8HC8 _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 100 _em_vitrification.temp ? _em_vitrification.chamber_temperature 295 _em_vitrification.instrument ? _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 8HC8 _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # _em_single_particle_entity.entry_id 8HC8 _em_single_particle_entity.id 1 _em_single_particle_entity.image_processing_id 1 _em_single_particle_entity.point_symmetry C1 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 H GLU 1 ? B GLU 1 2 1 Y 1 H LYS 235 ? B LYS 235 3 1 Y 1 H SER 236 ? B SER 236 4 1 Y 1 H CYS 237 ? B CYS 237 5 1 Y 1 H ASP 238 ? B ASP 238 6 1 Y 1 L LYS 79 ? C LYS 79 7 1 Y 1 L ILE 80 ? C ILE 80 8 1 Y 1 L SER 81 ? C SER 81 9 1 Y 1 L ARG 82 ? C ARG 82 10 1 Y 1 L VAL 83 ? C VAL 83 11 1 Y 1 L GLU 84 ? C GLU 84 12 1 Y 1 L ALA 85 ? C ALA 85 13 1 Y 1 L GLU 86 ? C GLU 86 14 1 Y 1 L ASP 87 ? C ASP 87 15 1 Y 1 L VAL 88 ? C VAL 88 # 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_admin.current_status REL _em_admin.deposition_date 2022-11-01 _em_admin.deposition_site PDBJ _em_admin.entry_id 8HC8 _em_admin.last_update 2024-10-16 _em_admin.map_release_date 2023-01-25 _em_admin.title 'SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with YB13-292 Fab, focused refinement of Fab region' # _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' # loop_ _em_entity_assembly_naturalsource.cell _em_entity_assembly_naturalsource.cellular_location _em_entity_assembly_naturalsource.entity_assembly_id _em_entity_assembly_naturalsource.id _em_entity_assembly_naturalsource.ncbi_tax_id _em_entity_assembly_naturalsource.organism _em_entity_assembly_naturalsource.organelle _em_entity_assembly_naturalsource.organ _em_entity_assembly_naturalsource.strain _em_entity_assembly_naturalsource.tissue ? ? 2 1 2697049 'Severe acute respiratory syndrome coronavirus 2' ? ? ? ? ? ? 3 2 9606 'Homo sapiens' ? ? ? ? # _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 60 _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 ? # 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 'PARTICLE SELECTION' ? 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 ? ? RELION 4.0 'FINAL EULER ASSIGNMENT' ? 11 1 ? ? cryoSPARC ? CLASSIFICATION ? 12 1 ? ? ? ? RECONSTRUCTION ? 13 1 ? ? cryoSPARC ? # _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 # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Other government' ? EKPG21-06 1 'Other government' ? 2021A1515011289 2 'Other government' ? GRMH-GL 3 # _atom_sites.entry_id 8HC8 _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_