data_9A1T # _entry.id 9A1T # loop_ _atom_type.symbol C H N O S # loop_ _audit_author.name _audit_author.pdbx_ordinal "Ruchi Yadav" 1 "Valentine V. Courouble" 2 "Sanjay K. Dey" 3 "Francesc X. Ruiz" 4 "Patrick R. Griffin" 5 "Eddy Arnold" 6 # loop_ _audit_conform.dict_location _audit_conform.dict_name _audit_conform.dict_version https://mmcif.wwpdb.org/dictionaries/ascii/mmcif_ihm_ext.dic mmcif_ihm_ext.dic 1.27 http://mmcif.wwpdb.org/dictionaries/ascii/mmcif_pdbx_v50.dic mmcif_pdbx.dic 5.399 # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB-Dev PDBDEV_00000119 PDBDEV_00000119 ? PDB 9A1T pdb_00009a1t 10.2210/pdb9a1t/pdb # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 9A1T _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2022-05-20 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2022-12-16 # _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 ? # loop_ _chem_comp.formula _chem_comp.formula_weight _chem_comp.id _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.type "C3 H7 N O2" 89.094 ALA . ALANINE . "L-peptide linking" "C6 H15 N4 O2 1" 175.212 ARG . ARGININE . "L-peptide linking" "C4 H8 N2 O3" 132.119 ASN . ASPARAGINE . "L-peptide linking" "C4 H7 N O4" 133.103 ASP . "ASPARTIC ACID" . "L-peptide linking" "C3 H7 N O2 S" 121.154 CYS . CYSTEINE . "L-peptide linking" "C5 H10 N2 O3" 146.146 GLN . GLUTAMINE . "L-peptide linking" "C5 H9 N O4" 147.13 GLU . "GLUTAMIC ACID" . "L-peptide linking" "C2 H5 N O2" 75.067 GLY . GLYCINE . "peptide linking" "C6 H10 N3 O2 1" 156.165 HIS . HISTIDINE . "L-peptide linking" "C6 H13 N O2" 131.175 ILE . ISOLEUCINE . "L-peptide linking" "C6 H13 N O2" 131.175 LEU . LEUCINE . "L-peptide linking" "C6 H15 N2 O2 1" 147.198 LYS . LYSINE . "L-peptide linking" "C5 H11 N O2 S" 149.208 MET . METHIONINE . "L-peptide linking" "C9 H11 N O2" 165.192 PHE . PHENYLALANINE . "L-peptide linking" "C5 H9 N O2" 115.132 PRO . PROLINE . "L-peptide linking" "C3 H7 N O3" 105.093 SER . SERINE . "L-peptide linking" "C4 H9 N O3" 119.12 THR . THREONINE . "L-peptide linking" "C11 H12 N2 O2" 204.229 TRP . TRYPTOPHAN . "L-peptide linking" "C9 H11 N O3" 181.191 TYR . TYROSINE . "L-peptide linking" "C5 H11 N O2" 117.148 VAL . VALINE . "L-peptide linking" # _citation.country . _citation.id 1 _citation.journal_abbrev "Sci. Adv." _citation.journal_id_ASTM . _citation.journal_id_CSD . _citation.journal_id_ISSN . _citation.journal_issue 49 _citation.journal_volume 8 _citation.page_first eadd2191 _citation.page_last . _citation.pdbx_database_id_DOI 10.1126/sciadv.add2191 _citation.pdbx_database_id_PubMed 36490335 _citation.title "Biochemical and structural insights into SARS-CoV-2 polyprotein processing by Mpro" _citation.year 2022 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal 1 "Ruchi Yadav" 1 1 "Valentine V. Courouble" 2 1 "Sanjay K. Dey" 3 1 "Jerry Joe E.K. Harrison" 4 1 "Jennifer Timm" 5 1 "Jesse B. Hopkins" 6 1 "Ryan L. Slack" 7 1 "Stefan G. Sarafianos" 8 1 "Francesc X. Ruiz" 9 1 "Patrick R. Griffin" 10 1 "Eddy Arnold" 11 # _entity.details . _entity.formula_weight 36368.605 _entity.id 1 _entity.pdbx_description "SARS-CoV-2 nsp7-8 polyprotein" _entity.pdbx_number_of_molecules 1 _entity.src_method MAN _entity.type polymer # _entity_poly.entity_id 1 _entity_poly.nstd_chirality . _entity_poly.nstd_linkage NO _entity_poly.nstd_monomer NO _entity_poly.pdbx_seq_one_letter_code GPSKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIASEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLNIIPLTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNLAWPLIVTALRANSAVKLQ _entity_poly.pdbx_seq_one_letter_code_can GPSKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIASEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLNIIPLTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNLAWPLIVTALRANSAVKLQ _entity_poly.pdbx_sequence_evidence_code . _entity_poly.pdbx_strand_id A _entity_poly.type polypeptide(L) # loop_ _entity_poly_seq.entity_id _entity_poly_seq.hetero _entity_poly_seq.mon_id _entity_poly_seq.num 1 . GLY 1 1 . PRO 2 1 . SER 3 1 . LYS 4 1 . MET 5 1 . SER 6 1 . ASP 7 1 . VAL 8 1 . LYS 9 1 . CYS 10 1 . THR 11 1 . SER 12 1 . VAL 13 1 . VAL 14 1 . LEU 15 1 . LEU 16 1 . SER 17 1 . VAL 18 1 . LEU 19 1 . GLN 20 1 . GLN 21 1 . LEU 22 1 . ARG 23 1 . VAL 24 1 . GLU 25 1 . SER 26 1 . SER 27 1 . SER 28 1 . LYS 29 1 . LEU 30 1 . TRP 31 1 . ALA 32 1 . GLN 33 1 . CYS 34 1 . VAL 35 1 . GLN 36 1 . LEU 37 1 . HIS 38 1 . ASN 39 1 . ASP 40 1 . ILE 41 1 . LEU 42 1 . LEU 43 1 . ALA 44 1 . LYS 45 1 . ASP 46 1 . THR 47 1 . THR 48 1 . GLU 49 1 . ALA 50 1 . PHE 51 1 . GLU 52 1 . LYS 53 1 . MET 54 1 . VAL 55 1 . SER 56 1 . LEU 57 1 . LEU 58 1 . SER 59 1 . VAL 60 1 . LEU 61 1 . LEU 62 1 . SER 63 1 . MET 64 1 . GLN 65 1 . GLY 66 1 . ALA 67 1 . VAL 68 1 . ASP 69 1 . ILE 70 1 . ASN 71 1 . LYS 72 1 . LEU 73 1 . CYS 74 1 . GLU 75 1 . GLU 76 1 . MET 77 1 . LEU 78 1 . ASP 79 1 . ASN 80 1 . ARG 81 1 . ALA 82 1 . THR 83 1 . LEU 84 1 . GLN 85 1 . ALA 86 1 . ILE 87 1 . ALA 88 1 . SER 89 1 . GLU 90 1 . PHE 91 1 . SER 92 1 . SER 93 1 . LEU 94 1 . PRO 95 1 . SER 96 1 . TYR 97 1 . ALA 98 1 . ALA 99 1 . PHE 100 1 . ALA 101 1 . THR 102 1 . ALA 103 1 . GLN 104 1 . GLU 105 1 . ALA 106 1 . TYR 107 1 . GLU 108 1 . GLN 109 1 . ALA 110 1 . VAL 111 1 . ALA 112 1 . ASN 113 1 . GLY 114 1 . ASP 115 1 . SER 116 1 . GLU 117 1 . VAL 118 1 . VAL 119 1 . LEU 120 1 . LYS 121 1 . LYS 122 1 . LEU 123 1 . LYS 124 1 . LYS 125 1 . SER 126 1 . LEU 127 1 . ASN 128 1 . VAL 129 1 . ALA 130 1 . LYS 131 1 . SER 132 1 . GLU 133 1 . PHE 134 1 . ASP 135 1 . ARG 136 1 . ASP 137 1 . ALA 138 1 . ALA 139 1 . MET 140 1 . GLN 141 1 . ARG 142 1 . LYS 143 1 . LEU 144 1 . GLU 145 1 . LYS 146 1 . MET 147 1 . ALA 148 1 . ASP 149 1 . GLN 150 1 . ALA 151 1 . MET 152 1 . THR 153 1 . GLN 154 1 . MET 155 1 . TYR 156 1 . LYS 157 1 . GLN 158 1 . ALA 159 1 . ARG 160 1 . SER 161 1 . GLU 162 1 . ASP 163 1 . LYS 164 1 . ARG 165 1 . ALA 166 1 . LYS 167 1 . VAL 168 1 . THR 169 1 . SER 170 1 . ALA 171 1 . MET 172 1 . GLN 173 1 . THR 174 1 . MET 175 1 . LEU 176 1 . PHE 177 1 . THR 178 1 . MET 179 1 . LEU 180 1 . ARG 181 1 . LYS 182 1 . LEU 183 1 . ASP 184 1 . ASN 185 1 . ASP 186 1 . ALA 187 1 . LEU 188 1 . ASN 189 1 . ASN 190 1 . ILE 191 1 . ILE 192 1 . ASN 193 1 . ASN 194 1 . ALA 195 1 . ARG 196 1 . ASP 197 1 . GLY 198 1 . CYS 199 1 . VAL 200 1 . PRO 201 1 . LEU 202 1 . ASN 203 1 . ILE 204 1 . ILE 205 1 . PRO 206 1 . LEU 207 1 . THR 208 1 . THR 209 1 . ALA 210 1 . ALA 211 1 . LYS 212 1 . LEU 213 1 . MET 214 1 . VAL 215 1 . VAL 216 1 . ILE 217 1 . PRO 218 1 . ASP 219 1 . TYR 220 1 . ASN 221 1 . THR 222 1 . TYR 223 1 . LYS 224 1 . ASN 225 1 . THR 226 1 . CYS 227 1 . ASP 228 1 . GLY 229 1 . THR 230 1 . THR 231 1 . PHE 232 1 . THR 233 1 . TYR 234 1 . ALA 235 1 . SER 236 1 . ALA 237 1 . LEU 238 1 . TRP 239 1 . GLU 240 1 . ILE 241 1 . GLN 242 1 . GLN 243 1 . VAL 244 1 . VAL 245 1 . ASP 246 1 . ALA 247 1 . ASP 248 1 . SER 249 1 . LYS 250 1 . ILE 251 1 . VAL 252 1 . GLN 253 1 . LEU 254 1 . SER 255 1 . GLU 256 1 . ILE 257 1 . SER 258 1 . MET 259 1 . ASP 260 1 . ASN 261 1 . SER 262 1 . PRO 263 1 . ASN 264 1 . LEU 265 1 . ALA 266 1 . TRP 267 1 . PRO 268 1 . LEU 269 1 . ILE 270 1 . VAL 271 1 . THR 272 1 . ALA 273 1 . LEU 274 1 . ARG 275 1 . ALA 276 1 . ASN 277 1 . SER 278 1 . ALA 279 1 . VAL 280 1 . LYS 281 1 . LEU 282 1 . GLN 283 # _entity_src_gen.entity_id 1 _entity_src_gen.gene_src_common_name . _entity_src_gen.gene_src_genus . _entity_src_gen.pdbx_alt_source_flag . _entity_src_gen.pdbx_gene_src_scientific_name . _entity_src_gen.pdbx_src_id 1 # loop_ _ihm_cross_link_list.comp_id_1 _ihm_cross_link_list.comp_id_2 _ihm_cross_link_list.dataset_list_id _ihm_cross_link_list.details _ihm_cross_link_list.entity_description_1 _ihm_cross_link_list.entity_description_2 _ihm_cross_link_list.entity_id_1 _ihm_cross_link_list.entity_id_2 _ihm_cross_link_list.group_id _ihm_cross_link_list.id _ihm_cross_link_list.linker_chem_comp_descriptor_id _ihm_cross_link_list.linker_type _ihm_cross_link_list.seq_id_1 _ihm_cross_link_list.seq_id_2 LYS LYS 1 . . . 1 1 1 1 . DSSO 167 281 SER LYS 1 . . . 1 1 2 2 . DSSO 170 182 LYS LYS 1 . . . 1 1 3 3 . DSSO 167 182 LYS LYS 1 . . . 1 1 4 4 . DSSO 167 143 THR THR 1 . . . 1 1 5 5 . DSSO 169 153 LYS LYS 1 . . . 1 1 6 6 . DSSO 167 157 LYS THR 1 . . . 1 1 7 7 . DSSO 167 153 LYS LYS 1 . . . 1 1 8 8 . DSSO 167 164 LYS LYS 1 . . . 1 1 9 9 . DSSO 121 281 LYS LYS 1 . . . 1 1 10 10 . DSSO 212 281 LYS LYS 1 . . . 1 1 11 11 . DSSO 212 182 LYS LYS 1 . . . 1 1 12 12 . DSSO 212 143 LYS LYS 1 . . . 1 1 13 13 . DSSO 212 164 LYS LYS 1 . . . 1 1 14 14 . DSSO 212 29 LYS LYS 1 . . . 1 1 15 15 . DSSO 182 281 LYS SER 1 . . . 1 1 16 16 . DSSO 182 126 LYS LYS 1 . . . 1 1 17 17 . DSSO 182 157 LYS LYS 1 . . . 1 1 18 18 . DSSO 182 164 LYS LYS 1 . . . 1 1 19 19 . DSSO 182 131 LYS SER 1 . . . 1 1 20 20 . DSSO 143 3 LYS LYS 1 . . . 1 1 21 21 . DSSO 146 164 SER LYS 1 . . . 1 1 22 22 . DSSO 126 164 LYS LYS 1 . . . 1 1 23 23 . DSSO 125 164 LYS LYS 1 . . . 1 1 24 24 . DSSO 45 164 LYS LYS 1 . . . 1 1 25 25 . DSSO 157 143 LYS LYS 1 . . . 1 1 26 26 . DSSO 157 164 LYS SER 1 . . . 1 1 27 27 . DSSO 157 161 LYS LYS 1 . . . 1 1 28 28 . DSSO 9 182 LYS LYS 1 . . . 1 1 29 29 . DSSO 9 143 LYS LYS 1 . . . 1 1 30 30 . DSSO 9 164 LYS LYS 1 . . . 1 1 31 31 . DSSO 72 182 LYS LYS 1 . . . 1 1 32 32 . DSSO 72 182 SER LYS 1 . . . 1 1 33 33 . DSSO 59 182 SER LYS 1 . . . 1 1 34 34 . DSSO 56 182 SER LYS 1 . . . 1 1 35 35 . DSSO 63 182 LYS LYS 1 . . . 1 1 36 36 . DSSO 72 164 THR LYS 1 . . . 1 1 37 37 . DSSO 153 182 LYS LYS 1 . . . 1 1 38 38 . DSSO 131 281 LYS LYS 1 . . . 1 1 39 39 . DSSO 131 143 LYS LYS 1 . . . 1 1 40 40 . DSSO 131 124 LYS LYS 1 . . . 1 1 41 41 . DSSO 131 164 LYS LYS 1 . . . 1 1 42 42 . DSSO 29 281 LYS SER 1 . . . 1 1 43 43 . DSSO 29 3 LYS LYS 1 . . . 1 1 44 44 . DSSO 29 157 LYS TYR 1 . . . 1 1 45 45 . DSSO 29 156 LYS LYS 1 . . . 1 1 46 46 . DSSO 29 164 # loop_ _ihm_cross_link_restraint.asym_id_1 _ihm_cross_link_restraint.asym_id_2 _ihm_cross_link_restraint.atom_id_1 _ihm_cross_link_restraint.atom_id_2 _ihm_cross_link_restraint.comp_id_1 _ihm_cross_link_restraint.comp_id_2 _ihm_cross_link_restraint.conditional_crosslink_flag _ihm_cross_link_restraint.distance_threshold _ihm_cross_link_restraint.entity_id_1 _ihm_cross_link_restraint.entity_id_2 _ihm_cross_link_restraint.group_id _ihm_cross_link_restraint.id _ihm_cross_link_restraint.model_granularity _ihm_cross_link_restraint.pseudo_site_flag _ihm_cross_link_restraint.psi _ihm_cross_link_restraint.restraint_type _ihm_cross_link_restraint.seq_id_1 _ihm_cross_link_restraint.seq_id_2 _ihm_cross_link_restraint.sigma_1 _ihm_cross_link_restraint.sigma_2 A A . . LYS LYS ANY 26 1 1 1 1 by-residue . . "upper bound" 167 281 . . A A . . SER LYS ANY 26 1 1 2 2 by-residue . . "upper bound" 170 182 . . A A . . LYS LYS ANY 26 1 1 3 3 by-residue . . "upper bound" 167 182 . . A A . . LYS LYS ANY 26 1 1 4 4 by-residue . . "upper bound" 167 143 . . A A . . THR THR ANY 26 1 1 5 5 by-residue . . "upper bound" 169 153 . . A A . . LYS LYS ANY 26 1 1 6 6 by-residue . . "upper bound" 167 157 . . A A . . LYS THR ANY 26 1 1 7 7 by-residue . . "upper bound" 167 153 . . A A . . LYS LYS ANY 26 1 1 8 8 by-residue . . "upper bound" 167 164 . . A A . . LYS LYS ANY 26 1 1 9 9 by-residue . . "upper bound" 121 281 . . A A . . LYS LYS ANY 26 1 1 10 10 by-residue . . "upper bound" 212 281 . . A A . . LYS LYS ANY 26 1 1 11 11 by-residue . . "upper bound" 212 182 . . A A . . LYS LYS ANY 26 1 1 12 12 by-residue . . "upper bound" 212 143 . . A A . . LYS LYS ANY 26 1 1 13 13 by-residue . . "upper bound" 212 164 . . A A . . LYS LYS ANY 26 1 1 14 14 by-residue . . "upper bound" 212 29 . . A A . . LYS LYS ANY 26 1 1 15 15 by-residue . . "upper bound" 182 281 . . A A . . LYS SER ANY 26 1 1 16 16 by-residue . . "upper bound" 182 126 . . A A . . LYS LYS ANY 26 1 1 17 17 by-residue . . "upper bound" 182 157 . . A A . . LYS LYS ANY 26 1 1 18 18 by-residue . . "upper bound" 182 164 . . A A . . LYS LYS ANY 26 1 1 19 19 by-residue . . "upper bound" 182 131 . . A A . . LYS SER ANY 26 1 1 20 20 by-residue . . "upper bound" 143 3 . . A A . . LYS LYS ANY 26 1 1 21 21 by-residue . . "upper bound" 146 164 . . A A . . SER LYS ANY 26 1 1 22 22 by-residue . . "upper bound" 126 164 . . A A . . LYS LYS ANY 26 1 1 23 23 by-residue . . "upper bound" 125 164 . . A A . . LYS LYS ANY 26 1 1 24 24 by-residue . . "upper bound" 45 164 . . A A . . LYS LYS ANY 26 1 1 25 25 by-residue . . "upper bound" 157 143 . . A A . . LYS LYS ANY 26 1 1 26 26 by-residue . . "upper bound" 157 164 . . A A . . LYS SER ANY 26 1 1 27 27 by-residue . . "upper bound" 157 161 . . A A . . LYS LYS ANY 26 1 1 28 28 by-residue . . "upper bound" 9 182 . . A A . . LYS LYS ANY 26 1 1 29 29 by-residue . . "upper bound" 9 143 . . A A . . LYS LYS ANY 26 1 1 30 30 by-residue . . "upper bound" 9 164 . . A A . . LYS LYS ANY 26 1 1 31 31 by-residue . . "upper bound" 72 182 . . A A . . LYS LYS ANY 26 1 1 32 32 by-residue . . "upper bound" 72 182 . . A A . . SER LYS ANY 26 1 1 33 33 by-residue . . "upper bound" 59 182 . . A A . . SER LYS ANY 26 1 1 34 34 by-residue . . "upper bound" 56 182 . . A A . . SER LYS ANY 26 1 1 35 35 by-residue . . "upper bound" 63 182 . . A A . . LYS LYS ANY 26 1 1 36 36 by-residue . . "upper bound" 72 164 . . A A . . THR LYS ANY 26 1 1 37 37 by-residue . . "upper bound" 153 182 . . A A . . LYS LYS ANY 26 1 1 38 38 by-residue . . "upper bound" 131 281 . . A A . . LYS LYS ANY 26 1 1 39 39 by-residue . . "upper bound" 131 143 . . A A . . LYS LYS ANY 26 1 1 40 40 by-residue . . "upper bound" 131 124 . . A A . . LYS LYS ANY 26 1 1 41 41 by-residue . . "upper bound" 131 164 . . A A . . LYS LYS ANY 26 1 1 42 42 by-residue . . "upper bound" 29 281 . . A A . . LYS SER ANY 26 1 1 43 43 by-residue . . "upper bound" 29 3 . . A A . . LYS LYS ANY 26 1 1 44 44 by-residue . . "upper bound" 29 157 . . A A . . LYS TYR ANY 26 1 1 45 45 by-residue . . "upper bound" 29 156 . . A A . . LYS LYS ANY 26 1 1 46 46 by-residue . . "upper bound" 29 164 . . # loop_ _ihm_dataset_group.application _ihm_dataset_group.details _ihm_dataset_group.id _ihm_dataset_group.name restraint . 1 "Cross-linking MS" validation . 2 HDX-MS restraint . 3 HDX-MS validation . 4 SAXS validation . 5 "Cross-linking MS" # loop_ _ihm_dataset_group_link.dataset_list_id _ihm_dataset_group_link.group_id 1 1 1 5 2 2 2 3 3 4 # loop_ _ihm_dataset_list.data_type _ihm_dataset_list.database_hosted _ihm_dataset_list.details _ihm_dataset_list.id "Crosslinking-MS data" YES . 1 "H/D exchange data" YES . 2 "SAS data" YES . 3 "Experimental model" YES . 4 "De Novo model" NO . 5 # loop_ _ihm_dataset_related_db_reference.accession_code _ihm_dataset_related_db_reference.dataset_list_id _ihm_dataset_related_db_reference.db_name _ihm_dataset_related_db_reference.details _ihm_dataset_related_db_reference.id _ihm_dataset_related_db_reference.version PXD033748 1 PRIDE . 1 . PXD033698 2 PRIDE . 2 . SASDPY2 3 SASBDB . 3 . 6YHU 4 PDB . 4 . # loop_ _ihm_entity_poly_segment.comp_id_begin _ihm_entity_poly_segment.comp_id_end _ihm_entity_poly_segment.entity_id _ihm_entity_poly_segment.id _ihm_entity_poly_segment.seq_id_begin _ihm_entity_poly_segment.seq_id_end GLY GLN 1 1 1 283 SER ALA 1 2 3 82 SER ASN 1 3 161 277 THR ARG 1 4 83 160 GLY PRO 1 5 1 2 SER GLN 1 6 278 283 # _ihm_model_group.details . _ihm_model_group.id 1 _ihm_model_group.name . # loop_ _ihm_model_group_link.group_id _ihm_model_group_link.model_id 1 1 1 2 1 3 1 4 1 5 1 6 1 7 1 8 1 9 1 10 # loop_ _ihm_model_list.assembly_id _ihm_model_list.model_id _ihm_model_list.model_name _ihm_model_list.protocol_id _ihm_model_list.representation_id 1 1 . 1 1 1 2 . 1 1 1 3 . 1 1 1 4 . 1 1 1 5 . 1 1 1 6 . 1 1 1 7 . 1 1 1 8 . 1 1 1 9 . 1 1 1 10 . 1 1 # _ihm_model_representation.details . _ihm_model_representation.id 1 _ihm_model_representation.name . # loop_ _ihm_model_representation_details.description _ihm_model_representation_details.entity_asym_id _ihm_model_representation_details.entity_description _ihm_model_representation_details.entity_id _ihm_model_representation_details.entity_poly_segment_id _ihm_model_representation_details.id _ihm_model_representation_details.model_granularity _ihm_model_representation_details.model_mode _ihm_model_representation_details.model_object_count _ihm_model_representation_details.model_object_primitive _ihm_model_representation_details.representation_id _ihm_model_representation_details.starting_model_id . A . 1 2 1 by-atom flexible . atomistic 1 1 . A . 1 3 2 by-atom flexible . atomistic 1 2 . A . 1 4 3 by-atom flexible . atomistic 1 3 . A . 1 5 4 by-atom flexible . atomistic 1 . . A . 1 6 5 by-atom flexible . atomistic 1 . # _ihm_modeling_protocol.details . _ihm_modeling_protocol.id 1 _ihm_modeling_protocol.num_steps 1 _ihm_modeling_protocol.protocol_name modeling # _ihm_modeling_protocol_details.dataset_group_id 1 _ihm_modeling_protocol_details.description . _ihm_modeling_protocol_details.ensemble_flag YES _ihm_modeling_protocol_details.id 1 _ihm_modeling_protocol_details.multi_scale_flag NO _ihm_modeling_protocol_details.multi_state_flag NO _ihm_modeling_protocol_details.num_models_begin . _ihm_modeling_protocol_details.num_models_end . _ihm_modeling_protocol_details.ordered_flag NO _ihm_modeling_protocol_details.protocol_id 1 _ihm_modeling_protocol_details.script_file_id . _ihm_modeling_protocol_details.software_id 1 _ihm_modeling_protocol_details.step_id 1 _ihm_modeling_protocol_details.step_method . _ihm_modeling_protocol_details.step_name "Integrative modeling" _ihm_modeling_protocol_details.struct_assembly_description . _ihm_modeling_protocol_details.struct_assembly_id 1 # loop_ _ihm_sas_restraint.chi_value _ihm_sas_restraint.dataset_list_id _ihm_sas_restraint.details _ihm_sas_restraint.fitting_atom_type _ihm_sas_restraint.fitting_method _ihm_sas_restraint.fitting_state _ihm_sas_restraint.id _ihm_sas_restraint.model_id _ihm_sas_restraint.profile_segment_flag _ihm_sas_restraint.radius_of_gyration _ihm_sas_restraint.struct_assembly_id 2.16 3 . Model CRYSOL Single 1 1 YES 22.36 1 3.17 3 . Model CRYSOL Single 2 2 YES 21.5 1 2.67 3 . Model CRYSOL Single 3 3 YES 21.81 1 2.25 3 . Model CRYSOL Single 4 4 YES 22.11 1 2.94 3 . Model CRYSOL Single 5 5 YES 21.58 1 2.51 3 . Model CRYSOL Single 6 6 YES 22.11 1 2.17 3 . Model CRYSOL Single 7 7 YES 22.13 1 3.04 3 . Model CRYSOL Single 8 8 YES 21.26 1 1.91 3 . Model CRYSOL Single 9 9 YES 22.58 1 3.02 3 . Model CRYSOL Single 10 10 YES 21.57 1 # loop_ _ihm_starting_model_details.asym_id _ihm_starting_model_details.dataset_list_id _ihm_starting_model_details.description _ihm_starting_model_details.entity_description _ihm_starting_model_details.entity_id _ihm_starting_model_details.entity_poly_segment_id _ihm_starting_model_details.starting_model_auth_asym_id _ihm_starting_model_details.starting_model_id _ihm_starting_model_details.starting_model_sequence_offset _ihm_starting_model_details.starting_model_source A 4 . . 1 2 A 1 2 "experimental model" A 4 . . 1 3 B 2 89 "experimental model" A 5 . . 1 4 A 3 0 "ab initio model" # _ihm_struct_assembly.description "Integrative structures of SARS-CoV-2 nsp7-8 polyprotein determined using I-TASSER based on restraints derived from chemical cross linking (CX-MS) and validated with HDX-MS, CX-MS and small angle scattering data." _ihm_struct_assembly.id 1 _ihm_struct_assembly.name "SARS-CoV-2 nsp7-8 polyprotein" # _ihm_struct_assembly_details.assembly_id 1 _ihm_struct_assembly_details.asym_id A _ihm_struct_assembly_details.entity_description . _ihm_struct_assembly_details.entity_id 1 _ihm_struct_assembly_details.entity_poly_segment_id 1 _ihm_struct_assembly_details.id 1 _ihm_struct_assembly_details.parent_assembly_id 1 # _software.citation_id . _software.classification "Integrative modeling" _software.description . _software.location https://zhanggroup.org/I-TASSER/ _software.name I-TASSER _software.pdbx_ordinal 1 _software.type program _software.version . # _struct.entry_id 9A1T _struct.pdbx_CASP_flag . _struct.pdbx_descriptor . _struct.pdbx_details . _struct.pdbx_model_details . _struct.pdbx_model_type_details . _struct.title "SARS-CoV-2 nsp7-8 polyprotein" _struct.pdbx_structure_determination_methodology integrative # _struct_asym.details . _struct_asym.entity_id 1 _struct_asym.id A _struct_asym.pdbx_PDB_id . _struct_asym.pdbx_alt_id . _struct_asym.pdbx_blank_PDB_chainid_flag . _struct_asym.pdbx_modified . _struct_asym.pdbx_order . _struct_asym.pdbx_type . # _struct_ref.db_code R1A_SARS2 _struct_ref.db_name UNP _struct_ref.details . _struct_ref.entity_id 1 _struct_ref.id 1 _struct_ref.pdbx_align_begin 3860 _struct_ref.pdbx_db_accession P0DTC1 _struct_ref.pdbx_seq_one_letter_code . # _struct_ref_seq.align_id 1 _struct_ref_seq.db_align_beg 3860 _struct_ref_seq.db_align_end 4140 _struct_ref_seq.ref_id 1 _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.seq_align_end 283 # loop_ _struct_ref_seq_dif.pdbx_ordinal _struct_ref_seq_dif.align_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.details 1 1 1 ? GLY 'expression tag' 2 1 2 ? PRO 'expression tag' # 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.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 A 1 1 GLY 1 1 GLY GLY A . A 1 2 PRO 2 2 PRO PRO A . A 1 3 SER 3 3 SER SER A . A 1 4 LYS 4 4 LYS LYS A . A 1 5 MET 5 5 MET MET A . A 1 6 SER 6 6 SER SER A . A 1 7 ASP 7 7 ASP ASP A . A 1 8 VAL 8 8 VAL VAL A . A 1 9 LYS 9 9 LYS LYS A . A 1 10 CYS 10 10 CYS CYS A . A 1 11 THR 11 11 THR THR A . A 1 12 SER 12 12 SER SER A . A 1 13 VAL 13 13 VAL VAL A . A 1 14 VAL 14 14 VAL VAL A . A 1 15 LEU 15 15 LEU LEU A . A 1 16 LEU 16 16 LEU LEU A . A 1 17 SER 17 17 SER SER A . A 1 18 VAL 18 18 VAL VAL A . A 1 19 LEU 19 19 LEU LEU A . A 1 20 GLN 20 20 GLN GLN A . A 1 21 GLN 21 21 GLN GLN A . A 1 22 LEU 22 22 LEU LEU A . A 1 23 ARG 23 23 ARG ARG A . A 1 24 VAL 24 24 VAL VAL A . A 1 25 GLU 25 25 GLU GLU A . A 1 26 SER 26 26 SER SER A . A 1 27 SER 27 27 SER SER A . A 1 28 SER 28 28 SER SER A . A 1 29 LYS 29 29 LYS LYS A . A 1 30 LEU 30 30 LEU LEU A . A 1 31 TRP 31 31 TRP TRP A . A 1 32 ALA 32 32 ALA ALA A . A 1 33 GLN 33 33 GLN GLN A . A 1 34 CYS 34 34 CYS CYS A . A 1 35 VAL 35 35 VAL VAL A . A 1 36 GLN 36 36 GLN GLN A . A 1 37 LEU 37 37 LEU LEU A . A 1 38 HIS 38 38 HIS HIS A . A 1 39 ASN 39 39 ASN ASN A . A 1 40 ASP 40 40 ASP ASP A . A 1 41 ILE 41 41 ILE ILE A . A 1 42 LEU 42 42 LEU LEU A . A 1 43 LEU 43 43 LEU LEU A . A 1 44 ALA 44 44 ALA ALA A . A 1 45 LYS 45 45 LYS LYS A . A 1 46 ASP 46 46 ASP ASP A . A 1 47 THR 47 47 THR THR A . A 1 48 THR 48 48 THR THR A . A 1 49 GLU 49 49 GLU GLU A . A 1 50 ALA 50 50 ALA ALA A . A 1 51 PHE 51 51 PHE PHE A . A 1 52 GLU 52 52 GLU GLU A . A 1 53 LYS 53 53 LYS LYS A . A 1 54 MET 54 54 MET MET A . A 1 55 VAL 55 55 VAL VAL A . A 1 56 SER 56 56 SER SER A . A 1 57 LEU 57 57 LEU LEU A . A 1 58 LEU 58 58 LEU LEU A . A 1 59 SER 59 59 SER SER A . A 1 60 VAL 60 60 VAL VAL A . A 1 61 LEU 61 61 LEU LEU A . A 1 62 LEU 62 62 LEU LEU A . A 1 63 SER 63 63 SER SER A . A 1 64 MET 64 64 MET MET A . A 1 65 GLN 65 65 GLN GLN A . A 1 66 GLY 66 66 GLY GLY A . A 1 67 ALA 67 67 ALA ALA A . A 1 68 VAL 68 68 VAL VAL A . A 1 69 ASP 69 69 ASP ASP A . A 1 70 ILE 70 70 ILE ILE A . A 1 71 ASN 71 71 ASN ASN A . A 1 72 LYS 72 72 LYS LYS A . A 1 73 LEU 73 73 LEU LEU A . A 1 74 CYS 74 74 CYS CYS A . A 1 75 GLU 75 75 GLU GLU A . A 1 76 GLU 76 76 GLU GLU A . A 1 77 MET 77 77 MET MET A . A 1 78 LEU 78 78 LEU LEU A . A 1 79 ASP 79 79 ASP ASP A . A 1 80 ASN 80 80 ASN ASN A . A 1 81 ARG 81 81 ARG ARG A . A 1 82 ALA 82 82 ALA ALA A . A 1 83 THR 83 83 THR THR A . A 1 84 LEU 84 84 LEU LEU A . A 1 85 GLN 85 85 GLN GLN A . A 1 86 ALA 86 86 ALA ALA A . A 1 87 ILE 87 87 ILE ILE A . A 1 88 ALA 88 88 ALA ALA A . A 1 89 SER 89 89 SER SER A . A 1 90 GLU 90 90 GLU GLU A . A 1 91 PHE 91 91 PHE PHE A . A 1 92 SER 92 92 SER SER A . A 1 93 SER 93 93 SER SER A . A 1 94 LEU 94 94 LEU LEU A . A 1 95 PRO 95 95 PRO PRO A . A 1 96 SER 96 96 SER SER A . A 1 97 TYR 97 97 TYR TYR A . A 1 98 ALA 98 98 ALA ALA A . A 1 99 ALA 99 99 ALA ALA A . A 1 100 PHE 100 100 PHE PHE A . A 1 101 ALA 101 101 ALA ALA A . A 1 102 THR 102 102 THR THR A . A 1 103 ALA 103 103 ALA ALA A . A 1 104 GLN 104 104 GLN GLN A . A 1 105 GLU 105 105 GLU GLU A . A 1 106 ALA 106 106 ALA ALA A . A 1 107 TYR 107 107 TYR TYR A . A 1 108 GLU 108 108 GLU GLU A . A 1 109 GLN 109 109 GLN GLN A . A 1 110 ALA 110 110 ALA ALA A . A 1 111 VAL 111 111 VAL VAL A . A 1 112 ALA 112 112 ALA ALA A . A 1 113 ASN 113 113 ASN ASN A . A 1 114 GLY 114 114 GLY GLY A . A 1 115 ASP 115 115 ASP ASP A . A 1 116 SER 116 116 SER SER A . A 1 117 GLU 117 117 GLU GLU A . A 1 118 VAL 118 118 VAL VAL A . A 1 119 VAL 119 119 VAL VAL A . A 1 120 LEU 120 120 LEU LEU A . A 1 121 LYS 121 121 LYS LYS A . A 1 122 LYS 122 122 LYS LYS A . A 1 123 LEU 123 123 LEU LEU A . A 1 124 LYS 124 124 LYS LYS A . A 1 125 LYS 125 125 LYS LYS A . A 1 126 SER 126 126 SER SER A . A 1 127 LEU 127 127 LEU LEU A . A 1 128 ASN 128 128 ASN ASN A . A 1 129 VAL 129 129 VAL VAL A . A 1 130 ALA 130 130 ALA ALA A . A 1 131 LYS 131 131 LYS LYS A . A 1 132 SER 132 132 SER SER A . A 1 133 GLU 133 133 GLU GLU A . A 1 134 PHE 134 134 PHE PHE A . A 1 135 ASP 135 135 ASP ASP A . A 1 136 ARG 136 136 ARG ARG A . A 1 137 ASP 137 137 ASP ASP A . A 1 138 ALA 138 138 ALA ALA A . A 1 139 ALA 139 139 ALA ALA A . A 1 140 MET 140 140 MET MET A . A 1 141 GLN 141 141 GLN GLN A . A 1 142 ARG 142 142 ARG ARG A . A 1 143 LYS 143 143 LYS LYS A . A 1 144 LEU 144 144 LEU LEU A . A 1 145 GLU 145 145 GLU GLU A . A 1 146 LYS 146 146 LYS LYS A . A 1 147 MET 147 147 MET MET A . A 1 148 ALA 148 148 ALA ALA A . A 1 149 ASP 149 149 ASP ASP A . A 1 150 GLN 150 150 GLN GLN A . A 1 151 ALA 151 151 ALA ALA A . A 1 152 MET 152 152 MET MET A . A 1 153 THR 153 153 THR THR A . A 1 154 GLN 154 154 GLN GLN A . A 1 155 MET 155 155 MET MET A . A 1 156 TYR 156 156 TYR TYR A . A 1 157 LYS 157 157 LYS LYS A . A 1 158 GLN 158 158 GLN GLN A . A 1 159 ALA 159 159 ALA ALA A . A 1 160 ARG 160 160 ARG ARG A . A 1 161 SER 161 161 SER SER A . A 1 162 GLU 162 162 GLU GLU A . A 1 163 ASP 163 163 ASP ASP A . A 1 164 LYS 164 164 LYS LYS A . A 1 165 ARG 165 165 ARG ARG A . A 1 166 ALA 166 166 ALA ALA A . A 1 167 LYS 167 167 LYS LYS A . A 1 168 VAL 168 168 VAL VAL A . A 1 169 THR 169 169 THR THR A . A 1 170 SER 170 170 SER SER A . A 1 171 ALA 171 171 ALA ALA A . A 1 172 MET 172 172 MET MET A . A 1 173 GLN 173 173 GLN GLN A . A 1 174 THR 174 174 THR THR A . A 1 175 MET 175 175 MET MET A . A 1 176 LEU 176 176 LEU LEU A . A 1 177 PHE 177 177 PHE PHE A . A 1 178 THR 178 178 THR THR A . A 1 179 MET 179 179 MET MET A . A 1 180 LEU 180 180 LEU LEU A . A 1 181 ARG 181 181 ARG ARG A . A 1 182 LYS 182 182 LYS LYS A . A 1 183 LEU 183 183 LEU LEU A . A 1 184 ASP 184 184 ASP ASP A . A 1 185 ASN 185 185 ASN ASN A . A 1 186 ASP 186 186 ASP ASP A . A 1 187 ALA 187 187 ALA ALA A . A 1 188 LEU 188 188 LEU LEU A . A 1 189 ASN 189 189 ASN ASN A . A 1 190 ASN 190 190 ASN ASN A . A 1 191 ILE 191 191 ILE ILE A . A 1 192 ILE 192 192 ILE ILE A . A 1 193 ASN 193 193 ASN ASN A . A 1 194 ASN 194 194 ASN ASN A . A 1 195 ALA 195 195 ALA ALA A . A 1 196 ARG 196 196 ARG ARG A . A 1 197 ASP 197 197 ASP ASP A . A 1 198 GLY 198 198 GLY GLY A . A 1 199 CYS 199 199 CYS CYS A . A 1 200 VAL 200 200 VAL VAL A . A 1 201 PRO 201 201 PRO PRO A . A 1 202 LEU 202 202 LEU LEU A . A 1 203 ASN 203 203 ASN ASN A . A 1 204 ILE 204 204 ILE ILE A . A 1 205 ILE 205 205 ILE ILE A . A 1 206 PRO 206 206 PRO PRO A . A 1 207 LEU 207 207 LEU LEU A . A 1 208 THR 208 208 THR THR A . A 1 209 THR 209 209 THR THR A . A 1 210 ALA 210 210 ALA ALA A . A 1 211 ALA 211 211 ALA ALA A . A 1 212 LYS 212 212 LYS LYS A . A 1 213 LEU 213 213 LEU LEU A . A 1 214 MET 214 214 MET MET A . A 1 215 VAL 215 215 VAL VAL A . A 1 216 VAL 216 216 VAL VAL A . A 1 217 ILE 217 217 ILE ILE A . A 1 218 PRO 218 218 PRO PRO A . A 1 219 ASP 219 219 ASP ASP A . A 1 220 TYR 220 220 TYR TYR A . A 1 221 ASN 221 221 ASN ASN A . A 1 222 THR 222 222 THR THR A . A 1 223 TYR 223 223 TYR TYR A . A 1 224 LYS 224 224 LYS LYS A . A 1 225 ASN 225 225 ASN ASN A . A 1 226 THR 226 226 THR THR A . A 1 227 CYS 227 227 CYS CYS A . A 1 228 ASP 228 228 ASP ASP A . A 1 229 GLY 229 229 GLY GLY A . A 1 230 THR 230 230 THR THR A . A 1 231 THR 231 231 THR THR A . A 1 232 PHE 232 232 PHE PHE A . A 1 233 THR 233 233 THR THR A . A 1 234 TYR 234 234 TYR TYR A . A 1 235 ALA 235 235 ALA ALA A . A 1 236 SER 236 236 SER SER A . A 1 237 ALA 237 237 ALA ALA A . A 1 238 LEU 238 238 LEU LEU A . A 1 239 TRP 239 239 TRP TRP A . A 1 240 GLU 240 240 GLU GLU A . A 1 241 ILE 241 241 ILE ILE A . A 1 242 GLN 242 242 GLN GLN A . A 1 243 GLN 243 243 GLN GLN A . A 1 244 VAL 244 244 VAL VAL A . A 1 245 VAL 245 245 VAL VAL A . A 1 246 ASP 246 246 ASP ASP A . A 1 247 ALA 247 247 ALA ALA A . A 1 248 ASP 248 248 ASP ASP A . A 1 249 SER 249 249 SER SER A . A 1 250 LYS 250 250 LYS LYS A . A 1 251 ILE 251 251 ILE ILE A . A 1 252 VAL 252 252 VAL VAL A . A 1 253 GLN 253 253 GLN GLN A . A 1 254 LEU 254 254 LEU LEU A . A 1 255 SER 255 255 SER SER A . A 1 256 GLU 256 256 GLU GLU A . A 1 257 ILE 257 257 ILE ILE A . A 1 258 SER 258 258 SER SER A . A 1 259 MET 259 259 MET MET A . A 1 260 ASP 260 260 ASP ASP A . A 1 261 ASN 261 261 ASN ASN A . A 1 262 SER 262 262 SER SER A . A 1 263 PRO 263 263 PRO PRO A . A 1 264 ASN 264 264 ASN ASN A . A 1 265 LEU 265 265 LEU LEU A . A 1 266 ALA 266 266 ALA ALA A . A 1 267 TRP 267 267 TRP TRP A . A 1 268 PRO 268 268 PRO PRO A . A 1 269 LEU 269 269 LEU LEU A . A 1 270 ILE 270 270 ILE ILE A . A 1 271 VAL 271 271 VAL VAL A . A 1 272 THR 272 272 THR THR A . A 1 273 ALA 273 273 ALA ALA A . A 1 274 LEU 274 274 LEU LEU A . A 1 275 ARG 275 275 ARG ARG A . A 1 276 ALA 276 276 ALA ALA A . A 1 277 ASN 277 277 ASN ASN A . A 1 278 SER 278 278 SER SER A . A 1 279 ALA 279 279 ALA ALA A . A 1 280 VAL 280 280 VAL VAL A . A 1 281 LYS 281 281 LYS LYS A . A 1 282 LEU 282 282 LEU LEU A . A 1 283 GLN 283 283 GLN GLN A . # # loop_ # #