0.017424 0.010060 0.000000 0.000000 0.020119 0.000000 0.000000 0.000000 0.017883 0.00000 0.00000 0.00000 0000-0001-8730-4768 Nelson, C.A. 0000-0001-5460-3462 Minasov, G. 0000-0003-1702-6998 Shuvalova, L. 0000-0002-8544-2689 Fremont, D.H. Center for Structural Genomics of Infectious Diseases (CSGID) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.000 90.000 120.000 57.393 57.393 55.918 159514.481 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N N N 75 R C N 76 N C N 77 N O N 78 N C N 79 N S N 80 N O N 81 N H N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N N N 89 S C N 90 N C N 91 N O N 92 N C N 93 N C N 94 N C N 95 N O N 96 N N N 97 N O N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N N N 109 S C N 110 N C N 111 N O N 112 N C N 113 N C N 114 N C N 115 N O N 116 N O N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N H N 126 N H N 127 N N N 128 N C N 129 N C N 130 N O N 131 N O N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N N N 138 S C N 139 N C N 140 N O N 141 N C Y 142 N C Y 143 N N Y 144 N C Y 145 N C Y 146 N N N 147 N O N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N O N 159 N H N 160 N H N 161 N N N 162 S C N 163 N C N 164 N O N 165 N C N 166 N C N 167 N C N 168 N C N 169 N O N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N N N 184 S C N 185 N C N 186 N O N 187 N C N 188 N C N 189 N C N 190 N C N 191 N N N 192 N O N 193 N H N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N N N 209 S C N 210 N C N 211 N O N 212 N C Y 213 N C Y 214 N C Y 215 N C Y 216 N C Y 217 N C Y 218 N C N 219 N O N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N N N 232 S C N 233 N C N 234 N O N 235 N C N 236 N C N 237 N C N 238 N O N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N N N 249 S C N 250 N C N 251 N O N 252 N C N 253 N O N 254 N O N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N H N 261 N H N 262 N N N 263 S C N 264 N C N 265 N O N 266 R C N 267 N O N 268 N C N 269 N O N 270 N H N 271 N H N 272 N H N 273 N H N 274 N H N 275 N H N 276 N H N 277 N H N 278 N H N 279 N N N 280 S C N 281 N C N 282 N O N 283 N C Y 284 N C Y 285 N C Y 286 N C Y 287 N C Y 288 N C Y 289 N C N 290 N O N 291 N O N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N H N 299 N H N 300 N H N 301 N H N 302 N H N 303 N N N 304 S C N 305 N C N 306 N O N 307 N C N 308 N C N 309 N C N 310 N O N 311 N H N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N doub N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N doub N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N doub N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N doub N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing Y 140 N sing Y 141 N doub Y 142 N doub N 143 N sing Y 144 N sing N 145 N sing Y 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N doub N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N doub N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N doub N 204 N sing N 205 N sing N 206 N sing N 207 N sing Y 208 N doub Y 209 N sing Y 210 N sing N 211 N sing Y 212 N doub N 213 N sing Y 214 N doub N 215 N sing Y 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N sing N 225 N sing N 226 N doub N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N doub N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N doub N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N doub N 273 N sing N 274 N sing N 275 N sing N 276 N sing Y 277 N doub Y 278 N sing Y 279 N sing N 280 N sing Y 281 N doub N 282 N sing Y 283 N doub N 284 N sing Y 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N doub N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing To be published 0353 STRUCTURE OF THE SARS-CoV-2 ORF7A ENCODED ACCESSORY PROTEIN 0000-0001-8730-4768 0000-0001-5460-3462 0000-0003-1702-6998 0000-0002-8544-2689 10.2210/pdb6w37/pdb pdb_00006w37 100 1 N CCD 2020-02-17 RAYONIX MX-300 SINGLE WAVELENGTH M x-ray 1 0.97857 1.0 21-ID-G APS 0.97857 SYNCHROTRON APS BEAMLINE 21-ID-G Ectodomain, the first and last residue were disordered 7539.497 ORF7a protein H-2Kb residues 1-277 1 man polymer 18.015 water 3 nat water SARS-Cov-2 Accessory protein 7a,Protein U122,Protein X4,ORF7a,Accessory protein 7a,Protein 7a no no ELYHYQECVRGTTVLLKEPCSSGTYEGNSPFHPLADNKFALTCFSTQFAFACPDGVKHVYQLRARSV ELYHYQECVRGTTVLLKEPCSSGTYEGNSPFHPLADNKFALTCFSTQFAFACPDGVKHVYQLRARSV A IDP51001 polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n 2019-nCoV refolded sample 1 67 7a 2697049 Severe acute respiratory syndrome coronavirus 2 469008 Escherichia coli BL21(DE3) RIL plasmid Biological sequence pET21 1 3.53 65.12 Long thin needles. VAPOR DIFFUSION, HANGING DROP 5.2 20% PEG 4000, 0.2 M CaCl2, 0.1M Tris-HCl pH8.5 293 Center for Structural Genomics of Infectious Diseases CSGID NIAID, National Institute of Allergy and Infectious Diseases entity entity_name_com entity_src_gen struct_ref struct_ref_seq audit_author citation_author entity entity_name_com database_2 struct_keywords chem_comp_atom chem_comp_bond pdbx_initial_refinement_model pdbx_entry_details pdbx_modification_feature repository Initial release Database references Source and taxonomy Structure summary Database references Structure summary Structure summary Database references Structure summary Data collection Refinement description Structure summary 1 0 2020-04-29 1 1 2020-05-06 1 2 2020-05-20 1 3 2021-01-27 1 4 2022-01-12 1 5 2023-10-18 1 6 2024-10-23 _entity.pdbx_description _entity_src_gen.gene_src_common_name _entity_src_gen.pdbx_gene_src_gene _struct_ref.db_code _struct_ref.db_name _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_accession _struct_ref.pdbx_seq_one_letter_code _struct_ref_seq.db_align_beg _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_accession _entity.pdbx_description _entity_name_com.name _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_keywords.pdbx_keywords United States National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) HHSN272201700060C SARS-CoV ORF7a CSGID database SARS-CoV ORF7a Y RCSB Y RCSB 2020-03-09 REL REL HOH water Y 1XAK PDB experimental model A CYS 8 Disulfide bridge SG A CYS 8 A CYS 43 SG A CYS 43 1_555 1_555 None A CYS 20 Disulfide bridge SG A CYS 20 A CYS 52 SG A CYS 52 1_555 1_555 None HOH 1 2 HOH HOH 101 A HOH 3 2 HOH HOH 102 A HOH 2 2 HOH HOH 103 A 4.490 4.490 37.150 37.150 GLU 1 n 1 GLU 1 A LEU 2 n 2 LEU 2 A TYR 3 n 3 TYR 3 A HIS 4 n 4 HIS 4 A TYR 5 n 5 TYR 5 A GLN 6 n 6 GLN 6 A GLU 7 n 7 GLU 7 A CYS 8 n 8 CYS 8 A VAL 9 n 9 VAL 9 A ARG 10 n 10 ARG 10 A GLY 11 n 11 GLY 11 A THR 12 n 12 THR 12 A THR 13 n 13 THR 13 A VAL 14 n 14 VAL 14 A LEU 15 n 15 LEU 15 A LEU 16 n 16 LEU 16 A LYS 17 n 17 LYS 17 A GLU 18 n 18 GLU 18 A PRO 19 n 19 PRO 19 A CYS 20 n 20 CYS 20 A SER 21 n 21 SER 21 A SER 22 n 22 SER 22 A GLY 23 n 23 GLY 23 A THR 24 n 24 THR 24 A TYR 25 n 25 TYR 25 A GLU 26 n 26 GLU 26 A GLY 27 n 27 GLY 27 A ASN 28 n 28 ASN 28 A SER 29 n 29 SER 29 A PRO 30 n 30 PRO 30 A PHE 31 n 31 PHE 31 A HIS 32 n 32 HIS 32 A PRO 33 n 33 PRO 33 A LEU 34 n 34 LEU 34 A ALA 35 n 35 ALA 35 A ASP 36 n 36 ASP 36 A ASN 37 n 37 ASN 37 A LYS 38 n 38 LYS 38 A PHE 39 n 39 PHE 39 A ALA 40 n 40 ALA 40 A LEU 41 n 41 LEU 41 A THR 42 n 42 THR 42 A CYS 43 n 43 CYS 43 A PHE 44 n 44 PHE 44 A SER 45 n 45 SER 45 A THR 46 n 46 THR 46 A GLN 47 n 47 GLN 47 A PHE 48 n 48 PHE 48 A ALA 49 n 49 ALA 49 A PHE 50 n 50 PHE 50 A ALA 51 n 51 ALA 51 A CYS 52 n 52 CYS 52 A PRO 53 n 53 PRO 53 A ASP 54 n 54 ASP 54 A GLY 55 n 55 GLY 55 A VAL 56 n 56 VAL 56 A LYS 57 n 57 LYS 57 A HIS 58 n 58 HIS 58 A VAL 59 n 59 VAL 59 A TYR 60 n 60 TYR 60 A GLN 61 n 61 GLN 61 A LEU 62 n 62 LEU 62 A ARG 63 n 63 ARG 63 A ALA 64 n 64 ALA 64 A ARG 65 n 65 ARG 65 A SER 66 n 66 SER 66 A n 67 67 A 1 0.480 author_and_software_defined_assembly PISA 1 monomeric none 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N CYS 8 A N CYS 8 A O ARG 63 A O ARG 63 A O TYR 60 A O TYR 60 A N PHE 48 A N PHE 48 A O ALA 51 A O ALA 51 A N THR 24 A N THR 24 A N LEU 16 A N LEU 16 A O PHE 39 A O PHE 39 A O LYS 38 A O LYS 38 A N LEU 34 A N LEU 34 1 A VAL 67 A VAL 67 1 Y 1 A GLN 6 -170.22 143.25 1 A SER 22 -103.16 -86.92 1 A PHE 44 -174.06 135.11 37.64 0.2680 0.2359 0.2551 2.90 37.15 262 2541 10.31 99.92 1 THROUGHOUT MOLECULAR REPLACEMENT 1XAK 2.90 37.15 3 525 0 0 522 0.0013 537 0.4127 728 0.0392 77 0.0018 95 7.6375 191 37.15 2541 99.92 2.900 37.150 6W37 2553 0.992 0.249 0.083 0.263 1 9.800 9.900 99.900 1.042 2.900 3.080 4257 399 0.615 0.335 1.096 1 2.600 10.700 100.000 0.088 8.700 37.140 846 116 0.992 0.034 0.095 1 19.900 7.300 98.600 refinement PHENIX 1.17.1_3660 data reduction XDS data scaling Aimless 0.7.4 phasing PHASER 2.8.3 data extraction PDB_EXTRACT 3.25 N STRUCTURE OF THE SARS-CoV-2 ORF7A ENCODED ACCESSORY PROTEIN 1 N N 2 N N disulf 2.030 A CYS 8 A SG CYS 8 1_555 A CYS 43 A SG CYS 43 1_555 disulf 2.030 A CYS 20 A SG CYS 20 1_555 A CYS 52 A SG CYS 52 1_555 VIRAL PROTEIN Viral protein, structural genomics, Center for Structural Genomics of Infectious Diseases, CSGID, VIRUS NS7A_SARS2 UNP 1 16 P0DTC7 ELYHYQECVRGTTVLLKEPCSSGTYEGNSPFHPLADNKFALTCFSTQFAFACPDGVKHVYQLRARSV 16 82 6W37 1 67 P0DTC7 A 1 1 67 4 3 parallel anti-parallel anti-parallel anti-parallel anti-parallel A GLN 6 A GLN 6 A VAL 9 A VAL 9 A LYS 57 A LYS 57 A ARG 65 A ARG 65 A THR 46 A THR 46 A ALA 51 A ALA 51 A THR 24 A THR 24 A GLU 26 A GLU 26 A THR 13 A THR 13 A LYS 17 A LYS 17 A LYS 38 A LYS 38 A THR 42 A THR 42 A HIS 32 A HIS 32 A LEU 34 A LEU 34 152 P 31 2 1 P 31 2"