data_1YAQ
#
_model_server_result.job_id            y-GUYvxFU4sKDVYqKoWTRw 
_model_server_result.datetime_utc      '2024-11-09 02:28:11' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          1yaq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":501}' 
#
_entry.id    1YAQ 
#
_exptl.entry_id    1YAQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              22.99 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'SODIUM ION' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            1YAQ 
_cell.length_a            56.776 
_cell.length_b            61.018 
_cell.length_c            33.774 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1YAQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_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    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
disulf ? disulf1 A SG CYS 6 A CYS 6 1_555 A SG CYS 128 A CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf2 A SG CYS 30 A CYS 30 1_555 A SG CYS 116 A CYS 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
disulf ? disulf3 A SG CYS 65 A CYS 65 1_555 A SG CYS 81 A CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf4 A SG CYS 77 A CYS 77 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
metalc ? metalc1 A O SER 61 A SER 61 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? 
metalc ? metalc2 A O CYS 65 A CYS 65 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? 
metalc ? metalc3 A O VAL 74 A VAL 74 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? 
metalc ? metalc4 C O HOH . A HOH 143 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? 
metalc ? metalc5 C O HOH . A HOH 234 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? 
#
_chem_comp.formula           'Na 1' 
_chem_comp.formula_weight    22.99 
_chem_comp.id                NA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'SODIUM ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     1YAQ 
_atom_sites.fract_transf_matrix[1][1]    0.017613 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016389 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.029609 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
B 2 NA A 1 501 501 NA NA . 
C 3 HOH A 1 131 131 HOH HOH . 
C 3 HOH A 2 132 132 HOH HOH . 
C 3 HOH A 3 133 133 HOH HOH . 
C 3 HOH A 4 134 134 HOH HOH . 
C 3 HOH A 5 135 135 HOH HOH . 
C 3 HOH A 6 136 136 HOH HOH . 
C 3 HOH A 7 137 137 HOH HOH . 
C 3 HOH A 8 138 138 HOH HOH . 
C 3 HOH A 9 139 139 HOH HOH . 
C 3 HOH A 10 140 140 HOH HOH . 
C 3 HOH A 11 141 141 HOH HOH . 
C 3 HOH A 12 142 142 HOH HOH . 
C 3 HOH A 13 143 143 HOH HOH . 
C 3 HOH A 14 144 144 HOH HOH . 
C 3 HOH A 15 145 145 HOH HOH . 
C 3 HOH A 16 146 146 HOH HOH . 
C 3 HOH A 17 147 147 HOH HOH . 
C 3 HOH A 18 148 148 HOH HOH . 
C 3 HOH A 19 149 149 HOH HOH . 
C 3 HOH A 20 150 150 HOH HOH . 
C 3 HOH A 21 151 151 HOH HOH . 
C 3 HOH A 22 152 152 HOH HOH . 
C 3 HOH A 23 153 153 HOH HOH . 
C 3 HOH A 24 154 154 HOH HOH . 
C 3 HOH A 25 155 155 HOH HOH . 
C 3 HOH A 26 156 156 HOH HOH . 
C 3 HOH A 27 157 157 HOH HOH . 
C 3 HOH A 28 158 158 HOH HOH . 
C 3 HOH A 29 159 159 HOH HOH . 
C 3 HOH A 30 160 160 HOH HOH . 
C 3 HOH A 31 161 161 HOH HOH . 
C 3 HOH A 32 162 162 HOH HOH . 
C 3 HOH A 33 163 163 HOH HOH . 
C 3 HOH A 34 164 164 HOH HOH . 
C 3 HOH A 35 165 165 HOH HOH . 
C 3 HOH A 36 166 166 HOH HOH . 
C 3 HOH A 37 167 167 HOH HOH . 
C 3 HOH A 38 168 168 HOH HOH . 
C 3 HOH A 39 169 169 HOH HOH . 
C 3 HOH A 40 170 170 HOH HOH . 
C 3 HOH A 41 171 171 HOH HOH . 
C 3 HOH A 42 174 174 HOH HOH . 
C 3 HOH A 43 175 175 HOH HOH . 
C 3 HOH A 44 177 177 HOH HOH . 
C 3 HOH A 45 178 178 HOH HOH . 
C 3 HOH A 46 179 179 HOH HOH . 
C 3 HOH A 47 180 180 HOH HOH . 
C 3 HOH A 48 181 181 HOH HOH . 
C 3 HOH A 49 182 182 HOH HOH . 
C 3 HOH A 50 183 183 HOH HOH . 
C 3 HOH A 51 184 184 HOH HOH . 
C 3 HOH A 52 185 185 HOH HOH . 
C 3 HOH A 53 186 186 HOH HOH . 
C 3 HOH A 54 188 188 HOH HOH . 
C 3 HOH A 55 189 189 HOH HOH . 
C 3 HOH A 56 190 190 HOH HOH . 
C 3 HOH A 57 191 191 HOH HOH . 
C 3 HOH A 58 192 192 HOH HOH . 
C 3 HOH A 59 193 193 HOH HOH . 
C 3 HOH A 60 194 194 HOH HOH . 
C 3 HOH A 61 195 195 HOH HOH . 
C 3 HOH A 62 196 196 HOH HOH . 
C 3 HOH A 63 199 199 HOH HOH . 
C 3 HOH A 64 200 200 HOH HOH . 
C 3 HOH A 65 201 201 HOH HOH . 
C 3 HOH A 66 202 202 HOH HOH . 
C 3 HOH A 67 203 203 HOH HOH . 
C 3 HOH A 68 204 204 HOH HOH . 
C 3 HOH A 69 208 208 HOH HOH . 
C 3 HOH A 70 210 210 HOH HOH . 
C 3 HOH A 71 211 211 HOH HOH . 
C 3 HOH A 72 212 212 HOH HOH . 
C 3 HOH A 73 213 213 HOH HOH . 
C 3 HOH A 74 215 215 HOH HOH . 
C 3 HOH A 75 217 217 HOH HOH . 
C 3 HOH A 76 218 218 HOH HOH . 
C 3 HOH A 77 219 219 HOH HOH . 
C 3 HOH A 78 221 221 HOH HOH . 
C 3 HOH A 79 223 223 HOH HOH . 
C 3 HOH A 80 225 225 HOH HOH . 
C 3 HOH A 81 228 228 HOH HOH . 
C 3 HOH A 82 231 231 HOH HOH . 
C 3 HOH A 83 232 232 HOH HOH . 
C 3 HOH A 84 233 233 HOH HOH . 
C 3 HOH A 85 234 234 HOH HOH . 
C 3 HOH A 86 235 235 HOH HOH . 
C 3 HOH A 87 236 236 HOH HOH . 
C 3 HOH A 88 237 237 HOH HOH . 
C 3 HOH A 89 238 238 HOH HOH . 
C 3 HOH A 90 239 239 HOH HOH . 
C 3 HOH A 91 240 240 HOH HOH . 
C 3 HOH A 92 241 241 HOH HOH . 
C 3 HOH A 93 242 242 HOH HOH . 
C 3 HOH A 94 243 243 HOH HOH . 
C 3 HOH A 95 245 245 HOH HOH . 
C 3 HOH A 96 246 246 HOH HOH . 
C 3 HOH A 97 247 247 HOH HOH . 
C 3 HOH A 98 250 250 HOH HOH . 
C 3 HOH A 99 251 251 HOH HOH . 
C 3 HOH A 100 253 253 HOH HOH . 
C 3 HOH A 101 254 254 HOH HOH . 
C 3 HOH A 102 256 256 HOH HOH . 
C 3 HOH A 103 258 258 HOH HOH . 
C 3 HOH A 104 259 259 HOH HOH . 
C 3 HOH A 105 261 261 HOH HOH . 
C 3 HOH A 106 264 264 HOH HOH . 
C 3 HOH A 107 269 269 HOH HOH . 
C 3 HOH A 108 270 270 HOH HOH . 
C 3 HOH A 109 271 271 HOH HOH . 
C 3 HOH A 110 273 273 HOH HOH . 
C 3 HOH A 111 274 274 HOH HOH . 
C 3 HOH A 112 278 278 HOH HOH . 
C 3 HOH A 113 279 279 HOH HOH . 
C 3 HOH A 114 282 282 HOH HOH . 
C 3 HOH A 115 283 283 HOH HOH . 
C 3 HOH A 116 284 284 HOH HOH . 
C 3 HOH A 117 288 288 HOH HOH . 
C 3 HOH A 118 290 290 HOH HOH . 
C 3 HOH A 119 291 291 HOH HOH . 
C 3 HOH A 120 292 292 HOH HOH . 
C 3 HOH A 121 293 293 HOH HOH . 
C 3 HOH A 122 294 294 HOH HOH . 
C 3 HOH A 123 295 295 HOH HOH . 
C 3 HOH A 124 297 297 HOH HOH . 
C 3 HOH A 125 298 298 HOH HOH . 
C 3 HOH A 126 299 299 HOH HOH . 
C 3 HOH A 127 300 300 HOH HOH . 
C 3 HOH A 128 304 304 HOH HOH . 
C 3 HOH A 129 305 305 HOH HOH . 
C 3 HOH A 130 310 310 HOH HOH . 
C 3 HOH A 131 325 325 HOH HOH . 
C 3 HOH A 132 326 326 HOH HOH . 
C 3 HOH A 133 327 327 HOH HOH . 
C 3 HOH A 134 328 328 HOH HOH . 
C 3 HOH A 135 329 329 HOH HOH . 
C 3 HOH A 136 330 330 HOH HOH . 
C 3 HOH A 137 331 331 HOH HOH . 
C 3 HOH A 138 332 332 HOH HOH . 
C 3 HOH A 139 333 333 HOH HOH . 
C 3 HOH A 140 334 334 HOH HOH . 
C 3 HOH A 141 335 335 HOH HOH . 
C 3 HOH A 142 336 336 HOH HOH . 
C 3 HOH A 143 337 337 HOH HOH . 
C 3 HOH A 144 338 338 HOH HOH . 
C 3 HOH A 145 339 339 HOH HOH . 
C 3 HOH A 146 340 340 HOH HOH . 
C 3 HOH A 147 341 341 HOH HOH . 
C 3 HOH A 148 342 342 HOH HOH . 
C 3 HOH A 149 343 343 HOH HOH . 
C 3 HOH A 150 344 344 HOH HOH . 
C 3 HOH A 151 345 345 HOH HOH . 
C 3 HOH A 152 347 347 HOH HOH . 
C 3 HOH A 153 348 348 HOH HOH . 
C 3 HOH A 154 350 350 HOH HOH . 
C 3 HOH A 155 351 351 HOH HOH . 
C 3 HOH A 156 352 352 HOH HOH . 
C 3 HOH A 157 353 353 HOH HOH . 
C 3 HOH A 158 354 354 HOH HOH . 
C 3 HOH A 159 355 355 HOH HOH . 
C 3 HOH A 160 357 357 HOH HOH . 
C 3 HOH A 161 359 359 HOH HOH . 
C 3 HOH A 162 360 360 HOH HOH . 
C 3 HOH A 163 361 361 HOH HOH . 
C 3 HOH A 164 364 364 HOH HOH . 
C 3 HOH A 165 365 365 HOH HOH . 
C 3 HOH A 166 366 366 HOH HOH . 
C 3 HOH A 167 367 367 HOH HOH . 
C 3 HOH A 168 368 368 HOH HOH . 
C 3 HOH A 169 369 369 HOH HOH . 
C 3 HOH A 170 370 370 HOH HOH . 
C 3 HOH A 171 371 371 HOH HOH . 
C 3 HOH A 172 374 374 HOH HOH . 
C 3 HOH A 173 375 375 HOH HOH . 
C 3 HOH A 174 376 376 HOH HOH . 
C 3 HOH A 175 379 379 HOH HOH . 
C 3 HOH A 176 380 380 HOH HOH . 
C 3 HOH A 177 381 381 HOH HOH . 
C 3 HOH A 178 382 382 HOH HOH . 
C 3 HOH A 179 383 383 HOH HOH . 
C 3 HOH A 180 386 386 HOH HOH . 
C 3 HOH A 181 388 388 HOH HOH . 
C 3 HOH A 182 390 390 HOH HOH . 
C 3 HOH A 183 392 392 HOH HOH . 
C 3 HOH A 184 393 393 HOH HOH . 
C 3 HOH A 185 394 394 HOH HOH . 
C 3 HOH A 186 397 397 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           NA 
_atom_site.label_atom_id         NA 
_atom_site.label_comp_id         NA 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         B 
_atom_site.label_entity_id       2 
_atom_site.Cartn_x               5.827 
_atom_site.Cartn_y               7.374 
_atom_site.Cartn_z               40.843 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        23.42 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           501 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           1 
#