data_8BIC # _model_server_result.job_id oYdACrmta_4KNz88ziAGEg _model_server_result.datetime_utc '2025-07-31 04:57:06' _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 8bic # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 8BIC # _exptl.entry_id 8BIC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 121.78 _cell.angle_gamma 90 _cell.entry_id 8BIC _cell.length_a 172.28 _cell.length_b 57.94 _cell.length_c 97.18 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BIC _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G N 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 50 A CYS 32 1_555 A SG CYS 83 A CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 B SG CYS 50 B CYS 32 1_555 B SG CYS 83 B CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc1 A OD1 ASP 293 A ASP 275 1_555 D NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc2 A O LEU 297 A LEU 279 1_555 D NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.118 ? metalc ? metalc3 A O GLY 298 A GLY 280 1_555 D NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.802 ? metalc ? metalc4 B O PHE 36 B PHE 18 1_555 G NA NA . B NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc5 B OG SER 42 B SER 24 1_555 G NA NA . B NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? # _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 8BIC _atom_sites.fract_transf_matrix[1][1] 0.005805 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003597 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017259 _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] 0.012105 _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 C 2 SAH A 1 401 900 SAH SAH . D 3 NA A 1 402 2 NA NA . E 2 SAH B 1 401 900 SAH SAH . F 4 GOL B 1 402 1 GOL GOL . G 3 NA B 1 403 3 NA NA . H 5 HOH A 1 501 151 HOH HOH . H 5 HOH A 2 502 281 HOH HOH . H 5 HOH A 3 503 312 HOH HOH . H 5 HOH A 4 504 229 HOH HOH . H 5 HOH A 5 505 97 HOH HOH . H 5 HOH A 6 506 181 HOH HOH . H 5 HOH A 7 507 186 HOH HOH . H 5 HOH A 8 508 150 HOH HOH . H 5 HOH A 9 509 10 HOH HOH . H 5 HOH A 10 510 22 HOH HOH . H 5 HOH A 11 511 72 HOH HOH . H 5 HOH A 12 512 326 HOH HOH . H 5 HOH A 13 513 109 HOH HOH . H 5 HOH A 14 514 107 HOH HOH . H 5 HOH A 15 515 261 HOH HOH . H 5 HOH A 16 516 311 HOH HOH . H 5 HOH A 17 517 54 HOH HOH . H 5 HOH A 18 518 102 HOH HOH . H 5 HOH A 19 519 328 HOH HOH . H 5 HOH A 20 520 241 HOH HOH . H 5 HOH A 21 521 320 HOH HOH . H 5 HOH A 22 522 327 HOH HOH . H 5 HOH A 23 523 153 HOH HOH . H 5 HOH A 24 524 33 HOH HOH . H 5 HOH A 25 525 168 HOH HOH . H 5 HOH A 26 526 208 HOH HOH . H 5 HOH A 27 527 108 HOH HOH . H 5 HOH A 28 528 221 HOH HOH . H 5 HOH A 29 529 85 HOH HOH . H 5 HOH A 30 530 18 HOH HOH . H 5 HOH A 31 531 42 HOH HOH . H 5 HOH A 32 532 59 HOH HOH . H 5 HOH A 33 533 158 HOH HOH . H 5 HOH A 34 534 77 HOH HOH . H 5 HOH A 35 535 79 HOH HOH . H 5 HOH A 36 536 198 HOH HOH . H 5 HOH A 37 537 211 HOH HOH . H 5 HOH A 38 538 177 HOH HOH . H 5 HOH A 39 539 161 HOH HOH . H 5 HOH A 40 540 330 HOH HOH . H 5 HOH A 41 541 101 HOH HOH . H 5 HOH A 42 542 30 HOH HOH . H 5 HOH A 43 543 28 HOH HOH . H 5 HOH A 44 544 16 HOH HOH . H 5 HOH A 45 545 349 HOH HOH . H 5 HOH A 46 546 130 HOH HOH . H 5 HOH A 47 547 113 HOH HOH . H 5 HOH A 48 548 144 HOH HOH . H 5 HOH A 49 549 4 HOH HOH . H 5 HOH A 50 550 296 HOH HOH . H 5 HOH A 51 551 319 HOH HOH . H 5 HOH A 52 552 278 HOH HOH . H 5 HOH A 53 553 41 HOH HOH . H 5 HOH A 54 554 60 HOH HOH . H 5 HOH A 55 555 21 HOH HOH . H 5 HOH A 56 556 23 HOH HOH . H 5 HOH A 57 557 86 HOH HOH . H 5 HOH A 58 558 119 HOH HOH . H 5 HOH A 59 559 58 HOH HOH . H 5 HOH A 60 560 191 HOH HOH . H 5 HOH A 61 561 40 HOH HOH . H 5 HOH A 62 562 32 HOH HOH . H 5 HOH A 63 563 212 HOH HOH . H 5 HOH A 64 564 68 HOH HOH . H 5 HOH A 65 565 78 HOH HOH . H 5 HOH A 66 566 190 HOH HOH . H 5 HOH A 67 567 74 HOH HOH . H 5 HOH A 68 568 96 HOH HOH . H 5 HOH A 69 569 248 HOH HOH . H 5 HOH A 70 570 20 HOH HOH . H 5 HOH A 71 571 267 HOH HOH . H 5 HOH A 72 572 124 HOH HOH . H 5 HOH A 73 573 228 HOH HOH . H 5 HOH A 74 574 132 HOH HOH . H 5 HOH A 75 575 217 HOH HOH . H 5 HOH A 76 576 71 HOH HOH . H 5 HOH A 77 577 310 HOH HOH . H 5 HOH A 78 578 141 HOH HOH . H 5 HOH A 79 579 136 HOH HOH . H 5 HOH A 80 580 163 HOH HOH . H 5 HOH A 81 581 180 HOH HOH . H 5 HOH A 82 582 205 HOH HOH . H 5 HOH A 83 583 223 HOH HOH . H 5 HOH A 84 584 45 HOH HOH . H 5 HOH A 85 585 249 HOH HOH . H 5 HOH A 86 586 122 HOH HOH . H 5 HOH A 87 587 309 HOH HOH . H 5 HOH A 88 588 344 HOH HOH . H 5 HOH A 89 589 63 HOH HOH . H 5 HOH A 90 590 25 HOH HOH . H 5 HOH A 91 591 116 HOH HOH . H 5 HOH A 92 592 83 HOH HOH . H 5 HOH A 93 593 305 HOH HOH . H 5 HOH A 94 594 131 HOH HOH . H 5 HOH A 95 595 182 HOH HOH . H 5 HOH A 96 596 238 HOH HOH . H 5 HOH A 97 597 289 HOH HOH . H 5 HOH A 98 598 149 HOH HOH . H 5 HOH A 99 599 167 HOH HOH . H 5 HOH A 100 600 343 HOH HOH . H 5 HOH A 101 601 187 HOH HOH . H 5 HOH A 102 602 174 HOH HOH . H 5 HOH A 103 603 295 HOH HOH . I 5 HOH B 1 501 273 HOH HOH . I 5 HOH B 2 502 157 HOH HOH . I 5 HOH B 3 503 245 HOH HOH . I 5 HOH B 4 504 155 HOH HOH . I 5 HOH B 5 505 111 HOH HOH . I 5 HOH B 6 506 164 HOH HOH . I 5 HOH B 7 507 73 HOH HOH . I 5 HOH B 8 508 87 HOH HOH . I 5 HOH B 9 509 88 HOH HOH . I 5 HOH B 10 510 15 HOH HOH . I 5 HOH B 11 511 215 HOH HOH . I 5 HOH B 12 512 333 HOH HOH . I 5 HOH B 13 513 259 HOH HOH . I 5 HOH B 14 514 120 HOH HOH . I 5 HOH B 15 515 160 HOH HOH . I 5 HOH B 16 516 89 HOH HOH . I 5 HOH B 17 517 227 HOH HOH . I 5 HOH B 18 518 13 HOH HOH . I 5 HOH B 19 519 274 HOH HOH . I 5 HOH B 20 520 51 HOH HOH . I 5 HOH B 21 521 179 HOH HOH . I 5 HOH B 22 522 341 HOH HOH . I 5 HOH B 23 523 8 HOH HOH . I 5 HOH B 24 524 291 HOH HOH . I 5 HOH B 25 525 99 HOH HOH . I 5 HOH B 26 526 52 HOH HOH . I 5 HOH B 27 527 27 HOH HOH . I 5 HOH B 28 528 35 HOH HOH . I 5 HOH B 29 529 263 HOH HOH . I 5 HOH B 30 530 306 HOH HOH . I 5 HOH B 31 531 176 HOH HOH . I 5 HOH B 32 532 110 HOH HOH . I 5 HOH B 33 533 159 HOH HOH . I 5 HOH B 34 534 82 HOH HOH . I 5 HOH B 35 535 334 HOH HOH . I 5 HOH B 36 536 6 HOH HOH . I 5 HOH B 37 537 154 HOH HOH . I 5 HOH B 38 538 258 HOH HOH . I 5 HOH B 39 539 128 HOH HOH . I 5 HOH B 40 540 166 HOH HOH . I 5 HOH B 41 541 36 HOH HOH . I 5 HOH B 42 542 346 HOH HOH . I 5 HOH B 43 543 140 HOH HOH . I 5 HOH B 44 544 345 HOH HOH . I 5 HOH B 45 545 39 HOH HOH . I 5 HOH B 46 546 12 HOH HOH . I 5 HOH B 47 547 37 HOH HOH . I 5 HOH B 48 548 199 HOH HOH . I 5 HOH B 49 549 55 HOH HOH . I 5 HOH B 50 550 5 HOH HOH . I 5 HOH B 51 551 34 HOH HOH . I 5 HOH B 52 552 105 HOH HOH . I 5 HOH B 53 553 224 HOH HOH . I 5 HOH B 54 554 329 HOH HOH . I 5 HOH B 55 555 56 HOH HOH . I 5 HOH B 56 556 53 HOH HOH . I 5 HOH B 57 557 165 HOH HOH . I 5 HOH B 58 558 64 HOH HOH . I 5 HOH B 59 559 76 HOH HOH . I 5 HOH B 60 560 207 HOH HOH . I 5 HOH B 61 561 19 HOH HOH . I 5 HOH B 62 562 335 HOH HOH . I 5 HOH B 63 563 125 HOH HOH . I 5 HOH B 64 564 126 HOH HOH . I 5 HOH B 65 565 139 HOH HOH . I 5 HOH B 66 566 9 HOH HOH . I 5 HOH B 67 567 233 HOH HOH . I 5 HOH B 68 568 114 HOH HOH . I 5 HOH B 69 569 66 HOH HOH . I 5 HOH B 70 570 43 HOH HOH . I 5 HOH B 71 571 146 HOH HOH . I 5 HOH B 72 572 331 HOH HOH . I 5 HOH B 73 573 98 HOH HOH . I 5 HOH B 74 574 48 HOH HOH . I 5 HOH B 75 575 94 HOH HOH . I 5 HOH B 76 576 65 HOH HOH . I 5 HOH B 77 577 213 HOH HOH . I 5 HOH B 78 578 57 HOH HOH . I 5 HOH B 79 579 67 HOH HOH . I 5 HOH B 80 580 183 HOH HOH . I 5 HOH B 81 581 256 HOH HOH . I 5 HOH B 82 582 38 HOH HOH . I 5 HOH B 83 583 47 HOH HOH . I 5 HOH B 84 584 95 HOH HOH . I 5 HOH B 85 585 226 HOH HOH . I 5 HOH B 86 586 17 HOH HOH . I 5 HOH B 87 587 235 HOH HOH . I 5 HOH B 88 588 288 HOH HOH . I 5 HOH B 89 589 106 HOH HOH . I 5 HOH B 90 590 283 HOH HOH . I 5 HOH B 91 591 250 HOH HOH . I 5 HOH B 92 592 26 HOH HOH . I 5 HOH B 93 593 70 HOH HOH . I 5 HOH B 94 594 115 HOH HOH . I 5 HOH B 95 595 117 HOH HOH . I 5 HOH B 96 596 14 HOH HOH . I 5 HOH B 97 597 282 HOH HOH . I 5 HOH B 98 598 49 HOH HOH . I 5 HOH B 99 599 7 HOH HOH . I 5 HOH B 100 600 11 HOH HOH . I 5 HOH B 101 601 142 HOH HOH . I 5 HOH B 102 602 81 HOH HOH . I 5 HOH B 103 603 279 HOH HOH . I 5 HOH B 104 604 239 HOH HOH . I 5 HOH B 105 605 214 HOH HOH . I 5 HOH B 106 606 90 HOH HOH . I 5 HOH B 107 607 69 HOH HOH . I 5 HOH B 108 608 104 HOH HOH . I 5 HOH B 109 609 44 HOH HOH . I 5 HOH B 110 610 31 HOH HOH . I 5 HOH B 111 611 75 HOH HOH . I 5 HOH B 112 612 348 HOH HOH . I 5 HOH B 113 613 253 HOH HOH . I 5 HOH B 114 614 80 HOH HOH . I 5 HOH B 115 615 123 HOH HOH . I 5 HOH B 116 616 243 HOH HOH . I 5 HOH B 117 617 200 HOH HOH . I 5 HOH B 118 618 92 HOH HOH . I 5 HOH B 119 619 50 HOH HOH . I 5 HOH B 120 620 112 HOH HOH . I 5 HOH B 121 621 308 HOH HOH . I 5 HOH B 122 622 219 HOH HOH . I 5 HOH B 123 623 148 HOH HOH . I 5 HOH B 124 624 284 HOH HOH . I 5 HOH B 125 625 339 HOH HOH . I 5 HOH B 126 626 24 HOH HOH . I 5 HOH B 127 627 286 HOH HOH . I 5 HOH B 128 628 84 HOH HOH . I 5 HOH B 129 629 29 HOH HOH . I 5 HOH B 130 630 129 HOH HOH . I 5 HOH B 131 631 285 HOH HOH . I 5 HOH B 132 632 337 HOH HOH . I 5 HOH B 133 633 307 HOH HOH . I 5 HOH B 134 634 201 HOH HOH . I 5 HOH B 135 635 340 HOH HOH . I 5 HOH B 136 636 225 HOH HOH . I 5 HOH B 137 637 246 HOH HOH . I 5 HOH B 138 638 193 HOH HOH . I 5 HOH B 139 639 184 HOH HOH . I 5 HOH B 140 640 347 HOH HOH . I 5 HOH B 141 641 336 HOH HOH . I 5 HOH B 142 642 313 HOH HOH . I 5 HOH B 143 643 294 HOH HOH . I 5 HOH B 144 644 321 HOH HOH . I 5 HOH B 145 645 275 HOH HOH . I 5 HOH B 146 646 242 HOH HOH . I 5 HOH B 147 647 230 HOH HOH . I 5 HOH B 148 648 188 HOH HOH . I 5 HOH B 149 649 252 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 D _atom_site.label_entity_id 3 _atom_site.Cartn_x 13.424 _atom_site.Cartn_y 20.743 _atom_site.Cartn_z 31.317 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 35.16 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 402 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 1 #