data_5HKY # _model_server_result.job_id K4b7_gkmpuRedsqvkY_nmQ _model_server_result.datetime_utc '2025-07-30 13:22:06' _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 5hky # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":403}' # _entry.id 5HKY # _exptl.entry_id 5HKY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _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 120 _cell.entry_id 5HKY _cell.length_a 122.81 _cell.length_b 122.81 _cell.length_c 58.44 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HKY _symmetry.cell_setting ? _symmetry.Int_Tables_number 168 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 6' # _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 _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 4 _struct_asym.id E _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 covale ? covale1 B C GLU 20 B GLU 54 1_555 B N PTR 21 B PTR 55 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 B C PTR 21 B PTR 55 1_555 B N THR 22 B THR 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? metalc ? metalc1 A OD1 ASP 186 A ASP 229 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc2 A OG1 THR 188 A THR 231 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.828 ? metalc ? metalc3 A OD1 ASN 190 A ASN 233 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc4 A O TYR 192 A TYR 235 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc5 A OE1 GLU 197 A GLU 240 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.614 ? metalc ? metalc6 A OE2 GLU 197 A GLU 240 1_555 E NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc7 E NA NA . A NA 403 1_555 G O HOH . A HOH 539 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.059 ? # _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 5HKY _atom_sites.fract_transf_matrix[1][1] 0.008143 _atom_sites.fract_transf_matrix[1][2] 0.004701 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009402 _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] 0.017112 _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 3 CL A 1 401 1 CL CL . D 3 CL A 1 402 2 CL CL . E 4 NA A 1 403 1 NA NA . F 5 1PE A 1 404 1 1PE 1PE . G 6 HOH A 1 501 238 HOH HOH . G 6 HOH A 2 502 237 HOH HOH . G 6 HOH A 3 503 272 HOH HOH . G 6 HOH A 4 504 274 HOH HOH . G 6 HOH A 5 505 169 HOH HOH . G 6 HOH A 6 506 150 HOH HOH . G 6 HOH A 7 507 142 HOH HOH . G 6 HOH A 8 508 270 HOH HOH . G 6 HOH A 9 509 201 HOH HOH . G 6 HOH A 10 510 211 HOH HOH . G 6 HOH A 11 511 178 HOH HOH . G 6 HOH A 12 512 100 HOH HOH . G 6 HOH A 13 513 268 HOH HOH . G 6 HOH A 14 514 118 HOH HOH . G 6 HOH A 15 515 244 HOH HOH . G 6 HOH A 16 516 76 HOH HOH . G 6 HOH A 17 517 257 HOH HOH . G 6 HOH A 18 518 160 HOH HOH . G 6 HOH A 19 519 132 HOH HOH . G 6 HOH A 20 520 8 HOH HOH . G 6 HOH A 21 521 61 HOH HOH . G 6 HOH A 22 522 111 HOH HOH . G 6 HOH A 23 523 104 HOH HOH . G 6 HOH A 24 524 146 HOH HOH . G 6 HOH A 25 525 119 HOH HOH . G 6 HOH A 26 526 23 HOH HOH . G 6 HOH A 27 527 7 HOH HOH . G 6 HOH A 28 528 33 HOH HOH . G 6 HOH A 29 529 12 HOH HOH . G 6 HOH A 30 530 182 HOH HOH . G 6 HOH A 31 531 53 HOH HOH . G 6 HOH A 32 532 138 HOH HOH . G 6 HOH A 33 533 42 HOH HOH . G 6 HOH A 34 534 109 HOH HOH . G 6 HOH A 35 535 67 HOH HOH . G 6 HOH A 36 536 139 HOH HOH . G 6 HOH A 37 537 102 HOH HOH . G 6 HOH A 38 538 235 HOH HOH . G 6 HOH A 39 539 26 HOH HOH . G 6 HOH A 40 540 27 HOH HOH . G 6 HOH A 41 541 243 HOH HOH . G 6 HOH A 42 542 70 HOH HOH . G 6 HOH A 43 543 222 HOH HOH . G 6 HOH A 44 544 24 HOH HOH . G 6 HOH A 45 545 65 HOH HOH . G 6 HOH A 46 546 226 HOH HOH . G 6 HOH A 47 547 203 HOH HOH . G 6 HOH A 48 548 120 HOH HOH . G 6 HOH A 49 549 166 HOH HOH . G 6 HOH A 50 550 126 HOH HOH . G 6 HOH A 51 551 60 HOH HOH . G 6 HOH A 52 552 37 HOH HOH . G 6 HOH A 53 553 122 HOH HOH . G 6 HOH A 54 554 171 HOH HOH . G 6 HOH A 55 555 133 HOH HOH . G 6 HOH A 56 556 84 HOH HOH . G 6 HOH A 57 557 41 HOH HOH . G 6 HOH A 58 558 40 HOH HOH . G 6 HOH A 59 559 225 HOH HOH . G 6 HOH A 60 560 271 HOH HOH . G 6 HOH A 61 561 233 HOH HOH . G 6 HOH A 62 562 29 HOH HOH . G 6 HOH A 63 563 49 HOH HOH . G 6 HOH A 64 564 58 HOH HOH . G 6 HOH A 65 565 64 HOH HOH . G 6 HOH A 66 566 3 HOH HOH . G 6 HOH A 67 567 121 HOH HOH . G 6 HOH A 68 568 177 HOH HOH . G 6 HOH A 69 569 66 HOH HOH . G 6 HOH A 70 570 1 HOH HOH . G 6 HOH A 71 571 141 HOH HOH . G 6 HOH A 72 572 221 HOH HOH . G 6 HOH A 73 573 239 HOH HOH . G 6 HOH A 74 574 45 HOH HOH . G 6 HOH A 75 575 247 HOH HOH . G 6 HOH A 76 576 34 HOH HOH . G 6 HOH A 77 577 135 HOH HOH . G 6 HOH A 78 578 216 HOH HOH . G 6 HOH A 79 579 80 HOH HOH . G 6 HOH A 80 580 125 HOH HOH . G 6 HOH A 81 581 107 HOH HOH . G 6 HOH A 82 582 85 HOH HOH . G 6 HOH A 83 583 103 HOH HOH . G 6 HOH A 84 584 249 HOH HOH . G 6 HOH A 85 585 81 HOH HOH . G 6 HOH A 86 586 43 HOH HOH . G 6 HOH A 87 587 106 HOH HOH . G 6 HOH A 88 588 5 HOH HOH . G 6 HOH A 89 589 277 HOH HOH . G 6 HOH A 90 590 165 HOH HOH . G 6 HOH A 91 591 62 HOH HOH . G 6 HOH A 92 592 151 HOH HOH . G 6 HOH A 93 593 30 HOH HOH . G 6 HOH A 94 594 254 HOH HOH . G 6 HOH A 95 595 163 HOH HOH . G 6 HOH A 96 596 82 HOH HOH . G 6 HOH A 97 597 16 HOH HOH . G 6 HOH A 98 598 158 HOH HOH . G 6 HOH A 99 599 86 HOH HOH . G 6 HOH A 100 600 256 HOH HOH . G 6 HOH A 101 601 208 HOH HOH . G 6 HOH A 102 602 74 HOH HOH . G 6 HOH A 103 603 148 HOH HOH . G 6 HOH A 104 604 105 HOH HOH . G 6 HOH A 105 605 9 HOH HOH . G 6 HOH A 106 606 22 HOH HOH . G 6 HOH A 107 607 54 HOH HOH . G 6 HOH A 108 608 46 HOH HOH . G 6 HOH A 109 609 52 HOH HOH . G 6 HOH A 110 610 157 HOH HOH . G 6 HOH A 111 611 44 HOH HOH . G 6 HOH A 112 612 128 HOH HOH . G 6 HOH A 113 613 137 HOH HOH . G 6 HOH A 114 614 17 HOH HOH . G 6 HOH A 115 615 174 HOH HOH . G 6 HOH A 116 616 112 HOH HOH . G 6 HOH A 117 617 258 HOH HOH . G 6 HOH A 118 618 38 HOH HOH . G 6 HOH A 119 619 129 HOH HOH . G 6 HOH A 120 620 15 HOH HOH . G 6 HOH A 121 621 207 HOH HOH . G 6 HOH A 122 622 184 HOH HOH . G 6 HOH A 123 623 55 HOH HOH . G 6 HOH A 124 624 57 HOH HOH . G 6 HOH A 125 625 214 HOH HOH . G 6 HOH A 126 626 14 HOH HOH . G 6 HOH A 127 627 90 HOH HOH . G 6 HOH A 128 628 79 HOH HOH . G 6 HOH A 129 629 173 HOH HOH . G 6 HOH A 130 630 59 HOH HOH . G 6 HOH A 131 631 245 HOH HOH . G 6 HOH A 132 632 145 HOH HOH . G 6 HOH A 133 633 170 HOH HOH . G 6 HOH A 134 634 36 HOH HOH . G 6 HOH A 135 635 124 HOH HOH . G 6 HOH A 136 636 32 HOH HOH . G 6 HOH A 137 637 202 HOH HOH . G 6 HOH A 138 638 159 HOH HOH . G 6 HOH A 139 639 89 HOH HOH . G 6 HOH A 140 640 204 HOH HOH . G 6 HOH A 141 641 96 HOH HOH . G 6 HOH A 142 642 101 HOH HOH . G 6 HOH A 143 643 13 HOH HOH . G 6 HOH A 144 644 215 HOH HOH . G 6 HOH A 145 645 78 HOH HOH . G 6 HOH A 146 646 188 HOH HOH . G 6 HOH A 147 647 50 HOH HOH . G 6 HOH A 148 648 229 HOH HOH . G 6 HOH A 149 649 2 HOH HOH . G 6 HOH A 150 650 95 HOH HOH . G 6 HOH A 151 651 113 HOH HOH . G 6 HOH A 152 652 123 HOH HOH . G 6 HOH A 153 653 136 HOH HOH . G 6 HOH A 154 654 130 HOH HOH . G 6 HOH A 155 655 91 HOH HOH . G 6 HOH A 156 656 131 HOH HOH . G 6 HOH A 157 657 93 HOH HOH . G 6 HOH A 158 658 183 HOH HOH . G 6 HOH A 159 659 154 HOH HOH . G 6 HOH A 160 660 164 HOH HOH . G 6 HOH A 161 661 56 HOH HOH . G 6 HOH A 162 662 98 HOH HOH . G 6 HOH A 163 663 197 HOH HOH . G 6 HOH A 164 664 269 HOH HOH . G 6 HOH A 165 665 20 HOH HOH . G 6 HOH A 166 666 210 HOH HOH . G 6 HOH A 167 667 88 HOH HOH . G 6 HOH A 168 668 35 HOH HOH . G 6 HOH A 169 669 193 HOH HOH . G 6 HOH A 170 670 31 HOH HOH . G 6 HOH A 171 671 168 HOH HOH . G 6 HOH A 172 672 47 HOH HOH . G 6 HOH A 173 673 97 HOH HOH . G 6 HOH A 174 674 11 HOH HOH . G 6 HOH A 175 675 94 HOH HOH . G 6 HOH A 176 676 72 HOH HOH . G 6 HOH A 177 677 28 HOH HOH . G 6 HOH A 178 678 262 HOH HOH . G 6 HOH A 179 679 219 HOH HOH . G 6 HOH A 180 680 153 HOH HOH . G 6 HOH A 181 681 205 HOH HOH . G 6 HOH A 182 682 172 HOH HOH . G 6 HOH A 183 683 51 HOH HOH . G 6 HOH A 184 684 39 HOH HOH . G 6 HOH A 185 685 149 HOH HOH . G 6 HOH A 186 686 155 HOH HOH . G 6 HOH A 187 687 255 HOH HOH . G 6 HOH A 188 688 181 HOH HOH . G 6 HOH A 189 689 114 HOH HOH . G 6 HOH A 190 690 143 HOH HOH . G 6 HOH A 191 691 69 HOH HOH . G 6 HOH A 192 692 250 HOH HOH . G 6 HOH A 193 693 87 HOH HOH . G 6 HOH A 194 694 224 HOH HOH . G 6 HOH A 195 695 189 HOH HOH . G 6 HOH A 196 696 242 HOH HOH . G 6 HOH A 197 697 6 HOH HOH . G 6 HOH A 198 698 206 HOH HOH . G 6 HOH A 199 699 110 HOH HOH . G 6 HOH A 200 700 68 HOH HOH . G 6 HOH A 201 701 236 HOH HOH . G 6 HOH A 202 702 259 HOH HOH . G 6 HOH A 203 703 276 HOH HOH . G 6 HOH A 204 704 213 HOH HOH . G 6 HOH A 205 705 261 HOH HOH . G 6 HOH A 206 706 195 HOH HOH . G 6 HOH A 207 707 190 HOH HOH . G 6 HOH A 208 708 185 HOH HOH . G 6 HOH A 209 709 267 HOH HOH . G 6 HOH A 210 710 278 HOH HOH . G 6 HOH A 211 711 223 HOH HOH . G 6 HOH A 212 712 116 HOH HOH . G 6 HOH A 213 713 231 HOH HOH . G 6 HOH A 214 714 180 HOH HOH . G 6 HOH A 215 715 99 HOH HOH . G 6 HOH A 216 716 161 HOH HOH . G 6 HOH A 217 717 162 HOH HOH . G 6 HOH A 218 718 228 HOH HOH . G 6 HOH A 219 719 187 HOH HOH . G 6 HOH A 220 720 212 HOH HOH . G 6 HOH A 221 721 117 HOH HOH . G 6 HOH A 222 722 252 HOH HOH . G 6 HOH A 223 723 92 HOH HOH . G 6 HOH A 224 724 275 HOH HOH . G 6 HOH A 225 725 280 HOH HOH . G 6 HOH A 226 726 77 HOH HOH . G 6 HOH A 227 727 199 HOH HOH . G 6 HOH A 228 728 264 HOH HOH . G 6 HOH A 229 729 265 HOH HOH . G 6 HOH A 230 730 227 HOH HOH . G 6 HOH A 231 731 279 HOH HOH . G 6 HOH A 232 732 200 HOH HOH . G 6 HOH A 233 733 260 HOH HOH . G 6 HOH A 234 734 156 HOH HOH . G 6 HOH A 235 735 179 HOH HOH . G 6 HOH A 236 736 152 HOH HOH . G 6 HOH A 237 737 115 HOH HOH . G 6 HOH A 238 738 194 HOH HOH . G 6 HOH A 239 739 167 HOH HOH . G 6 HOH A 240 740 230 HOH HOH . G 6 HOH A 241 741 134 HOH HOH . G 6 HOH A 242 742 246 HOH HOH . G 6 HOH A 243 743 73 HOH HOH . G 6 HOH A 244 744 218 HOH HOH . G 6 HOH A 245 745 196 HOH HOH . G 6 HOH A 246 746 71 HOH HOH . G 6 HOH A 247 747 232 HOH HOH . G 6 HOH A 248 748 241 HOH HOH . G 6 HOH A 249 749 198 HOH HOH . G 6 HOH A 250 750 240 HOH HOH . G 6 HOH A 251 751 266 HOH HOH . G 6 HOH A 252 752 147 HOH HOH . G 6 HOH A 253 753 263 HOH HOH . G 6 HOH A 254 754 192 HOH HOH . G 6 HOH A 255 755 248 HOH HOH . G 6 HOH A 256 756 251 HOH HOH . G 6 HOH A 257 757 253 HOH HOH . H 6 HOH B 1 101 63 HOH HOH . H 6 HOH B 2 102 234 HOH HOH . H 6 HOH B 3 103 18 HOH HOH . H 6 HOH B 4 104 48 HOH HOH . H 6 HOH B 5 105 273 HOH HOH . H 6 HOH B 6 106 191 HOH HOH . H 6 HOH B 7 107 4 HOH HOH . H 6 HOH B 8 108 186 HOH HOH . H 6 HOH B 9 109 19 HOH HOH . H 6 HOH B 10 110 25 HOH HOH . H 6 HOH B 11 111 127 HOH HOH . H 6 HOH B 12 112 21 HOH HOH . H 6 HOH B 13 113 75 HOH HOH . H 6 HOH B 14 114 83 HOH HOH . H 6 HOH B 15 115 220 HOH HOH . H 6 HOH B 16 116 209 HOH HOH . H 6 HOH B 17 117 108 HOH HOH . H 6 HOH B 18 118 176 HOH HOH . H 6 HOH B 19 119 10 HOH HOH . H 6 HOH B 20 120 140 HOH HOH . H 6 HOH B 21 121 217 HOH HOH . H 6 HOH B 22 122 144 HOH HOH . H 6 HOH B 23 123 175 HOH HOH . H 6 HOH B 24 124 281 HOH HOH . H 6 HOH B 25 125 282 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 E _atom_site.label_entity_id 4 _atom_site.Cartn_x 90.3 _atom_site.Cartn_y 39.643 _atom_site.Cartn_z -7.348 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 18.18 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 403 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 76 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 369 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #