data_6YPN # _model_server_result.job_id eUzb4fl1dMOJvvFDaE_NuQ _model_server_result.datetime_utc '2024-11-06 18:29:53' _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 6ypn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":406}' # _entry.id 6YPN # _exptl.entry_id 6YPN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 94.971 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHATE 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 109.9 _cell.angle_gamma 90 _cell.entry_id 6YPN _cell.length_a 57.392 _cell.length_b 45.225 _cell.length_c 62.631 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YPN _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 5 _struct_asym.id G _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 metalc ? metalc1 A OD1 ASN 161 B ASN 161 1_555 E MG MG . B MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? metalc ? metalc2 A OD2 ASP 175 B ASP 175 1_555 E MG MG . B MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc3 A OD1 ASP 175 B ASP 175 1_555 F MG MG . B MG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc4 A OD2 ASP 175 B ASP 175 1_555 F MG MG . B MG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc5 B O2B ADP . B ADP 401 1_555 E MG MG . B MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc6 B O1A ADP . B ADP 401 1_555 E MG MG . B MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc7 B O3B ADP . B ADP 401 1_555 F MG MG . B MG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc8 E MG MG . B MG 404 1_555 G O4 PO4 . B PO4 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc9 E MG MG . B MG 404 1_555 H O HOH . B HOH 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc10 F MG MG . B MG 405 1_555 G O3 PO4 . B PO4 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc11 F MG MG . B MG 405 1_555 H O HOH . B HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? metalc ? metalc12 F MG MG . B MG 405 1_555 H O HOH . B HOH 532 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? # _chem_comp.formula 'O4 P -3' _chem_comp.formula_weight 94.971 _chem_comp.id PO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHATE ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag P O1 PO4 doub 310 n n P O2 PO4 sing 311 n n P O3 PO4 sing 312 n n P O4 PO4 sing 313 n n # _atom_sites.entry_id 6YPN _atom_sites.fract_transf_matrix[1][1] 0.017424 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006306 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022112 _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] 0.01698 _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 ADP B 1 401 401 ADP ADP . C 3 ACT B 1 402 501 ACT ACT . D 2 ADP B 1 403 601 ADP ADP . E 4 MG B 1 404 1 MG MG . F 4 MG B 1 405 2 MG MG . G 5 PO4 B 1 406 1 PO4 PO4 . H 6 HOH B 1 501 158 HOH HOH . H 6 HOH B 2 502 139 HOH HOH . H 6 HOH B 3 503 197 HOH HOH . H 6 HOH B 4 504 195 HOH HOH . H 6 HOH B 5 505 193 HOH HOH . H 6 HOH B 6 506 150 HOH HOH . H 6 HOH B 7 507 46 HOH HOH . H 6 HOH B 8 508 43 HOH HOH . H 6 HOH B 9 509 1 HOH HOH . H 6 HOH B 10 510 61 HOH HOH . H 6 HOH B 11 511 104 HOH HOH . H 6 HOH B 12 512 27 HOH HOH . H 6 HOH B 13 513 72 HOH HOH . H 6 HOH B 14 514 5 HOH HOH . H 6 HOH B 15 515 31 HOH HOH . H 6 HOH B 16 516 44 HOH HOH . H 6 HOH B 17 517 174 HOH HOH . H 6 HOH B 18 518 175 HOH HOH . H 6 HOH B 19 519 107 HOH HOH . H 6 HOH B 20 520 66 HOH HOH . H 6 HOH B 21 521 50 HOH HOH . H 6 HOH B 22 522 41 HOH HOH . H 6 HOH B 23 523 152 HOH HOH . H 6 HOH B 24 524 124 HOH HOH . H 6 HOH B 25 525 191 HOH HOH . H 6 HOH B 26 526 160 HOH HOH . H 6 HOH B 27 527 119 HOH HOH . H 6 HOH B 28 528 3 HOH HOH . H 6 HOH B 29 529 180 HOH HOH . H 6 HOH B 30 530 4 HOH HOH . H 6 HOH B 31 531 78 HOH HOH . H 6 HOH B 32 532 192 HOH HOH . H 6 HOH B 33 533 54 HOH HOH . H 6 HOH B 34 534 194 HOH HOH . H 6 HOH B 35 535 68 HOH HOH . H 6 HOH B 36 536 95 HOH HOH . H 6 HOH B 37 537 171 HOH HOH . H 6 HOH B 38 538 86 HOH HOH . H 6 HOH B 39 539 33 HOH HOH . H 6 HOH B 40 540 145 HOH HOH . H 6 HOH B 41 541 125 HOH HOH . H 6 HOH B 42 542 186 HOH HOH . H 6 HOH B 43 543 144 HOH HOH . H 6 HOH B 44 544 52 HOH HOH . H 6 HOH B 45 545 25 HOH HOH . H 6 HOH B 46 546 147 HOH HOH . H 6 HOH B 47 547 21 HOH HOH . H 6 HOH B 48 548 73 HOH HOH . H 6 HOH B 49 549 24 HOH HOH . H 6 HOH B 50 550 45 HOH HOH . H 6 HOH B 51 551 105 HOH HOH . H 6 HOH B 52 552 198 HOH HOH . H 6 HOH B 53 553 111 HOH HOH . H 6 HOH B 54 554 188 HOH HOH . H 6 HOH B 55 555 153 HOH HOH . H 6 HOH B 56 556 168 HOH HOH . H 6 HOH B 57 557 115 HOH HOH . H 6 HOH B 58 558 131 HOH HOH . H 6 HOH B 59 559 42 HOH HOH . H 6 HOH B 60 560 22 HOH HOH . H 6 HOH B 61 561 51 HOH HOH . H 6 HOH B 62 562 69 HOH HOH . H 6 HOH B 63 563 36 HOH HOH . H 6 HOH B 64 564 182 HOH HOH . H 6 HOH B 65 565 75 HOH HOH . H 6 HOH B 66 566 89 HOH HOH . H 6 HOH B 67 567 15 HOH HOH . H 6 HOH B 68 568 64 HOH HOH . H 6 HOH B 69 569 7 HOH HOH . H 6 HOH B 70 570 118 HOH HOH . H 6 HOH B 71 571 172 HOH HOH . H 6 HOH B 72 572 28 HOH HOH . H 6 HOH B 73 573 88 HOH HOH . H 6 HOH B 74 574 135 HOH HOH . H 6 HOH B 75 575 102 HOH HOH . H 6 HOH B 76 576 53 HOH HOH . H 6 HOH B 77 577 62 HOH HOH . H 6 HOH B 78 578 74 HOH HOH . H 6 HOH B 79 579 128 HOH HOH . H 6 HOH B 80 580 116 HOH HOH . H 6 HOH B 81 581 17 HOH HOH . H 6 HOH B 82 582 106 HOH HOH . H 6 HOH B 83 583 38 HOH HOH . H 6 HOH B 84 584 166 HOH HOH . H 6 HOH B 85 585 85 HOH HOH . H 6 HOH B 86 586 91 HOH HOH . H 6 HOH B 87 587 159 HOH HOH . H 6 HOH B 88 588 35 HOH HOH . H 6 HOH B 89 589 37 HOH HOH . H 6 HOH B 90 590 179 HOH HOH . H 6 HOH B 91 591 10 HOH HOH . H 6 HOH B 92 592 181 HOH HOH . H 6 HOH B 93 593 2 HOH HOH . H 6 HOH B 94 594 122 HOH HOH . H 6 HOH B 95 595 49 HOH HOH . H 6 HOH B 96 596 142 HOH HOH . H 6 HOH B 97 597 103 HOH HOH . H 6 HOH B 98 598 126 HOH HOH . H 6 HOH B 99 599 138 HOH HOH . H 6 HOH B 100 600 48 HOH HOH . H 6 HOH B 101 601 81 HOH HOH . H 6 HOH B 102 602 121 HOH HOH . H 6 HOH B 103 603 143 HOH HOH . H 6 HOH B 104 604 167 HOH HOH . H 6 HOH B 105 605 20 HOH HOH . H 6 HOH B 106 606 70 HOH HOH . H 6 HOH B 107 607 101 HOH HOH . H 6 HOH B 108 608 87 HOH HOH . H 6 HOH B 109 609 19 HOH HOH . H 6 HOH B 110 610 16 HOH HOH . H 6 HOH B 111 611 112 HOH HOH . H 6 HOH B 112 612 149 HOH HOH . H 6 HOH B 113 613 165 HOH HOH . H 6 HOH B 114 614 71 HOH HOH . H 6 HOH B 115 615 82 HOH HOH . H 6 HOH B 116 616 8 HOH HOH . H 6 HOH B 117 617 32 HOH HOH . H 6 HOH B 118 618 6 HOH HOH . H 6 HOH B 119 619 13 HOH HOH . H 6 HOH B 120 620 26 HOH HOH . H 6 HOH B 121 621 137 HOH HOH . H 6 HOH B 122 622 141 HOH HOH . H 6 HOH B 123 623 109 HOH HOH . H 6 HOH B 124 624 83 HOH HOH . H 6 HOH B 125 625 12 HOH HOH . H 6 HOH B 126 626 93 HOH HOH . H 6 HOH B 127 627 56 HOH HOH . H 6 HOH B 128 628 23 HOH HOH . H 6 HOH B 129 629 11 HOH HOH . H 6 HOH B 130 630 90 HOH HOH . H 6 HOH B 131 631 67 HOH HOH . H 6 HOH B 132 632 176 HOH HOH . H 6 HOH B 133 633 127 HOH HOH . H 6 HOH B 134 634 99 HOH HOH . H 6 HOH B 135 635 133 HOH HOH . H 6 HOH B 136 636 108 HOH HOH . H 6 HOH B 137 637 34 HOH HOH . H 6 HOH B 138 638 59 HOH HOH . H 6 HOH B 139 639 161 HOH HOH . H 6 HOH B 140 640 18 HOH HOH . H 6 HOH B 141 641 156 HOH HOH . H 6 HOH B 142 642 130 HOH HOH . H 6 HOH B 143 643 136 HOH HOH . H 6 HOH B 144 644 65 HOH HOH . H 6 HOH B 145 645 9 HOH HOH . H 6 HOH B 146 646 163 HOH HOH . H 6 HOH B 147 647 47 HOH HOH . H 6 HOH B 148 648 196 HOH HOH . H 6 HOH B 149 649 184 HOH HOH . H 6 HOH B 150 650 40 HOH HOH . H 6 HOH B 151 651 76 HOH HOH . H 6 HOH B 152 652 162 HOH HOH . H 6 HOH B 153 653 164 HOH HOH . H 6 HOH B 154 654 94 HOH HOH . H 6 HOH B 155 655 189 HOH HOH . H 6 HOH B 156 656 84 HOH HOH . H 6 HOH B 157 657 120 HOH HOH . H 6 HOH B 158 658 132 HOH HOH . H 6 HOH B 159 659 79 HOH HOH . H 6 HOH B 160 660 30 HOH HOH . H 6 HOH B 161 661 170 HOH HOH . H 6 HOH B 162 662 77 HOH HOH . H 6 HOH B 163 663 151 HOH HOH . H 6 HOH B 164 664 185 HOH HOH . H 6 HOH B 165 665 146 HOH HOH . H 6 HOH B 166 666 113 HOH HOH . H 6 HOH B 167 667 114 HOH HOH . H 6 HOH B 168 668 183 HOH HOH . H 6 HOH B 169 669 58 HOH HOH . H 6 HOH B 170 670 187 HOH HOH . H 6 HOH B 171 671 80 HOH HOH . H 6 HOH B 172 672 123 HOH HOH . H 6 HOH B 173 673 14 HOH HOH . H 6 HOH B 174 674 157 HOH HOH . H 6 HOH B 175 675 148 HOH HOH . H 6 HOH B 176 676 97 HOH HOH . H 6 HOH B 177 677 173 HOH HOH . H 6 HOH B 178 678 96 HOH HOH . H 6 HOH B 179 679 178 HOH HOH . H 6 HOH B 180 680 110 HOH HOH . H 6 HOH B 181 681 177 HOH HOH . H 6 HOH B 182 682 169 HOH HOH . H 6 HOH B 183 683 92 HOH HOH . H 6 HOH B 184 684 140 HOH HOH . H 6 HOH B 185 685 154 HOH HOH . H 6 HOH B 186 686 129 HOH HOH . H 6 HOH B 187 687 155 HOH HOH . H 6 HOH B 188 688 134 HOH HOH . H 6 HOH B 189 689 100 HOH HOH . H 6 HOH B 190 690 190 HOH HOH . H 6 HOH B 191 691 117 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P P PO4 . . . G 5 -18.318 -2.841 -21.214 1 26.04 ? P PO4 406 B 1 HETATM 2 O O1 PO4 . . . G 5 -19.379 -2.204 -22.093 1 27 ? O1 PO4 406 B 1 HETATM 3 O O2 PO4 . . . G 5 -17.08 -3.094 -22.026 1 24.3 ? O2 PO4 406 B 1 HETATM 4 O O3 PO4 . . . G 5 -18.852 -4.158 -20.697 1 24.57 ? O3 PO4 406 B 1 HETATM 5 O O4 PO4 . . . G 5 -17.957 -1.917 -20.075 1 19.14 ? O4 PO4 406 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 5 #