data_2R4U # _model_server_result.job_id wtYx9AYOMc9S-UUPHgLjmg _model_server_result.datetime_utc '2024-10-19 03:47:25' _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 2r4u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 2R4U # _exptl.entry_id 2R4U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 2R4U _cell.length_a 126.166 _cell.length_b 126.166 _cell.length_c 151.745 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2R4U _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # _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,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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 38 n n PB O2B ADP sing 39 n n PB O3B ADP sing 40 n n PB O3A ADP sing 41 n n O2B HOB2 ADP sing 42 n n O3B HOB3 ADP sing 43 n n PA O1A ADP doub 44 n n PA O2A ADP sing 45 n n PA O3A ADP sing 46 n n PA O5' ADP sing 47 n n O2A HOA2 ADP sing 48 n n O5' C5' ADP sing 49 n n C5' C4' ADP sing 50 n n C5' "H5'1" ADP sing 51 n n C5' "H5'2" ADP sing 52 n n C4' O4' ADP sing 53 n n C4' C3' ADP sing 54 n n C4' H4' ADP sing 55 n n O4' C1' ADP sing 56 n n C3' O3' ADP sing 57 n n C3' C2' ADP sing 58 n n C3' H3' ADP sing 59 n n O3' HO3' ADP sing 60 n n C2' O2' ADP sing 61 n n C2' C1' ADP sing 62 n n C2' H2' ADP sing 63 n n O2' HO2' ADP sing 64 n n C1' N9 ADP sing 65 n n C1' H1' ADP sing 66 n n N9 C8 ADP sing 67 n y N9 C4 ADP sing 68 n y C8 N7 ADP doub 69 n y C8 H8 ADP sing 70 n n N7 C5 ADP sing 71 n y C5 C6 ADP sing 72 n y C5 C4 ADP doub 73 n y C6 N6 ADP sing 74 n n C6 N1 ADP doub 75 n y N6 HN61 ADP sing 76 n n N6 HN62 ADP sing 77 n n N1 C2 ADP sing 78 n y C2 N3 ADP doub 79 n y C2 H2 ADP sing 80 n n N3 C4 ADP sing 81 n y # _atom_sites.entry_id 2R4U _atom_sites.fract_transf_matrix[1][1] 0.007926 _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] 0.007926 _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] 0.00659 _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 GLC A 1 502 502 GLC GLC . C 3 ADP A 1 501 501 ADP ADP . D 4 250 A 1 503 503 250 250 . E 5 PE3 A 1 504 504 PE3 PE3 . F 5 PE3 A 1 505 505 PE3 PE3 . G 5 PE3 A 1 506 506 PE3 PE3 . H 6 HOH A 1 507 7 HOH HOH . H 6 HOH A 2 508 8 HOH HOH . H 6 HOH A 3 509 9 HOH HOH . H 6 HOH A 4 510 10 HOH HOH . H 6 HOH A 5 511 11 HOH HOH . H 6 HOH A 6 512 12 HOH HOH . H 6 HOH A 7 513 13 HOH HOH . H 6 HOH A 8 514 14 HOH HOH . H 6 HOH A 9 515 15 HOH HOH . H 6 HOH A 10 516 16 HOH HOH . H 6 HOH A 11 517 17 HOH HOH . H 6 HOH A 12 518 18 HOH HOH . H 6 HOH A 13 519 19 HOH HOH . H 6 HOH A 14 520 20 HOH HOH . H 6 HOH A 15 521 21 HOH HOH . H 6 HOH A 16 522 22 HOH HOH . H 6 HOH A 17 523 23 HOH HOH . H 6 HOH A 18 524 24 HOH HOH . H 6 HOH A 19 525 25 HOH HOH . H 6 HOH A 20 526 26 HOH HOH . H 6 HOH A 21 527 27 HOH HOH . H 6 HOH A 22 528 28 HOH HOH . H 6 HOH A 23 529 29 HOH HOH . H 6 HOH A 24 530 30 HOH HOH . H 6 HOH A 25 531 31 HOH HOH . H 6 HOH A 26 532 32 HOH HOH . H 6 HOH A 27 533 33 HOH HOH . H 6 HOH A 28 534 35 HOH HOH . H 6 HOH A 29 535 36 HOH HOH . H 6 HOH A 30 536 37 HOH HOH . H 6 HOH A 31 537 38 HOH HOH . H 6 HOH A 32 538 39 HOH HOH . H 6 HOH A 33 539 40 HOH HOH . H 6 HOH A 34 540 41 HOH HOH . H 6 HOH A 35 541 42 HOH HOH . H 6 HOH A 36 542 43 HOH HOH . H 6 HOH A 37 543 44 HOH HOH . H 6 HOH A 38 544 45 HOH HOH . H 6 HOH A 39 545 46 HOH HOH . H 6 HOH A 40 546 47 HOH HOH . H 6 HOH A 41 547 48 HOH HOH . H 6 HOH A 42 548 49 HOH HOH . H 6 HOH A 43 549 50 HOH HOH . H 6 HOH A 44 550 51 HOH HOH . H 6 HOH A 45 551 52 HOH HOH . H 6 HOH A 46 552 53 HOH HOH . H 6 HOH A 47 553 54 HOH HOH . H 6 HOH A 48 554 55 HOH HOH . H 6 HOH A 49 555 56 HOH HOH . H 6 HOH A 50 556 57 HOH HOH . H 6 HOH A 51 557 58 HOH HOH . H 6 HOH A 52 558 59 HOH HOH . H 6 HOH A 53 559 60 HOH HOH . H 6 HOH A 54 560 61 HOH HOH . H 6 HOH A 55 561 62 HOH HOH . H 6 HOH A 56 562 63 HOH HOH . H 6 HOH A 57 563 64 HOH HOH . H 6 HOH A 58 564 65 HOH HOH . H 6 HOH A 59 565 66 HOH HOH . H 6 HOH A 60 566 67 HOH HOH . H 6 HOH A 61 567 68 HOH HOH . H 6 HOH A 62 568 69 HOH HOH . H 6 HOH A 63 569 70 HOH HOH . H 6 HOH A 64 570 71 HOH HOH . H 6 HOH A 65 571 72 HOH HOH . H 6 HOH A 66 572 73 HOH HOH . H 6 HOH A 67 573 74 HOH HOH . H 6 HOH A 68 574 75 HOH HOH . H 6 HOH A 69 575 76 HOH HOH . H 6 HOH A 70 576 77 HOH HOH . H 6 HOH A 71 577 78 HOH HOH . H 6 HOH A 72 578 79 HOH HOH . H 6 HOH A 73 579 80 HOH HOH . H 6 HOH A 74 580 81 HOH HOH . H 6 HOH A 75 581 82 HOH HOH . H 6 HOH A 76 582 83 HOH HOH . H 6 HOH A 77 583 84 HOH HOH . H 6 HOH A 78 584 85 HOH HOH . H 6 HOH A 79 585 86 HOH HOH . H 6 HOH A 80 586 87 HOH HOH . H 6 HOH A 81 587 88 HOH HOH . H 6 HOH A 82 588 89 HOH HOH . H 6 HOH A 83 589 90 HOH HOH . H 6 HOH A 84 590 91 HOH HOH . H 6 HOH A 85 591 92 HOH HOH . H 6 HOH A 86 592 93 HOH HOH . H 6 HOH A 87 593 94 HOH HOH . H 6 HOH A 88 594 95 HOH HOH . H 6 HOH A 89 595 96 HOH HOH . H 6 HOH A 90 596 97 HOH HOH . H 6 HOH A 91 597 98 HOH HOH . H 6 HOH A 92 598 99 HOH HOH . H 6 HOH A 93 599 100 HOH HOH . H 6 HOH A 94 600 101 HOH HOH . H 6 HOH A 95 601 102 HOH HOH . H 6 HOH A 96 602 103 HOH HOH . H 6 HOH A 97 603 104 HOH HOH . H 6 HOH A 98 604 105 HOH HOH . H 6 HOH A 99 605 106 HOH HOH . H 6 HOH A 100 606 107 HOH HOH . H 6 HOH A 101 607 108 HOH HOH . H 6 HOH A 102 608 109 HOH HOH . H 6 HOH A 103 609 110 HOH HOH . H 6 HOH A 104 610 111 HOH HOH . H 6 HOH A 105 611 112 HOH HOH . H 6 HOH A 106 612 113 HOH HOH . H 6 HOH A 107 613 114 HOH HOH . H 6 HOH A 108 614 115 HOH HOH . H 6 HOH A 109 615 116 HOH HOH . H 6 HOH A 110 616 117 HOH HOH . H 6 HOH A 111 617 118 HOH HOH . H 6 HOH A 112 618 119 HOH HOH . H 6 HOH A 113 619 120 HOH HOH . H 6 HOH A 114 620 121 HOH HOH . H 6 HOH A 115 621 122 HOH HOH . H 6 HOH A 116 622 123 HOH HOH . H 6 HOH A 117 623 124 HOH HOH . H 6 HOH A 118 624 125 HOH HOH . H 6 HOH A 119 625 126 HOH HOH . H 6 HOH A 120 626 127 HOH HOH . H 6 HOH A 121 627 128 HOH HOH . H 6 HOH A 122 628 129 HOH HOH . H 6 HOH A 123 629 130 HOH HOH . H 6 HOH A 124 630 131 HOH HOH . H 6 HOH A 125 631 132 HOH HOH . H 6 HOH A 126 632 133 HOH HOH . H 6 HOH A 127 633 134 HOH HOH . H 6 HOH A 128 634 135 HOH HOH . H 6 HOH A 129 635 136 HOH HOH . H 6 HOH A 130 636 137 HOH HOH . H 6 HOH A 131 637 138 HOH HOH . H 6 HOH A 132 638 139 HOH HOH . H 6 HOH A 133 639 140 HOH HOH . H 6 HOH A 134 640 141 HOH HOH . H 6 HOH A 135 641 142 HOH HOH . H 6 HOH A 136 642 143 HOH HOH . H 6 HOH A 137 643 144 HOH HOH . H 6 HOH A 138 644 145 HOH HOH . H 6 HOH A 139 645 146 HOH HOH . H 6 HOH A 140 646 147 HOH HOH . H 6 HOH A 141 647 148 HOH HOH . H 6 HOH A 142 648 149 HOH HOH . H 6 HOH A 143 649 150 HOH HOH . H 6 HOH A 144 650 151 HOH HOH . H 6 HOH A 145 651 152 HOH HOH . H 6 HOH A 146 652 153 HOH HOH . H 6 HOH A 147 653 154 HOH HOH . H 6 HOH A 148 654 155 HOH HOH . H 6 HOH A 149 655 156 HOH HOH . H 6 HOH A 150 656 157 HOH HOH . H 6 HOH A 151 657 158 HOH HOH . H 6 HOH A 152 658 159 HOH HOH . H 6 HOH A 153 659 160 HOH HOH . H 6 HOH A 154 660 161 HOH HOH . H 6 HOH A 155 661 162 HOH HOH . H 6 HOH A 156 662 163 HOH HOH . H 6 HOH A 157 663 164 HOH HOH . H 6 HOH A 158 664 166 HOH HOH . H 6 HOH A 159 665 167 HOH HOH . H 6 HOH A 160 666 168 HOH HOH . H 6 HOH A 161 667 169 HOH HOH . H 6 HOH A 162 668 170 HOH HOH . H 6 HOH A 163 669 171 HOH HOH . H 6 HOH A 164 670 172 HOH HOH . H 6 HOH A 165 671 173 HOH HOH . H 6 HOH A 166 672 174 HOH HOH . H 6 HOH A 167 673 175 HOH HOH . H 6 HOH A 168 674 176 HOH HOH . H 6 HOH A 169 675 177 HOH HOH . H 6 HOH A 170 676 178 HOH HOH . H 6 HOH A 171 677 179 HOH HOH . H 6 HOH A 172 678 180 HOH HOH . H 6 HOH A 173 679 181 HOH HOH . H 6 HOH A 174 680 182 HOH HOH . H 6 HOH A 175 681 183 HOH HOH . H 6 HOH A 176 682 184 HOH HOH . H 6 HOH A 177 683 185 HOH HOH . H 6 HOH A 178 684 186 HOH HOH . H 6 HOH A 179 685 187 HOH HOH . H 6 HOH A 180 686 188 HOH HOH . H 6 HOH A 181 687 189 HOH HOH . H 6 HOH A 182 688 190 HOH HOH . H 6 HOH A 183 689 191 HOH HOH . H 6 HOH A 184 690 192 HOH HOH . H 6 HOH A 185 691 193 HOH HOH . H 6 HOH A 186 692 194 HOH HOH . H 6 HOH A 187 693 195 HOH HOH . H 6 HOH A 188 694 196 HOH HOH . H 6 HOH A 189 695 197 HOH HOH . H 6 HOH A 190 696 198 HOH HOH . H 6 HOH A 191 697 199 HOH HOH . H 6 HOH A 192 698 200 HOH HOH . H 6 HOH A 193 699 201 HOH HOH . H 6 HOH A 194 700 202 HOH HOH . H 6 HOH A 195 701 203 HOH HOH . H 6 HOH A 196 702 204 HOH HOH . H 6 HOH A 197 703 205 HOH HOH . H 6 HOH A 198 704 206 HOH HOH . H 6 HOH A 199 705 207 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 PB ADP . . . C 3 5.42 -41.217 -36.75 1 39.82 ? PB ADP 501 A 1 HETATM 2 O O1B ADP . . . C 3 4.94 -42.364 -37.624 1 37.51 ? O1B ADP 501 A 1 HETATM 3 O O2B ADP . . . C 3 4.535 -39.998 -36.55 1 38.87 ? O2B ADP 501 A 1 HETATM 4 O O3B ADP . . . C 3 6.883 -40.803 -37.199 1 37.72 ? O3B ADP 501 A 1 HETATM 5 P PA ADP . . . C 3 6.73 -41.812 -34.154 1 36.16 ? PA ADP 501 A 1 HETATM 6 O O1A ADP . . . C 3 8.006 -42.433 -34.599 1 34.89 ? O1A ADP 501 A 1 HETATM 7 O O2A ADP . . . C 3 6.016 -42.326 -32.919 1 39.66 ? O2A ADP 501 A 1 HETATM 8 O O3A ADP . . . C 3 5.592 -41.924 -35.295 1 39.56 ? O3A ADP 501 A 1 HETATM 9 O O5' ADP . . . C 3 7.001 -40.237 -34.01 1 39.36 ? O5' ADP 501 A 1 HETATM 10 C C5' ADP . . . C 3 5.979 -39.307 -33.728 1 38.45 ? C5' ADP 501 A 1 HETATM 11 C C4' ADP . . . C 3 6.673 -38.092 -33.144 1 40.03 ? C4' ADP 501 A 1 HETATM 12 O O4' ADP . . . C 3 5.846 -36.961 -33.409 1 40.53 ? O4' ADP 501 A 1 HETATM 13 C C3' ADP . . . C 3 6.771 -38.204 -31.629 1 40.33 ? C3' ADP 501 A 1 HETATM 14 O O3' ADP . . . C 3 7.818 -37.343 -31.15 1 38.61 ? O3' ADP 501 A 1 HETATM 15 C C2' ADP . . . C 3 5.415 -37.686 -31.181 1 40.54 ? C2' ADP 501 A 1 HETATM 16 O O2' ADP . . . C 3 5.393 -37.228 -29.822 1 39.54 ? O2' ADP 501 A 1 HETATM 17 C C1' ADP . . . C 3 5.215 -36.559 -32.187 1 41.68 ? C1' ADP 501 A 1 HETATM 18 N N9 ADP . . . C 3 3.801 -36.226 -32.44 1 41.94 ? N9 ADP 501 A 1 HETATM 19 C C8 ADP . . . C 3 2.913 -36.901 -33.2 1 41.81 ? C8 ADP 501 A 1 HETATM 20 N N7 ADP . . . C 3 1.739 -36.232 -33.157 1 41.61 ? N7 ADP 501 A 1 HETATM 21 C C5 ADP . . . C 3 1.92 -35.128 -32.387 1 42.7 ? C5 ADP 501 A 1 HETATM 22 C C6 ADP . . . C 3 1.105 -34.072 -31.98 1 42.28 ? C6 ADP 501 A 1 HETATM 23 N N6 ADP . . . C 3 -0.178 -34.002 -32.394 1 42.34 ? N6 ADP 501 A 1 HETATM 24 N N1 ADP . . . C 3 1.617 -33.11 -31.169 1 42.41 ? N1 ADP 501 A 1 HETATM 25 C C2 ADP . . . C 3 2.895 -33.146 -30.752 1 41.64 ? C2 ADP 501 A 1 HETATM 26 N N3 ADP . . . C 3 3.704 -34.152 -31.118 1 42.06 ? N3 ADP 501 A 1 HETATM 27 C C4 ADP . . . C 3 3.232 -35.14 -31.932 1 41.89 ? C4 ADP 501 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #