data_4XE8
#
_model_server_result.job_id            W6I3R6zFjKfclCgZmS-9xQ 
_model_server_result.datetime_utc      '2025-03-26 19:27:01' 
_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          4xe8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    4XE8 
#
_exptl.entry_id    4XE8 
_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            4XE8 
_cell.length_a            55.657 
_cell.length_b            73.032 
_cell.length_c            114.269 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4XE8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 2 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_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 
_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 
#
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 B MG MG . A MG 500 1_555 C O3B ADP . A ADP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc2 B MG MG . A MG 500 1_555 D O HOH . A HOH 622 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? 
metalc ? metalc3 B MG MG . A MG 500 1_555 D O HOH . A HOH 623 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? 
metalc ? metalc4 B MG MG . A MG 500 1_555 D O HOH . A HOH 647 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? 
metalc ? metalc5 B MG MG . A MG 500 1_555 D O HOH . A HOH 664 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
metalc ? metalc6 B MG MG . A MG 500 1_555 D O HOH . A HOH 717 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
#
_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 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     4XE8 
_atom_sites.fract_transf_matrix[1][1]    0.017967 
_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]    0.013693 
_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]    0.008751 
_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 MG A 1 500 500 MG MG . 
C 3 ADP A 1 501 501 ADP ADP . 
D 4 HOH A 1 601 113 HOH HOH . 
D 4 HOH A 2 602 39 HOH HOH . 
D 4 HOH A 3 603 42 HOH HOH . 
D 4 HOH A 4 604 55 HOH HOH . 
D 4 HOH A 5 605 21 HOH HOH . 
D 4 HOH A 6 606 83 HOH HOH . 
D 4 HOH A 7 607 95 HOH HOH . 
D 4 HOH A 8 608 77 HOH HOH . 
D 4 HOH A 9 609 50 HOH HOH . 
D 4 HOH A 10 610 19 HOH HOH . 
D 4 HOH A 11 611 49 HOH HOH . 
D 4 HOH A 12 612 118 HOH HOH . 
D 4 HOH A 13 613 108 HOH HOH . 
D 4 HOH A 14 614 25 HOH HOH . 
D 4 HOH A 15 615 64 HOH HOH . 
D 4 HOH A 16 616 52 HOH HOH . 
D 4 HOH A 17 617 88 HOH HOH . 
D 4 HOH A 18 618 76 HOH HOH . 
D 4 HOH A 19 619 58 HOH HOH . 
D 4 HOH A 20 620 72 HOH HOH . 
D 4 HOH A 21 621 1 HOH HOH . 
D 4 HOH A 22 622 2 HOH HOH . 
D 4 HOH A 23 623 3 HOH HOH . 
D 4 HOH A 24 624 4 HOH HOH . 
D 4 HOH A 25 625 5 HOH HOH . 
D 4 HOH A 26 626 6 HOH HOH . 
D 4 HOH A 27 627 7 HOH HOH . 
D 4 HOH A 28 628 8 HOH HOH . 
D 4 HOH A 29 629 9 HOH HOH . 
D 4 HOH A 30 630 10 HOH HOH . 
D 4 HOH A 31 631 11 HOH HOH . 
D 4 HOH A 32 632 12 HOH HOH . 
D 4 HOH A 33 633 13 HOH HOH . 
D 4 HOH A 34 634 14 HOH HOH . 
D 4 HOH A 35 635 15 HOH HOH . 
D 4 HOH A 36 636 16 HOH HOH . 
D 4 HOH A 37 637 17 HOH HOH . 
D 4 HOH A 38 638 18 HOH HOH . 
D 4 HOH A 39 639 20 HOH HOH . 
D 4 HOH A 40 640 22 HOH HOH . 
D 4 HOH A 41 641 23 HOH HOH . 
D 4 HOH A 42 642 24 HOH HOH . 
D 4 HOH A 43 643 26 HOH HOH . 
D 4 HOH A 44 644 27 HOH HOH . 
D 4 HOH A 45 645 28 HOH HOH . 
D 4 HOH A 46 646 29 HOH HOH . 
D 4 HOH A 47 647 30 HOH HOH . 
D 4 HOH A 48 648 31 HOH HOH . 
D 4 HOH A 49 649 32 HOH HOH . 
D 4 HOH A 50 650 33 HOH HOH . 
D 4 HOH A 51 651 34 HOH HOH . 
D 4 HOH A 52 652 35 HOH HOH . 
D 4 HOH A 53 653 36 HOH HOH . 
D 4 HOH A 54 654 37 HOH HOH . 
D 4 HOH A 55 655 38 HOH HOH . 
D 4 HOH A 56 656 40 HOH HOH . 
D 4 HOH A 57 657 41 HOH HOH . 
D 4 HOH A 58 658 43 HOH HOH . 
D 4 HOH A 59 659 44 HOH HOH . 
D 4 HOH A 60 660 45 HOH HOH . 
D 4 HOH A 61 661 46 HOH HOH . 
D 4 HOH A 62 662 47 HOH HOH . 
D 4 HOH A 63 663 48 HOH HOH . 
D 4 HOH A 64 664 51 HOH HOH . 
D 4 HOH A 65 665 53 HOH HOH . 
D 4 HOH A 66 666 54 HOH HOH . 
D 4 HOH A 67 667 56 HOH HOH . 
D 4 HOH A 68 668 57 HOH HOH . 
D 4 HOH A 69 669 59 HOH HOH . 
D 4 HOH A 70 670 60 HOH HOH . 
D 4 HOH A 71 671 61 HOH HOH . 
D 4 HOH A 72 672 62 HOH HOH . 
D 4 HOH A 73 673 63 HOH HOH . 
D 4 HOH A 74 674 65 HOH HOH . 
D 4 HOH A 75 675 66 HOH HOH . 
D 4 HOH A 76 676 67 HOH HOH . 
D 4 HOH A 77 677 68 HOH HOH . 
D 4 HOH A 78 678 69 HOH HOH . 
D 4 HOH A 79 679 70 HOH HOH . 
D 4 HOH A 80 680 71 HOH HOH . 
D 4 HOH A 81 681 73 HOH HOH . 
D 4 HOH A 82 682 74 HOH HOH . 
D 4 HOH A 83 683 75 HOH HOH . 
D 4 HOH A 84 684 78 HOH HOH . 
D 4 HOH A 85 685 79 HOH HOH . 
D 4 HOH A 86 686 80 HOH HOH . 
D 4 HOH A 87 687 81 HOH HOH . 
D 4 HOH A 88 688 82 HOH HOH . 
D 4 HOH A 89 689 84 HOH HOH . 
D 4 HOH A 90 690 85 HOH HOH . 
D 4 HOH A 91 691 86 HOH HOH . 
D 4 HOH A 92 692 87 HOH HOH . 
D 4 HOH A 93 693 89 HOH HOH . 
D 4 HOH A 94 694 90 HOH HOH . 
D 4 HOH A 95 695 91 HOH HOH . 
D 4 HOH A 96 696 92 HOH HOH . 
D 4 HOH A 97 697 93 HOH HOH . 
D 4 HOH A 98 698 94 HOH HOH . 
D 4 HOH A 99 699 96 HOH HOH . 
D 4 HOH A 100 700 97 HOH HOH . 
D 4 HOH A 101 701 98 HOH HOH . 
D 4 HOH A 102 702 99 HOH HOH . 
D 4 HOH A 103 703 100 HOH HOH . 
D 4 HOH A 104 704 101 HOH HOH . 
D 4 HOH A 105 705 102 HOH HOH . 
D 4 HOH A 106 706 103 HOH HOH . 
D 4 HOH A 107 707 104 HOH HOH . 
D 4 HOH A 108 708 105 HOH HOH . 
D 4 HOH A 109 709 106 HOH HOH . 
D 4 HOH A 110 710 107 HOH HOH . 
D 4 HOH A 111 711 109 HOH HOH . 
D 4 HOH A 112 712 110 HOH HOH . 
D 4 HOH A 113 713 111 HOH HOH . 
D 4 HOH A 114 714 112 HOH HOH . 
D 4 HOH A 115 715 114 HOH HOH . 
D 4 HOH A 116 716 115 HOH HOH . 
D 4 HOH A 117 717 116 HOH HOH . 
D 4 HOH A 118 718 117 HOH HOH . 
D 4 HOH A 119 719 119 HOH HOH . 
D 4 HOH A 120 720 120 HOH HOH . 
D 4 HOH A 121 721 121 HOH HOH . 
D 4 HOH A 122 722 122 HOH HOH . 
D 4 HOH A 123 723 123 HOH HOH . 
D 4 HOH A 124 724 124 HOH HOH . 
D 4 HOH A 125 725 125 HOH HOH . 
D 4 HOH A 126 726 126 HOH HOH . 
D 4 HOH A 127 727 127 HOH HOH . 
D 4 HOH A 128 728 128 HOH HOH . 
D 4 HOH A 129 729 129 HOH HOH . 
D 4 HOH A 130 730 130 HOH HOH . 
D 4 HOH A 131 731 131 HOH HOH . 
D 4 HOH A 132 732 132 HOH HOH . 
D 4 HOH A 133 733 133 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 -48.746 -59.074 122.062 1 25.85 ? PB ADP 501 A 1 
HETATM 2 O O1B ADP . . . C 3 -47.46 -58.805 121.32 1 30.23 ? O1B ADP 501 A 1 
HETATM 3 O O2B ADP . . . C 3 -48.999 -60.535 122.373 1 20.72 ? O2B ADP 501 A 1 
HETATM 4 O O3B ADP . . . C 3 -49.003 -58.156 123.232 1 12.4 ? O3B ADP 501 A 1 
HETATM 5 P PA ADP . . . C 3 -50.686 -57.298 121.01 1 18.9 ? PA ADP 501 A 1 
HETATM 6 O O1A ADP . . . C 3 -49.741 -56.131 120.849 1 19.63 ? O1A ADP 501 A 1 
HETATM 7 O O2A ADP . . . C 3 -51.638 -57.313 122.184 1 21.54 ? O2A ADP 501 A 1 
HETATM 8 O O3A ADP . . . C 3 -49.889 -58.7 120.992 1 26.88 ? O3A ADP 501 A 1 
HETATM 9 O O5' ADP . . . C 3 -51.545 -57.421 119.654 1 25.77 ? O5' ADP 501 A 1 
HETATM 10 C C5' ADP . . . C 3 -52.705 -58.246 119.591 1 26.28 ? C5' ADP 501 A 1 
HETATM 11 C C4' ADP . . . C 3 -53.232 -58.221 118.163 1 24.55 ? C4' ADP 501 A 1 
HETATM 12 O O4' ADP . . . C 3 -53.941 -57.003 117.926 1 24.41 ? O4' ADP 501 A 1 
HETATM 13 C C3' ADP . . . C 3 -52.1 -58.28 117.151 1 23.22 ? C3' ADP 501 A 1 
HETATM 14 O O3' ADP . . . C 3 -52.408 -59.289 116.187 1 19.45 ? O3' ADP 501 A 1 
HETATM 15 C C2' ADP . . . C 3 -52.097 -56.927 116.469 1 24.12 ? C2' ADP 501 A 1 
HETATM 16 O O2' ADP . . . C 3 -51.793 -57.05 115.078 1 26.75 ? O2' ADP 501 A 1 
HETATM 17 C C1' ADP . . . C 3 -53.515 -56.431 116.69 1 20.92 ? C1' ADP 501 A 1 
HETATM 18 N N9 ADP . . . C 3 -53.598 -54.951 116.737 1 20.86 ? N9 ADP 501 A 1 
HETATM 19 C C8 ADP . . . C 3 -52.813 -54.11 117.438 1 19.46 ? C8 ADP 501 A 1 
HETATM 20 N N7 ADP . . . C 3 -53.183 -52.816 117.234 1 18.57 ? N7 ADP 501 A 1 
HETATM 21 C C5 ADP . . . C 3 -54.227 -52.824 116.382 1 21.51 ? C5 ADP 501 A 1 
HETATM 22 C C6 ADP . . . C 3 -55.103 -51.814 115.744 1 21.3 ? C6 ADP 501 A 1 
HETATM 23 N N6 ADP . . . C 3 -54.941 -50.489 115.976 1 23.81 ? N6 ADP 501 A 1 
HETATM 24 N N1 ADP . . . C 3 -56.076 -52.259 114.919 1 23.06 ? N1 ADP 501 A 1 
HETATM 25 C C2 ADP . . . C 3 -56.259 -53.568 114.67 1 19.59 ? C2 ADP 501 A 1 
HETATM 26 N N3 ADP . . . C 3 -55.503 -54.538 115.21 1 16.44 ? N3 ADP 501 A 1 
HETATM 27 C C4 ADP . . . C 3 -54.491 -54.233 116.056 1 23.35 ? C4 ADP 501 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           23 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           313 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           27 
#