data_4UKD
#
_model_server_result.job_id            nyPWujormekx_YCMDlCEOg 
_model_server_result.datetime_utc      '2024-10-16 10:40:19' 
_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          4ukd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":195}' 
#
_entry.id    4UKD 
#
_exptl.entry_id    4UKD 
_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            4UKD 
_cell.length_a            78.1 
_cell.length_b            78.1 
_cell.length_c            101.9 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4UKD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_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 
_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
covale ? covale1 C O3B ADP . A ADP 195 1_555 E F2 BF2 . A BF2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? 
metalc ? metalc1 C O2B ADP . A ADP 195 1_555 B MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? 
metalc ? metalc2 C O3B ADP . A ADP 195 1_555 E BE BF2 . A BF2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.55 ? 
metalc ? metalc3 D O3B UDP . A UDP 196 1_555 E BE BF2 . A BF2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.579 ? 
metalc ? metalc4 F O HOH . A HOH 198 1_555 B MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? 
metalc ? metalc5 F O HOH . A HOH 215 1_555 B MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? 
metalc ? metalc6 F O HOH . A HOH 220 1_555 B MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? 
metalc ? metalc7 B MG MG . A MG 500 1_555 E F2 BF2 . A BF2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? 
metalc ? metalc8 B MG MG . A MG 500 1_555 F O HOH . A HOH 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? 
#
_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                     4UKD 
_atom_sites.fract_transf_matrix[1][1]    0.012804 
_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]    0.012804 
_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]    0.009814 
_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 1 195 195 ADP ADP . 
D 4 UDP A 1 196 196 UDP UDP . 
E 5 BF2 A 1 501 501 BF2 BF2 . 
F 6 HOH A 1 198 198 HOH HOH . 
F 6 HOH A 2 199 199 HOH HOH . 
F 6 HOH A 3 200 200 HOH HOH . 
F 6 HOH A 4 201 201 HOH HOH . 
F 6 HOH A 5 202 202 HOH HOH . 
F 6 HOH A 6 204 204 HOH HOH . 
F 6 HOH A 7 206 206 HOH HOH . 
F 6 HOH A 8 207 207 HOH HOH . 
F 6 HOH A 9 208 208 HOH HOH . 
F 6 HOH A 10 210 210 HOH HOH . 
F 6 HOH A 11 211 211 HOH HOH . 
F 6 HOH A 12 212 212 HOH HOH . 
F 6 HOH A 13 214 214 HOH HOH . 
F 6 HOH A 14 215 215 HOH HOH . 
F 6 HOH A 15 216 216 HOH HOH . 
F 6 HOH A 16 218 218 HOH HOH . 
F 6 HOH A 17 220 220 HOH HOH . 
F 6 HOH A 18 221 221 HOH HOH . 
F 6 HOH A 19 222 222 HOH HOH . 
F 6 HOH A 20 223 223 HOH HOH . 
F 6 HOH A 21 226 226 HOH HOH . 
F 6 HOH A 22 227 227 HOH HOH . 
F 6 HOH A 23 229 229 HOH HOH . 
F 6 HOH A 24 231 231 HOH HOH . 
F 6 HOH A 25 232 232 HOH HOH . 
F 6 HOH A 26 236 236 HOH HOH . 
F 6 HOH A 27 238 238 HOH HOH . 
F 6 HOH A 28 239 239 HOH HOH . 
F 6 HOH A 29 242 242 HOH HOH . 
F 6 HOH A 30 244 244 HOH HOH . 
F 6 HOH A 31 245 245 HOH HOH . 
F 6 HOH A 32 509 509 HOH HOH . 
F 6 HOH A 33 512 512 HOH HOH . 
F 6 HOH A 34 528 528 HOH HOH . 
F 6 HOH A 35 531 531 HOH HOH . 
F 6 HOH A 36 532 532 HOH HOH . 
F 6 HOH A 37 533 533 HOH HOH . 
F 6 HOH A 38 536 536 HOH HOH . 
F 6 HOH A 39 538 538 HOH HOH . 
F 6 HOH A 40 543 543 HOH HOH . 
F 6 HOH A 41 553 553 HOH HOH . 
F 6 HOH A 42 558 558 HOH HOH . 
F 6 HOH A 43 559 559 HOH HOH . 
F 6 HOH A 44 562 562 HOH HOH . 
F 6 HOH A 45 564 564 HOH HOH . 
F 6 HOH A 46 565 565 HOH HOH . 
F 6 HOH A 47 568 568 HOH HOH . 
F 6 HOH A 48 577 577 HOH HOH . 
F 6 HOH A 49 580 580 HOH HOH . 
F 6 HOH A 50 582 582 HOH HOH . 
F 6 HOH A 51 591 591 HOH HOH . 
F 6 HOH A 52 592 592 HOH HOH . 
F 6 HOH A 53 597 597 HOH HOH . 
F 6 HOH A 54 601 601 HOH HOH . 
F 6 HOH A 55 605 605 HOH HOH . 
F 6 HOH A 56 608 608 HOH HOH . 
F 6 HOH A 57 640 640 HOH HOH . 
F 6 HOH A 58 646 646 HOH HOH . 
F 6 HOH A 59 650 650 HOH HOH . 
F 6 HOH A 60 664 664 HOH HOH . 
F 6 HOH A 61 670 670 HOH HOH . 
F 6 HOH A 62 712 712 HOH HOH . 
F 6 HOH A 63 717 717 HOH HOH . 
F 6 HOH A 64 727 727 HOH HOH . 
F 6 HOH A 65 732 732 HOH HOH . 
F 6 HOH A 66 737 737 HOH HOH . 
F 6 HOH A 67 739 739 HOH HOH . 
F 6 HOH A 68 741 741 HOH HOH . 
F 6 HOH A 69 744 744 HOH HOH . 
F 6 HOH A 70 750 750 HOH HOH . 
F 6 HOH A 71 752 752 HOH HOH . 
F 6 HOH A 72 753 753 HOH HOH . 
F 6 HOH A 73 774 774 HOH HOH . 
F 6 HOH A 74 778 778 HOH HOH . 
F 6 HOH A 75 786 786 HOH HOH . 
F 6 HOH A 76 793 793 HOH HOH . 
F 6 HOH A 77 797 797 HOH HOH . 
F 6 HOH A 78 807 807 HOH HOH . 
F 6 HOH A 79 810 810 HOH HOH . 
F 6 HOH A 80 814 814 HOH HOH . 
F 6 HOH A 81 818 818 HOH HOH . 
F 6 HOH A 82 819 819 HOH HOH . 
F 6 HOH A 83 826 826 HOH HOH . 
F 6 HOH A 84 828 828 HOH HOH . 
F 6 HOH A 85 829 829 HOH HOH . 
F 6 HOH A 86 833 833 HOH HOH . 
F 6 HOH A 87 838 838 HOH HOH . 
F 6 HOH A 88 839 839 HOH HOH . 
F 6 HOH A 89 843 843 HOH HOH . 
F 6 HOH A 90 844 844 HOH HOH . 
F 6 HOH A 91 848 848 HOH HOH . 
F 6 HOH A 92 849 849 HOH HOH . 
F 6 HOH A 93 853 853 HOH HOH . 
F 6 HOH A 94 857 857 HOH HOH . 
F 6 HOH A 95 858 858 HOH HOH . 
F 6 HOH A 96 861 861 HOH HOH . 
F 6 HOH A 97 864 864 HOH HOH . 
F 6 HOH A 98 865 865 HOH HOH . 
F 6 HOH A 99 871 871 HOH HOH . 
F 6 HOH A 100 877 877 HOH HOH . 
F 6 HOH A 101 880 880 HOH HOH . 
F 6 HOH A 102 881 881 HOH HOH . 
F 6 HOH A 103 900 900 HOH HOH . 
F 6 HOH A 104 901 901 HOH HOH . 
F 6 HOH A 105 902 902 HOH HOH . 
F 6 HOH A 106 903 903 HOH HOH . 
F 6 HOH A 107 904 904 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 38.258 65.957 -11.503 1 17.97 ? PB ADP 195 A 1 
HETATM 2 O O1B ADP . . . C 3 38.553 65.029 -12.556 1 19.17 ? O1B ADP 195 A 1 
HETATM 3 O O2B ADP . . . C 3 39.377 66.635 -10.896 1 18.76 ? O2B ADP 195 A 1 
HETATM 4 O O3B ADP . . . C 3 37.268 67.005 -11.987 1 17.06 ? O3B ADP 195 A 1 
HETATM 5 P PA ADP . . . C 3 37.329 65.153 -8.856 1 18.8 ? PA ADP 195 A 1 
HETATM 6 O O1A ADP . . . C 3 38.508 64.55 -8.3 1 19.91 ? O1A ADP 195 A 1 
HETATM 7 O O2A ADP . . . C 3 37.037 66.474 -8.432 1 17.27 ? O2A ADP 195 A 1 
HETATM 8 O O3A ADP . . . C 3 37.502 65.154 -10.396 1 19.24 ? O3A ADP 195 A 1 
HETATM 9 O O5' ADP . . . C 3 36.098 64.169 -8.665 1 19.68 ? O5' ADP 195 A 1 
HETATM 10 C C5' ADP . . . C 3 34.769 64.432 -9.18 1 19.52 ? C5' ADP 195 A 1 
HETATM 11 C C4' ADP . . . C 3 33.706 63.954 -8.189 1 20.4 ? C4' ADP 195 A 1 
HETATM 12 O O4' ADP . . . C 3 33.75 62.536 -8.21 1 20.5 ? O4' ADP 195 A 1 
HETATM 13 C C3' ADP . . . C 3 33.926 64.4 -6.766 1 21.23 ? C3' ADP 195 A 1 
HETATM 14 O O3' ADP . . . C 3 32.707 64.564 -6.11 1 24.94 ? O3' ADP 195 A 1 
HETATM 15 C C2' ADP . . . C 3 34.654 63.21 -6.23 1 21.75 ? C2' ADP 195 A 1 
HETATM 16 O O2' ADP . . . C 3 34.509 63.121 -4.869 1 21.09 ? O2' ADP 195 A 1 
HETATM 17 C C1' ADP . . . C 3 34.031 62.016 -6.934 1 19.8 ? C1' ADP 195 A 1 
HETATM 18 N N9 ADP . . . C 3 34.968 60.885 -7.073 1 19.19 ? N9 ADP 195 A 1 
HETATM 19 C C8 ADP . . . C 3 36.315 60.912 -7.374 1 19.83 ? C8 ADP 195 A 1 
HETATM 20 N N7 ADP . . . C 3 36.829 59.759 -7.652 1 20.66 ? N7 ADP 195 A 1 
HETATM 21 C C5 ADP . . . C 3 35.779 58.899 -7.49 1 20.21 ? C5 ADP 195 A 1 
HETATM 22 C C6 ADP . . . C 3 35.725 57.504 -7.588 1 20.39 ? C6 ADP 195 A 1 
HETATM 23 N N6 ADP . . . C 3 36.801 56.745 -7.857 1 21.98 ? N6 ADP 195 A 1 
HETATM 24 N N1 ADP . . . C 3 34.528 56.912 -7.413 1 22.19 ? N1 ADP 195 A 1 
HETATM 25 C C2 ADP . . . C 3 33.481 57.7 -7.119 1 20.81 ? C2 ADP 195 A 1 
HETATM 26 N N3 ADP . . . C 3 33.45 59.011 -6.874 1 21.14 ? N3 ADP 195 A 1 
HETATM 27 C C4 ADP . . . C 3 34.651 59.565 -7.117 1 20.32 ? C4 ADP 195 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#