data_7Z8M
#
_model_server_result.job_id            p2OHv9vN0xdjHPvabaeaHQ 
_model_server_result.datetime_utc      '2024-11-09 02:50:00' 
_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          7z8m 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":800}' 
#
_entry.id    7Z8M 
#
_exptl.entry_id    7Z8M 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          12 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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            7Z8M 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7Z8M 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    nonameric 
_pdbx_struct_assembly.oligomeric_count      9 
_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,I,J,K,L,M,N,O,P,Q,R,S,T 
_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    ? 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 12 O N N 
? 12 Q N N 
? 12 S N 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 D SG CYS 30 Y CYS 30 1_555 J ZN ZN . Y ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? 
metalc ? metalc2 D SG CYS 33 Y CYS 33 1_555 J ZN ZN . Y ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
metalc ? metalc3 D SG CYS 51 Y CYS 51 1_555 K ZN ZN . Y ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? 
metalc ? metalc4 D SG CYS 54 Y CYS 54 1_555 K ZN ZN . Y ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc5 D SG CYS 70 Y CYS 70 1_555 K ZN ZN . Y ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? 
metalc ? metalc6 D SG CYS 73 Y CYS 73 1_555 K ZN ZN . Y ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc7 D SG CYS 76 Y CYS 76 1_555 L ZN ZN . Y ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? 
metalc ? metalc8 D SG CYS 79 Y CYS 79 1_555 L ZN ZN . Y ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? 
metalc ? metalc9 D SG CYS 111 Y CYS 111 1_555 L ZN ZN . Y ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? 
metalc ? metalc10 D SG CYS 114 Y CYS 114 1_555 L ZN ZN . Y ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? 
metalc ? metalc11 D SG CYS 284 Y CYS 284 1_555 J ZN ZN . Y ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? 
metalc ? metalc12 D SG CYS 287 Y CYS 287 1_555 J ZN ZN . Y ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? 
metalc ? metalc13 M O2G ATP . J ATP 800 1_555 N MG MG . J MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.983 ? 
metalc ? metalc14 O O3B ADP . G ADP 800 1_555 P MG MG . G MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.929 ? 
metalc ? metalc15 Q O1B ADP . H ADP 800 1_555 R MG MG . H MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? 
metalc ? metalc16 S O2B ADP . I ADP 800 1_555 T MG MG . I MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.795 ? 
metalc ? metalc17 S O3B ADP . I ADP 800 1_555 T MG MG . I MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
#
_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                     7Z8M 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
J 9 ZN Y 1 501 501 ZN ZN . 
K 9 ZN Y 1 502 502 ZN ZN . 
L 9 ZN Y 1 503 503 ZN ZN . 
M 10 ATP J 1 800 800 ATP ATP . 
N 11 MG J 1 801 801 MG MG . 
O 12 ADP G 1 800 800 ADP ADP . 
P 11 MG G 1 801 801 MG MG . 
Q 12 ADP H 1 800 800 ADP ADP . 
R 11 MG H 1 801 801 MG MG . 
S 12 ADP I 1 800 800 ADP ADP . 
T 11 MG I 1 801 801 MG MG . 
#
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 . . . Q 12 671.907 544.196 355.065 1 50.99 ? PB ADP 800 H 1 
HETATM 2 O O1B ADP . . . Q 12 670.49 544.42 354.6 1 50.95 ? O1B ADP 800 H 1 
HETATM 3 O O2B ADP . . . Q 12 672.891 545.261 354.652 1 46.91 ? O2B ADP 800 H 1 
HETATM 4 O O3B ADP . . . Q 12 672.029 543.771 356.506 1 49.67 ? O3B ADP 800 H 1 
HETATM 5 P PA ADP . . . Q 12 672.304 542.941 352.622 1 44.55 ? PA ADP 800 H 1 
HETATM 6 O O1A ADP . . . Q 12 671.084 542.182 352.169 1 48.07 ? O1A ADP 800 H 1 
HETATM 7 O O2A ADP . . . Q 12 672.546 544.358 352.175 1 45.14 ? O2A ADP 800 H 1 
HETATM 8 O O3A ADP . . . Q 12 672.368 542.912 354.225 1 46.61 ? O3A ADP 800 H 1 
HETATM 9 O O5' ADP . . . Q 12 673.615 542.089 352.269 1 43.13 ? O5' ADP 800 H 1 
HETATM 10 C C5' ADP . . . Q 12 674.668 542.685 351.522 1 44.94 ? C5' ADP 800 H 1 
HETATM 11 C C4' ADP . . . Q 12 675.809 541.689 351.397 1 42.67 ? C4' ADP 800 H 1 
HETATM 12 O O4' ADP . . . Q 12 675.382 540.565 350.629 1 43.97 ? O4' ADP 800 H 1 
HETATM 13 C C3' ADP . . . Q 12 677.006 542.3 350.697 1 42.13 ? C3' ADP 800 H 1 
HETATM 14 O O3' ADP . . . Q 12 678.094 542.461 351.607 1 45.75 ? O3' ADP 800 H 1 
HETATM 15 C C2' ADP . . . Q 12 677.373 541.333 349.596 1 43.86 ? C2' ADP 800 H 1 
HETATM 16 O O2' ADP . . . Q 12 678.698 540.848 349.789 1 48.72 ? O2' ADP 800 H 1 
HETATM 17 C C1' ADP . . . Q 12 676.381 540.188 349.684 1 43.59 ? C1' ADP 800 H 1 
HETATM 18 N N9 ADP . . . Q 12 675.763 539.931 348.363 1 43.29 ? N9 ADP 800 H 1 
HETATM 19 C C8 ADP . . . Q 12 674.856 540.717 347.755 1 45.31 ? C8 ADP 800 H 1 
HETATM 20 N N7 ADP . . . Q 12 674.499 540.194 346.557 1 45.07 ? N7 ADP 800 H 1 
HETATM 21 C C5 ADP . . . Q 12 675.184 539.052 346.39 1 43.44 ? C5 ADP 800 H 1 
HETATM 22 C C6 ADP . . . Q 12 675.274 538.008 345.348 1 45.32 ? C6 ADP 800 H 1 
HETATM 23 N N6 ADP . . . Q 12 674.538 538.088 344.214 1 44.45 ? N6 ADP 800 H 1 
HETATM 24 N N1 ADP . . . Q 12 676.115 536.978 345.568 1 45.07 ? N1 ADP 800 H 1 
HETATM 25 C C2 ADP . . . Q 12 676.854 536.883 346.687 1 42.77 ? C2 ADP 800 H 1 
HETATM 26 N N3 ADP . . . Q 12 676.817 537.797 347.67 1 41.39 ? N3 ADP 800 H 1 
HETATM 27 C C4 ADP . . . Q 12 676.017 538.883 347.583 1 41.13 ? C4 ADP 800 H 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    258 
_model_server_stats.query_time_ms           326 
_model_server_stats.encode_time_ms          48 
_model_server_stats.element_count           27 
#