data_9IF4
#
_model_server_result.job_id            dziuOueSuphEdvRLtGEe6g 
_model_server_result.datetime_utc      '2025-09-04 08:06:02' 
_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          9if4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"DA","auth_seq_id":902}' 
#
_entry.id    9IF4 
#
_exptl.entry_id    9IF4 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    4 
_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            9IF4 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9IF4 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    28-meric 
_pdbx_struct_assembly.oligomeric_count      28 
_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,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA 
_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
? 6 CA N N 
? 6 DA N N 
? 6 MA N N 
? 6 NA 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
covale ? covale1 U C7 S0R 1 U S0R 1 1_555 U N LEU 2 U LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? 
covale ? covale2 V C7 S0R 1 V S0R 1 1_555 V N LEU 2 V LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale3 W C7 S0R 1 W S0R 1 1_555 W N LEU 2 W LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale4 X C7 S0R 1 Y S0R 1 1_555 X N LEU 2 Y LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale5 Y C7 S0R 1 Z S0R 1 1_555 Y N LEU 2 Z LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale6 Z C7 S0R 1 a S0R 1 1_555 Z N LEU 2 a LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale7 AA C7 S0R 1 b S0R 1 1_555 AA N LEU 2 b LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
#
_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                     9IF4 
_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
CA 6 ADP A 1 901 1000 ADP ADP . 
DA 6 ADP A 1 902 1001 ADP ADP . 
EA 7 ATP B 1 901 1000 ATP ATP . 
FA 7 ATP B 1 902 1001 ATP ATP . 
GA 7 ATP C 1 901 1000 ATP ATP . 
HA 7 ATP C 1 902 1001 ATP ATP . 
IA 7 ATP D 1 901 1000 ATP ATP . 
JA 7 ATP D 1 902 1001 ATP ATP . 
KA 7 ATP E 1 901 1000 ATP ATP . 
LA 7 ATP E 1 902 1001 ATP ATP . 
MA 6 ADP F 1 1000 1000 ADP ADP . 
NA 6 ADP F 1 1001 1001 ADP ADP . 
#
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 . . . DA 6 118.931 140.609 141.104 1 132.19 ? PB ADP 902 A 1 
HETATM 2 O O1B ADP . . . DA 6 119.557 139.339 141.624 1 121.03 ? O1B ADP 902 A 1 
HETATM 3 O O2B ADP . . . DA 6 117.642 140.873 141.843 1 134.76 ? O2B ADP 902 A 1 
HETATM 4 O O3B ADP . . . DA 6 119.878 141.764 141.311 1 119.54 ? O3B ADP 902 A 1 
HETATM 5 P PA ADP . . . DA 6 117.898 139.092 138.875 1 140.87 ? PA ADP 902 A 1 
HETATM 6 O O1A ADP . . . DA 6 118.845 138.408 137.919 1 135.21 ? O1A ADP 902 A 1 
HETATM 7 O O2A ADP . . . DA 6 117.581 138.149 140.007 1 138.27 ? O2A ADP 902 A 1 
HETATM 8 O O3A ADP . . . DA 6 118.603 140.442 139.499 1 134.83 ? O3A ADP 902 A 1 
HETATM 9 O O5' ADP . . . DA 6 116.502 139.502 138.1 1 130.68 ? O5' ADP 902 A 1 
HETATM 10 C C5' ADP . . . DA 6 115.821 138.506 137.395 1 126.63 ? C5' ADP 902 A 1 
HETATM 11 C C4' ADP . . . DA 6 116.036 138.722 135.911 1 123.92 ? C4' ADP 902 A 1 
HETATM 12 O O4' ADP . . . DA 6 117.604 138.536 135.573 1 127.77 ? O4' ADP 902 A 1 
HETATM 13 C C3' ADP . . . DA 6 115.365 137.841 135.222 1 123.65 ? C3' ADP 902 A 1 
HETATM 14 O O3' ADP . . . DA 6 114.179 138.5 134.597 1 120.84 ? O3' ADP 902 A 1 
HETATM 15 C C2' ADP . . . DA 6 116.308 137.326 134.119 1 124.24 ? C2' ADP 902 A 1 
HETATM 16 O O2' ADP . . . DA 6 115.9 137.801 132.916 1 123.88 ? O2' ADP 902 A 1 
HETATM 17 C C1' ADP . . . DA 6 117.711 137.875 134.453 1 125.42 ? C1' ADP 902 A 1 
HETATM 18 N N9 ADP . . . DA 6 118.663 136.764 134.62 1 126.16 ? N9 ADP 902 A 1 
HETATM 19 C C8 ADP . . . DA 6 118.382 136.252 135.81 1 129.69 ? C8 ADP 902 A 1 
HETATM 20 N N7 ADP . . . DA 6 119.246 135.242 135.96 1 132.91 ? N7 ADP 902 A 1 
HETATM 21 C C5 ADP . . . DA 6 120.028 135.173 134.864 1 131.85 ? C5 ADP 902 A 1 
HETATM 22 C C6 ADP . . . DA 6 121.058 134.328 134.523 1 132.66 ? C6 ADP 902 A 1 
HETATM 23 N N6 ADP . . . DA 6 121.468 133.272 135.43 1 127.42 ? N6 ADP 902 A 1 
HETATM 24 N N1 ADP . . . DA 6 121.675 134.476 133.363 1 134.89 ? N1 ADP 902 A 1 
HETATM 25 C C2 ADP . . . DA 6 121.298 135.457 132.508 1 130.81 ? C2 ADP 902 A 1 
HETATM 26 N N3 ADP . . . DA 6 120.287 136.291 132.836 1 125.05 ? N3 ADP 902 A 1 
HETATM 27 C C4 ADP . . . DA 6 119.663 136.137 134.014 1 126.56 ? C4 ADP 902 A 1 
HETATM 28 H "H5'1" ADP . . . DA 6 114.761 138.561 137.621 1 125.48 ? "H5'1" ADP 902 A 1 
HETATM 29 H "H5'2" ADP . . . DA 6 116.204 137.534 137.685 1 127.72 ? "H5'2" ADP 902 A 1 
HETATM 30 H H4' ADP . . . DA 6 115.717 139.72 135.63 1 122.73 ? H4' ADP 902 A 1 
HETATM 31 H H3' ADP . . . DA 6 115.053 137.021 135.858 1 124.86 ? H3' ADP 902 A 1 
HETATM 32 H HO3' ADP . . . DA 6 114.454 138.99 133.839 1 120.42 ? HO3' ADP 902 A 1 
HETATM 33 H H2' ADP . . . DA 6 116.314 136.243 134.11 1 125 ? H2' ADP 902 A 1 
HETATM 34 H HO2' ADP . . . DA 6 115.061 137.423 132.698 1 122.73 ? HO2' ADP 902 A 1 
HETATM 35 H H1' ADP . . . DA 6 118.047 138.538 133.662 1 124.09 ? H1' ADP 902 A 1 
HETATM 36 H H8 ADP . . . DA 6 117.617 136.569 136.507 1 128.82 ? H8 ADP 902 A 1 
HETATM 37 H HN61 ADP . . . DA 6 122.209 132.647 135.171 1 128.31 ? HN61 ADP 902 A 1 
HETATM 38 H HN62 ADP . . . DA 6 121.01 133.167 136.315 1 128.01 ? HN62 ADP 902 A 1 
HETATM 39 H H2 ADP . . . DA 6 121.808 135.572 131.56 1 128.76 ? H2 ADP 902 A 1 
#
_model_server_stats.io_time_ms              84 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    79 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           39 
#