data_8DAV
#
_model_server_result.job_id            8n_J88TBSRoeJYI1n4bodA 
_model_server_result.datetime_utc      '2024-12-27 00:27:19' 
_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          8dav 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"W","auth_seq_id":902}' 
#
_entry.id    8DAV 
#
_exptl.entry_id    8DAV 
_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    7 
_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            8DAV 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8DAV 
_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    undecameric 
_pdbx_struct_assembly.oligomeric_count      11 
_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 
_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 M N N 
? 6 O N N 
? 6 Q N N 
? 6 S N N 
? 6 T N N 
? 6 U N N 
? 6 W 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 I NZ LYS 48 I LYS 48 1_555 J C GLY 76 J GLY 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? 
covale ? covale2 J NZ LYS 48 J LYS 148 1_555 K C GLY 76 K GLY 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.372 ? 
metalc ? metalc1 G SG CYS 140 G CYS 137 1_555 X ZN ZN . G ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc2 G NE2 HIS 142 G HIS 139 1_555 X ZN ZN . G ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
metalc ? metalc3 G SG CYS 148 G CYS 145 1_555 X ZN ZN . G ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? 
metalc ? metalc4 G SG CYS 151 G CYS 148 1_555 X ZN ZN . G ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? 
metalc ? metalc5 G SG CYS 207 G CYS 204 1_555 Y ZN ZN . G ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? 
metalc ? metalc6 G NE2 HIS 211 G HIS 208 1_555 Y ZN ZN . G ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc7 G SG CYS 219 G CYS 216 1_555 Y ZN ZN . G ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc8 G SG CYS 222 G CYS 219 1_555 Y ZN ZN . G ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
#
_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                     8DAV 
_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
L 5 ATP A 1 901 901 ATP ATP . 
M 6 ADP A 1 902 902 ADP ADP . 
N 5 ATP B 1 901 901 ATP ATP . 
O 6 ADP B 1 902 902 ADP ADP . 
P 5 ATP C 1 901 901 ATP ATP . 
Q 6 ADP C 1 902 902 ADP ADP . 
R 5 ATP D 1 901 901 ATP ATP . 
S 6 ADP D 1 902 902 ADP ADP . 
T 6 ADP E 1 901 901 ADP ADP . 
U 6 ADP E 1 902 902 ADP ADP . 
V 5 ATP F 1 901 901 ATP ATP . 
W 6 ADP F 1 902 902 ADP ADP . 
X 7 ZN G 1 601 601 ZN ZN . 
Y 7 ZN G 1 602 602 ZN ZN . 
#
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 . . . W 6 212.985 216.619 153.392 1 138.35 ? PB ADP 902 F 1 
HETATM 2 O O1B ADP . . . W 6 212.578 215.989 152.084 1 138.35 ? O1B ADP 902 F 1 
HETATM 3 O O2B ADP . . . W 6 211.87 216.731 154.401 1 138.35 ? O2B ADP 902 F 1 
HETATM 4 O O3B ADP . . . W 6 214.283 216.096 153.958 1 138.35 ? O3B ADP 902 F 1 
HETATM 5 P PA ADP . . . W 6 213.501 219.272 154.116 1 138.35 ? PA ADP 902 F 1 
HETATM 6 O O1A ADP . . . W 6 214.956 219.294 154.518 1 138.35 ? O1A ADP 902 F 1 
HETATM 7 O O2A ADP . . . W 6 212.449 219.058 155.176 1 138.35 ? O2A ADP 902 F 1 
HETATM 8 O O3A ADP . . . W 6 213.332 218.137 152.988 1 138.35 ? O3A ADP 902 F 1 
HETATM 9 O O5' ADP . . . W 6 213.193 220.64 153.325 1 138.35 ? O5' ADP 902 F 1 
HETATM 10 C C5' ADP . . . W 6 211.953 220.886 152.664 1 138.35 ? C5' ADP 902 F 1 
HETATM 11 C C4' ADP . . . W 6 212.105 222.16 151.837 1 138.35 ? C4' ADP 902 F 1 
HETATM 12 O O4' ADP . . . W 6 211.992 221.884 150.439 1 138.35 ? O4' ADP 902 F 1 
HETATM 13 C C3' ADP . . . W 6 211.061 223.223 152.15 1 138.35 ? C3' ADP 902 F 1 
HETATM 14 O O3' ADP . . . W 6 211.621 224.251 152.972 1 138.35 ? O3' ADP 902 F 1 
HETATM 15 C C2' ADP . . . W 6 210.631 223.777 150.805 1 138.35 ? C2' ADP 902 F 1 
HETATM 16 O O2' ADP . . . W 6 210.836 225.191 150.731 1 138.35 ? O2' ADP 902 F 1 
HETATM 17 C C1' ADP . . . W 6 211.49 223.048 149.778 1 138.35 ? C1' ADP 902 F 1 
HETATM 18 N N9 ADP . . . W 6 210.744 222.683 148.544 1 138.35 ? N9 ADP 902 F 1 
HETATM 19 C C8 ADP . . . W 6 209.612 223.252 148.08 1 138.35 ? C8 ADP 902 F 1 
HETATM 20 N N7 ADP . . . W 6 209.222 222.671 146.916 1 138.35 ? N7 ADP 902 F 1 
HETATM 21 C C5 ADP . . . W 6 210.122 221.72 146.615 1 138.35 ? C5 ADP 902 F 1 
HETATM 22 C C6 ADP . . . W 6 210.311 220.737 145.526 1 138.35 ? C6 ADP 902 F 1 
HETATM 23 N N6 ADP . . . W 6 209.431 220.658 144.502 1 138.35 ? N6 ADP 902 F 1 
HETATM 24 N N1 ADP . . . W 6 211.388 219.925 145.591 1 138.35 ? N1 ADP 902 F 1 
HETATM 25 C C2 ADP . . . W 6 212.272 219.992 146.603 1 138.35 ? C2 ADP 902 F 1 
HETATM 26 N N3 ADP . . . W 6 212.156 220.863 147.622 1 138.35 ? N3 ADP 902 F 1 
HETATM 27 C C4 ADP . . . W 6 211.127 221.739 147.683 1 138.35 ? C4 ADP 902 F 1 
#
_model_server_stats.io_time_ms              105 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    64 
_model_server_stats.query_time_ms           320 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           27 
#