data_5JLH
#
_model_server_result.job_id            bDZ32XZ2hqukyLu00Oc96g 
_model_server_result.datetime_utc      '2024-10-18 15:32:36' 
_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          5jlh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":401}' 
#
_entry.id    5JLH 
#
_exptl.entry_id    5JLH 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    5 
_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            5JLH 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5JLH 
_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 
_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
? 4 L N N 
? 4 N N N 
? 4 P N N 
? 4 R N N 
? 4 T 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 L O1B ADP . A ADP 401 1_555 M MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc2 L O3B ADP . A ADP 401 1_555 M MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? 
metalc ? metalc3 N O1B ADP . B ADP 401 1_555 O MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc4 N O3B ADP . B ADP 401 1_555 O MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? 
metalc ? metalc5 P O1B ADP . C ADP 401 1_555 Q MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? 
metalc ? metalc6 P O3B ADP . C ADP 401 1_555 Q MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? 
metalc ? metalc7 R O1B ADP . D ADP 401 1_555 S MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? 
metalc ? metalc8 R O3B ADP . D ADP 401 1_555 S MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? 
metalc ? metalc9 T O1B ADP . E ADP 401 1_555 U MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? 
metalc ? metalc10 T O3B ADP . E ADP 401 1_555 U MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? 
#
_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                     5JLH 
_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 4 ADP A 1 401 377 ADP ADP . 
M 5 MG A 1 402 376 MG MG . 
N 4 ADP B 1 401 377 ADP ADP . 
O 5 MG B 1 402 376 MG MG . 
P 4 ADP C 1 401 377 ADP ADP . 
Q 5 MG C 1 402 376 MG MG . 
R 4 ADP D 1 401 377 ADP ADP . 
S 5 MG D 1 402 376 MG MG . 
T 4 ADP E 1 401 377 ADP ADP . 
U 5 MG E 1 402 376 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 . . . L 4 17.002 0.87 0.616 1 165.22 ? PB ADP 401 A 1 
HETATM 2 O O1B ADP . . . L 4 15.96 1.288 -0.397 1 202.8 ? O1B ADP 401 A 1 
HETATM 3 O O2B ADP . . . L 4 17.056 1.754 1.849 1 145.47 ? O2B ADP 401 A 1 
HETATM 4 O O3B ADP . . . L 4 18.289 0.459 -0.081 1 156.19 ? O3B ADP 401 A 1 
HETATM 5 P PA ADP . . . L 4 17.306 -1.408 2.144 1 124.1 ? PA ADP 401 A 1 
HETATM 6 O O1A ADP . . . L 4 18.189 -2.154 1.198 1 106.78 ? O1A ADP 401 A 1 
HETATM 7 O O2A ADP . . . L 4 17.868 -0.549 3.255 1 145.55 ? O2A ADP 401 A 1 
HETATM 8 O O3A ADP . . . L 4 16.395 -0.475 1.252 1 146.23 ? O3A ADP 401 A 1 
HETATM 9 O O5' ADP . . . L 4 16.18 -2.378 2.753 1 162.73 ? O5' ADP 401 A 1 
HETATM 10 C C5' ADP . . . L 4 16.243 -2.858 4.1 1 187.79 ? C5' ADP 401 A 1 
HETATM 11 C C4' ADP . . . L 4 14.983 -3.646 4.483 1 185.29 ? C4' ADP 401 A 1 
HETATM 12 O O4' ADP . . . L 4 14.995 -4.982 3.956 1 177.03 ? O4' ADP 401 A 1 
HETATM 13 C C3' ADP . . . L 4 14.839 -3.774 5.99 1 182.31 ? C3' ADP 401 A 1 
HETATM 14 O O3' ADP . . . L 4 14.037 -2.73 6.55 1 178.77 ? O3' ADP 401 A 1 
HETATM 15 C C2' ADP . . . L 4 14.252 -5.165 6.158 1 174.28 ? C2' ADP 401 A 1 
HETATM 16 O O2' ADP . . . L 4 12.838 -5.123 6.11 1 157.51 ? O2' ADP 401 A 1 
HETATM 17 C C1' ADP . . . L 4 14.707 -5.954 4.962 1 155.11 ? C1' ADP 401 A 1 
HETATM 18 N N9 ADP . . . L 4 15.937 -6.695 5.301 1 157.49 ? N9 ADP 401 A 1 
HETATM 19 C C8 ADP . . . L 4 17.131 -6.147 5.629 1 161.42 ? C8 ADP 401 A 1 
HETATM 20 N N7 ADP . . . L 4 18.05 -7.101 5.884 1 166.77 ? N7 ADP 401 A 1 
HETATM 21 C C5 ADP . . . L 4 17.452 -8.289 5.706 1 167.5 ? C5 ADP 401 A 1 
HETATM 22 C C6 ADP . . . L 4 17.882 -9.709 5.811 1 181.66 ? C6 ADP 401 A 1 
HETATM 23 N N6 ADP . . . L 4 19.142 -10.068 6.159 1 184.17 ? N6 ADP 401 A 1 
HETATM 24 N N1 ADP . . . L 4 16.959 -10.652 5.539 1 179.07 ? N1 ADP 401 A 1 
HETATM 25 C C2 ADP . . . L 4 15.709 -10.323 5.194 1 164.85 ? C2 ADP 401 A 1 
HETATM 26 N N3 ADP . . . L 4 15.222 -9.065 5.086 1 158.06 ? N3 ADP 401 A 1 
HETATM 27 C C4 ADP . . . L 4 16.048 -8.017 5.323 1 157.4 ? C4 ADP 401 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           24 
_model_server_stats.create_model_time_ms    32 
_model_server_stats.query_time_ms           302 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           27 
#