data_3R9J
#
_model_server_result.job_id            dhkRksK5f9sWlWvTbpOJ9Q 
_model_server_result.datetime_utc      '2025-03-05 21:07:01' 
_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          3r9j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":261}' 
#
_entry.id    3R9J 
#
_exptl.entry_id    3R9J 
_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    2 
_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            3R9J 
_cell.length_a            94.393 
_cell.length_b            94.393 
_cell.length_c            284.979 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3R9J 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? hexameric 6 author_defined_assembly 1 
PISA tetrameric 4 author_and_software_defined_assembly 2 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F 1 1 
A,B,C,D,E,F 1 2 
D 2 3 
A,B,C,E,F 2 2 
A,B,E,F 3 2 
C,D 4 2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'crystal symmetry operation' 3_544 -y+1/2,x-1/2,z-1/4 0 -1 0 1 0 0 0 0 1 47.1965 -47.1965 -71.24475 
2 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
3 'crystal symmetry operation' 4_555 y+1/2,-x+1/2,z+1/4 0 1 0 -1 0 0 0 0 1 47.1965 47.1965 71.24475 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 E N N 
? 3 F N N 
#
_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                     3R9J 
_atom_sites.fract_transf_matrix[1][1]    0.010594 
_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]    0.010594 
_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]    0.003509 
_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
E 3 ADP A 1 261 1 ADP ADP . 
F 3 ADP B 1 261 2 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 . . . F 3 24.396 13.229 30.972 1 135 ? PB ADP 261 B 1 
HETATM 2 O O1B ADP . . . F 3 24.957 14.118 32.068 1 135 ? O1B ADP 261 B 1 
HETATM 3 O O2B ADP . . . F 3 25.161 13.565 29.698 1 135 ? O2B ADP 261 B 1 
HETATM 4 O O3B ADP . . . F 3 24.488 11.734 31.376 1 135 ? O3B ADP 261 B 1 
HETATM 5 P PA ADP . . . F 3 22.036 13.653 29.532 1 135 ? PA ADP 261 B 1 
HETATM 6 O O1A ADP . . . F 3 21.995 12.3 28.84 1 135 ? O1A ADP 261 B 1 
HETATM 7 O O2A ADP . . . F 3 22.454 14.815 28.634 1 135 ? O2A ADP 261 B 1 
HETATM 8 O O3A ADP . . . F 3 22.895 13.525 30.83 1 135 ? O3A ADP 261 B 1 
HETATM 9 O O5' ADP . . . F 3 20.571 13.979 30.037 1 135 ? O5' ADP 261 B 1 
HETATM 10 C C5' ADP . . . F 3 20.165 13.254 31.213 1 135 ? C5' ADP 261 B 1 
HETATM 11 C C4' ADP . . . F 3 18.656 13.113 31.205 1 135 ? C4' ADP 261 B 1 
HETATM 12 O O4' ADP . . . F 3 18.031 14.324 31.601 1 135 ? O4' ADP 261 B 1 
HETATM 13 C C3' ADP . . . F 3 18.091 12.731 29.852 1 135 ? C3' ADP 261 B 1 
HETATM 14 O O3' ADP . . . F 3 17.172 11.655 30.087 1 135 ? O3' ADP 261 B 1 
HETATM 15 C C2' ADP . . . F 3 17.515 14.041 29.305 1 135 ? C2' ADP 261 B 1 
HETATM 16 O O2' ADP . . . F 3 16.298 13.818 28.6 1 135 ? O2' ADP 261 B 1 
HETATM 17 C C1' ADP . . . F 3 17.151 14.779 30.563 1 135 ? C1' ADP 261 B 1 
HETATM 18 N N9 ADP . . . F 3 17.325 16.208 30.478 1 135 ? N9 ADP 261 B 1 
HETATM 19 C C8 ADP . . . F 3 18.487 16.911 30.283 1 135 ? C8 ADP 261 B 1 
HETATM 20 N N7 ADP . . . F 3 18.257 18.233 30.285 1 135 ? N7 ADP 261 B 1 
HETATM 21 C C5 ADP . . . F 3 16.902 18.386 30.478 1 135 ? C5 ADP 261 B 1 
HETATM 22 C C6 ADP . . . F 3 16.025 19.515 30.567 1 135 ? C6 ADP 261 B 1 
HETATM 23 N N6 ADP . . . F 3 16.441 20.805 30.461 1 135 ? N6 ADP 261 B 1 
HETATM 24 N N1 ADP . . . F 3 14.698 19.299 30.762 1 135 ? N1 ADP 261 B 1 
HETATM 25 C C2 ADP . . . F 3 14.242 18.022 30.86 1 135 ? C2 ADP 261 B 1 
HETATM 26 N N3 ADP . . . F 3 14.987 16.88 30.802 1 135 ? N3 ADP 261 B 1 
HETATM 27 C C4 ADP . . . F 3 16.31 17.119 30.601 1 135 ? C4 ADP 261 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
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