data_3NGU
#
_model_server_result.job_id            njlav_e3QWQxRNrB8UAg8w 
_model_server_result.datetime_utc      '2024-12-27 02:04:43' 
_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          3ngu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":152}' 
#
_entry.id    3NGU 
#
_exptl.entry_id    3NGU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_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         120 
_cell.entry_id            3NGU 
_cell.length_a            123.213 
_cell.length_b            123.213 
_cell.length_c            137.983 
_cell.Z_PDB               36 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3NGU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        155 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'H 3 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
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 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 
3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D 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                     3NGU 
_atom_sites.fract_transf_matrix[1][1]    0.008116 
_atom_sites.fract_transf_matrix[1][2]    0.004686 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009372 
_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]    0.007247 
_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
C 2 ADP A 1 152 1 ADP ADP . 
D 2 ADP B 1 152 2 ADP ADP . 
E 3 HOH A 1 153 1 HOH HOH . 
E 3 HOH A 2 154 2 HOH HOH . 
E 3 HOH A 3 155 3 HOH HOH . 
E 3 HOH A 4 156 4 HOH HOH . 
E 3 HOH A 5 157 5 HOH HOH . 
E 3 HOH A 6 158 8 HOH HOH . 
E 3 HOH A 7 159 9 HOH HOH . 
E 3 HOH A 8 160 10 HOH HOH . 
E 3 HOH A 9 161 11 HOH HOH . 
E 3 HOH A 10 162 12 HOH HOH . 
E 3 HOH A 11 163 13 HOH HOH . 
E 3 HOH A 12 164 15 HOH HOH . 
E 3 HOH A 13 165 16 HOH HOH . 
E 3 HOH A 14 166 17 HOH HOH . 
E 3 HOH A 15 167 18 HOH HOH . 
E 3 HOH A 16 168 20 HOH HOH . 
E 3 HOH A 17 169 24 HOH HOH . 
E 3 HOH A 18 170 27 HOH HOH . 
E 3 HOH A 19 171 33 HOH HOH . 
E 3 HOH A 20 172 34 HOH HOH . 
E 3 HOH A 21 173 38 HOH HOH . 
E 3 HOH A 22 174 43 HOH HOH . 
E 3 HOH A 23 175 46 HOH HOH . 
E 3 HOH A 24 176 91 HOH HOH . 
E 3 HOH A 25 177 93 HOH HOH . 
F 3 HOH B 1 153 6 HOH HOH . 
F 3 HOH B 2 154 28 HOH HOH . 
F 3 HOH B 3 155 29 HOH HOH . 
F 3 HOH B 4 156 30 HOH HOH . 
F 3 HOH B 5 157 31 HOH HOH . 
F 3 HOH B 6 158 47 HOH HOH . 
F 3 HOH B 7 159 49 HOH HOH . 
F 3 HOH B 8 160 61 HOH HOH . 
F 3 HOH B 9 161 64 HOH HOH . 
F 3 HOH B 10 162 68 HOH HOH . 
F 3 HOH B 11 163 69 HOH HOH . 
F 3 HOH B 12 164 72 HOH HOH . 
F 3 HOH B 13 165 73 HOH HOH . 
F 3 HOH B 14 166 95 HOH HOH . 
#
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 . . . D 2 -5.597 -17.597 -45.92 1 104.37 ? PB ADP 152 B 1 
HETATM 2 O O1B ADP . . . D 2 -7.135 -17.647 -46.024 1 104.59 ? O1B ADP 152 B 1 
HETATM 3 O O2B ADP . . . D 2 -4.979 -16.189 -46.125 1 105.84 ? O2B ADP 152 B 1 
HETATM 4 O O3B ADP . . . D 2 -5.055 -18.247 -44.634 1 96.53 ? O3B ADP 152 B 1 
HETATM 5 P PA ADP . . . D 2 -4.997 -19.884 -48.008 1 107.16 ? PA ADP 152 B 1 
HETATM 6 O O1A ADP . . . D 2 -3.686 -20.146 -48.775 1 105.16 ? O1A ADP 152 B 1 
HETATM 7 O O2A ADP . . . D 2 -6.226 -19.975 -48.94 1 109.3 ? O2A ADP 152 B 1 
HETATM 8 O O3A ADP . . . D 2 -5.078 -18.323 -47.355 1 106.41 ? O3A ADP 152 B 1 
HETATM 9 O O5' ADP . . . D 2 -5.006 -20.906 -46.676 1 99.11 ? O5' ADP 152 B 1 
HETATM 10 C C5' ADP . . . D 2 -3.84 -21.721 -46.422 1 93.3 ? C5' ADP 152 B 1 
HETATM 11 C C4' ADP . . . D 2 -3.06 -21.804 -45.081 1 90.52 ? C4' ADP 152 B 1 
HETATM 12 O O4' ADP . . . D 2 -2.059 -22.883 -45.232 1 91.08 ? O4' ADP 152 B 1 
HETATM 13 C C3' ADP . . . D 2 -2.238 -20.576 -44.623 1 85.29 ? C3' ADP 152 B 1 
HETATM 14 O O3' ADP . . . D 2 -3.026 -19.683 -43.786 1 83.63 ? O3' ADP 152 B 1 
HETATM 15 C C2' ADP . . . D 2 -0.854 -21.211 -44.179 1 86.1 ? C2' ADP 152 B 1 
HETATM 16 O O2' ADP . . . D 2 -0.578 -21.545 -42.774 1 78.79 ? O2' ADP 152 B 1 
HETATM 17 C C1' ADP . . . D 2 -0.682 -22.521 -45.047 1 86.72 ? C1' ADP 152 B 1 
HETATM 18 N N9 ADP . . . D 2 -0.111 -22.285 -46.419 1 86.25 ? N9 ADP 152 B 1 
HETATM 19 C C8 ADP . . . D 2 -0.784 -21.65 -47.422 1 83.91 ? C8 ADP 152 B 1 
HETATM 20 N N7 ADP . . . D 2 -0.063 -21.511 -48.556 1 87.22 ? N7 ADP 152 B 1 
HETATM 21 C C5 ADP . . . D 2 1.149 -22.098 -48.314 1 91.09 ? C5 ADP 152 B 1 
HETATM 22 C C6 ADP . . . D 2 2.417 -22.352 -49.13 1 95.22 ? C6 ADP 152 B 1 
HETATM 23 N N6 ADP . . . D 2 2.559 -21.906 -50.449 1 95.51 ? N6 ADP 152 B 1 
HETATM 24 N N1 ADP . . . D 2 3.437 -23.018 -48.446 1 97.86 ? N1 ADP 152 B 1 
HETATM 25 C C2 ADP . . . D 2 3.319 -23.437 -47.137 1 94.61 ? C2 ADP 152 B 1 
HETATM 26 N N3 ADP . . . D 2 2.201 -23.262 -46.385 1 92.24 ? N3 ADP 152 B 1 
HETATM 27 C C4 ADP . . . D 2 1.107 -22.612 -46.893 1 89.15 ? C4 ADP 152 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           230 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           27 
#