data_4AX8
#
_model_server_result.job_id            ezWKnuhKGLlXXvyju9CDIA 
_model_server_result.datetime_utc      '2025-06-24 08:35:51' 
_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          4ax8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":1477}' 
#
_entry.id    4AX8 
#
_exptl.entry_id    4AX8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_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    1 
_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            4AX8 
_cell.length_a            167.34 
_cell.length_b            167.34 
_cell.length_c            167.34 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4AX8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        197 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 2 3' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               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 
#
_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    x,y,z 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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                     4AX8 
_atom_sites.fract_transf_matrix[1][1]    0.005976 
_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]    0.005976 
_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]    0.005976 
_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
B 2 SAM A 1 1474 1474 SAM SAM . 
C 3 SO4 A 1 1475 1475 SO4 SO4 . 
D 3 SO4 A 1 1476 1476 SO4 SO4 . 
E 4 ADP A 1 1477 1477 ADP ADP . 
F 5 CL A 1 1478 1478 CL CL . 
#
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 . . . E 4 34.782 97.465 113.044 1 116.94 ? PB ADP 1477 A 1 
HETATM 2 O O1B ADP . . . E 4 35.856 97.247 112.003 1 115.13 ? O1B ADP 1477 A 1 
HETATM 3 O O2B ADP . . . E 4 34.754 96.5 114.237 1 89.41 ? O2B ADP 1477 A 1 
HETATM 4 O O3B ADP . . . E 4 34.821 98.959 113.322 1 107.57 ? O3B ADP 1477 A 1 
HETATM 5 P PA ADP . . . E 4 32.262 98.325 111.992 1 103.22 ? PA ADP 1477 A 1 
HETATM 6 O O1A ADP . . . E 4 33.023 99.657 112.101 1 100.21 ? O1A ADP 1477 A 1 
HETATM 7 O O2A ADP . . . E 4 30.952 98.048 112.719 1 102.22 ? O2A ADP 1477 A 1 
HETATM 8 O O3A ADP . . . E 4 33.32 97.133 112.354 1 109.51 ? O3A ADP 1477 A 1 
HETATM 9 O O5' ADP . . . E 4 31.893 98.077 110.476 1 87.46 ? O5' ADP 1477 A 1 
HETATM 10 C C5' ADP . . . E 4 32.867 98.518 109.567 1 89.53 ? C5' ADP 1477 A 1 
HETATM 11 C C4' ADP . . . E 4 32.042 98.593 108.328 1 84.1 ? C4' ADP 1477 A 1 
HETATM 12 O O4' ADP . . . E 4 31.052 97.597 108.388 1 82.1 ? O4' ADP 1477 A 1 
HETATM 13 C C3' ADP . . . E 4 31.314 99.915 108.296 1 86 ? C3' ADP 1477 A 1 
HETATM 14 O O3' ADP . . . E 4 32.047 100.819 107.485 1 94.74 ? O3' ADP 1477 A 1 
HETATM 15 C C2' ADP . . . E 4 29.984 99.594 107.675 1 79.45 ? C2' ADP 1477 A 1 
HETATM 16 O O2' ADP . . . E 4 30.05 99.854 106.271 1 75.64 ? O2' ADP 1477 A 1 
HETATM 17 C C1' ADP . . . E 4 29.861 98.12 107.8 1 78.33 ? C1' ADP 1477 A 1 
HETATM 18 N N9 ADP . . . E 4 28.732 97.694 108.624 1 68.74 ? N9 ADP 1477 A 1 
HETATM 19 C C8 ADP . . . E 4 28.854 97.215 109.856 1 68.12 ? C8 ADP 1477 A 1 
HETATM 20 N N7 ADP . . . E 4 27.647 96.835 110.338 1 63.97 ? N7 ADP 1477 A 1 
HETATM 21 C C5 ADP . . . E 4 26.763 97.042 109.352 1 61.8 ? C5 ADP 1477 A 1 
HETATM 22 C C6 ADP . . . E 4 25.324 96.839 109.174 1 62.76 ? C6 ADP 1477 A 1 
HETATM 23 N N6 ADP . . . E 4 24.581 96.333 110.176 1 59.88 ? N6 ADP 1477 A 1 
HETATM 24 N N1 ADP . . . E 4 24.78 97.177 107.986 1 65.89 ? N1 ADP 1477 A 1 
HETATM 25 C C2 ADP . . . E 4 25.522 97.698 106.982 1 64.27 ? C2 ADP 1477 A 1 
HETATM 26 N N3 ADP . . . E 4 26.843 97.918 107.071 1 66.66 ? N3 ADP 1477 A 1 
HETATM 27 C C4 ADP . . . E 4 27.489 97.604 108.219 1 65.38 ? C4 ADP 1477 A 1 
HETATM 28 H "H5'1" ADP . . . E 4 33.295 99.492 109.848 1 89.53 ? "H5'1" ADP 1477 A 1 
HETATM 29 H "H5'2" ADP . . . E 4 33.706 97.813 109.473 1 89.53 ? "H5'2" ADP 1477 A 1 
HETATM 30 H H4' ADP . . . E 4 32.694 98.473 107.45 1 84.1 ? H4' ADP 1477 A 1 
HETATM 31 H H3' ADP . . . E 4 31.197 100.38 109.286 1 86 ? H3' ADP 1477 A 1 
HETATM 32 H HO3' ADP . . . E 4 32.941 100.426 107.271 1 94.74 ? HO3' ADP 1477 A 1 
HETATM 33 H H2' ADP . . . E 4 29.169 100.168 108.141 1 79.45 ? H2' ADP 1477 A 1 
HETATM 34 H HO2' ADP . . . E 4 30.882 100.37 106.066 1 75.64 ? HO2' ADP 1477 A 1 
HETATM 35 H H1' ADP . . . E 4 29.696 97.737 106.782 1 78.33 ? H1' ADP 1477 A 1 
HETATM 36 H H8 ADP . . . E 4 29.802 97.138 110.408 1 68.12 ? H8 ADP 1477 A 1 
HETATM 37 H HN61 ADP . . . E 4 23.598 96.196 110.05 1 59.88 ? HN61 ADP 1477 A 1 
HETATM 38 H HN62 ADP . . . E 4 25.012 96.094 111.046 1 59.88 ? HN62 ADP 1477 A 1 
HETATM 39 H H2 ADP . . . E 4 25.015 97.956 106.041 1 64.27 ? H2 ADP 1477 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           39 
#