data_4X2D # _model_server_result.job_id BmI2YotD5A6lTW0FJGQqJQ _model_server_result.datetime_utc '2025-03-03 01:55:04' _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 4x2d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":302}' # _entry.id 4X2D # _exptl.entry_id 4X2D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 118.6 _cell.angle_gamma 90 _cell.entry_id 4X2D _cell.length_a 158.08 _cell.length_b 60.1 _cell.length_c 124.83 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4X2D _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? Dimeric 2 author_defined_assembly 1 ? Dimeric 2 author_defined_assembly 2 ? Dimeric 2 author_defined_assembly 3 ? Dimeric 2 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G 1 1 C,I 1 2 C,I 2 1 A,E,F,G 2 3 B,H 3 1 D,J 3 3 D,J 4 1 B,H 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 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_455 x-1/2,y+1/2,z 1 0 0 0 1 0 0 0 1 -79.04 30.05 0 3 'crystal symmetry operation' 3_545 x+1/2,y-1/2,z 1 0 0 0 1 0 0 0 1 79.04 -30.05 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 A OD1 ASP 167 A ASP 167 1_555 E MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc2 A OD2 ASP 167 A ASP 167 1_555 E MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc3 E MG MG . A MG 301 1_555 F O3G ATP . A ATP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc4 E MG MG . A MG 301 1_555 F O1B ATP . A ATP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc5 E MG MG . A MG 301 1_555 F O2B ATP . A ATP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 4X2D _atom_sites.fract_transf_matrix[1][1] 0.006326 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003449 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016639 _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] 0.009124 _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 2 MG A 1 301 1 MG MG . F 3 ATP A 1 302 1 ATP ATP . G 4 HOH A 1 401 5 HOH HOH . G 4 HOH A 2 402 17 HOH HOH . G 4 HOH A 3 403 19 HOH HOH . H 4 HOH B 1 301 18 HOH HOH . H 4 HOH B 2 302 6 HOH HOH . H 4 HOH B 3 303 8 HOH HOH . H 4 HOH B 4 304 10 HOH HOH . H 4 HOH B 5 305 20 HOH HOH . I 4 HOH C 1 301 3 HOH HOH . I 4 HOH C 2 302 9 HOH HOH . I 4 HOH C 3 303 11 HOH HOH . I 4 HOH C 4 304 21 HOH HOH . I 4 HOH C 5 305 22 HOH HOH . J 4 HOH D 1 301 7 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 PG ATP . . . F 3 -20.598 -15.798 44.153 1 68.28 ? PG ATP 302 A 1 HETATM 2 O O1G ATP . . . F 3 -21.035 -16.306 42.8 1 64.34 ? O1G ATP 302 A 1 HETATM 3 O O2G ATP . . . F 3 -19.098 -15.568 44.195 1 71.14 ? O2G ATP 302 A 1 HETATM 4 O O3G ATP . . . F 3 -21.312 -14.519 44.521 1 68.61 ? O3G ATP 302 A 1 HETATM 5 P PB ATP . . . F 3 -21.094 -16.52 46.865 1 77.28 ? PB ATP 302 A 1 HETATM 6 O O1B ATP . . . F 3 -22.517 -16.122 47.177 1 83.5 ? O1B ATP 302 A 1 HETATM 7 O O2B ATP . . . F 3 -20.18 -15.37 47.193 1 76.99 ? O2B ATP 302 A 1 HETATM 8 O O3B ATP . . . F 3 -20.967 -16.921 45.281 1 69.8 ? O3B ATP 302 A 1 HETATM 9 P PA ATP . . . F 3 -19.283 -18.694 47.338 1 83.38 ? PA ATP 302 A 1 HETATM 10 O O1A ATP . . . F 3 -19.683 -20.041 46.78 1 81.84 ? O1A ATP 302 A 1 HETATM 11 O O2A ATP . . . F 3 -18.485 -18.848 48.612 1 87.71 ? O2A ATP 302 A 1 HETATM 12 O O3A ATP . . . F 3 -20.643 -17.843 47.701 1 80.36 ? O3A ATP 302 A 1 HETATM 13 O O5' ATP . . . F 3 -18.347 -17.905 46.235 1 85.21 ? O5' ATP 302 A 1 HETATM 14 C C5' ATP . . . F 3 -16.96 -17.957 46.396 1 81.22 ? C5' ATP 302 A 1 HETATM 15 C C4' ATP . . . F 3 -16.298 -18.805 45.274 1 79.23 ? C4' ATP 302 A 1 HETATM 16 O O4' ATP . . . F 3 -15.085 -19.104 45.653 1 79.9 ? O4' ATP 302 A 1 HETATM 17 C C3' ATP . . . F 3 -16.977 -20.178 45.092 1 78.49 ? C3' ATP 302 A 1 HETATM 18 O O3' ATP . . . F 3 -17.973 -20.146 44.168 1 81.37 ? O3' ATP 302 A 1 HETATM 19 C C2' ATP . . . F 3 -15.833 -21.089 44.604 1 75.6 ? C2' ATP 302 A 1 HETATM 20 O O2' ATP . . . F 3 -15.787 -21.113 43.11 1 71.76 ? O2' ATP 302 A 1 HETATM 21 C C1' ATP . . . F 3 -14.732 -20.58 45.093 1 76.37 ? C1' ATP 302 A 1 HETATM 22 N N9 ATP . . . F 3 -14.254 -21.411 46.17 1 77.9 ? N9 ATP 302 A 1 HETATM 23 C C8 ATP . . . F 3 -14.97 -21.957 47.159 1 78.37 ? C8 ATP 302 A 1 HETATM 24 N N7 ATP . . . F 3 -14.152 -22.657 47.942 1 77.11 ? N7 ATP 302 A 1 HETATM 25 C C5 ATP . . . F 3 -12.919 -22.548 47.434 1 78.92 ? C5 ATP 302 A 1 HETATM 26 C C6 ATP . . . F 3 -11.719 -23.073 47.848 1 77.49 ? C6 ATP 302 A 1 HETATM 27 N N6 ATP . . . F 3 -11.453 -23.918 48.996 1 74.41 ? N6 ATP 302 A 1 HETATM 28 N N1 ATP . . . F 3 -10.613 -22.822 47.161 1 80.15 ? N1 ATP 302 A 1 HETATM 29 C C2 ATP . . . F 3 -10.665 -22.044 46.047 1 79.4 ? C2 ATP 302 A 1 HETATM 30 N N3 ATP . . . F 3 -11.844 -21.525 45.637 1 78.82 ? N3 ATP 302 A 1 HETATM 31 C C4 ATP . . . F 3 -12.973 -21.781 46.338 1 79.78 ? C4 ATP 302 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 617 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #