data_1G8X # _model_server_result.job_id QEMQ3ULmAzchoLFkanC7ww _model_server_result.datetime_utc '2025-03-06 18:19:24' _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 1g8x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1100}' # _entry.id 1G8X # _exptl.entry_id 1G8X _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 1G8X _cell.length_a 135.423 _cell.length_b 155.42 _cell.length_c 143.191 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1G8X _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F 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 A OG1 THR 186 A THR 186 1_555 C MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc2 A OG SER 237 A SER 237 1_555 C MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc3 D O3B ADP . A ADP 1100 1_555 C MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.979 ? metalc ? metalc4 D O2B ADP . A ADP 1100 1_555 C MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? metalc ? metalc5 C MG MG . A MG 1101 1_555 G O HOH . A HOH 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc6 C MG MG . A MG 1101 1_555 G O HOH . A HOH 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc7 C MG MG . A MG 1101 1_555 G O HOH . A HOH 1203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc8 B OG1 THR 186 B THR 186 1_555 E MG MG . B MG 2101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc9 B OG SER 237 B SER 237 1_555 E MG MG . B MG 2101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc10 F O2B ADP . B ADP 2100 1_555 E MG MG . B MG 2101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc11 E MG MG . B MG 2101 1_555 H O HOH . B HOH 2201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc12 E MG MG . B MG 2101 1_555 H O HOH . B HOH 2203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? metalc ? metalc13 E MG MG . B MG 2101 1_555 H O HOH . B HOH 2204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? # _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 1G8X _atom_sites.fract_transf_matrix[1][1] 0.007384 _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] 0.006434 _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] 0.006984 _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 MG A 1 1101 1101 MG MG . D 3 ADP A 1 1100 1100 ADP ADP . E 2 MG B 1 2101 2101 MG MG . F 3 ADP B 1 2100 2100 ADP ADP . G 4 HOH A 1 1201 1201 HOH HOH . G 4 HOH A 2 1202 1202 HOH HOH . G 4 HOH A 3 1203 1203 HOH HOH . G 4 HOH A 4 1204 1204 HOH HOH . G 4 HOH A 5 1205 1205 HOH HOH . G 4 HOH A 6 1206 1206 HOH HOH . G 4 HOH A 7 1207 1207 HOH HOH . H 4 HOH B 1 2201 2201 HOH HOH . H 4 HOH B 2 2202 2202 HOH HOH . H 4 HOH B 3 2203 2203 HOH HOH . H 4 HOH B 4 2204 2204 HOH HOH . H 4 HOH B 5 2205 2205 HOH HOH . H 4 HOH B 6 2206 2206 HOH HOH . H 4 HOH B 7 2207 2207 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 3 51.256 49.354 47.688 1 23.52 ? PB ADP 1100 A 1 HETATM 2 O O1B ADP . . . D 3 52.345 49.73 46.749 1 20.16 ? O1B ADP 1100 A 1 HETATM 3 O O2B ADP . . . D 3 51.454 49.671 49.104 1 23.58 ? O2B ADP 1100 A 1 HETATM 4 O O3B ADP . . . D 3 50.004 50.047 47.11 1 20.42 ? O3B ADP 1100 A 1 HETATM 5 P PA ADP . . . D 3 50.79 46.79 48.928 1 22.94 ? PA ADP 1100 A 1 HETATM 6 O O1A ADP . . . D 3 51.926 46.851 49.876 1 17.96 ? O1A ADP 1100 A 1 HETATM 7 O O2A ADP . . . D 3 49.459 47.099 49.471 1 20.14 ? O2A ADP 1100 A 1 HETATM 8 O O3A ADP . . . D 3 50.996 47.784 47.677 1 19.27 ? O3A ADP 1100 A 1 HETATM 9 O O5' ADP . . . D 3 50.802 45.336 48.305 1 21.25 ? O5' ADP 1100 A 1 HETATM 10 C C5' ADP . . . D 3 49.698 44.961 47.458 1 24.56 ? C5' ADP 1100 A 1 HETATM 11 C C4' ADP . . . D 3 49.51 43.486 47.598 1 27.14 ? C4' ADP 1100 A 1 HETATM 12 O O4' ADP . . . D 3 50.691 42.948 47.053 1 29.55 ? O4' ADP 1100 A 1 HETATM 13 C C3' ADP . . . D 3 49.551 42.95 49 1 28.44 ? C3' ADP 1100 A 1 HETATM 14 O O3' ADP . . . D 3 48.482 43.265 49.891 1 26.73 ? O3' ADP 1100 A 1 HETATM 15 C C2' ADP . . . D 3 49.854 41.524 48.724 1 27.18 ? C2' ADP 1100 A 1 HETATM 16 O O2' ADP . . . D 3 48.742 40.796 48.306 1 32.14 ? O2' ADP 1100 A 1 HETATM 17 C C1' ADP . . . D 3 50.966 41.704 47.72 1 29.81 ? C1' ADP 1100 A 1 HETATM 18 N N9 ADP . . . D 3 52.326 41.782 48.322 1 30.98 ? N9 ADP 1100 A 1 HETATM 19 C C8 ADP . . . D 3 53.18 42.83 48.305 1 31.23 ? C8 ADP 1100 A 1 HETATM 20 N N7 ADP . . . D 3 54.314 42.586 48.84 1 34.26 ? N7 ADP 1100 A 1 HETATM 21 C C5 ADP . . . D 3 54.226 41.282 49.249 1 32.75 ? C5 ADP 1100 A 1 HETATM 22 C C6 ADP . . . D 3 55.159 40.469 49.896 1 31.82 ? C6 ADP 1100 A 1 HETATM 23 N N6 ADP . . . D 3 56.339 40.936 50.203 1 29.11 ? N6 ADP 1100 A 1 HETATM 24 N N1 ADP . . . D 3 54.789 39.132 50.203 1 36.54 ? N1 ADP 1100 A 1 HETATM 25 C C2 ADP . . . D 3 53.502 38.694 49.837 1 34.34 ? C2 ADP 1100 A 1 HETATM 26 N N3 ADP . . . D 3 52.56 39.435 49.212 1 34.8 ? N3 ADP 1100 A 1 HETATM 27 C C4 ADP . . . D 3 53.003 40.745 48.944 1 32.4 ? C4 ADP 1100 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #