data_1M74 # _model_server_result.job_id tPcQQp9v595a8qcnjDZFxw _model_server_result.datetime_utc '2024-12-21 16:00:45' _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 1m74 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":901}' # _entry.id 1M74 # _exptl.entry_id 1M74 _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 120 _cell.entry_id 1M74 _cell.length_a 131.245 _cell.length_b 131.245 _cell.length_c 150.453 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1M74 _symmetry.cell_setting trigonal _symmetry.Int_Tables_number 151 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 1 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 4_665 -y+1,-x+1,-z+2/3 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 65.6225 113.661504 100.302 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id H _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 H O1B ADP . A ADP 901 1_555 B MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? metalc ? metalc2 B MG MG . A MG 902 1_555 I O HOH . A HOH 1147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? # _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 1M74 _atom_sites.fract_transf_matrix[1][1] 0.007619 _atom_sites.fract_transf_matrix[1][2] 0.004399 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008798 _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] 0.006647 _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 MG A 1 902 902 MG MG . C 3 SO4 A 1 1003 1003 SO4 SO4 . D 3 SO4 A 1 1004 1004 SO4 SO4 . E 3 SO4 A 1 1005 1005 SO4 SO4 . F 3 SO4 A 1 1006 1006 SO4 SO4 . G 3 SO4 A 1 1007 1007 SO4 SO4 . H 4 ADP A 1 901 901 ADP ADP . I 5 HOH A 1 1101 1101 HOH HOH . I 5 HOH A 2 1102 1102 HOH HOH . I 5 HOH A 3 1103 1103 HOH HOH . I 5 HOH A 4 1104 1104 HOH HOH . I 5 HOH A 5 1105 1105 HOH HOH . I 5 HOH A 6 1106 1106 HOH HOH . I 5 HOH A 7 1107 1107 HOH HOH . I 5 HOH A 8 1108 1108 HOH HOH . I 5 HOH A 9 1109 1109 HOH HOH . I 5 HOH A 10 1110 1110 HOH HOH . I 5 HOH A 11 1111 1111 HOH HOH . I 5 HOH A 12 1112 1112 HOH HOH . I 5 HOH A 13 1113 1113 HOH HOH . I 5 HOH A 14 1114 1114 HOH HOH . I 5 HOH A 15 1115 1115 HOH HOH . I 5 HOH A 16 1116 1116 HOH HOH . I 5 HOH A 17 1117 1117 HOH HOH . I 5 HOH A 18 1118 1118 HOH HOH . I 5 HOH A 19 1119 1119 HOH HOH . I 5 HOH A 20 1120 1120 HOH HOH . I 5 HOH A 21 1121 1121 HOH HOH . I 5 HOH A 22 1122 1122 HOH HOH . I 5 HOH A 23 1123 1123 HOH HOH . I 5 HOH A 24 1124 1124 HOH HOH . I 5 HOH A 25 1125 1125 HOH HOH . I 5 HOH A 26 1126 1126 HOH HOH . I 5 HOH A 27 1127 1127 HOH HOH . I 5 HOH A 28 1128 1128 HOH HOH . I 5 HOH A 29 1129 1129 HOH HOH . I 5 HOH A 30 1130 1130 HOH HOH . I 5 HOH A 31 1133 1133 HOH HOH . I 5 HOH A 32 1134 1134 HOH HOH . I 5 HOH A 33 1136 1136 HOH HOH . I 5 HOH A 34 1137 1137 HOH HOH . I 5 HOH A 35 1138 1138 HOH HOH . I 5 HOH A 36 1139 1139 HOH HOH . I 5 HOH A 37 1140 1140 HOH HOH . I 5 HOH A 38 1141 1141 HOH HOH . I 5 HOH A 39 1142 1142 HOH HOH . I 5 HOH A 40 1143 1143 HOH HOH . I 5 HOH A 41 1144 1144 HOH HOH . I 5 HOH A 42 1145 1145 HOH HOH . I 5 HOH A 43 1146 1146 HOH HOH . I 5 HOH A 44 1147 1147 HOH HOH . I 5 HOH A 45 1148 1148 HOH HOH . I 5 HOH A 46 1149 1149 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 . . . H 4 38.439 88.582 48.711 1 78.37 ? PB ADP 901 A 1 HETATM 2 O O1B ADP . . . H 4 38.585 87.422 49.649 1 73.88 ? O1B ADP 901 A 1 HETATM 3 O O2B ADP . . . H 4 39.878 89.274 48.378 1 78.7 ? O2B ADP 901 A 1 HETATM 4 O O3B ADP . . . H 4 37.774 88.115 47.465 1 74.15 ? O3B ADP 901 A 1 HETATM 5 P PA ADP . . . H 4 37.805 90.905 50.287 1 95.71 ? PA ADP 901 A 1 HETATM 6 O O1A ADP . . . H 4 39.231 91.001 50.686 1 75.68 ? O1A ADP 901 A 1 HETATM 7 O O2A ADP . . . H 4 36.896 90.811 51.423 1 94.98 ? O2A ADP 901 A 1 HETATM 8 O O3A ADP . . . H 4 37.561 89.687 49.349 1 76.9 ? O3A ADP 901 A 1 HETATM 9 O O5' ADP . . . H 4 37.362 92.063 49.355 1 79.86 ? O5' ADP 901 A 1 HETATM 10 C C5' ADP . . . H 4 38.073 92.401 48.191 1 73.55 ? C5' ADP 901 A 1 HETATM 11 C C4' ADP . . . H 4 38.21 93.931 48.255 1 98.97 ? C4' ADP 901 A 1 HETATM 12 O O4' ADP . . . H 4 37.274 94.559 47.357 1 87.33 ? O4' ADP 901 A 1 HETATM 13 C C3' ADP . . . H 4 37.957 94.539 49.652 1 103.02 ? C3' ADP 901 A 1 HETATM 14 O O3' ADP . . . H 4 39.122 95.163 50.197 1 114.98 ? O3' ADP 901 A 1 HETATM 15 C C2' ADP . . . H 4 36.835 95.563 49.529 1 98.35 ? C2' ADP 901 A 1 HETATM 16 O O2' ADP . . . H 4 37.224 96.86 50.041 1 108.55 ? O2' ADP 901 A 1 HETATM 17 C C1' ADP . . . H 4 36.473 95.553 48.05 1 95.34 ? C1' ADP 901 A 1 HETATM 18 N N9 ADP . . . H 4 34.996 95.334 47.793 1 93.4 ? N9 ADP 901 A 1 HETATM 19 C C8 ADP . . . H 4 34.281 94.239 48.155 1 95.89 ? C8 ADP 901 A 1 HETATM 20 N N7 ADP . . . H 4 33.003 94.412 47.768 1 100.04 ? N7 ADP 901 A 1 HETATM 21 C C5 ADP . . . H 4 32.863 95.61 47.198 1 102 ? C5 ADP 901 A 1 HETATM 22 C C6 ADP . . . H 4 31.809 96.348 46.615 1 100.68 ? C6 ADP 901 A 1 HETATM 23 N N6 ADP . . . H 4 30.549 95.858 46.554 1 73.72 ? N6 ADP 901 A 1 HETATM 24 N N1 ADP . . . H 4 32.066 97.601 46.097 1 104.21 ? N1 ADP 901 A 1 HETATM 25 C C2 ADP . . . H 4 33.307 98.137 46.131 1 108.29 ? C2 ADP 901 A 1 HETATM 26 N N3 ADP . . . H 4 34.325 97.44 46.68 1 100.19 ? N3 ADP 901 A 1 HETATM 27 C C4 ADP . . . H 4 34.158 96.197 47.229 1 102.11 ? C4 ADP 901 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 27 #