data_6FA5 # _model_server_result.job_id 0syHl04D3hZczbPNyKTA2Q _model_server_result.datetime_utc '2024-11-05 23:18:09' _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 6fa5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 6FA5 # _exptl.entry_id 6FA5 _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 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 6FA5 _cell.length_a 48.206 _cell.length_b 116.412 _cell.length_c 118.228 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FA5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 2 _struct_asym.id B _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 OG1 THR 44 A THR 327 1_555 C MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc2 B O2B ADP . A ADP 1001 1_555 C MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? metalc ? metalc3 C MG MG . A MG 1002 1_555 E O HOH . A HOH 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc4 C MG MG . A MG 1002 1_555 E O HOH . A HOH 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc5 C MG MG . A MG 1002 1_555 E O HOH . A HOH 1108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc6 C MG MG . A MG 1002 1_555 E O HOH . A HOH 1122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? # _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 6FA5 _atom_sites.fract_transf_matrix[1][1] 0.020744 _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] 0.00859 _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] 0.008458 _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 ADP A 1 1001 1 ADP ADP . C 3 MG A 1 1002 1 MG MG . D 4 PEG A 1 1003 1 PEG PEG . E 5 HOH A 1 1101 19 HOH HOH . E 5 HOH A 2 1102 33 HOH HOH . E 5 HOH A 3 1103 35 HOH HOH . E 5 HOH A 4 1104 42 HOH HOH . E 5 HOH A 5 1105 6 HOH HOH . E 5 HOH A 6 1106 1 HOH HOH . E 5 HOH A 7 1107 13 HOH HOH . E 5 HOH A 8 1108 7 HOH HOH . E 5 HOH A 9 1109 12 HOH HOH . E 5 HOH A 10 1110 44 HOH HOH . E 5 HOH A 11 1111 2 HOH HOH . E 5 HOH A 12 1112 46 HOH HOH . E 5 HOH A 13 1113 22 HOH HOH . E 5 HOH A 14 1114 36 HOH HOH . E 5 HOH A 15 1115 37 HOH HOH . E 5 HOH A 16 1116 16 HOH HOH . E 5 HOH A 17 1117 10 HOH HOH . E 5 HOH A 18 1118 57 HOH HOH . E 5 HOH A 19 1119 38 HOH HOH . E 5 HOH A 20 1120 61 HOH HOH . E 5 HOH A 21 1121 8 HOH HOH . E 5 HOH A 22 1122 5 HOH HOH . E 5 HOH A 23 1123 14 HOH HOH . E 5 HOH A 24 1124 3 HOH HOH . E 5 HOH A 25 1125 9 HOH HOH . E 5 HOH A 26 1126 43 HOH HOH . E 5 HOH A 27 1127 15 HOH HOH . E 5 HOH A 28 1128 17 HOH HOH . E 5 HOH A 29 1129 49 HOH HOH . E 5 HOH A 30 1130 30 HOH HOH . E 5 HOH A 31 1131 31 HOH HOH . E 5 HOH A 32 1132 55 HOH HOH . E 5 HOH A 33 1133 20 HOH HOH . E 5 HOH A 34 1134 4 HOH HOH . E 5 HOH A 35 1135 27 HOH HOH . E 5 HOH A 36 1136 24 HOH HOH . E 5 HOH A 37 1137 59 HOH HOH . E 5 HOH A 38 1138 23 HOH HOH . E 5 HOH A 39 1139 41 HOH HOH . E 5 HOH A 40 1140 32 HOH HOH . E 5 HOH A 41 1141 18 HOH HOH . E 5 HOH A 42 1142 56 HOH HOH . E 5 HOH A 43 1143 50 HOH HOH . E 5 HOH A 44 1144 39 HOH HOH . E 5 HOH A 45 1145 26 HOH HOH . E 5 HOH A 46 1146 40 HOH HOH . E 5 HOH A 47 1147 25 HOH HOH . E 5 HOH A 48 1148 28 HOH HOH . E 5 HOH A 49 1149 47 HOH HOH . E 5 HOH A 50 1150 52 HOH HOH . E 5 HOH A 51 1151 60 HOH HOH . E 5 HOH A 52 1152 21 HOH HOH . E 5 HOH A 53 1153 51 HOH HOH . E 5 HOH A 54 1154 45 HOH HOH . E 5 HOH A 55 1155 48 HOH HOH . E 5 HOH A 56 1156 53 HOH HOH . E 5 HOH A 57 1157 54 HOH HOH . E 5 HOH A 58 1158 29 HOH HOH . E 5 HOH A 59 1159 58 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 . . . B 2 11.235 126.202 10.529 1 39.48 ? PB ADP 1001 A 1 HETATM 2 O O1B ADP . . . B 2 10.792 126.641 9.155 1 49.67 ? O1B ADP 1001 A 1 HETATM 3 O O2B ADP . . . B 2 12.007 127.247 11.302 1 34.78 ? O2B ADP 1001 A 1 HETATM 4 O O3B ADP . . . B 2 10.162 125.498 11.323 1 35.26 ? O3B ADP 1001 A 1 HETATM 5 P PA ADP . . . B 2 13.865 125.204 10.609 1 43.25 ? PA ADP 1001 A 1 HETATM 6 O O1A ADP . . . B 2 14.373 126.44 9.909 1 45.68 ? O1A ADP 1001 A 1 HETATM 7 O O2A ADP . . . B 2 14.008 125.088 12.107 1 48.25 ? O2A ADP 1001 A 1 HETATM 8 O O3A ADP . . . B 2 12.303 125.026 10.258 1 45.1 ? O3A ADP 1001 A 1 HETATM 9 O O5' ADP . . . B 2 14.525 123.888 9.953 1 60.41 ? O5' ADP 1001 A 1 HETATM 10 C C5' ADP . . . B 2 13.721 122.913 9.291 1 64.98 ? C5' ADP 1001 A 1 HETATM 11 C C4' ADP . . . B 2 14.571 121.686 8.972 1 73.9 ? C4' ADP 1001 A 1 HETATM 12 O O4' ADP . . . B 2 15.864 121.823 9.566 1 74.87 ? O4' ADP 1001 A 1 HETATM 13 C C3' ADP . . . B 2 13.953 120.404 9.509 1 72.22 ? C3' ADP 1001 A 1 HETATM 14 O O3' ADP . . . B 2 13.83 119.458 8.445 1 66.02 ? O3' ADP 1001 A 1 HETATM 15 C C2' ADP . . . B 2 14.928 119.877 10.542 1 75.89 ? C2' ADP 1001 A 1 HETATM 16 O O2' ADP . . . B 2 15.131 118.471 10.371 1 91.56 ? O2' ADP 1001 A 1 HETATM 17 C C1' ADP . . . B 2 16.217 120.643 10.291 1 71.57 ? C1' ADP 1001 A 1 HETATM 18 N N9 ADP . . . B 2 16.862 121.032 11.569 1 66.57 ? N9 ADP 1001 A 1 HETATM 19 C C8 ADP . . . B 2 16.464 122.035 12.373 1 63.82 ? C8 ADP 1001 A 1 HETATM 20 N N7 ADP . . . B 2 17.266 122.136 13.463 1 64.77 ? N7 ADP 1001 A 1 HETATM 21 C C5 ADP . . . B 2 18.206 121.179 13.362 1 55.17 ? C5 ADP 1001 A 1 HETATM 22 C C6 ADP . . . B 2 19.363 120.73 14.171 1 46.2 ? C6 ADP 1001 A 1 HETATM 23 N N6 ADP . . . B 2 19.681 121.343 15.337 1 42.9 ? N6 ADP 1001 A 1 HETATM 24 N N1 ADP . . . B 2 20.088 119.689 13.707 1 45.22 ? N1 ADP 1001 A 1 HETATM 25 C C2 ADP . . . B 2 19.782 119.071 12.551 1 52.08 ? C2 ADP 1001 A 1 HETATM 26 N N3 ADP . . . B 2 18.748 119.425 11.766 1 59.45 ? N3 ADP 1001 A 1 HETATM 27 C C4 ADP . . . B 2 17.936 120.453 12.111 1 61.99 ? C4 ADP 1001 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 356 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #