data_1R6B # _model_server_result.job_id geEbcOWOWEORTd2VjNVADg _model_server_result.datetime_utc '2025-03-05 22:20:38' _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 1r6b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":781}' # _entry.id 1R6B # _exptl.entry_id 1R6B _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 120 _cell.entry_id 1R6B _cell.length_a 124.11 _cell.length_b 124.11 _cell.length_c 97.049 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1R6B _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 E 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 221 X THR 221 1_555 B MG MG . X MG 782 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc2 A NH1 ARG 339 X ARG 339 6_544 B MG MG . X MG 782 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.994 ? metalc ? metalc3 A OD1 ASP 520 X ASP 520 1_555 D MG MG . X MG 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc4 A OD2 ASP 520 X ASP 520 1_555 D MG MG . X MG 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? metalc ? metalc5 A OG SER 522 X SER 522 1_555 D MG MG . X MG 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? metalc ? metalc6 A OE1 GLU 565 X GLU 565 1_555 D MG MG . X MG 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? metalc ? metalc7 A OE2 GLU 639 X GLU 639 6_544 D MG MG . X MG 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc8 E O1B ADP . X ADP 780 1_555 B MG MG . X MG 782 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc9 F O1B ADP . X ADP 781 1_555 C MG MG . X MG 783 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.816 ? # _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 1R6B _atom_sites.fract_transf_matrix[1][1] 0.008057 _atom_sites.fract_transf_matrix[1][2] 0.004652 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009304 _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] 0.010304 _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 X 1 782 782 MG MG . C 2 MG X 1 783 783 MG MG . D 2 MG X 1 784 784 MG MG . E 3 ADP X 1 780 780 ADP ADP . F 3 ADP X 1 781 781 ADP ADP . G 4 HOH X 1 802 802 HOH HOH . G 4 HOH X 2 803 803 HOH HOH . G 4 HOH X 3 804 804 HOH HOH . G 4 HOH X 4 811 811 HOH HOH . G 4 HOH X 5 820 820 HOH HOH . G 4 HOH X 6 843 843 HOH HOH . G 4 HOH X 7 846 846 HOH HOH . G 4 HOH X 8 848 848 HOH HOH . G 4 HOH X 9 855 855 HOH HOH . G 4 HOH X 10 857 857 HOH HOH . G 4 HOH X 11 868 868 HOH HOH . G 4 HOH X 12 870 870 HOH HOH . G 4 HOH X 13 873 873 HOH HOH . G 4 HOH X 14 892 892 HOH HOH . G 4 HOH X 15 893 893 HOH HOH . G 4 HOH X 16 897 897 HOH HOH . G 4 HOH X 17 901 901 HOH HOH . G 4 HOH X 18 902 902 HOH HOH . G 4 HOH X 19 904 904 HOH HOH . G 4 HOH X 20 908 908 HOH HOH . G 4 HOH X 21 910 910 HOH HOH . G 4 HOH X 22 927 927 HOH HOH . G 4 HOH X 23 935 935 HOH HOH . G 4 HOH X 24 938 938 HOH HOH . G 4 HOH X 25 941 941 HOH HOH . G 4 HOH X 26 942 942 HOH HOH . G 4 HOH X 27 943 943 HOH HOH . G 4 HOH X 28 958 958 HOH HOH . G 4 HOH X 29 963 963 HOH HOH . G 4 HOH X 30 965 965 HOH HOH . G 4 HOH X 31 977 977 HOH HOH . G 4 HOH X 32 982 982 HOH HOH . G 4 HOH X 33 989 989 HOH HOH . G 4 HOH X 34 1048 1048 HOH HOH . G 4 HOH X 35 1059 1059 HOH HOH . G 4 HOH X 36 1060 1060 HOH HOH . G 4 HOH X 37 1073 1073 HOH HOH . G 4 HOH X 38 1075 1075 HOH HOH . G 4 HOH X 39 1110 1110 HOH HOH . G 4 HOH X 40 1115 1115 HOH HOH . G 4 HOH X 41 1116 1116 HOH HOH . G 4 HOH X 42 1121 1121 HOH HOH . G 4 HOH X 43 1122 1122 HOH HOH . G 4 HOH X 44 1123 1123 HOH HOH . G 4 HOH X 45 1124 1124 HOH HOH . G 4 HOH X 46 1126 1126 HOH HOH . G 4 HOH X 47 1129 1129 HOH HOH . G 4 HOH X 48 1143 1143 HOH HOH . G 4 HOH X 49 1145 1145 HOH HOH . G 4 HOH X 50 1150 1150 HOH HOH . G 4 HOH X 51 1151 1151 HOH HOH . G 4 HOH X 52 1155 1155 HOH HOH . G 4 HOH X 53 1163 1163 HOH HOH . G 4 HOH X 54 1168 1168 HOH HOH . G 4 HOH X 55 1170 1170 HOH HOH . G 4 HOH X 56 1171 1171 HOH HOH . G 4 HOH X 57 1172 1172 HOH HOH . G 4 HOH X 58 1173 1173 HOH HOH . G 4 HOH X 59 1174 1174 HOH HOH . G 4 HOH X 60 1175 1175 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 . . . F 3 91.307 4.176 36.653 1 64.59 ? PB ADP 781 X 1 HETATM 2 O O1B ADP . . . F 3 92.438 4.792 35.952 1 61.6 ? O1B ADP 781 X 1 HETATM 3 O O2B ADP . . . F 3 90.53 5.259 37.4 1 69.3 ? O2B ADP 781 X 1 HETATM 4 O O3B ADP . . . F 3 91.811 3.08 37.595 1 69.47 ? O3B ADP 781 X 1 HETATM 5 P PA ADP . . . F 3 90.099 3.798 34.114 1 64.6 ? PA ADP 781 X 1 HETATM 6 O O1A ADP . . . F 3 90.047 5.277 33.867 1 65.88 ? O1A ADP 781 X 1 HETATM 7 O O2A ADP . . . F 3 91.143 3.153 33.331 1 65.77 ? O2A ADP 781 X 1 HETATM 8 O O3A ADP . . . F 3 90.282 3.446 35.649 1 66.31 ? O3A ADP 781 X 1 HETATM 9 O O5' ADP . . . F 3 88.677 3.138 33.83 1 70.69 ? O5' ADP 781 X 1 HETATM 10 C C5' ADP . . . F 3 88.606 1.729 33.599 1 73.83 ? C5' ADP 781 X 1 HETATM 11 C C4' ADP . . . F 3 87.573 1.458 32.516 1 68.67 ? C4' ADP 781 X 1 HETATM 12 O O4' ADP . . . F 3 86.254 1.493 33.068 1 67.75 ? O4' ADP 781 X 1 HETATM 13 C C3' ADP . . . F 3 87.613 2.565 31.52 1 71.04 ? C3' ADP 781 X 1 HETATM 14 O O3' ADP . . . F 3 88.358 2.175 30.401 1 79.4 ? O3' ADP 781 X 1 HETATM 15 C C2' ADP . . . F 3 86.197 2.858 31.166 1 73.99 ? C2' ADP 781 X 1 HETATM 16 O O2' ADP . . . F 3 85.833 2.008 30.092 1 83.75 ? O2' ADP 781 X 1 HETATM 17 C C1' ADP . . . F 3 85.414 2.413 32.354 1 69.81 ? C1' ADP 781 X 1 HETATM 18 N N9 ADP . . . F 3 85.129 3.536 33.24 1 69.08 ? N9 ADP 781 X 1 HETATM 19 C C8 ADP . . . F 3 85.599 3.639 34.525 1 73.13 ? C8 ADP 781 X 1 HETATM 20 N N7 ADP . . . F 3 85.125 4.758 35.076 1 68.02 ? N7 ADP 781 X 1 HETATM 21 C C5 ADP . . . F 3 84.353 5.375 34.189 1 66.87 ? C5 ADP 781 X 1 HETATM 22 C C6 ADP . . . F 3 83.691 6.548 34.271 1 64.41 ? C6 ADP 781 X 1 HETATM 23 N N6 ADP . . . F 3 83.997 7.383 35.258 1 71.34 ? N6 ADP 781 X 1 HETATM 24 N N1 ADP . . . F 3 82.96 6.985 33.196 1 69.13 ? N1 ADP 781 X 1 HETATM 25 C C2 ADP . . . F 3 82.942 6.232 32.038 1 61.59 ? C2 ADP 781 X 1 HETATM 26 N N3 ADP . . . F 3 83.635 5.055 31.968 1 65.15 ? N3 ADP 781 X 1 HETATM 27 C C4 ADP . . . F 3 84.345 4.634 33.017 1 66.65 ? C4 ADP 781 X 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #