data_9DW8 # _model_server_result.job_id MYdvWqWYQlVmM9OfmbuOfg _model_server_result.datetime_utc '2024-11-28 10:42:03' _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 9dw8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1501}' # _entry.id 9DW8 # _exptl.entry_id 9DW8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 611.33 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N-(2-phenylethyl)adenosine 5'-(tetrahydrogen triphosphate)" _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 9DW8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9DW8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _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 # _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 C N N ? 3 D 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 covale ? covale1 B C TRP 197 G TRP 197 1_555 B N TPO 198 G TPO 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C TPO 198 G TPO 198 1_555 B N LEU 199 G LEU 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? metalc ? metalc1 A OG1 THR 465 A THR 465 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.809 ? metalc ? metalc2 A OE1 GLN 493 A GLN 493 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc3 A OE1 GLN 1291 A GLN 1291 1_555 F MG MG . A MG 1504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc4 C O13 B44 . A B44 1501 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc5 C O10 B44 . A B44 1501 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.69 ? metalc ? metalc6 C O9 B44 . A B44 1501 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3 ? metalc ? metalc7 D O13 B44 . A B44 1502 1_555 F MG MG . A MG 1504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc8 D O9 B44 . A B44 1502 1_555 F MG MG . A MG 1504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.884 ? metalc ? metalc9 B O GLY 53 G GLY 53 1_555 G MG MG . G MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.867 ? metalc ? metalc10 B OD1 ASP 185 G ASP 185 1_555 H MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc11 G MG MG . G MG 401 1_555 I O3G ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.921 ? metalc ? metalc12 G MG MG . G MG 401 1_555 I O2B ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.967 ? metalc ? metalc13 H MG MG . G MG 402 1_555 I O1A ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc14 H MG MG . G MG 402 1_555 I O1G ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.778 ? # _chem_comp.formula 'C18 H24 N5 O13 P3' _chem_comp.formula_weight 611.33 _chem_comp.id B44 _chem_comp.mon_nstd_flag . _chem_comp.name "N-(2-phenylethyl)adenosine 5'-(tetrahydrogen 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 O1 C1 B44 sing 120 n n O1 P1 B44 sing 121 n n N3 C7 B44 doub 122 n y C7 C8 B44 sing 123 n y C7 N9 B44 sing 124 n y C5 O2 B44 sing 125 n n O2 C2 B44 sing 126 n n C6 N1 B44 doub 127 n y C6 N3 B44 sing 128 n y C6 H6 B44 sing 129 n n C2 C1 B44 sing 130 n n C1 H1 B44 sing 131 n n C1 H1A B44 sing 132 n n N1 C9 B44 sing 133 n y C4 C5 B44 sing 134 n n N9 C5 B44 sing 135 n n C5 H5 B44 sing 136 n n O4 C4 B44 sing 137 n n C4 C3 B44 sing 138 n n C4 H4 B44 sing 139 n n O3 C3 B44 sing 140 n n C3 C2 B44 sing 141 n n C3 H3 B44 sing 142 n n C2 H2 B44 sing 143 n n P3 O13 B44 sing 144 n n O13 HO13 B44 sing 145 n n O10 P3 B44 doub 146 n n P3 O7 B44 sing 147 n n P3 O12 B44 sing 148 n n O7 HO7 B44 sing 149 n n O12 P2 B44 sing 150 n n O11 P2 B44 sing 151 n n P2 O9 B44 doub 152 n n P2 O6 B44 sing 153 n n O6 HO6 B44 sing 154 n n P1 O11 B44 sing 155 n n O5 P1 B44 doub 156 n n P1 O8 B44 sing 157 n n O8 HO8 B44 sing 158 n n O3 HO3 B44 sing 159 n n O4 HO4 B44 sing 160 n n N9 C13 B44 sing 161 n y N7 C13 B44 doub 162 n y C13 H13 B44 sing 163 n n C8 N7 B44 sing 164 n y C9 C8 B44 doub 165 n y C9 N6 B44 sing 166 n n C10 N6 B44 sing 167 n n N6 HN6 B44 sing 168 n n C10 C11 B44 sing 169 n n C10 H10 B44 sing 170 n n C10 H10A B44 sing 171 n n C11 C12 B44 sing 172 n n C11 H11 B44 sing 173 n n C11 H11A B44 sing 174 n n C12 C14 B44 doub 175 n y C12 C18 B44 sing 176 n y C18 C17 B44 doub 177 n y C18 H18 B44 sing 178 n n C17 C16 B44 sing 179 n y C17 H17 B44 sing 180 n n C15 C16 B44 doub 181 n y C16 H16 B44 sing 182 n n C14 C15 B44 sing 183 n y C15 H15 B44 sing 184 n n C14 H14 B44 sing 185 n n # _atom_sites.entry_id 9DW8 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 3 B44 A 1 1501 1501 B44 ATP . D 3 B44 A 1 1502 1601 B44 ATP . E 4 MG A 1 1503 1 MG MG . F 4 MG A 1 1504 2 MG MG . G 4 MG G 1 401 1 MG MG . H 4 MG G 1 402 2 MG MG . I 5 ANP G 1 403 401 ANP AMP . # 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 O O1 B44 . . . C 3 161.503 134.67 109.383 1 55.3 ? O1 B44 1501 A 1 HETATM 2 C C7 B44 . . . C 3 163.971 135.655 113.778 1 55.3 ? C7 B44 1501 A 1 HETATM 3 O O2 B44 . . . C 3 164.013 135.062 110.577 1 55.3 ? O2 B44 1501 A 1 HETATM 4 C C6 B44 . . . C 3 165.53 136.374 115.151 1 55.3 ? C6 B44 1501 A 1 HETATM 5 C C1 B44 . . . C 3 162.674 134.574 108.63 1 55.3 ? C1 B44 1501 A 1 HETATM 6 N N1 B44 . . . C 3 164.671 137.036 115.958 1 55.3 ? N1 B44 1501 A 1 HETATM 7 C C5 B44 . . . C 3 163.944 134.338 111.843 1 55.3 ? C5 B44 1501 A 1 HETATM 8 C C4 B44 . . . C 3 163.172 133.098 111.549 1 55.3 ? C4 B44 1501 A 1 HETATM 9 C C3 B44 . . . C 3 163.448 132.802 110.131 1 55.3 ? C3 B44 1501 A 1 HETATM 10 C C2 B44 . . . C 3 163.8 134.108 109.495 1 55.3 ? C2 B44 1501 A 1 HETATM 11 O O13 B44 . . . C 3 156.15 131.872 107.498 1 55.3 ? O13 B44 1501 A 1 HETATM 12 P P3 B44 . . . C 3 156.745 131.526 106.215 1 55.3 ? P3 B44 1501 A 1 HETATM 13 O O7 B44 . . . C 3 156.582 130.08 106.11 1 55.3 ? O7 B44 1501 A 1 HETATM 14 O O10 B44 . . . C 3 155.824 132.077 105.228 1 55.3 ? O10 B44 1501 A 1 HETATM 15 O O12 B44 . . . C 3 158.293 132.05 106.059 1 55.3 ? O12 B44 1501 A 1 HETATM 16 P P2 B44 . . . C 3 158.741 133.573 106.475 1 55.3 ? P2 B44 1501 A 1 HETATM 17 O O6 B44 . . . C 3 159.568 134.193 105.45 1 55.3 ? O6 B44 1501 A 1 HETATM 18 O O9 B44 . . . C 3 157.59 134.463 106.484 1 55.3 ? O9 B44 1501 A 1 HETATM 19 O O11 B44 . . . C 3 159.491 133.584 107.933 1 55.3 ? O11 B44 1501 A 1 HETATM 20 P P1 B44 . . . C 3 160.11 134.97 108.559 1 55.3 ? P1 B44 1501 A 1 HETATM 21 O O5 B44 . . . C 3 159.135 135.652 109.395 1 55.3 ? O5 B44 1501 A 1 HETATM 22 O O8 B44 . . . C 3 160.319 135.959 107.509 1 55.3 ? O8 B44 1501 A 1 HETATM 23 O O3 B44 . . . C 3 164.561 131.912 110.051 1 55.3 ? O3 B44 1501 A 1 HETATM 24 O O4 B44 . . . C 3 163.625 132.017 112.369 1 55.3 ? O4 B44 1501 A 1 HETATM 25 N N9 B44 . . . C 3 163.283 135.111 112.84 1 55.3 ? N9 B44 1501 A 1 HETATM 26 N N3 B44 . . . C 3 165.238 135.672 114.054 1 55.3 ? N3 B44 1501 A 1 HETATM 27 C C13 B44 . . . C 3 162.018 135.273 112.83 1 55.3 ? C13 B44 1501 A 1 HETATM 28 N N7 B44 . . . C 3 161.618 136.027 113.863 1 55.3 ? N7 B44 1501 A 1 HETATM 29 C C8 B44 . . . C 3 162.951 136.304 114.536 1 55.3 ? C8 B44 1501 A 1 HETATM 30 C C9 B44 . . . C 3 163.365 136.999 115.644 1 55.3 ? C9 B44 1501 A 1 HETATM 31 N N6 B44 . . . C 3 162.401 137.692 116.474 1 55.3 ? N6 B44 1501 A 1 HETATM 32 C C10 B44 . . . C 3 162.793 138.885 117.205 1 55.3 ? C10 B44 1501 A 1 HETATM 33 C C11 B44 . . . C 3 162.009 140.074 116.661 1 55.3 ? C11 B44 1501 A 1 HETATM 34 C C12 B44 . . . C 3 160.544 139.95 117.07 1 55.3 ? C12 B44 1501 A 1 HETATM 35 C C18 B44 . . . C 3 160.1 140.62 118.107 1 55.3 ? C18 B44 1501 A 1 HETATM 36 C C17 B44 . . . C 3 158.636 140.504 118.525 1 55.3 ? C17 B44 1501 A 1 HETATM 37 C C16 B44 . . . C 3 157.817 139.727 117.845 1 55.3 ? C16 B44 1501 A 1 HETATM 38 C C15 B44 . . . C 3 158.333 138.947 116.638 1 55.3 ? C15 B44 1501 A 1 HETATM 39 C C14 B44 . . . C 3 159.594 139.049 116.276 1 55.3 ? C14 B44 1501 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 39 #