data_9DW8 # _model_server_result.job_id 0JdRgaLtCk4tmCb-IMB3DQ _model_server_result.datetime_utc '2024-11-28 11:03:07' _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":"D","auth_seq_id":1502}' # _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 . . . D 3 133.242 124.822 112.634 1 51.25 ? O1 B44 1502 A 1 HETATM 2 C C7 B44 . . . D 3 131.723 126.443 117.388 1 51.25 ? C7 B44 1502 A 1 HETATM 3 O O2 B44 . . . D 3 130.832 125.02 114.486 1 51.25 ? O2 B44 1502 A 1 HETATM 4 C C6 B44 . . . D 3 130.776 127.137 119.245 1 51.25 ? C6 B44 1502 A 1 HETATM 5 C C1 B44 . . . D 3 131.97 124.259 112.495 1 51.25 ? C1 B44 1502 A 1 HETATM 6 N N1 B44 . . . D 3 131.837 126.845 120.031 1 51.25 ? N1 B44 1502 A 1 HETATM 7 C C5 B44 . . . D 3 131.111 126.307 115.117 1 51.25 ? C5 B44 1502 A 1 HETATM 8 C C4 B44 . . . D 3 131.708 127.177 114.062 1 51.25 ? C4 B44 1502 A 1 HETATM 9 C C3 B44 . . . D 3 131.275 126.599 112.774 1 51.25 ? C3 B44 1502 A 1 HETATM 10 C C2 B44 . . . D 3 130.918 125.174 113.039 1 51.25 ? C2 B44 1502 A 1 HETATM 11 O O13 B44 . . . D 3 139.122 125.559 109.296 1 51.25 ? O13 B44 1502 A 1 HETATM 12 P P3 B44 . . . D 3 137.967 125.18 108.495 1 51.25 ? P3 B44 1502 A 1 HETATM 13 O O7 B44 . . . D 3 137.976 126.12 107.379 1 51.25 ? O7 B44 1502 A 1 HETATM 14 O O10 B44 . . . D 3 138.338 123.898 107.907 1 51.25 ? O10 B44 1502 A 1 HETATM 15 O O12 B44 . . . D 3 136.564 125.151 109.347 1 51.25 ? O12 B44 1502 A 1 HETATM 16 P P2 B44 . . . D 3 136.144 123.874 110.285 1 51.25 ? P2 B44 1502 A 1 HETATM 17 O O6 B44 . . . D 3 135.041 123.135 109.696 1 51.25 ? O6 B44 1502 A 1 HETATM 18 O O9 B44 . . . D 3 137.183 122.859 110.266 1 51.25 ? O9 B44 1502 A 1 HETATM 19 O O11 B44 . . . D 3 135.799 124.357 111.815 1 51.25 ? O11 B44 1502 A 1 HETATM 20 P P1 B44 . . . D 3 134.513 123.774 112.656 1 51.25 ? P1 B44 1502 A 1 HETATM 21 O O5 B44 . . . D 3 134.896 123.448 114.021 1 51.25 ? O5 B44 1502 A 1 HETATM 22 O O8 B44 . . . D 3 134.118 122.464 112.159 1 51.25 ? O8 B44 1502 A 1 HETATM 23 O O3 B44 . . . D 3 130.122 127.301 112.311 1 51.25 ? O3 B44 1502 A 1 HETATM 24 O O4 B44 . . . D 3 131.223 128.518 114.185 1 51.25 ? O4 B44 1502 A 1 HETATM 25 N N9 B44 . . . D 3 132.036 126.118 116.183 1 51.25 ? N9 B44 1502 A 1 HETATM 26 N N3 B44 . . . D 3 130.662 126.96 117.926 1 51.25 ? N3 B44 1502 A 1 HETATM 27 C C13 B44 . . . D 3 133.187 125.614 115.961 1 51.25 ? C13 B44 1502 A 1 HETATM 28 N N7 B44 . . . D 3 133.902 125.52 117.09 1 51.25 ? N7 B44 1502 A 1 HETATM 29 C C8 B44 . . . D 3 132.913 126.085 118.091 1 51.25 ? C8 B44 1502 A 1 HETATM 30 C C9 B44 . . . D 3 132.919 126.312 119.441 1 51.25 ? C9 B44 1502 A 1 HETATM 31 N N6 B44 . . . D 3 134.096 125.971 120.212 1 51.25 ? N6 B44 1502 A 1 HETATM 32 C C10 B44 . . . D 3 134.177 126.272 121.629 1 51.25 ? C10 B44 1502 A 1 HETATM 33 C C11 B44 . . . D 3 133.756 125.057 122.456 1 51.25 ? C11 B44 1502 A 1 HETATM 34 C C12 B44 . . . D 3 134.735 123.895 122.28 1 51.25 ? C12 B44 1502 A 1 HETATM 35 C C18 B44 . . . D 3 135.911 124.079 121.729 1 51.25 ? C18 B44 1502 A 1 HETATM 36 C C17 B44 . . . D 3 136.874 122.906 121.561 1 51.25 ? C17 B44 1502 A 1 HETATM 37 C C16 B44 . . . D 3 136.525 121.706 121.978 1 51.25 ? C16 B44 1502 A 1 HETATM 38 C C15 B44 . . . D 3 135.162 121.49 122.625 1 51.25 ? C15 B44 1502 A 1 HETATM 39 C C14 B44 . . . D 3 134.332 122.5 122.766 1 51.25 ? C14 B44 1502 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 40 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 39 #