data_2RAP # _model_server_result.job_id lwxIsqbHEUFwRsdLVnnXkQ _model_server_result.datetime_utc '2024-11-30 10:17:35' _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 2rap # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":180}' # _entry.id 2RAP # _exptl.entry_id 2RAP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _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 2RAP _cell.length_a 64.5 _cell.length_b 64.5 _cell.length_c 84.2 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2RAP _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _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 _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 3 _struct_asym.id C _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 OG SER 17 A SER 17 1_555 B MG MG . A MG 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.723 ? metalc ? metalc2 A OG1 THR 35 A THR 35 1_555 B MG MG . A MG 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.888 ? metalc ? metalc3 C O3G GTP . A GTP 180 1_555 B MG MG . A MG 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc4 C O2B GTP . A GTP 180 1_555 B MG MG . A MG 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.613 ? metalc ? metalc5 B MG MG . A MG 181 1_555 D O HOH . A HOH 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.762 ? metalc ? metalc6 B MG MG . A MG 181 1_555 D O HOH . A HOH 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.716 ? # _chem_comp.formula 'C10 H16 N5 O14 P3' _chem_comp.formula_weight 523.18 _chem_comp.id GTP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-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 PG O1G GTP doub 129 n n PG O2G GTP sing 130 n n PG O3G GTP sing 131 n n PG O3B GTP sing 132 n n O2G HOG2 GTP sing 133 n n O3G HOG3 GTP sing 134 n n O3B PB GTP sing 135 n n PB O1B GTP doub 136 n n PB O2B GTP sing 137 n n PB O3A GTP sing 138 n n O2B HOB2 GTP sing 139 n n O3A PA GTP sing 140 n n PA O1A GTP doub 141 n n PA O2A GTP sing 142 n n PA O5' GTP sing 143 n n O2A HOA2 GTP sing 144 n n O5' C5' GTP sing 145 n n C5' C4' GTP sing 146 n n C5' H5' GTP sing 147 n n C5' "H5''" GTP sing 148 n n C4' O4' GTP sing 149 n n C4' C3' GTP sing 150 n n C4' H4' GTP sing 151 n n O4' C1' GTP sing 152 n n C3' O3' GTP sing 153 n n C3' C2' GTP sing 154 n n C3' H3' GTP sing 155 n n O3' HO3' GTP sing 156 n n C2' O2' GTP sing 157 n n C2' C1' GTP sing 158 n n C2' H2' GTP sing 159 n n O2' HO2' GTP sing 160 n n C1' N9 GTP sing 161 n n C1' H1' GTP sing 162 n n N9 C8 GTP sing 163 n y N9 C4 GTP sing 164 n y C8 N7 GTP doub 165 n y C8 H8 GTP sing 166 n n N7 C5 GTP sing 167 n y C5 C6 GTP sing 168 n n C5 C4 GTP doub 169 n y C6 O6 GTP doub 170 n n C6 N1 GTP sing 171 n n N1 C2 GTP sing 172 n n N1 HN1 GTP sing 173 n n C2 N2 GTP sing 174 n n C2 N3 GTP doub 175 n n N2 HN21 GTP sing 176 n n N2 HN22 GTP sing 177 n n N3 C4 GTP sing 178 n n # _atom_sites.entry_id 2RAP _atom_sites.fract_transf_matrix[1][1] 0.015504 _atom_sites.fract_transf_matrix[1][2] 0.008951 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017902 _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] 0.011876 _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 1 181 181 MG MG . C 3 GTP A 1 180 180 GTP GTP . D 4 HOH A 1 223 1 HOH HOH . D 4 HOH A 2 224 2 HOH HOH . D 4 HOH A 3 225 3 HOH HOH . D 4 HOH A 4 226 4 HOH HOH . D 4 HOH A 5 227 5 HOH HOH . D 4 HOH A 6 228 6 HOH HOH . D 4 HOH A 7 229 7 HOH HOH . D 4 HOH A 8 230 8 HOH HOH . D 4 HOH A 9 231 9 HOH HOH . D 4 HOH A 10 232 10 HOH HOH . D 4 HOH A 11 233 11 HOH HOH . D 4 HOH A 12 234 12 HOH HOH . D 4 HOH A 13 235 13 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 PG GTP . . . C 3 29.71 30.132 -5.989 1 52.48 ? PG GTP 180 A 1 HETATM 2 O O1G GTP . . . C 3 29.197 28.937 -5.265 1 43.51 ? O1G GTP 180 A 1 HETATM 3 O O2G GTP . . . C 3 30.881 29.816 -6.827 1 63.11 ? O2G GTP 180 A 1 HETATM 4 O O3G GTP . . . C 3 30.013 31.278 -5.117 1 29.97 ? O3G GTP 180 A 1 HETATM 5 O O3B GTP . . . C 3 28.517 30.631 -6.995 1 23.23 ? O3B GTP 180 A 1 HETATM 6 P PB GTP . . . C 3 27.017 31.171 -6.766 1 29.58 ? PB GTP 180 A 1 HETATM 7 O O1B GTP . . . C 3 26.072 30.05 -6.958 1 17.62 ? O1B GTP 180 A 1 HETATM 8 O O2B GTP . . . C 3 26.96 31.913 -5.483 1 38.76 ? O2B GTP 180 A 1 HETATM 9 O O3A GTP . . . C 3 26.807 32.212 -7.961 1 13.12 ? O3A GTP 180 A 1 HETATM 10 P PA GTP . . . C 3 26.277 33.726 -8.045 1 25.06 ? PA GTP 180 A 1 HETATM 11 O O1A GTP . . . C 3 25.089 33.867 -7.187 1 44.06 ? O1A GTP 180 A 1 HETATM 12 O O2A GTP . . . C 3 27.427 34.635 -7.843 1 23.47 ? O2A GTP 180 A 1 HETATM 13 O O5' GTP . . . C 3 25.804 33.834 -9.555 1 42.05 ? O5' GTP 180 A 1 HETATM 14 C C5' GTP . . . C 3 26.615 33.475 -10.679 1 19.97 ? C5' GTP 180 A 1 HETATM 15 C C4' GTP . . . C 3 26.219 34.288 -11.894 1 14.9 ? C4' GTP 180 A 1 HETATM 16 O O4' GTP . . . C 3 24.826 34.017 -12.143 1 19 ? O4' GTP 180 A 1 HETATM 17 C C3' GTP . . . C 3 26.372 35.802 -11.724 1 4.96 ? C3' GTP 180 A 1 HETATM 18 O O3' GTP . . . C 3 26.88 36.347 -12.936 1 44.49 ? O3' GTP 180 A 1 HETATM 19 C C2' GTP . . . C 3 24.932 36.243 -11.481 1 17.12 ? C2' GTP 180 A 1 HETATM 20 O O2' GTP . . . C 3 24.719 37.581 -11.901 1 32.45 ? O2' GTP 180 A 1 HETATM 21 C C1' GTP . . . C 3 24.069 35.24 -12.24 1 16.17 ? C1' GTP 180 A 1 HETATM 22 N N9 GTP . . . C 3 22.724 35.005 -11.63 1 28.1 ? N9 GTP 180 A 1 HETATM 23 C C8 GTP . . . C 3 22.443 34.655 -10.325 1 27.05 ? C8 GTP 180 A 1 HETATM 24 N N7 GTP . . . C 3 21.168 34.483 -10.079 1 33.25 ? N7 GTP 180 A 1 HETATM 25 C C5 GTP . . . C 3 20.554 34.737 -11.307 1 26.23 ? C5 GTP 180 A 1 HETATM 26 C C6 GTP . . . C 3 19.183 34.712 -11.659 1 29.31 ? C6 GTP 180 A 1 HETATM 27 O O6 GTP . . . C 3 18.205 34.448 -10.957 1 40.8 ? O6 GTP 180 A 1 HETATM 28 N N1 GTP . . . C 3 19 35.036 -13.013 1 26.85 ? N1 GTP 180 A 1 HETATM 29 C C2 GTP . . . C 3 20.022 35.339 -13.903 1 28.7 ? C2 GTP 180 A 1 HETATM 30 N N2 GTP . . . C 3 19.627 35.619 -15.147 1 44.24 ? N2 GTP 180 A 1 HETATM 31 N N3 GTP . . . C 3 21.301 35.367 -13.569 1 21.67 ? N3 GTP 180 A 1 HETATM 32 C C4 GTP . . . C 3 21.489 35.054 -12.257 1 41.91 ? C4 GTP 180 A 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 350 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 32 #