data_5XR7 # _model_server_result.job_id xZrqV1lLJAe6uWUc_dx1YA _model_server_result.datetime_utc '2024-10-20 00:38:23' _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 5xr7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5XR7 # _exptl.entry_id 5XR7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 86.66 _cell.angle_beta 74.07 _cell.angle_gamma 82.28 _cell.entry_id 5XR7 _cell.length_a 37.57 _cell.length_b 43.046 _cell.length_c 67.609 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XR7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 ? 2 C N N ? 2 E 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 OG SER 39 A SER 27 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.901 ? metalc ? metalc2 A OG1 THR 57 A THR 45 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc3 C O2G GTP . A GTP 301 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc4 C O2B GTP . A GTP 301 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc5 D MG MG . A MG 302 1_555 G O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.525 ? metalc ? metalc6 B OG SER 39 B SER 27 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? metalc ? metalc7 B OG1 THR 57 B THR 45 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? metalc ? metalc8 E O1G GTP . B GTP 201 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.826 ? metalc ? metalc9 E O1B GTP . B GTP 201 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc10 F MG MG . B MG 202 1_555 H O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc11 F MG MG . B MG 202 1_555 H O HOH . B HOH 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? # _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 5XR7 _atom_sites.fract_transf_matrix[1][1] 0.026617 _atom_sites.fract_transf_matrix[1][2] -0.00361 _atom_sites.fract_transf_matrix[1][3] -0.007517 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023444 _atom_sites.fract_transf_matrix[2][3] -0.000528 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015385 _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 2 GTP A 1 301 301 GTP GTP . D 3 MG A 1 302 2 MG MG . E 2 GTP B 1 201 302 GTP GTP . F 3 MG B 1 202 1 MG MG . G 4 HOH A 1 401 5 HOH HOH . G 4 HOH A 2 402 15 HOH HOH . G 4 HOH A 3 403 8 HOH HOH . G 4 HOH A 4 404 9 HOH HOH . G 4 HOH A 5 405 16 HOH HOH . G 4 HOH A 6 406 14 HOH HOH . G 4 HOH A 7 407 11 HOH HOH . H 4 HOH B 1 301 1 HOH HOH . H 4 HOH B 2 302 10 HOH HOH . H 4 HOH B 3 303 4 HOH HOH . H 4 HOH B 4 304 7 HOH HOH . H 4 HOH B 5 305 3 HOH HOH . H 4 HOH B 6 306 2 HOH HOH . H 4 HOH B 7 307 12 HOH HOH . H 4 HOH B 8 308 6 HOH HOH . H 4 HOH B 9 309 13 HOH HOH . H 4 HOH B 10 310 17 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 2 -119.923 -49.284 -38.852 1 69.79 ? PG GTP 301 A 1 HETATM 2 O O1G GTP . . . C 2 -118.593 -48.7 -39.342 1 57.39 ? O1G GTP 301 A 1 HETATM 3 O O2G GTP . . . C 2 -119.685 -50.268 -37.72 1 49.29 ? O2G GTP 301 A 1 HETATM 4 O O3G GTP . . . C 2 -120.802 -48.171 -38.301 1 58.84 ? O3G GTP 301 A 1 HETATM 5 O O3B GTP . . . C 2 -120.672 -49.991 -40.113 1 49.61 ? O3B GTP 301 A 1 HETATM 6 P PB GTP . . . C 2 -120.482 -51.553 -40.488 1 44.96 ? PB GTP 301 A 1 HETATM 7 O O1B GTP . . . C 2 -119.544 -51.722 -41.675 1 40.98 ? O1B GTP 301 A 1 HETATM 8 O O2B GTP . . . C 2 -120.063 -52.395 -39.289 1 42.64 ? O2B GTP 301 A 1 HETATM 9 O O3A GTP . . . C 2 -121.946 -52.007 -40.931 1 43.54 ? O3A GTP 301 A 1 HETATM 10 P PA GTP . . . C 2 -122.676 -53.218 -40.18 1 41.41 ? PA GTP 301 A 1 HETATM 11 O O1A GTP . . . C 2 -121.812 -54.461 -40.063 1 34.55 ? O1A GTP 301 A 1 HETATM 12 O O2A GTP . . . C 2 -123.208 -52.73 -38.85 1 49.41 ? O2A GTP 301 A 1 HETATM 13 O O5' GTP . . . C 2 -123.956 -53.43 -41.139 1 47.56 ? O5' GTP 301 A 1 HETATM 14 C C5' GTP . . . C 2 -124.392 -52.333 -41.926 1 49.85 ? C5' GTP 301 A 1 HETATM 15 C C4' GTP . . . C 2 -125.774 -52.589 -42.505 1 42.8 ? C4' GTP 301 A 1 HETATM 16 O O4' GTP . . . C 2 -125.623 -53.295 -43.722 1 41.84 ? O4' GTP 301 A 1 HETATM 17 C C3' GTP . . . C 2 -126.541 -53.476 -41.56 1 51.22 ? C3' GTP 301 A 1 HETATM 18 O O3' GTP . . . C 2 -127.854 -52.971 -41.477 1 64.36 ? O3' GTP 301 A 1 HETATM 19 C C2' GTP . . . C 2 -126.551 -54.841 -42.213 1 49.96 ? C2' GTP 301 A 1 HETATM 20 O O2' GTP . . . C 2 -127.794 -55.481 -42.051 1 52.85 ? O2' GTP 301 A 1 HETATM 21 C C1' GTP . . . C 2 -126.256 -54.561 -43.676 1 45.28 ? C1' GTP 301 A 1 HETATM 22 N N9 GTP . . . C 2 -125.41 -55.645 -44.225 1 44.27 ? N9 GTP 301 A 1 HETATM 23 C C8 GTP . . . C 2 -124.168 -56.027 -43.79 1 46.74 ? C8 GTP 301 A 1 HETATM 24 N N7 GTP . . . C 2 -123.746 -57.069 -44.542 1 44.99 ? N7 GTP 301 A 1 HETATM 25 C C5 GTP . . . C 2 -124.69 -57.359 -45.454 1 43.24 ? C5 GTP 301 A 1 HETATM 26 C C6 GTP . . . C 2 -124.764 -58.312 -46.452 1 43.74 ? C6 GTP 301 A 1 HETATM 27 O O6 GTP . . . C 2 -123.866 -59.11 -46.665 1 42.48 ? O6 GTP 301 A 1 HETATM 28 N N1 GTP . . . C 2 -125.875 -58.368 -47.243 1 50.81 ? N1 GTP 301 A 1 HETATM 29 C C2 GTP . . . C 2 -126.92 -57.491 -47.049 1 48.97 ? C2 GTP 301 A 1 HETATM 30 N N2 GTP . . . C 2 -127.991 -57.575 -47.838 1 51.85 ? N2 GTP 301 A 1 HETATM 31 N N3 GTP . . . C 2 -126.843 -56.538 -46.056 1 46.95 ? N3 GTP 301 A 1 HETATM 32 C C4 GTP . . . C 2 -125.742 -56.476 -45.264 1 46.81 ? C4 GTP 301 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #