data_1VST # _model_server_result.job_id mbR3qFdaAVf6wxuuvR1R2Q _model_server_result.datetime_utc '2024-11-12 21:36:34' _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 1vst # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 1VST # _exptl.entry_id 1VST _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 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 1VST _cell.length_a 122.2 _cell.length_b 122.2 _cell.length_c 62.2 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VST _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 61.1 105.828304 0 3 'crystal symmetry operation' 7_556 y,x,-z+4/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 82.933333 4 'crystal symmetry operation' 10_666 -y+1,-x+1,-z+4/3 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 61.1 105.828304 82.933333 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 B O1B GTP . A GTP 301 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc2 B O1A GTP . A GTP 301 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? # _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 116 n n PG O2G GTP sing 117 n n PG O3G GTP sing 118 n n PG O3B GTP sing 119 n n O2G HOG2 GTP sing 120 n n O3G HOG3 GTP sing 121 n n O3B PB GTP sing 122 n n PB O1B GTP doub 123 n n PB O2B GTP sing 124 n n PB O3A GTP sing 125 n n O2B HOB2 GTP sing 126 n n O3A PA GTP sing 127 n n PA O1A GTP doub 128 n n PA O2A GTP sing 129 n n PA O5' GTP sing 130 n n O2A HOA2 GTP sing 131 n n O5' C5' GTP sing 132 n n C5' C4' GTP sing 133 n n C5' H5' GTP sing 134 n n C5' "H5''" GTP sing 135 n n C4' O4' GTP sing 136 n n C4' C3' GTP sing 137 n n C4' H4' GTP sing 138 n n O4' C1' GTP sing 139 n n C3' O3' GTP sing 140 n n C3' C2' GTP sing 141 n n C3' H3' GTP sing 142 n n O3' HO3' GTP sing 143 n n C2' O2' GTP sing 144 n n C2' C1' GTP sing 145 n n C2' H2' GTP sing 146 n n O2' HO2' GTP sing 147 n n C1' N9 GTP sing 148 n n C1' H1' GTP sing 149 n n N9 C8 GTP sing 150 n y N9 C4 GTP sing 151 n y C8 N7 GTP doub 152 n y C8 H8 GTP sing 153 n n N7 C5 GTP sing 154 n y C5 C6 GTP sing 155 n n C5 C4 GTP doub 156 n y C6 O6 GTP doub 157 n n C6 N1 GTP sing 158 n n N1 C2 GTP sing 159 n n N1 HN1 GTP sing 160 n n C2 N2 GTP sing 161 n n C2 N3 GTP doub 162 n n N2 HN21 GTP sing 163 n n N2 HN22 GTP sing 164 n n N3 C4 GTP sing 165 n n # _atom_sites.entry_id 1VST _atom_sites.fract_transf_matrix[1][1] 0.008183 _atom_sites.fract_transf_matrix[1][2] 0.004725 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009449 _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] 0.016077 _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 GTP A 1 301 301 GTP GTP . C 3 MG A 1 302 302 MG MG2 . D 4 PRP A 1 303 303 PRP PRP . E 5 HOH A 1 401 401 HOH HOH . E 5 HOH A 2 402 402 HOH HOH . E 5 HOH A 3 403 403 HOH HOH . E 5 HOH A 4 404 404 HOH HOH . E 5 HOH A 5 406 406 HOH HOH . E 5 HOH A 6 407 407 HOH HOH . E 5 HOH A 7 408 408 HOH HOH . E 5 HOH A 8 409 409 HOH HOH . E 5 HOH A 9 410 410 HOH HOH . E 5 HOH A 10 411 411 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 . . . B 2 26.819 55.906 36.952 1 21.46 ? PG GTP 301 A 1 HETATM 2 O O1G GTP . . . B 2 26.228 55.879 35.586 1 21.79 ? O1G GTP 301 A 1 HETATM 3 O O2G GTP . . . B 2 25.874 56.483 37.966 1 24.69 ? O2G GTP 301 A 1 HETATM 4 O O3G GTP . . . B 2 28.05 56.698 36.915 1 22.79 ? O3G GTP 301 A 1 HETATM 5 O O3B GTP . . . B 2 27.178 54.478 37.35 1 23.15 ? O3B GTP 301 A 1 HETATM 6 P PB GTP . . . B 2 27.267 53.85 38.791 1 21.07 ? PB GTP 301 A 1 HETATM 7 O O1B GTP . . . B 2 27.199 54.92 39.81 1 21.12 ? O1B GTP 301 A 1 HETATM 8 O O2B GTP . . . B 2 28.516 53.051 38.89 1 25.42 ? O2B GTP 301 A 1 HETATM 9 O O3A GTP . . . B 2 26.041 52.935 38.856 1 22.69 ? O3A GTP 301 A 1 HETATM 10 P PA GTP . . . B 2 24.842 52.815 39.858 1 23.43 ? PA GTP 301 A 1 HETATM 11 O O1A GTP . . . B 2 25.136 53.695 41.056 1 22.43 ? O1A GTP 301 A 1 HETATM 12 O O2A GTP . . . B 2 24.662 51.343 40.128 1 24.59 ? O2A GTP 301 A 1 HETATM 13 O O5' GTP . . . B 2 23.68 53.45 38.99 1 25.46 ? O5' GTP 301 A 1 HETATM 14 C C5' GTP . . . B 2 23.395 53.17 37.639 1 24.07 ? C5' GTP 301 A 1 HETATM 15 C C4' GTP . . . B 2 22.241 54.017 37.283 1 24.84 ? C4' GTP 301 A 1 HETATM 16 O O4' GTP . . . B 2 21.251 54.017 38.363 1 24.57 ? O4' GTP 301 A 1 HETATM 17 C C3' GTP . . . B 2 22.571 55.487 37.058 1 25.75 ? C3' GTP 301 A 1 HETATM 18 O O3' GTP . . . B 2 22.957 55.73 35.704 1 26.43 ? O3' GTP 301 A 1 HETATM 19 C C2' GTP . . . B 2 21.31 56.191 37.521 1 26.9 ? C2' GTP 301 A 1 HETATM 20 O O2' GTP . . . B 2 20.399 56.397 36.402 1 28.93 ? O2' GTP 301 A 1 HETATM 21 C C1' GTP . . . B 2 20.655 55.312 38.534 1 25.89 ? C1' GTP 301 A 1 HETATM 22 N N9 GTP . . . B 2 20.862 55.7 39.967 1 25.43 ? N9 GTP 301 A 1 HETATM 23 C C8 GTP . . . B 2 21.929 55.36 40.797 1 25.82 ? C8 GTP 301 A 1 HETATM 24 N N7 GTP . . . B 2 21.867 55.86 41.998 1 25.97 ? N7 GTP 301 A 1 HETATM 25 C C5 GTP . . . B 2 20.683 56.566 42.002 1 24.7 ? C5 GTP 301 A 1 HETATM 26 C C6 GTP . . . B 2 20.054 57.334 43.059 1 24.23 ? C6 GTP 301 A 1 HETATM 27 O O6 GTP . . . B 2 20.45 57.522 44.205 1 24.75 ? O6 GTP 301 A 1 HETATM 28 N N1 GTP . . . B 2 18.807 57.937 42.65 1 23.36 ? N1 GTP 301 A 1 HETATM 29 C C2 GTP . . . B 2 18.239 57.795 41.387 1 22.54 ? C2 GTP 301 A 1 HETATM 30 N N2 GTP . . . B 2 17.071 58.415 41.199 1 21.17 ? N2 GTP 301 A 1 HETATM 31 N N3 GTP . . . B 2 18.817 57.071 40.392 1 24.43 ? N3 GTP 301 A 1 HETATM 32 C C4 GTP . . . B 2 20.041 56.48 40.758 1 25.35 ? C4 GTP 301 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 259 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #