data_5J5C # _model_server_result.job_id EUxOMArGBXBZPdNGLviqeQ _model_server_result.datetime_utc '2024-11-22 00:36:04' _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 5j5c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":204}' # _entry.id 5J5C # _exptl.entry_id 5J5C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 5 _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 5J5C _cell.length_a 107.819 _cell.length_b 107.819 _cell.length_c 204.627 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5J5C _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # _pdbx_struct_assembly.method_details PISA _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 _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 5 _struct_asym.id F _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 OG1 THR 18 A THR 31 1_555 C MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc2 A OG1 THR 35 A THR 48 1_555 C MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc3 C MG MG . A MG 201 1_555 F O1G GTP . A GTP 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc4 C MG MG . A MG 201 1_555 F O1B GTP . A GTP 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? # _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 5J5C _atom_sites.fract_transf_matrix[1][1] 0.009275 _atom_sites.fract_transf_matrix[1][2] 0.005355 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01071 _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] 0.004887 _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 MG A 1 201 1 MG MG . D 4 SO4 A 1 202 1 SO4 SO4 . E 4 SO4 A 1 203 2 SO4 SO4 . F 5 GTP A 1 204 1 GTP GTP . # 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 . . . F 5 -48.846 36.179 -8.641 1 99.23 ? PG GTP 204 A 1 HETATM 2 O O1G GTP . . . F 5 -48.075 36.895 -9.732 1 99.98 ? O1G GTP 204 A 1 HETATM 3 O O2G GTP . . . F 5 -50.329 36.465 -8.605 1 96.06 ? O2G GTP 204 A 1 HETATM 4 O O3G GTP . . . F 5 -48.562 34.704 -8.525 1 92.54 ? O3G GTP 204 A 1 HETATM 5 O O3B GTP . . . F 5 -48.244 36.805 -7.273 1 99.69 ? O3B GTP 204 A 1 HETATM 6 P PB GTP . . . F 5 -46.659 36.847 -6.942 1 95.92 ? PB GTP 204 A 1 HETATM 7 O O1B GTP . . . F 5 -45.934 37.639 -8.005 1 96.9 ? O1B GTP 204 A 1 HETATM 8 O O2B GTP . . . F 5 -46.215 35.453 -6.595 1 92.71 ? O2B GTP 204 A 1 HETATM 9 O O3A GTP . . . F 5 -46.58 37.643 -5.551 1 95.91 ? O3A GTP 204 A 1 HETATM 10 P PA GTP . . . F 5 -46.727 39.242 -5.473 1 101.94 ? PA GTP 204 A 1 HETATM 11 O O1A GTP . . . F 5 -47.531 39.735 -6.658 1 101.78 ? O1A GTP 204 A 1 HETATM 12 O O2A GTP . . . F 5 -45.354 39.819 -5.232 1 99.86 ? O2A GTP 204 A 1 HETATM 13 O O5' GTP . . . F 5 -47.639 39.397 -4.147 1 108 ? O5' GTP 204 A 1 HETATM 14 C C5' GTP . . . F 5 -47.194 39.025 -2.837 1 108.2 ? C5' GTP 204 A 1 HETATM 15 C C4' GTP . . . F 5 -47.747 40.006 -1.806 1 106.54 ? C4' GTP 204 A 1 HETATM 16 O O4' GTP . . . F 5 -47.234 39.697 -0.512 1 106.47 ? O4' GTP 204 A 1 HETATM 17 C C3' GTP . . . F 5 -47.338 41.433 -2.136 1 109.5 ? C3' GTP 204 A 1 HETATM 18 O O3' GTP . . . F 5 -48.504 42.254 -2.222 1 115.92 ? O3' GTP 204 A 1 HETATM 19 C C2' GTP . . . F 5 -46.467 41.915 -1.004 1 110.21 ? C2' GTP 204 A 1 HETATM 20 O O2' GTP . . . F 5 -47.04 43.087 -0.421 1 118.3 ? O2' GTP 204 A 1 HETATM 21 C C1' GTP . . . F 5 -46.443 40.773 0.001 1 114.52 ? C1' GTP 204 A 1 HETATM 22 N N9 GTP . . . F 5 -45.034 40.346 0.215 1 121.08 ? N9 GTP 204 A 1 HETATM 23 C C8 GTP . . . F 5 -44.141 40.028 -0.745 1 122.91 ? C8 GTP 204 A 1 HETATM 24 N N7 GTP . . . F 5 -42.94 39.69 -0.212 1 123.84 ? N7 GTP 204 A 1 HETATM 25 C C5 GTP . . . F 5 -43.055 39.789 1.123 1 124.64 ? C5 GTP 204 A 1 HETATM 26 C C6 GTP . . . F 5 -42.16 39.58 2.285 1 128.35 ? C6 GTP 204 A 1 HETATM 27 O O6 GTP . . . F 5 -40.979 39.207 2.11 1 129.18 ? O6 GTP 204 A 1 HETATM 28 N N1 GTP . . . F 5 -42.661 39.793 3.514 1 130.47 ? N1 GTP 204 A 1 HETATM 29 C C2 GTP . . . F 5 -43.936 40.191 3.72 1 131.18 ? C2 GTP 204 A 1 HETATM 30 N N2 GTP . . . F 5 -44.366 40.388 4.99 1 135.21 ? N2 GTP 204 A 1 HETATM 31 N N3 GTP . . . F 5 -44.81 40.404 2.698 1 128.53 ? N3 GTP 204 A 1 HETATM 32 C C4 GTP . . . F 5 -44.435 40.222 1.404 1 124.47 ? C4 GTP 204 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #