data_3ZJY # _model_server_result.job_id p6_zgWWm5SGGWHsTVUwHIg _model_server_result.datetime_utc '2024-11-04 20:35:33' _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 3zjy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":250}' # _entry.id 3ZJY # _exptl.entry_id 3ZJY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.91 _cell.angle_gamma 90 _cell.entry_id 3ZJY _cell.length_a 186.5 _cell.length_b 100.4 _cell.length_c 274.72 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ZJY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 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 trimeric 3 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,H,I 1 1 D,E,J,K 2 1 F,G,L,M 3 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 ? 4 H N N ? 4 J N N ? 4 L 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 OG1 THR 24 A THR 24 1_555 I MG MG . A MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc2 A OG1 THR 42 A THR 42 1_555 I MG MG . A MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? metalc ? metalc3 H O1G GTP . A GTP 250 1_555 I MG MG . A MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.695 ? metalc ? metalc4 H O1B GTP . A GTP 250 1_555 I MG MG . A MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc5 D OG1 THR 24 D THR 24 1_555 K MG MG . D MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc6 D OG1 THR 42 D THR 42 1_555 K MG MG . D MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc7 J O1B GTP . D GTP 250 1_555 K MG MG . D MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc8 J O2B GTP . D GTP 250 1_555 K MG MG . D MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.858 ? metalc ? metalc9 J O3G GTP . D GTP 250 1_555 K MG MG . D MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.83 ? metalc ? metalc10 J O1G GTP . D GTP 250 1_555 K MG MG . D MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc11 F OG1 THR 24 F THR 24 1_555 M MG MG . F MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.525 ? metalc ? metalc12 F OG1 THR 42 F THR 42 1_555 M MG MG . F MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? metalc ? metalc13 F OD1 ASP 65 F ASP 65 1_555 M MG MG . F MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.86 ? metalc ? metalc14 L O1B GTP . F GTP 250 1_555 M MG MG . F MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc15 L O1G GTP . F GTP 250 1_555 M MG MG . F MG 1178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.844 ? # _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 3ZJY _atom_sites.fract_transf_matrix[1][1] 0.005362 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000085 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00996 _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] 0.003641 _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 H 4 GTP A 1 250 250 GTP GTP . I 5 MG A 1 1178 1178 MG MG . J 4 GTP D 1 250 250 GTP GTP . K 5 MG D 1 1178 1178 MG MG . L 4 GTP F 1 250 250 GTP GTP . M 5 MG F 1 1178 1178 MG MG . # 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 . . . H 4 54.907 -7.072 94.24 1 102.15 ? PG GTP 250 A 1 HETATM 2 O O1G GTP . . . H 4 55.905 -6.712 93.153 1 103.12 ? O1G GTP 250 A 1 HETATM 3 O O2G GTP . . . H 4 55.305 -8.404 94.826 1 101.83 ? O2G GTP 250 A 1 HETATM 4 O O3G GTP . . . H 4 53.51 -7.202 93.668 1 102.08 ? O3G GTP 250 A 1 HETATM 5 O O3B GTP . . . H 4 54.948 -5.903 95.363 1 102.26 ? O3B GTP 250 A 1 HETATM 6 P PB GTP . . . H 4 54.58 -4.393 94.904 1 104.16 ? PB GTP 250 A 1 HETATM 7 O O1B GTP . . . H 4 53.852 -4.429 93.57 1 101.96 ? O1B GTP 250 A 1 HETATM 8 O O2B GTP . . . H 4 55.854 -3.576 94.81 1 102.36 ? O2B GTP 250 A 1 HETATM 9 O O3A GTP . . . H 4 53.637 -3.733 96.043 1 104.32 ? O3A GTP 250 A 1 HETATM 10 P PA GTP . . . H 4 52.791 -2.401 95.677 1 108.35 ? PA GTP 250 A 1 HETATM 11 O O1A GTP . . . H 4 53.715 -1.229 95.44 1 108.8 ? O1A GTP 250 A 1 HETATM 12 O O2A GTP . . . H 4 51.906 -2.632 94.474 1 108.85 ? O2A GTP 250 A 1 HETATM 13 O O5' GTP . . . H 4 51.85 -2.127 96.953 1 122.59 ? O5' GTP 250 A 1 HETATM 14 C C5' GTP . . . H 4 51.405 -0.817 97.206 1 122.59 ? C5' GTP 250 A 1 HETATM 15 C C4' GTP . . . H 4 51.018 -0.627 98.665 1 122.59 ? C4' GTP 250 A 1 HETATM 16 O O4' GTP . . . H 4 52.166 -0.484 99.476 1 122.59 ? O4' GTP 250 A 1 HETATM 17 C C3' GTP . . . H 4 50.204 0.643 98.834 1 122.59 ? C3' GTP 250 A 1 HETATM 18 O O3' GTP . . . H 4 48.832 0.342 98.947 1 122.59 ? O3' GTP 250 A 1 HETATM 19 C C2' GTP . . . H 4 50.722 1.287 100.105 1 122.59 ? C2' GTP 250 A 1 HETATM 20 O O2' GTP . . . H 4 49.736 1.242 101.111 1 122.59 ? O2' GTP 250 A 1 HETATM 21 C C1' GTP . . . H 4 51.961 0.485 100.491 1 122.59 ? C1' GTP 250 A 1 HETATM 22 N N9 GTP . . . H 4 53.129 1.386 100.582 1 108.68 ? N9 GTP 250 A 1 HETATM 23 C C8 GTP . . . H 4 54.177 1.443 99.697 1 109.62 ? C8 GTP 250 A 1 HETATM 24 N N7 GTP . . . H 4 55.053 2.382 100.119 1 107.13 ? N7 GTP 250 A 1 HETATM 25 C C5 GTP . . . H 4 54.586 2.918 101.27 1 107.36 ? C5 GTP 250 A 1 HETATM 26 C C6 GTP . . . H 4 55.096 3.902 102.11 1 106.34 ? C6 GTP 250 A 1 HETATM 27 O O6 GTP . . . H 4 56.161 4.449 101.832 1 104.81 ? O6 GTP 250 A 1 HETATM 28 N N1 GTP . . . H 4 54.399 4.263 103.244 1 107.85 ? N1 GTP 250 A 1 HETATM 29 C C2 GTP . . . H 4 53.201 3.641 103.532 1 109.68 ? C2 GTP 250 A 1 HETATM 30 N N2 GTP . . . H 4 52.518 3.98 104.621 1 111.78 ? N2 GTP 250 A 1 HETATM 31 N N3 GTP . . . H 4 52.702 2.662 102.695 1 109.64 ? N3 GTP 250 A 1 HETATM 32 C C4 GTP . . . H 4 53.38 2.302 101.578 1 108.63 ? C4 GTP 250 A 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #