data_4PYG # _model_server_result.job_id gx89Y4rAqS1n86zxGGGlJQ _model_server_result.datetime_utc '2024-10-18 16:30:48' _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 4pyg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":701}' # _entry.id 4PYG # _exptl.entry_id 4PYG _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 3 _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 90 _cell.entry_id 4PYG _cell.length_a 133.546 _cell.length_b 216.218 _cell.length_c 165.183 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PYG _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # 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 PISA monomeric 1 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,D,G 1 1 B,E,H 2 1 C,F,I 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 ? 2 D N N ? 2 E N N ? 2 F 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 disulf ? disulf1 A SG CYS 230 A CYS 230 1_555 A SG CYS 370 A CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? disulf ? disulf2 B SG CYS 230 B CYS 230 1_555 B SG CYS 370 B CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf3 C SG CYS 230 E CYS 230 1_555 C SG CYS 370 E CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? # _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 ? # _atom_sites.entry_id 4PYG _atom_sites.fract_transf_matrix[1][1] 0.007488 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004625 _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] 0.006054 _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 D 2 GTP A 1 701 1 GTP GTP . E 2 GTP B 1 701 1 GTP GTP . F 2 GTP E 1 701 1 GTP GTP . G 3 HOH A 1 801 2 HOH HOH . G 3 HOH A 2 802 4 HOH HOH . G 3 HOH A 3 803 5 HOH HOH . G 3 HOH A 4 804 7 HOH HOH . G 3 HOH A 5 805 9 HOH HOH . G 3 HOH A 6 806 15 HOH HOH . G 3 HOH A 7 807 18 HOH HOH . G 3 HOH A 8 808 19 HOH HOH . G 3 HOH A 9 809 20 HOH HOH . G 3 HOH A 10 810 21 HOH HOH . G 3 HOH A 11 811 27 HOH HOH . G 3 HOH A 12 812 28 HOH HOH . G 3 HOH A 13 813 32 HOH HOH . G 3 HOH A 14 814 34 HOH HOH . G 3 HOH A 15 815 36 HOH HOH . G 3 HOH A 16 816 39 HOH HOH . G 3 HOH A 17 817 53 HOH HOH . G 3 HOH A 18 818 58 HOH HOH . G 3 HOH A 19 819 60 HOH HOH . G 3 HOH A 20 820 61 HOH HOH . G 3 HOH A 21 821 62 HOH HOH . G 3 HOH A 22 822 63 HOH HOH . G 3 HOH A 23 823 65 HOH HOH . G 3 HOH A 24 824 67 HOH HOH . G 3 HOH A 25 825 71 HOH HOH . G 3 HOH A 26 826 75 HOH HOH . G 3 HOH A 27 827 78 HOH HOH . G 3 HOH A 28 828 79 HOH HOH . G 3 HOH A 29 829 81 HOH HOH . G 3 HOH A 30 830 87 HOH HOH . G 3 HOH A 31 831 89 HOH HOH . G 3 HOH A 32 832 93 HOH HOH . G 3 HOH A 33 833 97 HOH HOH . G 3 HOH A 34 834 102 HOH HOH . H 3 HOH B 1 801 10 HOH HOH . H 3 HOH B 2 802 11 HOH HOH . H 3 HOH B 3 803 12 HOH HOH . H 3 HOH B 4 804 13 HOH HOH . H 3 HOH B 5 805 16 HOH HOH . H 3 HOH B 6 806 22 HOH HOH . H 3 HOH B 7 807 23 HOH HOH . H 3 HOH B 8 808 25 HOH HOH . H 3 HOH B 9 809 26 HOH HOH . H 3 HOH B 10 810 29 HOH HOH . H 3 HOH B 11 811 30 HOH HOH . H 3 HOH B 12 812 31 HOH HOH . H 3 HOH B 13 813 35 HOH HOH . H 3 HOH B 14 814 40 HOH HOH . H 3 HOH B 15 815 41 HOH HOH . H 3 HOH B 16 816 44 HOH HOH . H 3 HOH B 17 817 46 HOH HOH . H 3 HOH B 18 818 47 HOH HOH . H 3 HOH B 19 819 48 HOH HOH . H 3 HOH B 20 820 49 HOH HOH . H 3 HOH B 21 821 50 HOH HOH . H 3 HOH B 22 822 52 HOH HOH . H 3 HOH B 23 823 57 HOH HOH . H 3 HOH B 24 824 59 HOH HOH . H 3 HOH B 25 825 64 HOH HOH . H 3 HOH B 26 826 66 HOH HOH . H 3 HOH B 27 827 69 HOH HOH . H 3 HOH B 28 828 70 HOH HOH . H 3 HOH B 29 829 72 HOH HOH . H 3 HOH B 30 830 76 HOH HOH . H 3 HOH B 31 831 77 HOH HOH . H 3 HOH B 32 832 83 HOH HOH . H 3 HOH B 33 833 85 HOH HOH . H 3 HOH B 34 834 88 HOH HOH . H 3 HOH B 35 835 90 HOH HOH . H 3 HOH B 36 836 91 HOH HOH . H 3 HOH B 37 837 96 HOH HOH . H 3 HOH B 38 838 99 HOH HOH . H 3 HOH B 39 839 100 HOH HOH . H 3 HOH B 40 840 103 HOH HOH . H 3 HOH B 41 841 107 HOH HOH . H 3 HOH B 42 842 108 HOH HOH . I 3 HOH E 1 801 1 HOH HOH . I 3 HOH E 2 802 3 HOH HOH . I 3 HOH E 3 803 6 HOH HOH . I 3 HOH E 4 804 8 HOH HOH . I 3 HOH E 5 805 14 HOH HOH . I 3 HOH E 6 806 17 HOH HOH . I 3 HOH E 7 807 24 HOH HOH . I 3 HOH E 8 808 33 HOH HOH . I 3 HOH E 9 809 37 HOH HOH . I 3 HOH E 10 810 38 HOH HOH . I 3 HOH E 11 811 42 HOH HOH . I 3 HOH E 12 812 43 HOH HOH . I 3 HOH E 13 813 45 HOH HOH . I 3 HOH E 14 814 51 HOH HOH . I 3 HOH E 15 815 54 HOH HOH . I 3 HOH E 16 816 55 HOH HOH . I 3 HOH E 17 817 56 HOH HOH . I 3 HOH E 18 818 68 HOH HOH . I 3 HOH E 19 819 73 HOH HOH . I 3 HOH E 20 820 74 HOH HOH . I 3 HOH E 21 821 80 HOH HOH . I 3 HOH E 22 822 82 HOH HOH . I 3 HOH E 23 823 84 HOH HOH . I 3 HOH E 24 824 86 HOH HOH . I 3 HOH E 25 825 92 HOH HOH . I 3 HOH E 26 826 94 HOH HOH . I 3 HOH E 27 827 95 HOH HOH . I 3 HOH E 28 828 98 HOH HOH . I 3 HOH E 29 829 101 HOH HOH . I 3 HOH E 30 830 104 HOH HOH . I 3 HOH E 31 831 105 HOH HOH . I 3 HOH E 32 832 106 HOH HOH . I 3 HOH E 33 833 109 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 . . . D 2 19.143 -0.163 2.727 1 81.4 ? PG GTP 701 A 1 HETATM 2 O O1G GTP . . . D 2 19.698 0.574 1.55 1 81.08 ? O1G GTP 701 A 1 HETATM 3 O O2G GTP . . . D 2 17.764 0.253 3.094 1 80.46 ? O2G GTP 701 A 1 HETATM 4 O O3G GTP . . . D 2 20.084 -0.387 3.869 1 77.69 ? O3G GTP 701 A 1 HETATM 5 O O3B GTP . . . D 2 18.97 -1.518 1.893 1 75.61 ? O3B GTP 701 A 1 HETATM 6 P PB GTP . . . D 2 18.372 -2.842 2.486 1 70.85 ? PB GTP 701 A 1 HETATM 7 O O1B GTP . . . D 2 18.48 -2.858 3.939 1 70.99 ? O1B GTP 701 A 1 HETATM 8 O O2B GTP . . . D 2 19.005 -3.902 1.681 1 73.68 ? O2B GTP 701 A 1 HETATM 9 O O3A GTP . . . D 2 16.88 -2.916 2.082 1 67.64 ? O3A GTP 701 A 1 HETATM 10 P PA GTP . . . D 2 15.69 -2.064 2.663 1 64.92 ? PA GTP 701 A 1 HETATM 11 O O1A GTP . . . D 2 15.864 -0.685 2.146 1 66.79 ? O1A GTP 701 A 1 HETATM 12 O O2A GTP . . . D 2 15.428 -2.285 4.095 1 64.79 ? O2A GTP 701 A 1 HETATM 13 O O5' GTP . . . D 2 14.598 -2.791 1.807 1 61.47 ? O5' GTP 701 A 1 HETATM 14 C C5' GTP . . . D 2 15.084 -3.41 0.602 1 56.35 ? C5' GTP 701 A 1 HETATM 15 C C4' GTP . . . D 2 13.94 -4.064 -0.141 1 53.7 ? C4' GTP 701 A 1 HETATM 16 O O4' GTP . . . D 2 13.62 -5.318 0.468 1 53.15 ? O4' GTP 701 A 1 HETATM 17 C C3' GTP . . . D 2 12.72 -3.213 -0.002 1 53.67 ? C3' GTP 701 A 1 HETATM 18 O O3' GTP . . . D 2 11.985 -3.363 -1.17 1 54.18 ? O3' GTP 701 A 1 HETATM 19 C C2' GTP . . . D 2 11.962 -3.842 1.127 1 53.8 ? C2' GTP 701 A 1 HETATM 20 O O2' GTP . . . D 2 10.562 -3.601 0.98 1 53.86 ? O2' GTP 701 A 1 HETATM 21 C C1' GTP . . . D 2 12.297 -5.315 0.973 1 52.74 ? C1' GTP 701 A 1 HETATM 22 N N9 GTP . . . D 2 12.444 -5.935 2.293 1 53.49 ? N9 GTP 701 A 1 HETATM 23 C C8 GTP . . . D 2 13.06 -5.358 3.333 1 52.89 ? C8 GTP 701 A 1 HETATM 24 N N7 GTP . . . D 2 13.016 -6.188 4.354 1 51.95 ? N7 GTP 701 A 1 HETATM 25 C C5 GTP . . . D 2 12.352 -7.278 3.967 1 53.4 ? C5 GTP 701 A 1 HETATM 26 C C6 GTP . . . D 2 12.033 -8.403 4.625 1 53.43 ? C6 GTP 701 A 1 HETATM 27 O O6 GTP . . . D 2 12.349 -8.566 5.813 1 54.38 ? O6 GTP 701 A 1 HETATM 28 N N1 GTP . . . D 2 11.329 -9.413 3.96 1 51.2 ? N1 GTP 701 A 1 HETATM 29 C C2 GTP . . . D 2 10.987 -9.235 2.629 1 49.64 ? C2 GTP 701 A 1 HETATM 30 N N2 GTP . . . D 2 10.34 -10.191 1.972 1 45.98 ? N2 GTP 701 A 1 HETATM 31 N N3 GTP . . . D 2 11.329 -8.087 2.028 1 51.81 ? N3 GTP 701 A 1 HETATM 32 C C4 GTP . . . D 2 12.008 -7.127 2.682 1 53.22 ? C4 GTP 701 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 32 #