data_4PYG # _model_server_result.job_id HS6VDl0U8vFWfR1zFbW6xw _model_server_result.datetime_utc '2024-12-25 01:32:27' _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":"E","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 ? # 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 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 . . . E 2 42.336 -40.941 24.212 1 80.78 ? PG GTP 701 B 1 HETATM 2 O O1G GTP . . . E 2 43.133 -40.96 25.473 1 80.1 ? O1G GTP 701 B 1 HETATM 3 O O2G GTP . . . E 2 42.311 -42.229 23.463 1 79.37 ? O2G GTP 701 B 1 HETATM 4 O O3G GTP . . . E 2 42.56 -39.712 23.394 1 78.47 ? O3G GTP 701 B 1 HETATM 5 O O3B GTP . . . E 2 40.856 -40.938 24.93 1 75.46 ? O3B GTP 701 B 1 HETATM 6 P PB GTP . . . E 2 39.614 -40.213 24.27 1 70.98 ? PB GTP 701 B 1 HETATM 7 O O1B GTP . . . E 2 39.741 -40.236 22.81 1 72.28 ? O1B GTP 701 B 1 HETATM 8 O O2B GTP . . . E 2 39.456 -38.93 24.998 1 69.97 ? O2B GTP 701 B 1 HETATM 9 O O3A GTP . . . E 2 38.384 -41.193 24.455 1 70.57 ? O3A GTP 701 B 1 HETATM 10 P PA GTP . . . E 2 38.482 -42.767 24.298 1 67.74 ? PA GTP 701 B 1 HETATM 11 O O1A GTP . . . E 2 39.754 -43.135 24.936 1 71.46 ? O1A GTP 701 B 1 HETATM 12 O O2A GTP . . . E 2 38.145 -43.299 22.965 1 66.19 ? O2A GTP 701 B 1 HETATM 13 O O5' GTP . . . E 2 37.305 -43.162 25.269 1 68.03 ? O5' GTP 701 B 1 HETATM 14 C C5' GTP . . . E 2 37.123 -42.605 26.569 1 66.1 ? C5' GTP 701 B 1 HETATM 15 C C4' GTP . . . E 2 35.792 -43.192 27.068 1 67.1 ? C4' GTP 701 B 1 HETATM 16 O O4' GTP . . . E 2 34.802 -42.466 26.346 1 66.92 ? O4' GTP 701 B 1 HETATM 17 C C3' GTP . . . E 2 35.668 -44.663 26.668 1 65.67 ? C3' GTP 701 B 1 HETATM 18 O O3' GTP . . . E 2 35.045 -45.377 27.707 1 65.63 ? O3' GTP 701 B 1 HETATM 19 C C2' GTP . . . E 2 34.686 -44.717 25.609 1 67.35 ? C2' GTP 701 B 1 HETATM 20 O O2' GTP . . . E 2 33.775 -45.777 25.999 1 70.12 ? O2' GTP 701 B 1 HETATM 21 C C1' GTP . . . E 2 33.955 -43.353 25.664 1 67.26 ? C1' GTP 701 B 1 HETATM 22 N N9 GTP . . . E 2 33.63 -42.853 24.275 1 66.57 ? N9 GTP 701 B 1 HETATM 23 C C8 GTP . . . E 2 34.443 -42.679 23.247 1 64.9 ? C8 GTP 701 B 1 HETATM 24 N N7 GTP . . . E 2 33.719 -42.257 22.226 1 65.66 ? N7 GTP 701 B 1 HETATM 25 C C5 GTP . . . E 2 32.452 -42.148 22.609 1 65.76 ? C5 GTP 701 B 1 HETATM 26 C C6 GTP . . . E 2 31.338 -41.769 21.969 1 65.16 ? C6 GTP 701 B 1 HETATM 27 O O6 GTP . . . E 2 31.328 -41.426 20.786 1 63.41 ? O6 GTP 701 B 1 HETATM 28 N N1 GTP . . . E 2 30.129 -41.775 22.656 1 66.15 ? N1 GTP 701 B 1 HETATM 29 C C2 GTP . . . E 2 30.082 -42.164 23.979 1 65.29 ? C2 GTP 701 B 1 HETATM 30 N N2 GTP . . . E 2 28.93 -42.162 24.625 1 64.28 ? N2 GTP 701 B 1 HETATM 31 N N3 GTP . . . E 2 31.222 -42.538 24.569 1 67.56 ? N3 GTP 701 B 1 HETATM 32 C C4 GTP . . . E 2 32.395 -42.528 23.887 1 67.16 ? C4 GTP 701 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #