data_8Y9F # _model_server_result.job_id kvOSH9I6GiY3MelVYrIZNA _model_server_result.datetime_utc '2024-11-28 08:51:31' _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 8y9f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":501}' # _entry.id 8Y9F # _exptl.entry_id 8Y9F _exptl.method 'ELECTRON MICROSCOPY' # _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 2 _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 8Y9F _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Y9F _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,G,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 I 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 covale ? covale1 A C ASP 39 B ASP 39 1_555 A N ALY 40 B ALY 40 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 A C ALY 40 B ALY 40 1_555 A N SER 41 B SER 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _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 209 n n PG O2G GTP sing 210 n n PG O3G GTP sing 211 n n PG O3B GTP sing 212 n n O2G HOG2 GTP sing 213 n n O3G HOG3 GTP sing 214 n n O3B PB GTP sing 215 n n PB O1B GTP doub 216 n n PB O2B GTP sing 217 n n PB O3A GTP sing 218 n n O2B HOB2 GTP sing 219 n n O3A PA GTP sing 220 n n PA O1A GTP doub 221 n n PA O2A GTP sing 222 n n PA O5' GTP sing 223 n n O2A HOA2 GTP sing 224 n n O5' C5' GTP sing 225 n n C5' C4' GTP sing 226 n n C5' H5' GTP sing 227 n n C5' "H5''" GTP sing 228 n n C4' O4' GTP sing 229 n n C4' C3' GTP sing 230 n n C4' H4' GTP sing 231 n n O4' C1' GTP sing 232 n n C3' O3' GTP sing 233 n n C3' C2' GTP sing 234 n n C3' H3' GTP sing 235 n n O3' HO3' GTP sing 236 n n C2' O2' GTP sing 237 n n C2' C1' GTP sing 238 n n C2' H2' GTP sing 239 n n O2' HO2' GTP sing 240 n n C1' N9 GTP sing 241 n n C1' H1' GTP sing 242 n n N9 C8 GTP sing 243 n y N9 C4 GTP sing 244 n y C8 N7 GTP doub 245 n y C8 H8 GTP sing 246 n n N7 C5 GTP sing 247 n y C5 C6 GTP sing 248 n n C5 C4 GTP doub 249 n y C6 O6 GTP doub 250 n n C6 N1 GTP sing 251 n n N1 C2 GTP sing 252 n n N1 HN1 GTP sing 253 n n C2 N2 GTP sing 254 n n C2 N3 GTP doub 255 n n N2 HN21 GTP sing 256 n n N2 HN22 GTP sing 257 n n N3 C4 GTP sing 258 n n # _atom_sites.entry_id 8Y9F _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 G 5 GTP B 1 501 603 GTP GTP . H 6 G2P D 1 601 601 G2P G2P . I 5 GTP E 1 501 604 GTP GTP . J 6 G2P F 1 601 601 G2P G2P . # 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 . . . I 5 135.994 239.347 189.236 1 69.59 ? PG GTP 501 E 1 HETATM 2 O O1G GTP . . . I 5 136.223 240.455 188.258 1 69.59 ? O1G GTP 501 E 1 HETATM 3 O O2G GTP . . . I 5 137.168 238.456 189.388 1 69.59 ? O2G GTP 501 E 1 HETATM 4 O O3G GTP . . . I 5 134.739 238.595 188.961 1 69.59 ? O3G GTP 501 E 1 HETATM 5 O O3B GTP . . . I 5 135.83 239.999 190.68 1 69.59 ? O3B GTP 501 E 1 HETATM 6 P PB GTP . . . I 5 136.956 240.374 191.743 1 69.59 ? PB GTP 501 E 1 HETATM 7 O O1B GTP . . . I 5 136.348 240.85 193.002 1 69.59 ? O1B GTP 501 E 1 HETATM 8 O O2B GTP . . . I 5 137.984 239.316 191.787 1 69.59 ? O2B GTP 501 E 1 HETATM 9 O O3A GTP . . . I 5 137.623 241.626 191.045 1 69.59 ? O3A GTP 501 E 1 HETATM 10 P PA GTP . . . I 5 138.685 242.53 191.784 1 69.59 ? PA GTP 501 E 1 HETATM 11 O O1A GTP . . . I 5 139.187 241.757 192.949 1 69.59 ? O1A GTP 501 E 1 HETATM 12 O O2A GTP . . . I 5 139.639 243.043 190.768 1 69.59 ? O2A GTP 501 E 1 HETATM 13 O O5' GTP . . . I 5 137.752 243.715 192.285 1 69.59 ? O5' GTP 501 E 1 HETATM 14 C C5' GTP . . . I 5 138.003 245.02 191.738 1 69.59 ? C5' GTP 501 E 1 HETATM 15 C C4' GTP . . . I 5 138.738 245.838 192.764 1 69.59 ? C4' GTP 501 E 1 HETATM 16 O O4' GTP . . . I 5 139.803 245.041 193.332 1 69.59 ? O4' GTP 501 E 1 HETATM 17 C C3' GTP . . . I 5 139.427 247.104 192.24 1 69.59 ? C3' GTP 501 E 1 HETATM 18 O O3' GTP . . . I 5 138.999 248.232 192.987 1 69.59 ? O3' GTP 501 E 1 HETATM 19 C C2' GTP . . . I 5 140.915 246.818 192.465 1 69.59 ? C2' GTP 501 E 1 HETATM 20 O O2' GTP . . . I 5 141.679 247.981 192.677 1 69.59 ? O2' GTP 501 E 1 HETATM 21 C C1' GTP . . . I 5 140.833 245.922 193.687 1 69.59 ? C1' GTP 501 E 1 HETATM 22 N N9 GTP . . . I 5 142.037 245.151 193.952 1 69.59 ? N9 GTP 501 E 1 HETATM 23 C C8 GTP . . . I 5 142.521 244.108 193.212 1 69.59 ? C8 GTP 501 E 1 HETATM 24 N N7 GTP . . . I 5 143.617 243.593 193.707 1 69.59 ? N7 GTP 501 E 1 HETATM 25 C C5 GTP . . . I 5 143.855 244.33 194.856 1 69.59 ? C5 GTP 501 E 1 HETATM 26 C C6 GTP . . . I 5 144.893 244.224 195.808 1 69.59 ? C6 GTP 501 E 1 HETATM 27 O O6 GTP . . . I 5 145.838 243.431 195.832 1 69.59 ? O6 GTP 501 E 1 HETATM 28 N N1 GTP . . . I 5 144.755 245.162 196.822 1 69.59 ? N1 GTP 501 E 1 HETATM 29 C C2 GTP . . . I 5 143.756 246.091 196.907 1 69.59 ? C2 GTP 501 E 1 HETATM 30 N N2 GTP . . . I 5 143.803 246.916 197.958 1 69.59 ? N2 GTP 501 E 1 HETATM 31 N N3 GTP . . . I 5 142.776 246.198 196.015 1 69.59 ? N3 GTP 501 E 1 HETATM 32 C C4 GTP . . . I 5 142.887 245.288 195.021 1 69.59 ? C4 GTP 501 E 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 32 #