data_8DVR # _model_server_result.job_id cPApJDPo5i-SdPStqNsDpg _model_server_result.datetime_utc '2024-11-22 20:51:21' _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 8dvr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 8DVR # _exptl.entry_id 8DVR _exptl.method 'ELECTRON MICROSCOPY' # _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 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 90 _cell.entry_id 8DVR _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DVR _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 ? _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 4 _struct_asym.id D _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 covale ? covale1 B P G 1 B G 2 1_555 D O3' GTP . B GTP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.558 ? metalc ? metalc1 A SG CYS 810 A CYS 810 1_555 C ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc2 A SG CYS 864 A CYS 864 1_555 C ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc3 A SG CYS 869 A CYS 869 1_555 C ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.824 ? hydrog WATSON-CRICK hydrog1 B N1 G 1 B G 2 1_555 B N3 C 60 B C 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 G 1 B G 2 1_555 B O2 C 60 B C 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 G 1 B G 2 1_555 B N4 C 60 B C 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N1 A 2 B A 3 1_555 B N3 U 59 B U 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N6 A 2 B A 3 1_555 B O4 U 59 B U 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B N3 U 3 B U 4 1_555 B N1 A 58 B A 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B O4 U 3 B U 4 1_555 B N6 A 58 B A 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N3 C 4 B C 5 1_555 B N1 G 57 B G 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B N4 C 4 B C 5 1_555 B O6 G 57 B G 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B O2 C 4 B C 5 1_555 B N2 G 57 B G 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B N1 G 5 B G 6 1_555 B N3 C 56 B C 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B N2 G 5 B G 6 1_555 B O2 C 56 B C 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B O6 G 5 B G 6 1_555 B N4 C 56 B C 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N1 A 6 B A 7 1_555 B N3 U 55 B U 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B N6 A 6 B A 7 1_555 B O4 U 55 B U 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B N3 U 7 B U 8 1_555 B N1 A 54 B A 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B O4 U 7 B U 8 1_555 B N6 A 54 B A 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B N3 C 8 B C 9 1_555 B N1 G 53 B G 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 B N4 C 8 B C 9 1_555 B O6 G 53 B G 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B O2 C 8 B C 9 1_555 B N2 G 53 B G 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N1 G 9 B G 10 1_555 B N3 C 52 B C 55 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B N2 G 9 B G 10 1_555 B O2 C 52 B C 55 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B O6 G 9 B G 10 1_555 B N4 C 52 B C 55 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B N1 A 10 B A 11 1_555 B N3 U 51 B U 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 B N6 A 10 B A 11 1_555 B O4 U 51 B U 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 244 n n PG O2G GTP sing 245 n n PG O3G GTP sing 246 n n PG O3B GTP sing 247 n n O2G HOG2 GTP sing 248 n n O3G HOG3 GTP sing 249 n n O3B PB GTP sing 250 n n PB O1B GTP doub 251 n n PB O2B GTP sing 252 n n PB O3A GTP sing 253 n n O2B HOB2 GTP sing 254 n n O3A PA GTP sing 255 n n PA O1A GTP doub 256 n n PA O2A GTP sing 257 n n PA O5' GTP sing 258 n n O2A HOA2 GTP sing 259 n n O5' C5' GTP sing 260 n n C5' C4' GTP sing 261 n n C5' H5' GTP sing 262 n n C5' "H5''" GTP sing 263 n n C4' O4' GTP sing 264 n n C4' C3' GTP sing 265 n n C4' H4' GTP sing 266 n n O4' C1' GTP sing 267 n n C3' O3' GTP sing 268 n n C3' C2' GTP sing 269 n n C3' H3' GTP sing 270 n n O3' HO3' GTP sing 271 n n C2' O2' GTP sing 272 n n C2' C1' GTP sing 273 n n C2' H2' GTP sing 274 n n O2' HO2' GTP sing 275 n n C1' N9 GTP sing 276 n n C1' H1' GTP sing 277 n n N9 C8 GTP sing 278 n y N9 C4 GTP sing 279 n y C8 N7 GTP doub 280 n y C8 H8 GTP sing 281 n n N7 C5 GTP sing 282 n y C5 C6 GTP sing 283 n n C5 C4 GTP doub 284 n y C6 O6 GTP doub 285 n n C6 N1 GTP sing 286 n n N1 C2 GTP sing 287 n n N1 HN1 GTP sing 288 n n C2 N2 GTP sing 289 n n C2 N3 GTP doub 290 n n N2 HN21 GTP sing 291 n n N2 HN22 GTP sing 292 n n N3 C4 GTP sing 293 n n # _atom_sites.entry_id 8DVR _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 C 3 ZN A 1 1001 1001 ZN ZN . D 4 GTP B 1 201 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 . . . D 4 89.252 99.154 101.009 1 26.53 ? PG GTP 201 B 1 HETATM 2 O O1G GTP . . . D 4 89.546 100.348 101.886 1 26.53 ? O1G GTP 201 B 1 HETATM 3 O O2G GTP . . . D 4 89.497 97.881 101.784 1 26.53 ? O2G GTP 201 B 1 HETATM 4 O O3G GTP . . . D 4 90.147 99.183 99.793 1 26.53 ? O3G GTP 201 B 1 HETATM 5 O O3B GTP . . . D 4 87.708 99.222 100.558 1 26.53 ? O3B GTP 201 B 1 HETATM 6 P PB GTP . . . D 4 87.149 100.471 99.707 1 26.53 ? PB GTP 201 B 1 HETATM 7 O O1B GTP . . . D 4 87.358 101.749 100.483 1 26.53 ? O1B GTP 201 B 1 HETATM 8 O O2B GTP . . . D 4 85.694 100.275 99.357 1 26.53 ? O2B GTP 201 B 1 HETATM 9 O O3A GTP . . . D 4 88.064 100.479 98.382 1 26.53 ? O3A GTP 201 B 1 HETATM 10 P PA GTP . . . D 4 87.899 99.314 97.283 1 26.53 ? PA GTP 201 B 1 HETATM 11 O O1A GTP . . . D 4 89.261 98.805 96.877 1 26.53 ? O1A GTP 201 B 1 HETATM 12 O O2A GTP . . . D 4 87.038 98.192 97.811 1 26.53 ? O2A GTP 201 B 1 HETATM 13 O O5' GTP . . . D 4 87.196 100.033 96.025 1 26.53 ? O5' GTP 201 B 1 HETATM 14 C C5' GTP . . . D 4 87.977 100.764 95.106 1 26.53 ? C5' GTP 201 B 1 HETATM 15 C C4' GTP . . . D 4 87.345 102.118 94.811 1 26.53 ? C4' GTP 201 B 1 HETATM 16 O O4' GTP . . . D 4 86.826 102.71 95.984 1 26.53 ? O4' GTP 201 B 1 HETATM 17 C C3' GTP . . . D 4 88.356 103.11 94.266 1 26.53 ? C3' GTP 201 B 1 HETATM 18 O O3' GTP . . . D 4 88.368 103.096 92.858 1 26.53 ? O3' GTP 201 B 1 HETATM 19 C C2' GTP . . . D 4 87.869 104.446 94.783 1 26.53 ? C2' GTP 201 B 1 HETATM 20 O O2' GTP . . . D 4 87.226 105.158 93.752 1 26.53 ? O2' GTP 201 B 1 HETATM 21 C C1' GTP . . . D 4 86.877 104.123 95.894 1 26.53 ? C1' GTP 201 B 1 HETATM 22 N N9 GTP . . . D 4 87.321 104.675 97.191 1 26.53 ? N9 GTP 201 B 1 HETATM 23 C C8 GTP . . . D 4 87.194 104.035 98.396 1 26.53 ? C8 GTP 201 B 1 HETATM 24 N N7 GTP . . . D 4 87.691 104.83 99.369 1 26.53 ? N7 GTP 201 B 1 HETATM 25 C C5 GTP . . . D 4 88.122 105.979 98.808 1 26.53 ? C5 GTP 201 B 1 HETATM 26 C C6 GTP . . . D 4 88.706 107.116 99.355 1 26.53 ? C6 GTP 201 B 1 HETATM 27 O O6 GTP . . . D 4 88.908 107.184 100.566 1 26.53 ? O6 GTP 201 B 1 HETATM 28 N N1 GTP . . . D 4 89.054 108.168 98.535 1 26.53 ? N1 GTP 201 B 1 HETATM 29 C C2 GTP . . . D 4 88.822 108.082 97.178 1 26.53 ? C2 GTP 201 B 1 HETATM 30 N N2 GTP . . . D 4 89.157 109.093 96.382 1 26.53 ? N2 GTP 201 B 1 HETATM 31 N N3 GTP . . . D 4 88.241 106.949 96.644 1 26.53 ? N3 GTP 201 B 1 HETATM 32 C C4 GTP . . . D 4 87.893 105.905 97.44 1 26.53 ? C4 GTP 201 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 32 #