data_6GVM # _model_server_result.job_id WZsd7PdOD6HApuPp_nCWqA _model_server_result.datetime_utc '2024-11-29 02:17:57' _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 6gvm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 6GVM # _exptl.entry_id 6GVM _exptl.method 'X-RAY DIFFRACTION' # _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 121.03 _cell.angle_gamma 90 _cell.entry_id 6GVM _cell.length_a 189.267 _cell.length_b 51.721 _cell.length_c 144.137 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GVM _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _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 metalc ? metalc1 E O2G GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc2 E O2B GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.956 ? # _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 174 n n PG O2G GTP sing 175 n n PG O3G GTP sing 176 n n PG O3B GTP sing 177 n n O2G HOG2 GTP sing 178 n n O3G HOG3 GTP sing 179 n n O3B PB GTP sing 180 n n PB O1B GTP doub 181 n n PB O2B GTP sing 182 n n PB O3A GTP sing 183 n n O2B HOB2 GTP sing 184 n n O3A PA GTP sing 185 n n PA O1A GTP doub 186 n n PA O2A GTP sing 187 n n PA O5' GTP sing 188 n n O2A HOA2 GTP sing 189 n n O5' C5' GTP sing 190 n n C5' C4' GTP sing 191 n n C5' H5' GTP sing 192 n n C5' "H5''" GTP sing 193 n n C4' O4' GTP sing 194 n n C4' C3' GTP sing 195 n n C4' H4' GTP sing 196 n n O4' C1' GTP sing 197 n n C3' O3' GTP sing 198 n n C3' C2' GTP sing 199 n n C3' H3' GTP sing 200 n n O3' HO3' GTP sing 201 n n C2' O2' GTP sing 202 n n C2' C1' GTP sing 203 n n C2' H2' GTP sing 204 n n O2' HO2' GTP sing 205 n n C1' N9 GTP sing 206 n n C1' H1' GTP sing 207 n n N9 C8 GTP sing 208 n y N9 C4 GTP sing 209 n y C8 N7 GTP doub 210 n y C8 H8 GTP sing 211 n n N7 C5 GTP sing 212 n y C5 C6 GTP sing 213 n n C5 C4 GTP doub 214 n y C6 O6 GTP doub 215 n n C6 N1 GTP sing 216 n n N1 C2 GTP sing 217 n n N1 HN1 GTP sing 218 n n C2 N2 GTP sing 219 n n C2 N3 GTP doub 220 n n N2 HN21 GTP sing 221 n n N2 HN22 GTP sing 222 n n N3 C4 GTP sing 223 n n # _atom_sites.entry_id 6GVM _atom_sites.fract_transf_matrix[1][1] 0.005284 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003178 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019335 _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] 0.008096 _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 E 5 GTP A 1 501 501 GTP GTP . F 6 MG A 1 502 502 MG MG . G 7 GDP B 1 501 501 GDP GDP . # 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 5 3.698 -35.682 39.23 1 18.39 ? PG GTP 501 A 1 HETATM 2 O O1G GTP . . . E 5 3.865 -36.21 37.88 1 18.23 ? O1G GTP 501 A 1 HETATM 3 O O2G GTP . . . E 5 4.226 -36.579 40.367 1 28.89 ? O2G GTP 501 A 1 HETATM 4 O O3G GTP . . . E 5 4.286 -34.269 39.382 1 19.14 ? O3G GTP 501 A 1 HETATM 5 O O3B GTP . . . E 5 2.15 -35.55 39.551 1 33.39 ? O3B GTP 501 A 1 HETATM 6 P PB GTP . . . E 5 1.683 -34.763 40.846 1 17.65 ? PB GTP 501 A 1 HETATM 7 O O1B GTP . . . E 5 0.192 -34.874 41.118 1 35.84 ? O1B GTP 501 A 1 HETATM 8 O O2B GTP . . . E 5 2.517 -35.203 41.985 1 17.35 ? O2B GTP 501 A 1 HETATM 9 O O3A GTP . . . E 5 1.984 -33.239 40.505 1 18.62 ? O3A GTP 501 A 1 HETATM 10 P PA GTP . . . E 5 1.541 -31.933 41.303 1 19.58 ? PA GTP 501 A 1 HETATM 11 O O1A GTP . . . E 5 2.814 -31.445 42.022 1 23.39 ? O1A GTP 501 A 1 HETATM 12 O O2A GTP . . . E 5 0.53 -32.364 42.309 1 19.28 ? O2A GTP 501 A 1 HETATM 13 O O5' GTP . . . E 5 1.016 -30.69 40.302 1 20.28 ? O5' GTP 501 A 1 HETATM 14 C C5' GTP . . . E 5 1.687 -29.428 40.059 1 21.15 ? C5' GTP 501 A 1 HETATM 15 C C4' GTP . . . E 5 0.704 -28.296 40.258 1 21.88 ? C4' GTP 501 A 1 HETATM 16 O O4' GTP . . . E 5 0.366 -28.176 41.655 1 21.85 ? O4' GTP 501 A 1 HETATM 17 C C3' GTP . . . E 5 1.162 -26.899 39.858 1 23.09 ? C3' GTP 501 A 1 HETATM 18 O O3' GTP . . . E 5 0.023 -26.097 39.556 1 23.9 ? O3' GTP 501 A 1 HETATM 19 C C2' GTP . . . E 5 1.863 -26.412 41.124 1 23.32 ? C2' GTP 501 A 1 HETATM 20 O O2' GTP . . . E 5 1.885 -24.991 41.201 1 24.43 ? O2' GTP 501 A 1 HETATM 21 C C1' GTP . . . E 5 0.966 -27.018 42.207 1 22.71 ? C1' GTP 501 A 1 HETATM 22 N N9 GTP . . . E 5 1.681 -27.412 43.425 1 22.52 ? N9 GTP 501 A 1 HETATM 23 C C8 GTP . . . E 5 2.699 -28.325 43.541 1 21.95 ? C8 GTP 501 A 1 HETATM 24 N N7 GTP . . . E 5 3.089 -28.518 44.777 1 21.89 ? N7 GTP 501 A 1 HETATM 25 C C5 GTP . . . E 5 2.287 -27.668 45.522 1 22.59 ? C5 GTP 501 A 1 HETATM 26 C C6 GTP . . . E 5 2.287 -27.349 46.922 1 23.08 ? C6 GTP 501 A 1 HETATM 27 O O6 GTP . . . E 5 2.984 -27.864 47.794 1 23.19 ? O6 GTP 501 A 1 HETATM 28 N N1 GTP . . . E 5 1.399 -26.333 47.236 1 23.88 ? N1 GTP 501 A 1 HETATM 29 C C2 GTP . . . E 5 0.582 -25.697 46.341 1 24.14 ? C2 GTP 501 A 1 HETATM 30 N N2 GTP . . . E 5 -0.159 -24.695 46.809 1 24.93 ? N2 GTP 501 A 1 HETATM 31 N N3 GTP . . . E 5 0.536 -26.002 45.045 1 23.68 ? N3 GTP 501 A 1 HETATM 32 C C4 GTP . . . E 5 1.417 -26.975 44.7 1 22.91 ? C4 GTP 501 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #