data_6RF2 # _model_server_result.job_id u410NKH5UPTLGTgNG05nnA _model_server_result.datetime_utc '2024-10-20 01:28:09' _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 6rf2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":502}' # _entry.id 6RF2 # _exptl.entry_id 6RF2 _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 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 6RF2 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RF2 _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 PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,K,L,M _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 L 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 metalc ? metalc1 F O1G GTP . a GTP 501 1_555 G MG MG . a MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc2 F O2B GTP . a GTP 501 1_555 G MG MG . a MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc3 F O3A GTP . a GTP 501 1_555 G MG MG . a MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc4 F O2A GTP . a GTP 501 1_555 G MG MG . a MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.835 ? metalc ? metalc5 L O1G GTP . A GTP 502 1_555 M MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc6 L O2B GTP . A GTP 502 1_555 M MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc7 L O3A GTP . A GTP 502 1_555 M MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc8 L O2A GTP . A GTP 502 1_555 M MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? # _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 6RF2 _atom_sites.fract_transf_matrix[1][1] 0.007573 _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] 0.01199 _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] 0.007736 _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 F 4 GTP a 1 501 501 GTP GTP . G 5 MG a 1 502 502 MG MG . H 6 PO4 a 1 503 503 PO4 PO4 . I 7 GDP B 1 501 501 GDP GDP . J 7 GDP b 1 501 501 GDP GDP . K 6 PO4 A 1 501 501 PO4 PO4 . L 4 GTP A 1 502 502 GTP GTP . M 5 MG A 1 503 503 MG MG . # 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 . . . L 4 84.248 40.511 97.354 1 100.99 ? PG GTP 502 A 1 HETATM 2 O O1G GTP . . . L 4 84.442 42 97.216 1 100.99 ? O1G GTP 502 A 1 HETATM 3 O O2G GTP . . . L 4 85.216 39.956 98.368 1 100.99 ? O2G GTP 502 A 1 HETATM 4 O O3G GTP . . . L 4 82.837 40.219 97.794 1 100.99 ? O3G GTP 502 A 1 HETATM 5 O O3B GTP . . . L 4 84.511 39.806 95.937 1 100.99 ? O3B GTP 502 A 1 HETATM 6 P PB GTP . . . L 4 84.955 40.698 94.682 1 100.99 ? PB GTP 502 A 1 HETATM 7 O O1B GTP . . . L 4 85.114 39.784 93.496 1 100.99 ? O1B GTP 502 A 1 HETATM 8 O O2B GTP . . . L 4 83.965 41.797 94.39 1 100.99 ? O2B GTP 502 A 1 HETATM 9 O O3A GTP . . . L 4 86.383 41.264 95.136 1 100.99 ? O3A GTP 502 A 1 HETATM 10 P PA GTP . . . L 4 87.337 42.046 94.11 1 100.99 ? PA GTP 502 A 1 HETATM 11 O O1A GTP . . . L 4 87.523 41.277 92.828 1 100.99 ? O1A GTP 502 A 1 HETATM 12 O O2A GTP . . . L 4 86.812 43.429 93.837 1 100.99 ? O2A GTP 502 A 1 HETATM 13 O O5' GTP . . . L 4 88.718 42.102 94.922 1 100.99 ? O5' GTP 502 A 1 HETATM 14 C C5' GTP . . . L 4 89.587 43.192 94.762 1 100.99 ? C5' GTP 502 A 1 HETATM 15 C C4' GTP . . . L 4 90.362 43.03 93.471 1 100.99 ? C4' GTP 502 A 1 HETATM 16 O O4' GTP . . . L 4 89.749 43.823 92.485 1 100.99 ? O4' GTP 502 A 1 HETATM 17 C C3' GTP . . . L 4 91.772 43.549 93.633 1 100.99 ? C3' GTP 502 A 1 HETATM 18 O O3' GTP . . . L 4 92.664 42.467 93.726 1 100.99 ? O3' GTP 502 A 1 HETATM 19 C C2' GTP . . . L 4 92.048 44.331 92.374 1 100.99 ? C2' GTP 502 A 1 HETATM 20 O O2' GTP . . . L 4 92.918 43.593 91.555 1 100.99 ? O2' GTP 502 A 1 HETATM 21 C C1' GTP . . . L 4 90.706 44.481 91.685 1 100.99 ? C1' GTP 502 A 1 HETATM 22 N N9 GTP . . . L 4 90.349 45.903 91.602 1 100.99 ? N9 GTP 502 A 1 HETATM 23 C C8 GTP . . . L 4 89.539 46.578 92.47 1 100.99 ? C8 GTP 502 A 1 HETATM 24 N N7 GTP . . . L 4 89.44 47.858 92.057 1 100.99 ? N7 GTP 502 A 1 HETATM 25 C C5 GTP . . . L 4 90.166 48.003 90.934 1 100.99 ? C5 GTP 502 A 1 HETATM 26 C C6 GTP . . . L 4 90.397 49.09 90.117 1 100.99 ? C6 GTP 502 A 1 HETATM 27 O O6 GTP . . . L 4 89.889 50.172 90.382 1 100.99 ? O6 GTP 502 A 1 HETATM 28 N N1 GTP . . . L 4 91.196 48.955 89.008 1 100.99 ? N1 GTP 502 A 1 HETATM 29 C C2 GTP . . . L 4 91.759 47.733 88.722 1 100.99 ? C2 GTP 502 A 1 HETATM 30 N N2 GTP . . . L 4 92.533 47.595 87.65 1 100.99 ? N2 GTP 502 A 1 HETATM 31 N N3 GTP . . . L 4 91.523 46.653 89.542 1 100.99 ? N3 GTP 502 A 1 HETATM 32 C C4 GTP . . . L 4 90.739 46.785 90.633 1 100.99 ? C4 GTP 502 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #